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Conserved domains on  [gi|2047912612|gb|KAG6585281|]
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Eukaryotic translation initiation factor 5, partial [Cucurbita argyrosperma subsp. sororia]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
eIF2B_5 smart00653
domain present in translation initiation factor eIF2B and eIF5;
60-174 1.06e-49

domain present in translation initiation factor eIF2B and eIF5;


:

Pssm-ID: 214764  Cd Length: 110  Bit Score: 170.89  E-value: 1.06e-49
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612   60 FYRYKMPRMVTKIEGRGngiKTNVVNMVEIAKALGRPASYTTKYFGCELGAQSKFDEKtGTSLVNGAHDTAKLAGLLENF 139
Cdd:smart00653   1 FYRFKMPPPQVLREGKG---KTVIVNFADIAKALNRPPDHVLKFLLAELGTQGSIDGK-GRLIVNGRFTPKKLQDLLRRY 76
                           90       100       110
                   ....*....|....*....|....*....|....*
gi 2047912612  140 IKKYVQCYGCGNPETEIIITkTQMITMKCAACGFI 174
Cdd:smart00653  77 IKEYVLCPECGSPDTELIKE-NRLFFLKCEACGAR 110
W2_eIF5 cd11561
C-terminal W2 domain of eukaryotic translation initiation factor 5; eIF5 functions as a GTPase ...
345-484 8.93e-37

C-terminal W2 domain of eukaryotic translation initiation factor 5; eIF5 functions as a GTPase acceleration protein (GAP), as well as a GDP dissociation inhibitor (GDI) during translational initiation in eukaryotes. The structure of this C-terminal domain resembles that of a set of concatenated HEAT repeats.


:

Pssm-ID: 211399  Cd Length: 157  Bit Score: 135.82  E-value: 8.93e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 345 LVNEIKDYLKKGSSAAN------LKSFLESLSGTPQEIVNALVEALFDgvgKGFSKEVMKKKNFLAAAVALEGSQIALLR 418
Cdd:cd11561     7 RVDELGEFLKKNKDESGlselkeILKEAERLDVVKDKAVLVLAEVLFD---ENIVKEIKKRKALLLKLVTDEKAQKALLG 83
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2047912612 419 AIESFCLNTSSEAAKEVALVLKSLYDSNLIEEEFVLEWYQRGV---VGANKSSPVWNHVKPFIEWLQNA 484
Cdd:cd11561    84 GIERFCGKHSPELLKKVPLILKALYDNDILEEEVILKWYEKVSkkyVSKEKSKKVRKAAEPFVEWLEEA 152
Auxin_resp pfam06507
Auxin response factor; A conserved region of auxin-responsive transcription factors.
727-800 1.25e-28

Auxin response factor; A conserved region of auxin-responsive transcription factors.


:

Pssm-ID: 428981  Cd Length: 83  Bit Score: 109.55  E-value: 1.25e-28
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2047912612 727 PFELVYYPRAGRSEFVVQVEKVNESKNYQWYSGTRVKMAMETEYSKMTWYQGTVTSASVPEHGPWMGSPWRMLE 800
Cdd:pfam06507  10 PFTVVYYPRASPSEFVVPYNKVLKAMNNPWSVGMRFKMRFETEDSSERRYSGTISGVGDADPVRWPGSPWRSLQ 83
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
561-663 3.10e-23

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


:

Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 95.13  E-value: 3.10e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 561 FAKILTSSDANNGGGFSVPRCCADSVFPplnyqaDPPVQNLSIT--DVHGVVWNFRHIYRGTPRRHLLTTGWSKFVNHKK 638
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENSG------LPKRLSKEITllDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANG 74
                          90       100
                  ....*....|....*....|....*..
gi 2047912612 639 LIAGDSVVF--AKNLRGDMFVGIRRAS 663
Cdd:pfam02362  75 LKAGDFLTFklVGNSGFTPVVGIFRKS 101
 
Name Accession Description Interval E-value
eIF2B_5 smart00653
domain present in translation initiation factor eIF2B and eIF5;
60-174 1.06e-49

domain present in translation initiation factor eIF2B and eIF5;


Pssm-ID: 214764  Cd Length: 110  Bit Score: 170.89  E-value: 1.06e-49
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612   60 FYRYKMPRMVTKIEGRGngiKTNVVNMVEIAKALGRPASYTTKYFGCELGAQSKFDEKtGTSLVNGAHDTAKLAGLLENF 139
Cdd:smart00653   1 FYRFKMPPPQVLREGKG---KTVIVNFADIAKALNRPPDHVLKFLLAELGTQGSIDGK-GRLIVNGRFTPKKLQDLLRRY 76
                           90       100       110
                   ....*....|....*....|....*....|....*
gi 2047912612  140 IKKYVQCYGCGNPETEIIITkTQMITMKCAACGFI 174
Cdd:smart00653  77 IKEYVLCPECGSPDTELIKE-NRLFFLKCEACGAR 110
eIF-5_eIF-2B pfam01873
Domain found in IF2B/IF5; This family includes the N terminus of eIF-5, and the C terminus of ...
58-172 8.26e-46

Domain found in IF2B/IF5; This family includes the N terminus of eIF-5, and the C terminus of eIF-2 beta. This region corresponds to the whole of the archaebacterial eIF-2 beta homolog. The region contains a putative zinc binding C4 finger.


Pssm-ID: 426485  Cd Length: 115  Bit Score: 159.99  E-value: 8.26e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612  58 DAFYRYKMPRMVTKIEGRGngiKTNVVNMVEIAKALGRPASYTTKYFGCELGAQSKFDEKtGTSLVNGAHDTAKLAGLLE 137
Cdd:pfam01873   4 DSFYRYKMPPPQVKREGKG---KTVIVNFSEIAKALNRDPEHVLKYLLKELGTQGSIDEN-GRLIINGKFSAKQIEDLLD 79
                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2047912612 138 NFIKKYVQCYGCGNPETEIIItKTQMITMKCAACG 172
Cdd:pfam01873  80 KYIEEYVLCPECGSPDTELIK-ENRLLFLKCEACG 113
W2_eIF5 cd11561
C-terminal W2 domain of eukaryotic translation initiation factor 5; eIF5 functions as a GTPase ...
345-484 8.93e-37

C-terminal W2 domain of eukaryotic translation initiation factor 5; eIF5 functions as a GTPase acceleration protein (GAP), as well as a GDP dissociation inhibitor (GDI) during translational initiation in eukaryotes. The structure of this C-terminal domain resembles that of a set of concatenated HEAT repeats.


Pssm-ID: 211399  Cd Length: 157  Bit Score: 135.82  E-value: 8.93e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 345 LVNEIKDYLKKGSSAAN------LKSFLESLSGTPQEIVNALVEALFDgvgKGFSKEVMKKKNFLAAAVALEGSQIALLR 418
Cdd:cd11561     7 RVDELGEFLKKNKDESGlselkeILKEAERLDVVKDKAVLVLAEVLFD---ENIVKEIKKRKALLLKLVTDEKAQKALLG 83
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2047912612 419 AIESFCLNTSSEAAKEVALVLKSLYDSNLIEEEFVLEWYQRGV---VGANKSSPVWNHVKPFIEWLQNA 484
Cdd:cd11561    84 GIERFCGKHSPELLKKVPLILKALYDNDILEEEVILKWYEKVSkkyVSKEKSKKVRKAAEPFVEWLEEA 152
Auxin_resp pfam06507
Auxin response factor; A conserved region of auxin-responsive transcription factors.
727-800 1.25e-28

Auxin response factor; A conserved region of auxin-responsive transcription factors.


Pssm-ID: 428981  Cd Length: 83  Bit Score: 109.55  E-value: 1.25e-28
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2047912612 727 PFELVYYPRAGRSEFVVQVEKVNESKNYQWYSGTRVKMAMETEYSKMTWYQGTVTSASVPEHGPWMGSPWRMLE 800
Cdd:pfam06507  10 PFTVVYYPRASPSEFVVPYNKVLKAMNNPWSVGMRFKMRFETEDSSERRYSGTISGVGDADPVRWPGSPWRSLQ 83
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
561-663 3.10e-23

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 95.13  E-value: 3.10e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 561 FAKILTSSDANNGGGFSVPRCCADSVFPplnyqaDPPVQNLSIT--DVHGVVWNFRHIYRGTPRRHLLTTGWSKFVNHKK 638
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENSG------LPKRLSKEITllDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANG 74
                          90       100
                  ....*....|....*....|....*..
gi 2047912612 639 LIAGDSVVF--AKNLRGDMFVGIRRAS 663
Cdd:pfam02362  75 LKAGDFLTFklVGNSGFTPVVGIFRKS 101
eIF5C smart00515
Domain at the C-termini of GCD6, eIF-2B epsilon, eIF-4 gamma and eIF-5;
400-484 4.11e-20

Domain at the C-termini of GCD6, eIF-2B epsilon, eIF-4 gamma and eIF-5;


Pssm-ID: 214705  Cd Length: 83  Bit Score: 85.42  E-value: 4.11e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612  400 KNFLAAAVALEGSQIALLRAIESFCLNtSSEAAKEVALVLKSLYDSNLIEEEFVLEWYQRGvVGANKSSPVWNHVKPFIE 479
Cdd:smart00515   1 GPLLKFLAKDEEEQLELLYAIEEFCVE-LEKLGKLLPKILKSLYDADILEEEAILKWYEKA-VSAEGKKKVRKNAKPFVT 78

                   ....*
gi 2047912612  480 WLQNA 484
Cdd:smart00515  79 WLQEA 83
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
561-662 2.64e-19

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 83.50  E-value: 2.64e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612  561 FAKILTSSDANNGGGFSVPRCCADSVFPPLNYQadppvqNLSITDVHGVVWNFRHIYRGTPRRHLLTTGWSKFVNHKKLI 640
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPK------EITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLK 74
                           90       100
                   ....*....|....*....|..
gi 2047912612  641 AGDSVVFAKNLRGDMFVGIRRA 662
Cdd:smart01019  75 AGDSLTFELDGNGEFVVSIFRK 96
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
560-661 3.01e-19

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 83.53  E-value: 3.01e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 560 SFAKILTSSDANNGGGFSVPRCCADSVFPPlnyqadPPVQNLSITDVHGVVWNFRHIYRGTPRRHLLTTGWSKFVNHKKL 639
Cdd:cd10017     2 LFFKVLTPSDVSSLGRLVLPKKFAKAHLPP------KEGVEVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGL 75
                          90       100
                  ....*....|....*....|...
gi 2047912612 640 IAGDSVVFAKNLRGDMF-VGIRR 661
Cdd:cd10017    76 KEGDFLVFELDGRNSKFkVRIFR 98
W2 pfam02020
eIF4-gamma/eIF5/eIF2-epsilon; This domain of unknown function is found at the C-terminus of ...
413-484 1.07e-17

eIF4-gamma/eIF5/eIF2-epsilon; This domain of unknown function is found at the C-terminus of several translation initiation factors.


Pssm-ID: 460415  Cd Length: 76  Bit Score: 78.34  E-value: 1.07e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2047912612 413 QIALLRAIESFCLNtSSEAAKEVALVLKSLYDSNLIEEEFVLEWYQRGVVGANKSSPVWNHVKPFIEWLQNA 484
Cdd:pfam02020   1 QVDLLLALQEFCAK-LEELLKLLLKILKALYDLDIVEEEAILKWWEDVSSAEKGMKKVRKQAKPFVEWLEEA 71
PRK03988 PRK03988
translation initiation factor IF-2 subunit beta; Validated
62-172 1.09e-13

translation initiation factor IF-2 subunit beta; Validated


Pssm-ID: 235189  Cd Length: 138  Bit Score: 69.17  E-value: 1.09e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612  62 RYKMPRMVTKIEGRgngiKTNVVNMVEIAKALGRPASYTTKYFGCELGAQSKFDektGTSLV-NGAHDTAKLAGLLENFI 140
Cdd:PRK03988   27 RFEVPKPDVRIEGN----RTIIRNFKEIADRLNRDPKHVAKFLLKELGTAGNIE---GGRLIlQGKFSPRVINEKIDRYV 99
                          90       100       110
                  ....*....|....*....|....*....|...
gi 2047912612 141 KKYVQCYGCGNPETEIIitKTQMITM-KCAACG 172
Cdd:PRK03988  100 KEYVICPECGSPDTKLI--KEGRIWVlKCEACG 130
 
Name Accession Description Interval E-value
eIF2B_5 smart00653
domain present in translation initiation factor eIF2B and eIF5;
60-174 1.06e-49

domain present in translation initiation factor eIF2B and eIF5;


Pssm-ID: 214764  Cd Length: 110  Bit Score: 170.89  E-value: 1.06e-49
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612   60 FYRYKMPRMVTKIEGRGngiKTNVVNMVEIAKALGRPASYTTKYFGCELGAQSKFDEKtGTSLVNGAHDTAKLAGLLENF 139
Cdd:smart00653   1 FYRFKMPPPQVLREGKG---KTVIVNFADIAKALNRPPDHVLKFLLAELGTQGSIDGK-GRLIVNGRFTPKKLQDLLRRY 76
                           90       100       110
                   ....*....|....*....|....*....|....*
gi 2047912612  140 IKKYVQCYGCGNPETEIIITkTQMITMKCAACGFI 174
Cdd:smart00653  77 IKEYVLCPECGSPDTELIKE-NRLFFLKCEACGAR 110
eIF-5_eIF-2B pfam01873
Domain found in IF2B/IF5; This family includes the N terminus of eIF-5, and the C terminus of ...
58-172 8.26e-46

Domain found in IF2B/IF5; This family includes the N terminus of eIF-5, and the C terminus of eIF-2 beta. This region corresponds to the whole of the archaebacterial eIF-2 beta homolog. The region contains a putative zinc binding C4 finger.


Pssm-ID: 426485  Cd Length: 115  Bit Score: 159.99  E-value: 8.26e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612  58 DAFYRYKMPRMVTKIEGRGngiKTNVVNMVEIAKALGRPASYTTKYFGCELGAQSKFDEKtGTSLVNGAHDTAKLAGLLE 137
Cdd:pfam01873   4 DSFYRYKMPPPQVKREGKG---KTVIVNFSEIAKALNRDPEHVLKYLLKELGTQGSIDEN-GRLIINGKFSAKQIEDLLD 79
                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2047912612 138 NFIKKYVQCYGCGNPETEIIItKTQMITMKCAACG 172
Cdd:pfam01873  80 KYIEEYVLCPECGSPDTELIK-ENRLLFLKCEACG 113
W2_eIF5 cd11561
C-terminal W2 domain of eukaryotic translation initiation factor 5; eIF5 functions as a GTPase ...
345-484 8.93e-37

C-terminal W2 domain of eukaryotic translation initiation factor 5; eIF5 functions as a GTPase acceleration protein (GAP), as well as a GDP dissociation inhibitor (GDI) during translational initiation in eukaryotes. The structure of this C-terminal domain resembles that of a set of concatenated HEAT repeats.


Pssm-ID: 211399  Cd Length: 157  Bit Score: 135.82  E-value: 8.93e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 345 LVNEIKDYLKKGSSAAN------LKSFLESLSGTPQEIVNALVEALFDgvgKGFSKEVMKKKNFLAAAVALEGSQIALLR 418
Cdd:cd11561     7 RVDELGEFLKKNKDESGlselkeILKEAERLDVVKDKAVLVLAEVLFD---ENIVKEIKKRKALLLKLVTDEKAQKALLG 83
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2047912612 419 AIESFCLNTSSEAAKEVALVLKSLYDSNLIEEEFVLEWYQRGV---VGANKSSPVWNHVKPFIEWLQNA 484
Cdd:cd11561    84 GIERFCGKHSPELLKKVPLILKALYDNDILEEEVILKWYEKVSkkyVSKEKSKKVRKAAEPFVEWLEEA 152
Auxin_resp pfam06507
Auxin response factor; A conserved region of auxin-responsive transcription factors.
727-800 1.25e-28

Auxin response factor; A conserved region of auxin-responsive transcription factors.


Pssm-ID: 428981  Cd Length: 83  Bit Score: 109.55  E-value: 1.25e-28
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2047912612 727 PFELVYYPRAGRSEFVVQVEKVNESKNYQWYSGTRVKMAMETEYSKMTWYQGTVTSASVPEHGPWMGSPWRMLE 800
Cdd:pfam06507  10 PFTVVYYPRASPSEFVVPYNKVLKAMNNPWSVGMRFKMRFETEDSSERRYSGTISGVGDADPVRWPGSPWRSLQ 83
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
561-663 3.10e-23

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 95.13  E-value: 3.10e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 561 FAKILTSSDANNGGGFSVPRCCADSVFPplnyqaDPPVQNLSIT--DVHGVVWNFRHIYRGTPRRHLLTTGWSKFVNHKK 638
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENSG------LPKRLSKEITllDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANG 74
                          90       100
                  ....*....|....*....|....*..
gi 2047912612 639 LIAGDSVVF--AKNLRGDMFVGIRRAS 663
Cdd:pfam02362  75 LKAGDFLTFklVGNSGFTPVVGIFRKS 101
eIF5C smart00515
Domain at the C-termini of GCD6, eIF-2B epsilon, eIF-4 gamma and eIF-5;
400-484 4.11e-20

Domain at the C-termini of GCD6, eIF-2B epsilon, eIF-4 gamma and eIF-5;


Pssm-ID: 214705  Cd Length: 83  Bit Score: 85.42  E-value: 4.11e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612  400 KNFLAAAVALEGSQIALLRAIESFCLNtSSEAAKEVALVLKSLYDSNLIEEEFVLEWYQRGvVGANKSSPVWNHVKPFIE 479
Cdd:smart00515   1 GPLLKFLAKDEEEQLELLYAIEEFCVE-LEKLGKLLPKILKSLYDADILEEEAILKWYEKA-VSAEGKKKVRKNAKPFVT 78

                   ....*
gi 2047912612  480 WLQNA 484
Cdd:smart00515  79 WLQEA 83
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
561-662 2.64e-19

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 83.50  E-value: 2.64e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612  561 FAKILTSSDANNGGGFSVPRCCADSVFPPLNYQadppvqNLSITDVHGVVWNFRHIYRGTPRRHLLTTGWSKFVNHKKLI 640
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPK------EITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLK 74
                           90       100
                   ....*....|....*....|..
gi 2047912612  641 AGDSVVFAKNLRGDMFVGIRRA 662
Cdd:smart01019  75 AGDSLTFELDGNGEFVVSIFRK 96
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
560-661 3.01e-19

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 83.53  E-value: 3.01e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 560 SFAKILTSSDANNGGGFSVPRCCADSVFPPlnyqadPPVQNLSITDVHGVVWNFRHIYRGTPRRHLLTTGWSKFVNHKKL 639
Cdd:cd10017     2 LFFKVLTPSDVSSLGRLVLPKKFAKAHLPP------KEGVEVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGL 75
                          90       100
                  ....*....|....*....|...
gi 2047912612 640 IAGDSVVFAKNLRGDMF-VGIRR 661
Cdd:cd10017    76 KEGDFLVFELDGRNSKFkVRIFR 98
W2 pfam02020
eIF4-gamma/eIF5/eIF2-epsilon; This domain of unknown function is found at the C-terminus of ...
413-484 1.07e-17

eIF4-gamma/eIF5/eIF2-epsilon; This domain of unknown function is found at the C-terminus of several translation initiation factors.


Pssm-ID: 460415  Cd Length: 76  Bit Score: 78.34  E-value: 1.07e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2047912612 413 QIALLRAIESFCLNtSSEAAKEVALVLKSLYDSNLIEEEFVLEWYQRGVVGANKSSPVWNHVKPFIEWLQNA 484
Cdd:pfam02020   1 QVDLLLALQEFCAK-LEELLKLLLKILKALYDLDIVEEEAILKWWEDVSSAEKGMKKVRKQAKPFVEWLEEA 71
W2_eIF2B_epsilon cd11558
C-terminal W2 domain of eukaryotic translation initiation factor 2B epsilon; eIF2B is a ...
362-484 5.31e-15

C-terminal W2 domain of eukaryotic translation initiation factor 2B epsilon; eIF2B is a heteropentameric complex which functions as a guanine nucleotide exchange factor in the recycling of eIF-2 during the initiation of translation in eukaryotes. The epsilon and gamma subunits are sequence similar and both are essential in yeast. Epsilon appears to be the catalytically active subunit, with gamma enhancing its activity. The C-terminal domain of the eIF2B epsilon subunit contains bipartite motifs rich in acidic and aromatic residues, which are responsible for the interaction with eIF2. The structure of the domain resembles that of a set of concatenated HEAT repeats.


Pssm-ID: 211396  Cd Length: 169  Bit Score: 73.83  E-value: 5.31e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 362 LKSFLESLSGTPQEIVNALVEALfdgvgkgfsKEVMKK-KNFLAAAVALEGSQIALLRAIESFCLnTSSEAAKEVALVLK 440
Cdd:cd11558    50 VKALLELILEVSSTSTAELLEAL---------KKLLSKwGPLLENYVKSQDDQVELLLALEEFCL-ESEEGGPLFAKLLH 119
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2047912612 441 SLYDSNLIEEEFVLEWY-QRGVVGANKSSPVWNHVKPFIEWLQNA 484
Cdd:cd11558   120 ALYDLDILEEEAILEWWeEPDAGADEEMKKVRELVKKFIEWLEEA 164
PRK03988 PRK03988
translation initiation factor IF-2 subunit beta; Validated
62-172 1.09e-13

translation initiation factor IF-2 subunit beta; Validated


Pssm-ID: 235189  Cd Length: 138  Bit Score: 69.17  E-value: 1.09e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612  62 RYKMPRMVTKIEGRgngiKTNVVNMVEIAKALGRPASYTTKYFGCELGAQSKFDektGTSLV-NGAHDTAKLAGLLENFI 140
Cdd:PRK03988   27 RFEVPKPDVRIEGN----RTIIRNFKEIADRLNRDPKHVAKFLLKELGTAGNIE---GGRLIlQGKFSPRVINEKIDRYV 99
                          90       100       110
                  ....*....|....*....|....*....|...
gi 2047912612 141 KKYVQCYGCGNPETEIIitKTQMITM-KCAACG 172
Cdd:PRK03988  100 KEYVICPECGSPDTKLI--KEGRIWVlKCEACG 130
PRK12336 PRK12336
translation initiation factor IF-2 subunit beta; Provisional
62-172 7.95e-12

translation initiation factor IF-2 subunit beta; Provisional


Pssm-ID: 183451 [Multi-domain]  Cd Length: 201  Bit Score: 65.35  E-value: 7.95e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612  62 RYKMPRMVTKIEGrgngiKTNVV-NMVEIAKALGRPASYTTKYFGCELGAQSKFDektGTSLV-NGAHDTAKLAGLLENF 139
Cdd:PRK12336   23 RFSIPEPKIFIEG-----KTTILtNFGEIADALNRDPDHLMKFLQRELGTAGKIE---GGRAVfNGKFTEEDIQAAIDAY 94
                          90       100       110
                  ....*....|....*....|....*....|...
gi 2047912612 140 IKKYVQCYGCGNPETEiIITKTQMITMKCAACG 172
Cdd:PRK12336   95 VDEYVICSECGLPDTR-LVKEDRVLMLRCDACG 126
W2_eIF5C_like cd11560
C-terminal W2 domain of the eukaryotic translation initiation factor 5C and similar proteins; ...
412-484 9.40e-06

C-terminal W2 domain of the eukaryotic translation initiation factor 5C and similar proteins; eIF5C appears to be essential for the initiation of protein translation; its actual function, and specifically that of the C-terminal W2 domain, are not well understood. The Drosophila ortholog, kra (krasavietz) or exba (extra bases), may be involved in translational inhibition in neural development. The structure of this C-terminal domain resembles that of a set of concatenated HEAT repeats.


Pssm-ID: 211398 [Multi-domain]  Cd Length: 194  Bit Score: 47.21  E-value: 9.40e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2047912612 412 SQIALLRAIESFCLNtSSEAAKEVALVLKSLYDSNLIEEEFVLEWYQRGVVGANKSSPVwNHVKPFIEWLQNA 484
Cdd:cd11560   121 AELALLNKIQEYCYE-NMKFMKVFQKIVKLLYKADVLSEDAILKWYKKGHSPKGKQVFL-KQMEPFVEWLQEA 191
W2 cd11473
C-terminal domain of eIF4-gamma/eIF5/eIF2b-epsilon; This domain is found at the C-terminus of ...
311-457 6.55e-04

C-terminal domain of eIF4-gamma/eIF5/eIF2b-epsilon; This domain is found at the C-terminus of several translation initiation factors, including the epsilon chain of eIF2b, where it has been found to catalyze the conversion of eIF2.GDP to its active eIF2.GTP form. The structure of the domain resembles that of a set of concatenated HEAT repeats.


Pssm-ID: 211395  Cd Length: 135  Bit Score: 40.92  E-value: 6.55e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 311 LSTEETTSSKKPSEHEKSSIngnkngngvsphVALVNEIKDylKKGSSAANLKSFLESLsgtPQEIVNALVEALFDG--V 388
Cdd:cd11473     2 KNKKLRDSLLKELEEDKSSD------------VESVKAAKS--KLDLDPISLEEVVKVL---LTAVVNAVESADSISltQ 64
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2047912612 389 GKGFSKEVMKKKNFLAAAVALEG-SQIALLRAIESFCL-NTSSEAAKEVALVLKSLYDSNLIEEEFVLEWY 457
Cdd:cd11473    65 KEQLVLVLKKYGPVLRELLKLIKkDQLYLLLKIEKLCLqLKLSELISLLEKILDLLYDADVLSEEAILSWF 135
EcoRII_N cd10016
N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; N-terminal ...
561-657 9.52e-04

N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins. Type II restriction endonucleases are components of restriction modification (RM) systems that protect bacteria and archaea against invading foreign DNA. They usually function as homodimers or homotetramers that cleave DNA at defined sites of 4 to 8 bp in length, and they require Mg2+, not ATP or GTP, for catalysis. EcoRII is specific for the 5'-CCWGG sequence (W stands for A or T). EcoRII consists of 2 domains, the C-terminal catalytic/dimerization domain (EcoRII-C), and the N-terminal effector DNA binding domain (EcoRII-N). To be catalytically active, EcoRII has to form a dimer.


Pssm-ID: 197382  Cd Length: 142  Bit Score: 40.44  E-value: 9.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 561 FAKILTSSDAN-NGG---GFSVPRCCADSVFPPlnYQADP----PVQNLSITDVHGVVWNFRHIY-----RGTPRRHLLT 627
Cdd:cd10016     6 YCKRLSANDTGaTGGhqaGIYIPKSAAELLFPS--NHPDEknpnPDLTAKISSHDGPTTESRFIYynnglFGGTRNEYRI 83
                          90       100       110
                  ....*....|....*....|....*....|...
gi 2047912612 628 TGWSK---FVNHKKliAGDSVVFAKNLRGDMFV 657
Cdd:cd10016    84 TRFGKgfpFLDPDN--TGALLVLAFQSSDCDLY 114
BfiI_C_EcoRII_N_B3 cd10015
DNA binding domains of BfiI, EcoRII and plant B3 proteins; This family contains the N-terminal ...
561-659 2.19e-03

DNA binding domains of BfiI, EcoRII and plant B3 proteins; This family contains the N-terminal DNA binding domain of type IIE restriction endonuclease EcoRII-like proteins, the C-terminal DNA binding domain of type IIS restriction endonuclease BfiI-like proteins and plant-specific B3 proteins. Type II restriction endonucleases are components of restriction modification (RM) systems that protect bacteria and archaea against invading foreign DNA. They usually function as homodimers or homotetramers that cleave DNA at defined sites of 4 to 8 bp in length, and they require Mg2+, not ATP or GTP, for catalysis. EcoRII is specific for the 5'-CCWGG sequence (W stands for A or T). EcoRII consists of 2 domains, the C-terminal catalytic/dimerization domain (EcoRII-C), and the N-terminal effector DNA binding domain (EcoRII-N). BfiI is unique in cleaving DNA at fixed positions downstream of an asymmetric sequence in the absence of Mg2+. BfiI consists of two discrete domains with distinct functions: an N-terminal catalytic domain with non-specific nuclease activity and dimerization function that is more closely related to Nuc, an EDTA-resistant nuclease from the phospholipase D (PLD) superfamily; and a C-terminal domain that specifically recognizes its target sequences, 5'-ACTGGG-3'. B3 proteins are a family of plant-specific transcription factors, involved in a great variety of processes, including seed development and auxin response.


Pssm-ID: 197381  Cd Length: 109  Bit Score: 38.77  E-value: 2.19e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2047912612 561 FAKILTSSDANNGGG----FSVPRCCADSVFPPLNY--QADPPVQ-NLSITDVhGVVWNFRHIYRGTPR-RHLLTTGWSK 632
Cdd:cd10015     3 LIKRLSANDTGATGGhqvgLYIPKGIVEKFPPSINHtrEANPSIFlTMHDISD-CRDWEARAIFYNSNRnEKRLTRGGRG 81
                          90       100
                  ....*....|....*....|....*..
gi 2047912612 633 FVNHKKLIAGDSVVFAKNLRGDMFVGI 659
Cdd:cd10015    82 FVKQNPLNTGDLTLIAFDLDKEYNIRI 108
 
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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