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Conserved domains on  [gi|2563905656|gb|WLV76694|]
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translation elongation factor 1-alpha, partial [Paradictyoarthrinium hydei]

Protein Classification

P-loop NTPase family protein( domain architecture ID 1562424)

P-loop NTPase (nucleoside triphosphate hydrolase) family protein contains two conserved sequence signatures, the Walker A motif (the P-loop proper) and Walker B motif which bind, respectively, the beta and gamma phosphate moieties of the bound nucleotide (typically ATP or GTP), and a Mg(2+) cation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 1-279 0e+00

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member PTZ00141:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 446  Bit Score: 527.78  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656   1 IAAGTGEFEAGISKDGQTREHALLAYTLGVKQLIVAINKMD--TTKWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISG 78
Cdd:PTZ00141  116 VASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDdkTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISG 195

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  79 FNGDNMIEPSSNCPWYKGweketktkstgKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGM 158
Cdd:PTZ00141  196 WQGDNMIEKSDNMPWYKG-----------PTLLEALDTLEPPKRPVDKPLRLPLQDVYKIGGIGTVPVGRVETGILKPGM 264

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 159 VVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGDSKNDPPKGAESFNAQVIVLNHPGQVGAG 238
Cdd:PTZ00141  265 VVTFAPSGVTTEVKSVEMHHEQLAEAVPGDNVGFNVKNVSVKDIKRGYVASDSKNDPAKECADFTAQVIVLNHPGQIKNG 344

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 2563905656 239 YAPVLDCHTAHIACKFSELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:PTZ00141  345 YTPVLDCHTAHIACKFAEIESKIDRRSGKVLEENPKAIKSG 385
 
Name Accession Description Interval E-value
PTZ00141 PTZ00141
elongation factor 1- alpha; Provisional
 1-279 0e+00

elongation factor 1- alpha; Provisional


Pssm-ID: 185474 [Multi-domain]  Cd Length: 446  Bit Score: 527.78  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656   1 IAAGTGEFEAGISKDGQTREHALLAYTLGVKQLIVAINKMD--TTKWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISG 78
Cdd:PTZ00141  116 VASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDdkTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISG 195

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  79 FNGDNMIEPSSNCPWYKGweketktkstgKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGM 158
Cdd:PTZ00141  196 WQGDNMIEKSDNMPWYKG-----------PTLLEALDTLEPPKRPVDKPLRLPLQDVYKIGGIGTVPVGRVETGILKPGM 264

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 159 VVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGDSKNDPPKGAESFNAQVIVLNHPGQVGAG 238
Cdd:PTZ00141  265 VVTFAPSGVTTEVKSVEMHHEQLAEAVPGDNVGFNVKNVSVKDIKRGYVASDSKNDPAKECADFTAQVIVLNHPGQIKNG 344

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 2563905656 239 YAPVLDCHTAHIACKFSELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:PTZ00141  345 YTPVLDCHTAHIACKFAEIESKIDRRSGKVLEENPKAIKSG 385
EF-1_alpha TIGR00483
translation elongation factor EF-1 alpha; This model represents the counterpart of bacterial ...
 1-279 8.26e-150

translation elongation factor EF-1 alpha; This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels. [Protein synthesis, Translation factors]


Pssm-ID: 129574 [Multi-domain]  Cd Length: 426  Bit Score: 425.82  E-value: 8.26e-150
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656   1 IAAGTGEFEagisKDGQTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISGFN 80
Cdd:TIGR00483 116 VAVGDGEFE----VQPQTREHAFLARTLGINQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWN 191

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  81 GDNMIEPSSNCPWYKGweketktkstgKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVV 160
Cdd:TIGR00483 192 GDNVIKKSENTPWYKG-----------KTLLEALDALEPPEKPTDKPLRIPIQDVYSITGVGTVPVGRVETGVLKPGDKV 260

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 161 TFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGDSKNdPPKGAESFNAQVIVLNHPGQVGAGYA 240
Cdd:TIGR00483 261 VFEPAGVSGEVKSIEMHHEQIEQAEPGDNIGFNVRGVSKKDIRRGDVCGHPDN-PPKVAKEFTAQIVVLQHPGAITVGYT 339

                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 2563905656 241 PVLDCHTAHIACKFSELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:TIGR00483 340 PVFHCHTAQIACRFDELLKKNDPRTGQVLEENPQFLKTG 378
TEF1 COG5256
Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and ...
 16-279 8.48e-141

Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]; Translation elongation factor EF-1alpha (GTPase) is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 444074 [Multi-domain]  Cd Length: 423  Bit Score: 402.77  E-value: 8.48e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  16 GQTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISGFNGDNMIEPSSNCPWYK 95
Cdd:COG5256   124 GQTREHAFLARTLGINQLIVAVNKMDAVNYSEKRYEEVKEEVSKLLKMVGYKVDKIPFIPVSAWKGDNVVKKSDNMPWYN 203

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  96 GweketktkstgKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVE 175
Cdd:COG5256   204 G-----------PTLLEALDNLKEPEKPVDKPLRIPIQDVYSISGIGTVPVGRVETGVLKVGDKVVFMPAGVVGEVKSIE 272

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 176 MHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGDSKNdPPKGAESFNAQVIVLNHPGQVGAGYAPVLDCHTAHIACKFS 255
Cdd:COG5256   273 MHHEELEQAEPGDNIGFNVRGVEKNDIKRGDVAGHPDN-PPTVAEEFTAQIVVLQHPSAITVGYTPVFHVHTAQVACTFV 351

                         250       260
                  ....*....|....*....|....
gi 2563905656 256 ELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:COG5256   352 ELVSKLDPRTGQVKEENPQFLKTG 375
EF1_alpha cd01883
Elongation Factor 1-alpha (EF1-alpha) protein family; EF1 is responsible for the GTP-dependent ...
 1-120 1.54e-66

Elongation Factor 1-alpha (EF1-alpha) protein family; EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in yeast, and to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression.


Pssm-ID: 206670 [Multi-domain]  Cd Length: 219  Bit Score: 206.57  E-value: 1.54e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656   1 IAAGTGEFEAGISKDGQTREHALLAYTLGVKQLIVAINKMDTT--KWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISG 78
Cdd:cd01883   108 VSARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVtvNWSQERYDEIKKKVSPFLKKVGYNPKDVPFIPISG 187

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2563905656  79 FNGDNMIEPSSNCPWYKGWeketktkstgkTLLEAIDAIDPP 120
Cdd:cd01883   188 FTGDNLIEKSENMPWYKGP-----------TLLEALDSLEPP 218
GTP_EFTU pfam00009
Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in ...
 16-86 1.94e-19

Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.


Pssm-ID: 425418 [Multi-domain]  Cd Length: 187  Bit Score: 83.34  E-value: 1.94e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2563905656  16 GQTREHALLAYTLGVKqLIVAINKMDTTkwSEERFNEIIKETSN-FIKKVGYNPKTVPFVPISGFNGDNMIE 86
Cdd:pfam00009 108 PQTREHLRLARQLGVP-IIVFINKMDRV--DGAELEEVVEEVSReLLEKYGEDGEFVPVVPGSALKGEGVQT 176
 
Name Accession Description Interval E-value
PTZ00141 PTZ00141
elongation factor 1- alpha; Provisional
 1-279 0e+00

elongation factor 1- alpha; Provisional


Pssm-ID: 185474 [Multi-domain]  Cd Length: 446  Bit Score: 527.78  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656   1 IAAGTGEFEAGISKDGQTREHALLAYTLGVKQLIVAINKMD--TTKWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISG 78
Cdd:PTZ00141  116 VASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDdkTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISG 195

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  79 FNGDNMIEPSSNCPWYKGweketktkstgKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGM 158
Cdd:PTZ00141  196 WQGDNMIEKSDNMPWYKG-----------PTLLEALDTLEPPKRPVDKPLRLPLQDVYKIGGIGTVPVGRVETGILKPGM 264

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 159 VVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGDSKNDPPKGAESFNAQVIVLNHPGQVGAG 238
Cdd:PTZ00141  265 VVTFAPSGVTTEVKSVEMHHEQLAEAVPGDNVGFNVKNVSVKDIKRGYVASDSKNDPAKECADFTAQVIVLNHPGQIKNG 344

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 2563905656 239 YAPVLDCHTAHIACKFSELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:PTZ00141  345 YTPVLDCHTAHIACKFAEIESKIDRRSGKVLEENPKAIKSG 385
EF-1_alpha TIGR00483
translation elongation factor EF-1 alpha; This model represents the counterpart of bacterial ...
 1-279 8.26e-150

translation elongation factor EF-1 alpha; This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels. [Protein synthesis, Translation factors]


Pssm-ID: 129574 [Multi-domain]  Cd Length: 426  Bit Score: 425.82  E-value: 8.26e-150
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656   1 IAAGTGEFEagisKDGQTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISGFN 80
Cdd:TIGR00483 116 VAVGDGEFE----VQPQTREHAFLARTLGINQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWN 191

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  81 GDNMIEPSSNCPWYKGweketktkstgKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVV 160
Cdd:TIGR00483 192 GDNVIKKSENTPWYKG-----------KTLLEALDALEPPEKPTDKPLRIPIQDVYSITGVGTVPVGRVETGVLKPGDKV 260

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 161 TFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGDSKNdPPKGAESFNAQVIVLNHPGQVGAGYA 240
Cdd:TIGR00483 261 VFEPAGVSGEVKSIEMHHEQIEQAEPGDNIGFNVRGVSKKDIRRGDVCGHPDN-PPKVAKEFTAQIVVLQHPGAITVGYT 339

                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 2563905656 241 PVLDCHTAHIACKFSELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:TIGR00483 340 PVFHCHTAQIACRFDELLKKNDPRTGQVLEENPQFLKTG 378
PLN00043 PLN00043
elongation factor 1-alpha; Provisional
 1-279 7.09e-143

elongation factor 1-alpha; Provisional


Pssm-ID: 165621 [Multi-domain]  Cd Length: 447  Bit Score: 409.09  E-value: 7.09e-143
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656   1 IAAGTGEFEAGISKDGQTREHALLAYTLGVKQLIVAINKMDTT--KWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISG 78
Cdd:PLN00043  116 IDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDATtpKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISG 195

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  79 FNGDNMIEPSSNCPWYKGweketktkstgKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGM 158
Cdd:PLN00043  196 FEGDNMIERSTNLDWYKG-----------PTLLEALDQINEPKRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGM 264

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 159 VVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGDSKNDPPKGAESFNAQVIVLNHPGQVGAG 238
Cdd:PLN00043  265 VVTFGPTGLTTEVKSVEMHHESLQEALPGDNVGFNVKNVAVKDLKRGYVASNSKDDPAKEAANFTSQVIIMNHPGQIGNG 344

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 2563905656 239 YAPVLDCHTAHIACKFSELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:PLN00043  345 YAPVLDCHTSHIAVKFAEILTKIDRRSGKELEKEPKFLKNG 385
TEF1 COG5256
Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and ...
 16-279 8.48e-141

Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]; Translation elongation factor EF-1alpha (GTPase) is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 444074 [Multi-domain]  Cd Length: 423  Bit Score: 402.77  E-value: 8.48e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  16 GQTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISGFNGDNMIEPSSNCPWYK 95
Cdd:COG5256   124 GQTREHAFLARTLGINQLIVAVNKMDAVNYSEKRYEEVKEEVSKLLKMVGYKVDKIPFIPVSAWKGDNVVKKSDNMPWYN 203

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  96 GweketktkstgKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVE 175
Cdd:COG5256   204 G-----------PTLLEALDNLKEPEKPVDKPLRIPIQDVYSISGIGTVPVGRVETGVLKVGDKVVFMPAGVVGEVKSIE 272

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 176 MHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGDSKNdPPKGAESFNAQVIVLNHPGQVGAGYAPVLDCHTAHIACKFS 255
Cdd:COG5256   273 MHHEELEQAEPGDNIGFNVRGVEKNDIKRGDVAGHPDN-PPTVAEEFTAQIVVLQHPSAITVGYTPVFHVHTAQVACTFV 351

                         250       260
                  ....*....|....*....|....
gi 2563905656 256 ELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:COG5256   352 ELVSKLDPRTGQVKEENPQFLKTG 375
PRK12317 PRK12317
elongation factor 1-alpha; Reviewed
 16-279 5.90e-139

elongation factor 1-alpha; Reviewed


Pssm-ID: 237055 [Multi-domain]  Cd Length: 425  Bit Score: 398.14  E-value: 5.90e-139
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  16 GQTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISGFNGDNMIEPSSNCPWYK 95
Cdd:PRK12317  125 PQTREHVFLARTLGINQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSENMPWYN 204

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  96 GweketktkstgKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVE 175
Cdd:PRK12317  205 G-----------PTLLEALDNLKPPEKPTDKPLRIPIQDVYSISGVGTVPVGRVETGVLKVGDKVVFMPAGVVGEVKSIE 273

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 176 MHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGdSKNDPPKGAESFNAQVIVLNHPGQVGAGYAPVLDCHTAHIACKFS 255
Cdd:PRK12317  274 MHHEELPQAEPGDNIGFNVRGVGKKDIKRGDVCG-HPDNPPTVAEEFTAQIVVLQHPSAITVGYTPVFHAHTAQVACTFE 352

                         250       260
                  ....*....|....*....|....
gi 2563905656 256 ELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:PRK12317  353 ELVKKLDPRTGQVAEENPQFIKTG 376
EF1_alpha cd01883
Elongation Factor 1-alpha (EF1-alpha) protein family; EF1 is responsible for the GTP-dependent ...
 1-120 1.54e-66

Elongation Factor 1-alpha (EF1-alpha) protein family; EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in yeast, and to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression.


Pssm-ID: 206670 [Multi-domain]  Cd Length: 219  Bit Score: 206.57  E-value: 1.54e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656   1 IAAGTGEFEAGISKDGQTREHALLAYTLGVKQLIVAINKMDTT--KWSEERFNEIIKETSNFIKKVGYNPKTVPFVPISG 78
Cdd:cd01883   108 VSARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVtvNWSQERYDEIKKKVSPFLKKVGYNPKDVPFIPISG 187

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2563905656  79 FNGDNMIEPSSNCPWYKGWeketktkstgkTLLEAIDAIDPP 120
Cdd:cd01883   188 FTGDNLIEKSENMPWYKGP-----------TLLEALDSLEPP 218
EF1_alpha_II cd03693
Domain II of elongation factor 1-alpha; This family represents domain II of elongation factor ...
 124-214 1.66e-61

Domain II of elongation factor 1-alpha; This family represents domain II of elongation factor 1-alpha (EF-1A) that is found in archaea and all eukaryotic lineages. EF-1A is very abundant in the cytosol, where it is involved in the GTP-dependent binding of aminoacyl-tRNAs to the A site of the ribosomes in the second step of translation from mRNAs to proteins. Both domain II of EF-1A and domain IV of IF2/eIF5B have been implicated in recognition of the 3'-ends of tRNA. More than 61% of eukaryotic elongation factor 1A (eEF-1A) in cells is estimated to be associated with actin cytoskeleton. The binding of eEF-1A to actin is a noncanonical function that may link two distinct cellular processes, cytoskeleton organization and gene expression.


Pssm-ID: 293894 [Multi-domain]  Cd Length: 91  Bit Score: 188.94  E-value: 1.66e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 124 SDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIR 203
Cdd:cd03693     1 TDKPLRLPIQDVYKIGGIGTVPVGRVETGILKPGMVVTFAPAGVTGEVKSVEMHHEPLEEAIPGDNVGFNVKGVSVKDIK 80

                          90
                  ....*....|.
gi 2563905656 204 RGNVAGDSKND 214
Cdd:cd03693    81 RGDVAGDSKND 91
CysN COG2895
Sulfate adenylyltransferase subunit 1, EFTu-like GTPase family [Inorganic ion transport and ...
 17-272 3.14e-57

Sulfate adenylyltransferase subunit 1, EFTu-like GTPase family [Inorganic ion transport and metabolism]; Sulfate adenylyltransferase subunit 1, EFTu-like GTPase family is part of the Pathway/BioSystem: Cysteine biosynthesis


Pssm-ID: 442140 [Multi-domain]  Cd Length: 430  Bit Score: 189.14  E-value: 3.14e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGYNPKTvpFVPISGFNGDNMIEPSSNCPWYKg 96
Cdd:COG2895   135 QTRRHSYIASLLGIRHVVVAVNKMDLVDYSEEVFEEIVADYRAFAAKLGLEDIT--FIPISALKGDNVVERSENMPWYD- 211

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  97 weketktkstGKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKiggigtvP-------VGRVETGVIKAGMVVTFAPAGVTT 169
Cdd:COG2895   212 ----------GPTLLEHLETVEVAEDRNDAPFRFPVQYVNR-------PnldfrgyAGTIASGTVRVGDEVVVLPSGKTS 274

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 170 EVKSVEMHHEQLTEGVPGDNVGFNVK---NVSvkeirRGNVAGDSkNDPPKGAESFNAQVIVLN-HPGQVGAGYapVLDC 245
Cdd:COG2895   275 TVKSIVTFDGDLEEAFAGQSVTLTLEdeiDIS-----RGDVIVAA-DAPPEVADQFEATLVWMDeEPLLPGRKY--LLKH 346

                         250       260
                  ....*....|....*....|....*..
gi 2563905656 246 HTAHIACKFSELLEKIDRRTGKSVESS 272
Cdd:COG2895   347 GTRTVRATVTAIKYRIDVNTLEHEAAD 373
EF1_alpha_III cd03705
Domain III of Elongation Factor 1; Eukaryotic elongation factor 1 (EF-1) is responsible for ...
 217-279 9.92e-38

Domain III of Elongation Factor 1; Eukaryotic elongation factor 1 (EF-1) is responsible for the GTP-dependent binding of aminoacyl-tRNAs to ribosomes. EF-1 is composed of four subunits: the alpha chain, which binds GTP and aminoacyl-tRNAs; the gamma chain that probably plays a role in anchoring the complex to other cellular components; and the beta and delta (or beta') chains. This model represents the alpha subunit, which is the counterpart of bacterial EF-Tu for archaea (aEF-1 alpha) and eukaryotes (eEF-1 alpha).


Pssm-ID: 294004 [Multi-domain]  Cd Length: 104  Bit Score: 128.85  E-value: 9.92e-38
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2563905656 217 KGAESFNAQVIVLNHPGQVGAGYAPVLDCHTAHIACKFSELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:cd03705     1 KEAKSFTAQVIILNHPGQIKAGYTPVLDCHTAHVACKFAELKEKIDRRTGKKLEENPKFLKSG 63
CysN TIGR02034
sulfate adenylyltransferase, large subunit; Metabolic assimilation of sulfur from inorganic ...
 17-272 3.26e-35

sulfate adenylyltransferase, large subunit; Metabolic assimilation of sulfur from inorganic sulfate, requires sulfate activation by coupling to a nucleoside, for the production of high-energy nucleoside phosphosulfates. This pathway appears to be similar in all prokaryotic organisms. Activation is first achieved through sulfation of sulfate with ATP by sulfate adenylyltransferase (ATP sulfurylase) to produce 5'-phosphosulfate (APS), coupled by GTP hydrolysis. Subsequently, APS is phosphorylated by an APS kinase to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS). In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase). [Central intermediary metabolism, Sulfur metabolism]


Pssm-ID: 213679 [Multi-domain]  Cd Length: 406  Bit Score: 130.57  E-value: 3.26e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGynPKTVPFVPISGFNGDNMIEPSSNCPWYkg 96
Cdd:TIGR02034 120 QTRRHSYIASLLGIRHVVLAVNKMDLVDYDEEVFENIKKDYLAFAEQLG--FRDVTFIPLSALKGDNVVSRSESMPWY-- 195

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  97 weketktksTGKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKI-----GGIGTVPVGRVETgvikaGMVVTFAPAGVTTEV 171
Cdd:TIGR02034 196 ---------SGPTLLEILETVEVERDAQDLPLRFPVQYVNRPnldfrGYAGTIASGSVHV-----GDEVVVLPSGRSSRV 261

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 172 KSVEMHHEQLTEGVPGDNVGFNVKNVSvkEIRRGN--VAGDSkndPPKGAESFNAQVIVL-NHPGQVGAGYapVLDCHTA 248
Cdd:TIGR02034 262 ARIVTFDGDLEQARAGQAVTLTLDDEI--DISRGDllAAADS---APEVADQFAATLVWMaEEPLLPGRSY--DLKLGTR 334

                         250       260
                  ....*....|....*....|....
gi 2563905656 249 HIACKFSELLEKIDRRTGKSVESS 272
Cdd:TIGR02034 335 KVRASVAAIKHKVDVNTLEKGAAK 358
cysN PRK05124
sulfate adenylyltransferase subunit 1; Provisional
 17-227 7.06e-35

sulfate adenylyltransferase subunit 1; Provisional


Pssm-ID: 235349 [Multi-domain]  Cd Length: 474  Bit Score: 130.80  E-value: 7.06e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGYNPkTVPFVPISGFNGDNMIEPSSNCPWYKg 96
Cdd:PRK05124  147 QTRRHSFIATLLGIKHLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGNL-DIRFVPLSALEGDNVVSQSESMPWYS- 224

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  97 weketktkstGKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKI-----GGIGTvpvgrVETGVIKAGMVVTFAPAGVTTEV 171
Cdd:PRK05124  225 ----------GPTLLEVLETVDIQRVVDAQPFRFPVQYVNRPnldfrGYAGT-----LASGVVKVGDRVKVLPSGKESNV 289

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2563905656 172 KSVEMHHEQLTEGVPGDNVGFNVKNvsvkE--IRRGNVAGDSKNDPPKGaESFNAQVI 227
Cdd:PRK05124  290 ARIVTFDGDLEEAFAGEAITLVLED----EidISRGDLLVAADEALQAV-QHASADVV 342
PRK05506 PRK05506
bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
 17-227 2.72e-34

bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional


Pssm-ID: 180120 [Multi-domain]  Cd Length: 632  Bit Score: 130.82  E-value: 2.72e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGYNpkTVPFVPISGFNGDNMIEPSSNCPWYkg 96
Cdd:PRK05506  144 QTRRHSFIASLLGIRHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLH--DVTFIPISALKGDNVVTRSARMPWY-- 219

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  97 weketktksTGKTLLEAIDAIDPPSRPSDKPLRLPLQDVYKI-----GGIGTvpvgrVETGVIKAGMVVTFAPAGVTTEV 171
Cdd:PRK05506  220 ---------EGPSLLEHLETVEIASDRNLKDFRFPVQYVNRPnldfrGFAGT-----VASGVVRPGDEVVVLPSGKTSRV 285

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2563905656 172 KSVEMHHEQLTEGVPGDNVgfnvkNVSVK---EIRRGNVAGDSkNDPPKGAESFNAQVI 227
Cdd:PRK05506  286 KRIVTPDGDLDEAFAGQAV-----TLTLAdeiDISRGDMLARA-DNRPEVADQFDATVV 338
CysN_ATPS cd04166
CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; CysN_ATPS ...
 17-121 6.74e-30

CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.


Pssm-ID: 206729 [Multi-domain]  Cd Length: 209  Bit Score: 111.89  E-value: 6.74e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTKWSEERFNEIIKETSNFIKKVGYNPKTvpFVPISGFNGDNMIEPSSNCPWYKg 96
Cdd:cd04166   118 QTRRHSYIASLLGIRHVVVAVNKMDLVDYDEEVFEEIKADYLAFAASLGIEDIT--FIPISALEGDNVVSRSENMPWYK- 194

                          90       100
                  ....*....|....*....|....*
gi 2563905656  97 weketktkstGKTLLEAIDAIDPPS 121
Cdd:cd04166   195 ----------GPTLLEHLETVEIAS 209
TufA COG0050
Translation elongation factor EF-Tu, a GTPase [Translation, ribosomal structure and biogenesis] ...
 15-207 1.22e-28

Translation elongation factor EF-Tu, a GTPase [Translation, ribosomal structure and biogenesis]; Translation elongation factor EF-Tu, a GTPase is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 439820 [Multi-domain]  Cd Length: 396  Bit Score: 112.55  E-value: 1.22e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  15 DG---QTREHALLAYTLGVKQLIVAINKMDTTkwSEERFNEIIK-ETSNFIKKVGYNPKTVPFVPISGF---NGDnmiep 87
Cdd:COG0050   110 DGpmpQTREHILLARQVGVPYIVVFLNKCDMV--DDEELLELVEmEVRELLSKYGFPGDDTPIIRGSALkalEGD----- 182

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  88 sSNCPWYKGWEKetktkstgktLLEAIDA-IDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAG---MVVTFA 163
Cdd:COG0050   183 -PDPEWEKKILE----------LMDAVDSyIPEPERDTDKPFLMPVEDVFSITGRGTVVTGRVERGIIKVGdevEIVGIR 251

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 2563905656 164 PAgVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNV 207
Cdd:COG0050   252 DT-QKTVVTGVEMFRKLLDEGEAGDNVGLLLRGIKREDVERGQV 294
PRK00049 PRK00049
elongation factor Tu; Reviewed
 15-229 8.36e-28

elongation factor Tu; Reviewed


Pssm-ID: 234596 [Multi-domain]  Cd Length: 396  Bit Score: 110.28  E-value: 8.36e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  15 DG---QTREHALLAYTLGVKQLIVAINKMDTTKwsEERFNEIIK-ETSNFIKKVGYNPKTVPFVPISGFNGdnmIEPSSN 90
Cdd:PRK00049  110 DGpmpQTREHILLARQVGVPYIVVFLNKCDMVD--DEELLELVEmEVRELLSKYDFPGDDTPIIRGSALKA---LEGDDD 184

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  91 CPWYKGWEKetktkstgktLLEAIDA-IDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAG---MVVTFAPAG 166
Cdd:PRK00049  185 EEWEKKILE----------LMDAVDSyIPTPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIIKVGeevEIVGIRDTQ 254

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2563905656 167 VTTeVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAgdSKNDPPKGAESFNAQVIVL 229
Cdd:PRK00049  255 KTT-VTGVEMFRKLLDEGQAGDNVGALLRGIKREDVERGQVL--AKPGSITPHTKFEAEVYVL 314
PRK12736 PRK12736
elongation factor Tu; Reviewed
 15-207 2.62e-27

elongation factor Tu; Reviewed


Pssm-ID: 237184 [Multi-domain]  Cd Length: 394  Bit Score: 108.88  E-value: 2.62e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  15 DG---QTREHALLAYTLGVKQLIVAINKMDTTkwSEERFNEIIK-ETSNFIKKVGYNPKTVPFVPISGF---NGDNmiep 87
Cdd:PRK12736  110 DGpmpQTREHILLARQVGVPYLVVFLNKVDLV--DDEELLELVEmEVRELLSEYDFPGDDIPVIRGSALkalEGDP---- 183

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  88 ssncPWYKGWEKetktkstgktLLEAIDA-IDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAG---MVVTFA 163
Cdd:PRK12736  184 ----KWEDAIME----------LMDAVDEyIPTPERDTDKPFLMPVEDVFTITGRGTVVTGRVERGTVKVGdevEIVGIK 249

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 2563905656 164 PAgVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNV 207
Cdd:PRK12736  250 ET-QKTVVTGVEMFRKLLDEGQAGDNVGVLLRGVDRDEVERGQV 292
PLN03127 PLN03127
Elongation factor Tu; Provisional
 4-230 3.25e-27

Elongation factor Tu; Provisional


Pssm-ID: 178673 [Multi-domain]  Cd Length: 447  Bit Score: 109.53  E-value: 3.25e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656   4 GTGEFEAGI----SKDG---QTREHALLAYTLGVKQLIVAINKMDTTKWSE--ERFNEIIKETSNFIKkvgynpktvpfv 74
Cdd:PLN03127  144 GAAQMDGGIlvvsAPDGpmpQTKEHILLARQVGVPSLVVFLNKVDVVDDEEllELVEMELRELLSFYK------------ 211

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  75 pisgFNGDNM-IEPSSNCPWYKGWEKETKTKSTGKtLLEAIDAIDP-PSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETG 152
Cdd:PLN03127  212 ----FPGDEIpIIRGSALSALQGTNDEIGKNAILK-LMDAVDEYIPePVRVLDKPFLMPIEDVFSIQGRGTVATGRVEQG 286

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 153 VIKAG---MVVTFAPAG-VTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAgdSKNDPPKGAESFNAQVIV 228
Cdd:PLN03127  287 TIKVGeevEIVGLRPGGpLKTTVTGVEMFKKILDQGQAGDNVGLLLRGLKREDVQRGQVI--CKPGSIKTYKKFEAEIYV 364


                  ..
gi 2563905656 229 LN 230
Cdd:PLN03127  365 LT 366
tufA CHL00071
elongation factor Tu
 15-230 6.95e-27

elongation factor Tu


Pssm-ID: 177010 [Multi-domain]  Cd Length: 409  Bit Score: 108.12  E-value: 6.95e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  15 DG---QTREHALLAYTLGVKQLIVAINKMDttKWSEERFNEIIK-ETSNFIKKVGYNPKTVPFVPISGFNGDNMIEPSSN 90
Cdd:CHL00071  110 DGpmpQTKEHILLAKQVGVPNIVVFLNKED--QVDDEELLELVElEVRELLSKYDFPGDDIPIVSGSALLALEALTENPK 187

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  91 cpWYKGwekETKTKSTGKTLLEAIDA-IDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVT---FAPAG 166
Cdd:CHL00071  188 --IKRG---ENKWVDKIYNLMDAVDSyIPTPERDTDKPFLMAIEDVFSITGRGTVATGRIERGTVKVGDTVEivgLRETK 262

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2563905656 167 VTTeVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAGDSKNDPPKgaESFNAQVIVLN 230
Cdd:CHL00071  263 TTT-VTGLEMFQKTLDEGLAGDNVGILLRGIQKEDIERGMVLAKPGTITPH--TKFEAQVYILT 323
PRK12735 PRK12735
elongation factor Tu; Reviewed
 15-229 1.29e-25

elongation factor Tu; Reviewed


Pssm-ID: 183708 [Multi-domain]  Cd Length: 396  Bit Score: 104.15  E-value: 1.29e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  15 DG---QTREHALLAYTLGVKQLIVAINKMDTTkwSEERFNEIIK-ETSNFIKKVGYNPKTVPFVPISGFNGdnmIEPSSN 90
Cdd:PRK12735  110 DGpmpQTREHILLARQVGVPYIVVFLNKCDMV--DDEELLELVEmEVRELLSKYDFPGDDTPIIRGSALKA---LEGDDD 184

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  91 CPWYKG-WEketktkstgktLLEAIDA-IDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAG---MVVTFAPA 165
Cdd:PRK12735  185 EEWEAKiLE-----------LMDAVDSyIPEPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIVKVGdevEIVGIKET 253

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2563905656 166 GVTTeVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAgdSKNDPPKGAESFNAQVIVL 229
Cdd:PRK12735  254 QKTT-VTGVEMFRKLLDEGQAGDNVGVLLRGTKREDVERGQVL--AKPGSIKPHTKFEAEVYVL 314
EF-Tu TIGR00485
translation elongation factor TU; This model models orthologs of translation elongation factor ...
 17-229 4.35e-24

translation elongation factor TU; This model models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation. [Protein synthesis, Translation factors]


Pssm-ID: 129576 [Multi-domain]  Cd Length: 394  Bit Score: 100.24  E-value: 4.35e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTkwSEERFNEIIK-ETSNFIKKVGYNPKTVPFVPISGFngdnmiepssncpwyK 95
Cdd:TIGR00485 115 QTREHILLARQVGVPYIVVFLNKCDMV--DDEELLELVEmEVRELLSQYDFPGDDTPIIRGSAL---------------K 177

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  96 GWEKETKTKSTGKTLLEAIDA-IDPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAG---MVVTFAPAGVTTeV 171
Cdd:TIGR00485 178 ALEGDAEWEAKILELMDAVDEyIPTPEREIDKPFLLPIEDVFSITGRGTVVTGRVERGIIKVGeevEIVGLKDTRKTT-V 256

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2563905656 172 KSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAgdSKNDPPKGAESFNAQVIVL 229
Cdd:TIGR00485 257 TGVEMFRKELDEGRAGDNVGLLLRGIKREEIERGMVL--AKPGSIKPHTKFEAEVYVL 312
SelB COG3276
Selenocysteine-specific translation elongation factor SelB [Translation, ribosomal structure ...
 17-231 6.98e-24

Selenocysteine-specific translation elongation factor SelB [Translation, ribosomal structure and biogenesis]; Selenocysteine-specific translation elongation factor SelB is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 442507 [Multi-domain]  Cd Length: 630  Bit Score: 100.76  E-value: 6.98e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREH-ALLAyTLGVKQLIVAINKMDTTkwSEERFNEIIKETSNFIKkvGYNPKTVPFVPISGFNGdnmiepssncpwyK 95
Cdd:COG3276    91 QTREHlAILD-LLGIKRGIVVLTKADLV--DEEWLELVEEEIRELLA--GTFLEDAPIVPVSAVTG-------------E 152

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  96 GWEKetktkstgktLLEAIDAI--DPPSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKS 173
Cdd:COG3276   153 GIDE----------LRAALDALaaAVPARDADGPFRLPIDRVFSIKGFGTVVTGTLLSGTVRVGDELELLPSGKPVRVRG 222

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2563905656 174 VEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAgdSKNDPPKGAESFNAQVIVLNH 231
Cdd:COG3276   223 IQVHGQPVEEAYAGQRVALNLAGVEKEEIERGDVL--AAPGALRPTDRIDVRLRLLPS 278
PLN03126 PLN03126
Elongation factor Tu; Provisional
 17-229 3.97e-22

Elongation factor Tu; Provisional


Pssm-ID: 215592 [Multi-domain]  Cd Length: 478  Bit Score: 95.45  E-value: 3.97e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTKwSEERFNEIIKETSNFIKKVGYNPKTVPFVPISGFNGdnmIEPSSNCPWYKG 96
Cdd:PLN03126  184 QTKEHILLAKQVGVPNMVVFLNKQDQVD-DEELLELVELEVRELLSSYEFPGDDIPIISGSALLA---LEALMENPNIKR 259

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  97 WEKETKTKstgktLLEAIDAIDP----PSRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVT--TE 170
Cdd:PLN03126  260 GDNKWVDK-----IYELMDAVDSyipiPQRQTDLPFLLAVEDVFSITGRGTVATGRVERGTVKVGETVDIVGLRETrsTT 334

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2563905656 171 VKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNVAgdSKNDPPKGAESFNAQVIVL 229
Cdd:PLN03126  335 VTGVEMFQKILDEALAGDNVGLLLRGIQKADIQRGMVL--AKPGSITPHTKFEAIVYVL 391
GTP_EFTU pfam00009
Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in ...
 16-86 1.94e-19

Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.


Pssm-ID: 425418 [Multi-domain]  Cd Length: 187  Bit Score: 83.34  E-value: 1.94e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2563905656  16 GQTREHALLAYTLGVKqLIVAINKMDTTkwSEERFNEIIKETSN-FIKKVGYNPKTVPFVPISGFNGDNMIE 86
Cdd:pfam00009 108 PQTREHLRLARQLGVP-IIVFINKMDRV--DGAELEEVVEEVSReLLEKYGEDGEFVPVVPGSALKGEGVQT 176
Translation_Factor_II_like cd01342
Domain II of Elongation factor Tu (EF-Tu)-like proteins; Elongation factor Tu consists of ...
 128-207 4.97e-19

Domain II of Elongation factor Tu (EF-Tu)-like proteins; Elongation factor Tu consists of three structural domains. Domain II adopts a beta barrel structure and is involved in binding to charged tRNA. Domain II is found in other proteins such as elongation factor G and translation initiation factor IF-2. This group also includes the C2 subdomain of domain IV of IF-2 that has the same fold as domain II of (EF-Tu). Like IF-2 from certain prokaryotes such as Thermus thermophilus, mitochondrial IF-2 lacks domain II, which is thought to be involved in binding of E. coli IF-2 to 30S subunits.


Pssm-ID: 293888 [Multi-domain]  Cd Length: 80  Bit Score: 79.23  E-value: 4.97e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 128 LRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNvsVKEIRRGNV 207
Cdd:cd01342     1 LVMQVFKVFYIPGRGRVAGGRVESGTLKVGDEIRILPKGITGRVTSIERFHEEVDEAKAGDIVGIGILG--VKDILTGDT 78
selB TIGR00475
selenocysteine-specific elongation factor SelB; In prokaryotes, the incorporation of ...
 17-205 1.08e-17

selenocysteine-specific elongation factor SelB; In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes. [Protein synthesis, Translation factors]


Pssm-ID: 129567 [Multi-domain]  Cd Length: 581  Bit Score: 82.61  E-value: 1.08e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTkwSEERFNEIIKETSNFIKKVGYNpKTVPFVPISGFNGDNMIEpssncpwykg 96
Cdd:TIGR00475  90 QTGEHLAVLDLLGIPHTIVVITKADRV--NEEEIKRTEMFMKQILNSYIFL-KNAKIFKTSAKTGQGIGE---------- 156

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  97 weketkTKSTGKTLLEAIDAidppsRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVEM 176
Cdd:TIGR00475 157 ------LKKELKNLLESLDI-----KRIQKPLRMAIDRAFKVKGAGTVVTGTAFSGEVKVGDNLRLLPINHEVRVKAIQA 225

                         170       180
                  ....*....|....*....|....*....
gi 2563905656 177 HHEQLTEGVPGDNVGFNVKNVSVKEIRRG 205
Cdd:TIGR00475 226 QNQDVEIAYAGQRIALNLMDVEPESLKRG 254
GTP_EFTU_D3 pfam03143
Elongation factor Tu C-terminal domain; Elongation factor Tu consists of three structural ...
 215-279 1.98e-17

Elongation factor Tu C-terminal domain; Elongation factor Tu consists of three structural domains, this is the third domain. This domain adopts a beta barrel structure. This the third domain is involved in binding to both charged tRNA and binding to EF-Ts pfam00889.


Pssm-ID: 397314 [Multi-domain]  Cd Length: 105  Bit Score: 75.76  E-value: 1.98e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 215 PPKGAESFNAQVIVLNH-----PGQVGAGYAPVLDCHTAHIACKFSELLEKIDrrTGKSVEsSPKFIKSG 279
Cdd:pfam03143   1 PIKPHTKFEAQVYILNKeeggrHTPFFNGYRPQFYFRTADVTGKFVELLHKLD--PGGVSE-NPEFVMPG 67
SelB_II cd03696
Domain II of elongation factor SelB; This subfamily represents the domain of elongation factor ...
 128-207 1.20e-16

Domain II of elongation factor SelB; This subfamily represents the domain of elongation factor SelB that is homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.


Pssm-ID: 293897 [Multi-domain]  Cd Length: 83  Bit Score: 72.94  E-value: 1.20e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 128 LRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNV 207
Cdd:cd03696     1 FRLPIDHVFSIKGAGTVVTGTVLSGKVKVGDELEIPPLGKEVRVRSIQVHDKPVEEAKAGDRVALNLTGVDAKELERGFV 80
EFTU_II cd03697
Domain II of elongation factor Tu; Elongation factors Tu (EF-Tu) are three-domain GTPases with ...
 130-207 5.28e-16

Domain II of elongation factor Tu; Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the catalytic or G-domain. The G-domain is composed of about 200 amino acid residues, arranged into a predominantly parallel six-stranded beta-sheet core surrounded by seven alpha helices. Non-catalytic domains II and III are beta-barrels of seven and six, respectively, antiparallel beta-strands that share an extended interface. Both non-catalytic domains are composed of about 100 amino acid residues. EF-Tu proteins exist in two principal conformations: a compact one, EF-Tu*GTP, with tight interfaces between all three domains and a high affinity for aminoacyl-tRNA; and an open one, EF-Tu*GDP, with essentially no G-domain-domain II interactions and a low affinity for aminoacyl-tRNA. EF-Tu has approximately a 100-fold higher affinity for GDP than for GTP.


Pssm-ID: 293898 [Multi-domain]  Cd Length: 87  Bit Score: 71.40  E-value: 5.28e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 130 LPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFA--PAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNV 207
Cdd:cd03697     3 MPIEDVFSIPGRGTVVTGRIERGVIKVGDEVEIVgfKETLKTTVTGIEMFRKTLDEAEAGDNVGVLLRGVKKEDVERGMV 82
GTP_EFTU_D2 pfam03144
Elongation factor Tu domain 2; Elongation factor Tu consists of three structural domains, this ...
 142-207 1.12e-15

Elongation factor Tu domain 2; Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA. This domain is also found in other proteins such as elongation factor G and translation initiation factor IF-2. This domain is structurally related to pfam03143, and in fact has weak sequence matches to this domain.


Pssm-ID: 427163 [Multi-domain]  Cd Length: 73  Bit Score: 69.99  E-value: 1.12e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2563905656 142 GTVPVGRVETGVIKAGMVVTFAPAGV-----TTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNV 207
Cdd:pfam03144   1 GTVATGRVESGTLKKGDKVRILPNGTgkkkiVTRVTSLLMFHAPLREAVAGDNAGLILAGVGLEDIRVGDT 71
HBS1-like_II cd16267
Domain II of Hbs1-like proteins; S. cerevisiae Hbs1 is closely related to the eukaryotic class ...
 127-210 2.46e-14

Domain II of Hbs1-like proteins; S. cerevisiae Hbs1 is closely related to the eukaryotic class II release factor (eRF3). Hbs1, together with Dom34 (pelota), plays an important role in termination and recycling, but in contrast to eRF3/eRF1, Hbs1, together with Dom34 (pelota), functions on mRNA-bound ribosomes in a codon-independent manner and promotes subunit splitting on completely empty ribosomes.


Pssm-ID: 293912 [Multi-domain]  Cd Length: 84  Bit Score: 66.77  E-value: 2.46e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 127 PLRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGN 206
Cdd:cd16267     1 PFRLSVSDVFKGQGSGFTVSGRIEAGSVQVGDKVLVMPSNETATVKSIEIDDEPVDWAVAGDNVTLTLTGIDPNHLRVGS 80


                  ....
gi 2563905656 207 VAGD 210
Cdd:cd16267    81 ILCD 84
GTP_translation_factor cd00881
GTP translation factor family primarily contains translation initiation, elongation and ...
 16-121 8.62e-12

GTP translation factor family primarily contains translation initiation, elongation and release factors; The GTP translation factor family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.


Pssm-ID: 206647 [Multi-domain]  Cd Length: 183  Bit Score: 62.31  E-value: 8.62e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  16 GQTREHALLAyTLGVKQLIVAINKMDTTKwsEERFNEIIKETSNFIKKVGY---NPKTVPFVPISGFNGDNMiepssncp 92
Cdd:cd00881   101 PQTREHLNIA-LAGGLPIIVAVNKIDRVG--EEDFDEVLREIKELLKLIGFtflKGKDVPIIPISALTGEGI-------- 169

                          90       100
                  ....*....|....*....|....*....
gi 2563905656  93 wykgweketktkstgKTLLEAIDAIDPPS 121
Cdd:cd00881   170 ---------------EELLDAIVEHLPPP 183
Translation_factor_III cd01513
Domain III of Elongation factor (EF) Tu (EF-TU) and related proteins; Elongation factor (EF) ...
 217-279 9.74e-12

Domain III of Elongation factor (EF) Tu (EF-TU) and related proteins; Elongation factor (EF) EF-Tu participates in the elongation phase during protein biosynthesis on the ribosome. Its functional cycles depend on GTP binding and its hydrolysis. The EF-Tu complexed with GTP and aminoacyl-tRNA delivers tRNA to the ribosome, whereas EF-G stimulates translocation, a process in which tRNA and mRNA movements occur in the ribosome. Experimental findings indicate an essential contribution of domain III to activation of GTP hydrolysis. This domain III, which is distinct from the domain III in EFG and related elongation factors, is found in several eukaryotic translation factors, like peptide chain release factors RF3, elongation factor 1, selenocysteine (Sec)-specific elongation factor, and in GT-1 family of GTPase (GTPBP1).


Pssm-ID: 275447 [Multi-domain]  Cd Length: 102  Bit Score: 60.10  E-value: 9.74e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2563905656 217 KGAESFNAQVIVLNHPGQVGAGYAPVLDCHTAHIACKFSELLEKIDRRTGKsvESSPKFIKSG 279
Cdd:cd01513     1 QAVWKFDAKVIVLEHPKPIRPGYKPVMDVGTAHVPGRIAKLLSKEDGKTKE--KKPPDSLQPG 61
eRF3_II cd04089
Domain II of the eukaryotic class II release factor; In eukaryotes, translation termination is ...
 127-207 7.47e-11

Domain II of the eukaryotic class II release factor; In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribosome. eRF3 is a GTPase, which enhances termination efficiency by stimulating eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF-1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-like protein with the property of aggregating into polymer-like fibrils.


Pssm-ID: 293906 [Multi-domain]  Cd Length: 82  Bit Score: 57.11  E-value: 7.47e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 127 PLRLPLQDVYKigGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGN 206
Cdd:cd04089     1 PLRMPILDKYK--DMGTVVMGKVESGTIRKGQKLVLMPNKTKVEVTGIYIDEEEVDSAKPGENVKLKLKGVEEEDISPGF 78


                  .
gi 2563905656 207 V 207
Cdd:cd04089    79 V 79
GTPBP_II cd03694
Domain II of the GTPBP family of GTP binding proteins; This group includes proteins similar to ...
 134-207 3.17e-10

Domain II of the GTPBP family of GTP binding proteins; This group includes proteins similar to GTPBP1 and GTPBP2. GTPBP1 is structurally related to elongation factor 1 alpha, a key component of the protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.


Pssm-ID: 293895 [Multi-domain]  Cd Length: 87  Bit Score: 55.69  E-value: 3.17e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2563905656 134 DVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAG----VTTEVKSVEMHHEQLTEGVPGDNVGFNVKNVSVKEIRRGNV 207
Cdd:cd03694     7 DIYSVPGVGTVVSGTVSKGVIREGDTLLLGPDAdgkfRPVTVKSIHRNRQPVDRARAGQSASFALKKIKRESLRKGMV 84
eRF3_II_like cd03698
Domain II of the eukaryotic class II release factor-like proteins; This model represents the ...
 127-210 8.22e-10

Domain II of the eukaryotic class II release factor-like proteins; This model represents the domain similar to domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribosome. eRF3 is a GTPase, which enhances termination efficiency by stimulating eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF-1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-like protein with the property of aggregating into polymer-like fibrils. This group also contains proteins similar to S. cerevisiae Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation and to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression.


Pssm-ID: 293899 [Multi-domain]  Cd Length: 84  Bit Score: 54.43  E-value: 8.22e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656 127 PLRLPLQDVYKiGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVEMH-HEQLTEGVPGDNVGFNVKNVSVKEIRRG 205
Cdd:cd03698     1 PFRLSIDDKYK-SPRGTTVTGKLEAGSIQKNQVLYDMPSQQDAEVKNIIRNsDEETDWAIAGDTVTLRLRGIEVEDIQPG 79


                  ....*
gi 2563905656 206 NVAGD 210
Cdd:cd03698    80 DILSS 84
eRF3_C_III cd03704
C-terminal domain of eRF3; This model represents the eEF1alpha-like C-terminal region of eRF3, ...
 219-279 3.81e-09

C-terminal domain of eRF3; This model represents the eEF1alpha-like C-terminal region of eRF3, which is homologous to the domain III of EF-Tu. eRF3 is a GTPase which enhances termination efficiency by stimulating eRF1 activity in a GTP-dependent manner. The C-terminal region is responsible for translation termination activity and is essential for viability. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions: N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-like protein with the property of aggregating into polymer-like fibrils.


Pssm-ID: 294003 [Multi-domain]  Cd Length: 108  Bit Score: 53.33  E-value: 3.81e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2563905656 219 AESFNAQVIVLNHPGQV-GAGYAPVLDCHTAHIACKFSELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:cd03704     3 VTEFEAQIVILDLLKSIiTAGYSAVLHIHTAVEEVTITKLLATIDKKTGKKKKKKPKFVKSG 64
CysN_NodQ_II cd03695
Domain II of the large subunit of ATP sulfurylase; This subfamily represents domain II of the ...
 128-192 1.41e-08

Domain II of the large subunit of ATP sulfurylase; This subfamily represents domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN and a smaller subunit CysD. ATPS produces adenosine-5'-phosphosulfate (APS) from ATP and sulfate, coupled with GTP hydrolysis. In the subsequent reaction, APS is phosphorylated by an APS kinase (CysC), to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for use in amino acid (aa) biosynthesis. The Rhizobiaceae group (alpha-proteobacteria) appears to carry out the same chemistry for the sulfation of a nodulation factor. In Rhizobium meliloti, the heterodimeric complex comprised of NodP and NodQ appears to possess both ATPS and APS kinase activities. The N and C termini of NodQ correspond to CysN and CysC, respectively. Other eubacteria, archaea, and eukaryotes use a different ATP sulfurylase, which shows no amino acid sequence similarity to CysN or NodQ. CysN and the N-terminal portion of NodQ show similarity to GTPases involved in translation, in particular, EF-Tu and EF-1alpha.


Pssm-ID: 293896 [Multi-domain]  Cd Length: 81  Bit Score: 51.03  E-value: 1.41e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2563905656 128 LRLPLQDVYKIGGIGTVPVGRVETGVIKAGMVVTFAPAGVTTEVKSVEMHHEQLTEGVPGDNVGF 192
Cdd:cd03695     1 FRFPVQYVNRPNLDFRGYAGTIASGSIRVGDEVTVLPSGKTSRVKSIVTFDGELDSAGAGEAVTL 65
EF_Tu cd01884
Elongation Factor Tu (EF-Tu) GTP-binding proteins; EF-Tu subfamily. This subfamily includes ...
 15-120 1.02e-07

Elongation Factor Tu (EF-Tu) GTP-binding proteins; EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.


Pssm-ID: 206671 [Multi-domain]  Cd Length: 195  Bit Score: 51.05  E-value: 1.02e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  15 DG---QTREHALLAYTLGVKQLIVAINKMDTTKwSEERFNEIIKETSNFIKKVGYNPKTVPFVPISGFngdnmiepssnc 91
Cdd:cd01884   100 DGpmpQTREHLLLARQVGVPYIVVFLNKADMVD-DEELLELVEMEVRELLSKYGFDGDDTPIVRGSAL------------ 166

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2563905656  92 pwyKGWEKETKTKSTGK--TLLEAIDAIDPP 120
Cdd:cd01884   167 ---KALEGDDPNKWVDKilELLDALDSYIPT 194
HBS1_C_III cd04093
C-terminal domain of Hsp70 subfamily B suppressor 1 (HBS1); This model represents the ...
 215-279 1.24e-05

C-terminal domain of Hsp70 subfamily B suppressor 1 (HBS1); This model represents the C-terminal domain of Hsp70 subfamily B suppressor 1 (HBS1), which is homologous to the domain III of EF-1alpha. This group contains proteins similar to yeast Hbs1, which together with Dom34, promotes the No-go decay (NGD) of mRNA. The NGD targets mRNAs whose elongation stalled for degradation initiated by endonucleolytic cleavage in the vicinity of the stalled ribosome.


Pssm-ID: 294008 [Multi-domain]  Cd Length: 109  Bit Score: 43.30  E-value: 1.24e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2563905656 215 PPKGAESFNAQVIVLNHPGQVGAGYAPVLDCHTAHIACKFSELLEKIDRRTGKSVESSPKFIKSG 279
Cdd:cd04093     1 PVATTSKFEARIVTFDLQVPILKGTPVVLHRHSLSEPATISKLVSTLDKSTGEVIKKKPRCLGKN 65
SelB cd04171
SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; ...
 17-82 3.55e-05

SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains bacterial SelBs, as well as, one from archaea.


Pssm-ID: 206734 [Multi-domain]  Cd Length: 170  Bit Score: 43.36  E-value: 3.55e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTkwSEERFNEIIKETSNFIKKVGYnpKTVPFVPISGFNGD 82
Cdd:cd04171    90 QTREHLEILELLGIKKGLVVLTKADLV--DEDRLELVEEEILELLAGTFL--ADAPIFPVSSVTGE 151
PRK04000 PRK04000
translation initiation factor IF-2 subunit gamma; Validated
 17-216 6.50e-05

translation initiation factor IF-2 subunit gamma; Validated


Pssm-ID: 235194 [Multi-domain]  Cd Length: 411  Bit Score: 43.69  E-value: 6.50e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  17 QTREHALLAYTLGVKQLIVAINKMDTTkwSEERFNEIIKETSNFIKkvGYNPKTVPFVPISGFNGDNMiepssncpwykg 96
Cdd:PRK04000  126 QTKEHLMALDIIGIKNIVIVQNKIDLV--SKERALENYEQIKEFVK--GTVAENAPIIPVSALHKVNI------------ 189

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2563905656  97 weketktkstgKTLLEAIDA-IDPPSRPSDKPLRLPLQ---DVYK--------IGGI--GTVPVGRVETG---VIKAGMV 159
Cdd:PRK04000  190 -----------DALIEAIEEeIPTPERDLDKPPRMYVArsfDVNKpgtppeklKGGVigGSLIQGVLKVGdeiEIRPGIK 258

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2563905656 160 VTFAPAG----VTTEVKSVEMHHEQLTEGVPGDNVGFNVK---NVSVKEIRRGNVAGDSKNDPP 216
Cdd:PRK04000  259 VEEGGKTkwepITTKIVSLRAGGEKVEEARPGGLVGVGTKldpSLTKADALAGSVAGKPGTLPP 322
GTPBP_III cd03708
Domain III of the GP-1 family of GTPases; This family includes proteins similar to GTPBP1 and ...
 222-277 2.86e-04

Domain III of the GP-1 family of GTPases; This family includes proteins similar to GTPBP1 and GTPBP2. GTPBP1 is structurally related to elongation factor 1 alpha, a key component of the protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in the cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.


Pssm-ID: 294007 [Multi-domain]  Cd Length: 87  Bit Score: 39.04  E-value: 2.86e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2563905656 222 FNAQVIVLNHPGQVGAGYAPVLDCHTAHIACKFsellEKIDR---RTGKSVESSPKFIK 277
Cdd:cd03708     6 FEAEVLVLHHPTTISPGYQPVVHCGTIRQTARI----ISIDKevlRTGDRALVRFRFLY 60
IF2_eIF5B cd01887
Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; IF2/eIF5B ...
 17-84 3.18e-03

Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.


Pssm-ID: 206674 [Multi-domain]  Cd Length: 169  Bit Score: 37.45  E-value: 3.18e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2563905656  17 QTRE---HALLAYTlgvkQLIVAINKMDTTKWSE---ERFNEIIKETSNFIKKVGynpKTVPFVPISGFNGDNM 84
Cdd:cd01887    89 QTIEainHAKAANV----PIIVAINKIDKPYGTEadpERVKNELSELGLVGEEWG---GDVSIVPISAKTGEGI 155
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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