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Conserved domains on  [gi|194910747|ref|XP_001982222|]
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mitochondrial ribosome-associated GTPase 1 [Drosophila erecta]

Protein Classification

YlqF/YawG family GTPase( domain architecture ID 1004813)

YlqF/YawG family GTPase such as Drosophila melanogaster mitochondrial ribosome-associated GTPase 1 that plays a role in the regulation of mitochondrial ribosome assembly and translational activity

CATH:  3.40.50.300
Gene Ontology:  GO:0005525|GO:0003924
PubMed:  11916378
SCOP:  4004041|4007669

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GTPase_YlqF super family cl37295
ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding ...
 20-317 9.54e-67

ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members. [Protein synthesis, Other]


The actual alignment was detected with superfamily member TIGR03596:

Pssm-ID: 274669 [Multi-domain]  Cd Length: 276  Bit Score: 210.44  E-value: 9.54e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747   20 INWFPGHMTKGMRQIQQKLRNVDCIVEIHDARIPLAGRNSQfFDTITGSgvKPHILVLNKVDLLGAKQQRSVLQQLRRQQ 99
Cdd:TIGR03596   1 IQWFPGHMAKARREIKENLKLVDVVIEVLDARIPLSSRNPM-IDEIRGN--KPRLIVLNKADLADPAVTKQWLKYFEEKG 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  100 pelQHILFTNCKdqRNHGVLDILPLATRLVGE-----SSRFNRTQAAehNLMIIGVPNVGKSSVINvlrnvHLKKRSAAR 174
Cdd:TIGR03596  78 ---IKALAVNAK--KGAGVKKIIKAAKKLLKEkneklKAKGLKNRPI--RAMIVGIPNVGKSTLIN-----RLAGKKVAK 145

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  175 VGAEAGITRSVgERIKIQENppVYMIDTPGILQPSIKDDEMGMKLALVGCLPDHIVGEDLIADYLLYWLNSHRKYEYVEK 254
Cdd:TIGR03596 146 VGNRPGVTKGQ-QWIKLSDN--LELLDTPGILWPKFEDQEVGLKLAATGAIKDEALDLEDVALFLLEYLLEHYPELLKER 222

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 194910747  255 LKLSSGPsDNISAVLAEYAHREELFHKVKQYDgrvevmtnLLAAARKFIHFFRSGQLGHINLD 317
Cdd:TIGR03596 223 YKLDELP-EDPVELLEAIAKKRGCLLKGGELD--------LDRAAEILLNDFRKGKLGRISLE 276
 
Name Accession Description Interval E-value
GTPase_YlqF TIGR03596
ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding ...
 20-317 9.54e-67

ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members. [Protein synthesis, Other]


Pssm-ID: 274669 [Multi-domain]  Cd Length: 276  Bit Score: 210.44  E-value: 9.54e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747   20 INWFPGHMTKGMRQIQQKLRNVDCIVEIHDARIPLAGRNSQfFDTITGSgvKPHILVLNKVDLLGAKQQRSVLQQLRRQQ 99
Cdd:TIGR03596   1 IQWFPGHMAKARREIKENLKLVDVVIEVLDARIPLSSRNPM-IDEIRGN--KPRLIVLNKADLADPAVTKQWLKYFEEKG 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  100 pelQHILFTNCKdqRNHGVLDILPLATRLVGE-----SSRFNRTQAAehNLMIIGVPNVGKSSVINvlrnvHLKKRSAAR 174
Cdd:TIGR03596  78 ---IKALAVNAK--KGAGVKKIIKAAKKLLKEkneklKAKGLKNRPI--RAMIVGIPNVGKSTLIN-----RLAGKKVAK 145

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  175 VGAEAGITRSVgERIKIQENppVYMIDTPGILQPSIKDDEMGMKLALVGCLPDHIVGEDLIADYLLYWLNSHRKYEYVEK 254
Cdd:TIGR03596 146 VGNRPGVTKGQ-QWIKLSDN--LELLDTPGILWPKFEDQEVGLKLAATGAIKDEALDLEDVALFLLEYLLEHYPELLKER 222

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 194910747  255 LKLSSGPsDNISAVLAEYAHREELFHKVKQYDgrvevmtnLLAAARKFIHFFRSGQLGHINLD 317
Cdd:TIGR03596 223 YKLDELP-EDPVELLEAIAKKRGCLLKGGELD--------LDRAAEILLNDFRKGKLGRISLE 276
YlqF cd01856
Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs ...
 22-206 8.88e-65

Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in all eukaryotes as well as a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga).


Pssm-ID: 206749 [Multi-domain]  Cd Length: 171  Bit Score: 201.99  E-value: 8.88e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  22 WFPGHMTKGMRQIQQKLRNVDCIVEIHDARIPLAGRNSQFFDTItgsGVKPHILVLNKVDLLGAKQQRSVLQQLRRQQpe 101
Cdd:cd01856    1 WFPGHMAKALRQIKEKLKLVDVVIEVRDARIPLSSRNPDLDKIL---GNKPRLIVLNKADLADPAKTKKWLKYFKSQG-- 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 102 lQHILFTNCKDQRNHGVLDILPLATRLVGESSRFNRTQAAEHNLMIIGVPNVGKSSVINVLRNvhlkkRSAARVGAEAGI 181
Cdd:cd01856   76 -EPVLFVNAKNGKGVKKLLKKAKKLLKENEKLKAKGLLPRPLRAMVVGIPNVGKSTLINRLRG-----KKVAKVGNKPGV 149

                        170       180
                 ....*....|....*....|....*
gi 194910747 182 TRSVgERIKIqeNPPVYMIDTPGIL 206
Cdd:cd01856  150 TRGQ-QWIRI--GPNIELLDTPGIL 171
RbgA COG1161
Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];
20-319 1.40e-62

Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440775 [Multi-domain]  Cd Length: 279  Bit Score: 199.95  E-value: 1.40e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  20 INWFPGHMTKGMRQIQQKLRNVDCIVEIHDARIPLAGRNSqFFDTITGSgvKPHILVLNKVDLLGAKQQRSVLQQLRRQQ 99
Cdd:COG1161    3 IQWFPGHMAKARRQIKEILKLVDLVIEVVDARIPLSSRNP-MLDELVGN--KPRLLVLNKADLADPSVTKQWLKYFEKQG 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 100 pelQHILFTNCKDqrNHGVLDILPLATRLVGESSRFNRTQAAehnlMIIGVPNVGKSSVINvlrnvHLKKRSAARVGAEA 179
Cdd:COG1161   80 ---VDALAISAKK--GKGIKELIEAIRELAPEKGIKRRPIRV----MIVGIPNVGKSTLIN-----RLAGKKVAKTGNKP 145

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 180 GITRSVgERIKIQENppVYMIDTPGILQPSIKDDEMGMKLALVGCLPDHIVGEDLIADYLLYWLNSHrkyeYVEKL---- 255
Cdd:COG1161  146 GVTKGQ-QWIKLDDG--LELLDTPGILWPKFEDPEVGYKLAATGAIKDEVLDLEEVALFLLGYLARR----YPELLkery 218

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 194910747 256 KLSSGPSDNIsAVLaeyahrEELFHKVKQYDGRVEVmtNLLAAARKFIHFFRSGQLGHINLDEP 319
Cdd:COG1161  219 KLDELPRTKL-ELL------EAIGRKRGCLLSGGEV--DLEKAAEILLTDFRSGKLGRITLETP 273
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 146-216 6.08e-12

50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete activity of the protein of interacting with the 50S ribosome and binding of both adenine and guanine nucleotides, with a preference for guanine nucleotide.


Pssm-ID: 460387 [Multi-domain]  Cd Length: 113  Bit Score: 61.48  E-value: 6.08e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 194910747  146 MIIGVPNVGKSSVINVLRNvhlkkrSAARVGAEAGITRSVGERIKIQENPPVYMIDTPGILQPSIKDDEMG 216
Cdd:pfam01926   3 ALVGRPNVGKSTLINALTG------AKAIVSDYPGTTRDPNEGRLELKGKQIILVDTPGLIEGASEGEGLG 67
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 147-205 1.76e-05

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 46.20  E-value: 1.76e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 194910747 147 IIGVPNVGKSSVINVL----RNVhlkkrsaarVGAEAGITR-SVGERIKIqENPPVYMIDTPGI 205
Cdd:PRK00093 178 IIGRPNVGKSSLINALlgeeRVI---------VSDIAGTTRdSIDTPFER-DGQKYTLIDTAGI 231
 
Name Accession Description Interval E-value
GTPase_YlqF TIGR03596
ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding ...
 20-317 9.54e-67

ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members. [Protein synthesis, Other]


Pssm-ID: 274669 [Multi-domain]  Cd Length: 276  Bit Score: 210.44  E-value: 9.54e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747   20 INWFPGHMTKGMRQIQQKLRNVDCIVEIHDARIPLAGRNSQfFDTITGSgvKPHILVLNKVDLLGAKQQRSVLQQLRRQQ 99
Cdd:TIGR03596   1 IQWFPGHMAKARREIKENLKLVDVVIEVLDARIPLSSRNPM-IDEIRGN--KPRLIVLNKADLADPAVTKQWLKYFEEKG 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  100 pelQHILFTNCKdqRNHGVLDILPLATRLVGE-----SSRFNRTQAAehNLMIIGVPNVGKSSVINvlrnvHLKKRSAAR 174
Cdd:TIGR03596  78 ---IKALAVNAK--KGAGVKKIIKAAKKLLKEkneklKAKGLKNRPI--RAMIVGIPNVGKSTLIN-----RLAGKKVAK 145

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  175 VGAEAGITRSVgERIKIQENppVYMIDTPGILQPSIKDDEMGMKLALVGCLPDHIVGEDLIADYLLYWLNSHRKYEYVEK 254
Cdd:TIGR03596 146 VGNRPGVTKGQ-QWIKLSDN--LELLDTPGILWPKFEDQEVGLKLAATGAIKDEALDLEDVALFLLEYLLEHYPELLKER 222

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 194910747  255 LKLSSGPsDNISAVLAEYAHREELFHKVKQYDgrvevmtnLLAAARKFIHFFRSGQLGHINLD 317
Cdd:TIGR03596 223 YKLDELP-EDPVELLEAIAKKRGCLLKGGELD--------LDRAAEILLNDFRKGKLGRISLE 276
YlqF cd01856
Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs ...
 22-206 8.88e-65

Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in all eukaryotes as well as a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga).


Pssm-ID: 206749 [Multi-domain]  Cd Length: 171  Bit Score: 201.99  E-value: 8.88e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  22 WFPGHMTKGMRQIQQKLRNVDCIVEIHDARIPLAGRNSQFFDTItgsGVKPHILVLNKVDLLGAKQQRSVLQQLRRQQpe 101
Cdd:cd01856    1 WFPGHMAKALRQIKEKLKLVDVVIEVRDARIPLSSRNPDLDKIL---GNKPRLIVLNKADLADPAKTKKWLKYFKSQG-- 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 102 lQHILFTNCKDQRNHGVLDILPLATRLVGESSRFNRTQAAEHNLMIIGVPNVGKSSVINVLRNvhlkkRSAARVGAEAGI 181
Cdd:cd01856   76 -EPVLFVNAKNGKGVKKLLKKAKKLLKENEKLKAKGLLPRPLRAMVVGIPNVGKSTLINRLRG-----KKVAKVGNKPGV 149

                        170       180
                 ....*....|....*....|....*
gi 194910747 182 TRSVgERIKIqeNPPVYMIDTPGIL 206
Cdd:cd01856  150 TRGQ-QWIRI--GPNIELLDTPGIL 171
RbgA COG1161
Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];
20-319 1.40e-62

Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440775 [Multi-domain]  Cd Length: 279  Bit Score: 199.95  E-value: 1.40e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  20 INWFPGHMTKGMRQIQQKLRNVDCIVEIHDARIPLAGRNSqFFDTITGSgvKPHILVLNKVDLLGAKQQRSVLQQLRRQQ 99
Cdd:COG1161    3 IQWFPGHMAKARRQIKEILKLVDLVIEVVDARIPLSSRNP-MLDELVGN--KPRLLVLNKADLADPSVTKQWLKYFEKQG 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 100 pelQHILFTNCKDqrNHGVLDILPLATRLVGESSRFNRTQAAehnlMIIGVPNVGKSSVINvlrnvHLKKRSAARVGAEA 179
Cdd:COG1161   80 ---VDALAISAKK--GKGIKELIEAIRELAPEKGIKRRPIRV----MIVGIPNVGKSTLIN-----RLAGKKVAKTGNKP 145

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 180 GITRSVgERIKIQENppVYMIDTPGILQPSIKDDEMGMKLALVGCLPDHIVGEDLIADYLLYWLNSHrkyeYVEKL---- 255
Cdd:COG1161  146 GVTKGQ-QWIKLDDG--LELLDTPGILWPKFEDPEVGYKLAATGAIKDEVLDLEEVALFLLGYLARR----YPELLkery 218

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 194910747 256 KLSSGPSDNIsAVLaeyahrEELFHKVKQYDGRVEVmtNLLAAARKFIHFFRSGQLGHINLDEP 319
Cdd:COG1161  219 KLDELPRTKL-ELL------EAIGRKRGCLLSGGEV--DLEKAAEILLTDFRSGKLGRITLETP 273
MJ1464 cd01859
An uncharacterized, circularly permuted subfamily of the Ras GTPases; This family represents ...
 38-205 1.92e-17

An uncharacterized, circularly permuted subfamily of the Ras GTPases; This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.


Pssm-ID: 206752 [Multi-domain]  Cd Length: 157  Bit Score: 78.13  E-value: 1.92e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  38 LRNVDCIVEIHDARIPLAGRNSQFFDTITGSGvKPHILVLNKVDLLgakqQRSVLQQLRRQQpELQHI--LFTNCKdqRN 115
Cdd:cd01859    9 IKEADVVLEVVDARDPELTRSRKLERMALELG-KKLIIVLNKADLV----PREVLEKWKEVF-ESEGLpvVYVSAR--ER 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 116 HGVLDILPLATRLVGESSRFNrtqaaehnLMIIGVPNVGKSSVINVLRNVHlkKRSAARVGAEAGITRSVgERIKIQENp 195
Cdd:cd01859   81 LGTRILRRTIKELAIDGKPVI--------VGVVGYPKVGKSSIINALKGRH--SASTSPIPGSPGYTKGI-QLVRIDSK- 148

                        170
                 ....*....|
gi 194910747 196 pVYMIDTPGI 205
Cdd:cd01859  149 -IYLIDTPGV 157
Nucleostemin_like cd04178
A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein ...
 42-205 2.04e-17

A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the protein.


Pssm-ID: 206753 [Multi-domain]  Cd Length: 171  Bit Score: 78.39  E-value: 2.04e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  42 DCIVEIHDARIPLAGRNSQFFDTI-TGSGVKPHILVLNKVDLLGAKQQRSVLQQLRRQQPElqhILFT-NCKDQRNH--- 116
Cdd:cd04178    1 DVILEVLDARDPLGCRCPQVERAVlVLGPNKKLVLVLNKIDLVPKENVEKWLKYLRNEFPT---VAFKaSTQQQKKNlsr 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 117 -----GVLDILPLATRLVGESS------RFNRTQAAEHNLM--IIGVPNVGKSSVINvlrnvHLKKRSAARVGAEAGITR 183
Cdd:cd04178   78 kskkvKASDDLLSSSACLGADAllkllkNYARNKGIKTSITvgVVGYPNVGKSSVIN-----SLKRSRACNVGATPGVTK 152

                        170       180
                 ....*....|....*....|..
gi 194910747 184 SVGErIKIQENppVYMIDTPGI 205
Cdd:cd04178  153 SMQE-VHLDKH--VKLLDSPGV 171
YlqF_related_GTPase cd01849
Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, ...
 42-205 5.53e-15

Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.


Pssm-ID: 206746 [Multi-domain]  Cd Length: 146  Bit Score: 70.88  E-value: 5.53e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  42 DCIVEIHDARIPLAGRNSQFfDTITGSGVKPHILVLNKVDLLgakqQRSVLQQLRRQQPELQHILFTNCKDQRNHGVLDI 121
Cdd:cd01849    1 DVVVEVVDARDPLSSRNPDI-EVLINEKNKKLIMVLNKADLV----PKEVLRKWVAELSELYGTKTFFISATNGQGILKL 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 122 LPLATrlvgeSSRFNRTQAAEHNLMIIGVPNVGKSSVINVLRNVhlkkrSAARVGAEAGITRSVGErIKIQENppVYMID 201
Cdd:cd01849   76 KAEIT-----KQKLKLKYKKGIRVGVVGLPNVGKSSFINALLNK-----FKLKVGSIPGTTKLQQD-VKLDKE--IYLYD 142


                 ....
gi 194910747 202 TPGI 205
Cdd:cd01849  143 TPGI 146
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 146-216 6.08e-12

50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete activity of the protein of interacting with the 50S ribosome and binding of both adenine and guanine nucleotides, with a preference for guanine nucleotide.


Pssm-ID: 460387 [Multi-domain]  Cd Length: 113  Bit Score: 61.48  E-value: 6.08e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 194910747  146 MIIGVPNVGKSSVINVLRNvhlkkrSAARVGAEAGITRSVGERIKIQENPPVYMIDTPGILQPSIKDDEMG 216
Cdd:pfam01926   3 ALVGRPNVGKSTLINALTG------AKAIVSDYPGTTRDPNEGRLELKGKQIILVDTPGLIEGASEGEGLG 67
NGP_1 cd01858
A novel nucleolar GTP-binding protein, circularly permuted subfamily of the Ras GTPases; ...
 42-205 7.57e-11

A novel nucleolar GTP-binding protein, circularly permuted subfamily of the Ras GTPases; Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.


Pssm-ID: 206751 [Multi-domain]  Cd Length: 157  Bit Score: 59.62  E-value: 7.57e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  42 DCIVEIHDARIPLAGRNSQFFDTITGSgvKPH---ILVLNKVDLLGAKQQRSVLQQLRRQQPEL-QHILFTNCkdqrnHG 117
Cdd:cd01858   10 DVIIQVLDARDPMGTRCKHVEKYLRKE--KPHkhlIFVLNKCDLVPTWVTKRWVKVLSKEYPTLaFHASITNP-----FG 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 118 VLDILPLATRLVGESSrfNRTQAAehnLMIIGVPNVGKSSVINVLRNvhlKKrsAARVGAEAGITRsVGERIKIQENppV 197
Cdd:cd01858   83 KGALINLLRQFAKLHS--DKKQIS---VGFIGYPNVGKSSVINTLRS---KK--VCKVAPIPGETK-VWQYITLMKR--I 149


                 ....*...
gi 194910747 198 YMIDTPGI 205
Cdd:cd01858  150 YLIDCPGV 157
YqeH cd01855
Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH ...
 69-205 7.69e-10

Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.


Pssm-ID: 206748 [Multi-domain]  Cd Length: 191  Bit Score: 57.66  E-value: 7.69e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  69 GVKPHILVLNKVDLL--GAKQQRsVLQQLRRQQPEL----QHILFTNCKdqRNHGVLDILplatrlvgesSRFNRTQAAE 142
Cdd:cd01855   59 GAKPVILVGNKIDLLpkDVKPNR-LKQWVKKRLKIGglkiKDVILVSAK--KGWGVEELI----------EEIKKLAKYR 125

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 194910747 143 HNLMIIGVPNVGKSSVINVLRNVHLKKRSAARVGAEAGI------TRSVgERIKIQENppVYMIDTPGI 205
Cdd:cd01855  126 GDVYVVGATNVGKSTLINALLKSNGGKVQAQALVQRLTVspipgtTLGL-IKIPLGEG--KKLYDTPGI 191
HSR1_MMR1 cd01857
A circularly permuted subfamily of the Ras GTPases; Human HSR1 is localized to the human MHC ...
 42-174 1.88e-08

A circularly permuted subfamily of the Ras GTPases; Human HSR1 is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N-terminus.


Pssm-ID: 206750 [Multi-domain]  Cd Length: 140  Bit Score: 52.23  E-value: 1.88e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  42 DCIVEIHDARIPLAGRNSQFFDTITG-SGVKPHILVLNKVDLLGAKQQRSVLQQLRRQqpelqhilftnckdqrnhgvld 120
Cdd:cd01857   13 DVVVQIVDARNPLFFRCPDLEKYVKEvDPSKENVLLLNKADLVTEEQRKAWARYFKKE---------------------- 70

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 194910747 121 ilplatrlvGESSRFNRTQAAEHnLMIIGVPNVGKSSVINVLRNVhlKKRSAAR 174
Cdd:cd01857   71 ---------GIVVLFFSALNEAT-IGLVGYPNVGKSSLINALVGS--KKVSVSS 112
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 147-215 4.05e-08

E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family.


Pssm-ID: 206646 [Multi-domain]  Cd Length: 161  Bit Score: 51.86  E-value: 4.05e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 147 IIGVPNVGKSSVINVLrnvHLKKRSAarVGAEAGITR-SVGERIKIQENPPVYMIDTPGILQPSIKDDEM 215
Cdd:cd00880    2 IFGRPNVGKSSLLNAL---LGQNVGI--VSPIPGTTRdPVRKEWELLPLGPVVLIDTPGLDEEGGLGRER 66
EngA2 cd01895
EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second ...
 147-205 3.22e-06

EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.


Pssm-ID: 206682 [Multi-domain]  Cd Length: 174  Bit Score: 46.66  E-value: 3.22e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 147 IIGVPNVGKSSVINVLRNvhlKKRSAarVGAEAGITR-SVGERIKIQENpPVYMIDTPGI 205
Cdd:cd01895    7 IIGRPNVGKSSLLNALLG---EERVI--VSDIAGTTRdSIDVPFEYDGQ-KYTLIDTAGI 60
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
 147-205 1.01e-05

trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.


Pssm-ID: 206727 [Multi-domain]  Cd Length: 159  Bit Score: 44.79  E-value: 1.01e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 147 IIGVPNVGKSSVINvlrnvHLKKRSAARVGAEAGITR-SVGERIKIqENPPVYMIDTPGI 205
Cdd:cd04164    8 IAGKPNVGKSSLLN-----ALAGRDRAIVSDIAGTTRdVIEEEIDL-GGIPVRLIDTAGL 61
FeoB cd01879
Ferrous iron transport protein B (FeoB) family; Ferrous iron transport protein B (FeoB) ...
 147-230 1.25e-05

Ferrous iron transport protein B (FeoB) family; Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.


Pssm-ID: 206667 [Multi-domain]  Cd Length: 159  Bit Score: 44.75  E-value: 1.25e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 147 IIGVPNVGKSSVINVLRNVHlkkrsaARVGAEAGIT--RSVGeRIKIQENpPVYMIDTPGI--LQPSIKDDEMGMKlALV 222
Cdd:cd01879    2 LVGNPNVGKTTLFNALTGAR------QKVGNWPGVTveKKEG-EFKLGGK-EIEIVDLPGTysLTPYSEDEKVARD-FLL 72


                 ....*...
gi 194910747 223 GCLPDHIV 230
Cdd:cd01879   73 GEEPDLIV 80
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
147-205 1.32e-05

Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 46.56  E-value: 1.32e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 194910747 147 IIGVPNVGKSSVINVL----RNVhlkkrsaarVGAEAGITR-SVGERIKIQENpPVYMIDTPGI 205
Cdd:COG1160  180 IVGRPNVGKSSLINALlgeeRVI---------VSDIAGTTRdSIDTPFERDGK-KYTLIDTAGI 233
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 147-205 1.76e-05

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 46.20  E-value: 1.76e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 194910747 147 IIGVPNVGKSSVINVL----RNVhlkkrsaarVGAEAGITR-SVGERIKIqENPPVYMIDTPGI 205
Cdd:PRK00093 178 IIGRPNVGKSSLINALlgeeRVI---------VSDIAGTTRdSIDTPFER-DGQKYTLIDTAGI 231
EngA1 cd01894
EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first ...
 147-205 4.18e-05

EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.


Pssm-ID: 206681 [Multi-domain]  Cd Length: 157  Bit Score: 43.19  E-value: 4.18e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 147 IIGVPNVGKSSVINVLrnvhLKKRSAArVGAEAGITR-SVGERIKIQeNPPVYMIDTPGI 205
Cdd:cd01894    2 IVGRPNVGKSTLFNRL----TGRRDAI-VSDTPGVTRdRKYGEAEWG-GREFILIDTGGI 55
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 147-224 4.31e-05

Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions.


Pssm-ID: 206648 [Multi-domain]  Cd Length: 161  Bit Score: 43.21  E-value: 4.31e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 147 IIGVPNVGKSSVINVLRNVHLKKrsaarVGAEAGITRS--VGERIKIQENPPVYMIDTPGILQPSIKDDEMGMKLALVGC 224
Cdd:cd00882    2 VVGRGGVGKSSLLNALLGGEVGE-----VSDVPGTTRDpdVYVKELDKGKVKLVLVDTPGLDEFGGLGREELARLLLRGA 76
RsgA_GTPase pfam03193
RsgA GTPase; RsgA (also known as EngC and YjeQ) represents a protein family whose members are ...
 68-205 1.20e-04

RsgA GTPase; RsgA (also known as EngC and YjeQ) represents a protein family whose members are broadly conserved in bacteria and are indispensable for growth. The GTPase domain of RsgA is very similar to several P-loop GTPases, but differs in having a circular permutation of the GTPase structure described by a G4-G1-G3 pattern.


Pssm-ID: 427191 [Multi-domain]  Cd Length: 174  Bit Score: 42.14  E-value: 1.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747   68 SGVKPHIlVLNKVDLLgakqqrSVLQQLRRQQPELQHI----LFTNCKDQRNhgvldILPLATRLVGESSRFnrtqaaeh 143
Cdd:pfam03193  52 SGIEPVI-VLNKIDLL------DEEEELEELLKIYRAIgypvLFVSAKTGEG-----IEALKELLKGKTTVL-------- 111

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 194910747  144 nlmiIGVPNVGKSSVINVLRNvhlkkRSAARVGAEAGI-------TRSVgERIKIQENPpvYMIDTPGI 205
Cdd:pfam03193 112 ----AGQSGVGKSTLLNALLP-----ELDLRTGEISEKlgrgrhtTTHV-ELFPLPGGG--LLIDTPGF 168
PRK09518 PRK09518
bifunctional cytidylate kinase/GTPase Der; Reviewed
 32-205 1.58e-04

bifunctional cytidylate kinase/GTPase Der; Reviewed


Pssm-ID: 236546 [Multi-domain]  Cd Length: 712  Bit Score: 43.24  E-value: 1.58e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  32 RQIQQKLRNVDCIVEIHDARIPLAGRNSQFFDTITGSGvKPHILVLNKVDllGAKQQRSVLQ--QLRRQQPelqhilfTN 109
Cdd:PRK09518 346 SQAQIAVSLADAVVFVVDGQVGLTSTDERIVRMLRRAG-KPVVLAVNKID--DQASEYDAAEfwKLGLGEP-------YP 415

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 110 CKDQRNHGVLDILPLATRLVGESSRFNRTQAAEH--NLMIIGVPNVGKSSVINVLRNvhlKKRSAarVGAEAGITRS-VG 186
Cdd:PRK09518 416 ISAMHGRGVGDLLDEALDSLKVAEKTSGFLTPSGlrRVALVGRPNVGKSSLLNQLTH---EERAV--VNDLAGTTRDpVD 490

                        170
                 ....*....|....*....
gi 194910747 187 ERIKIQENPPVYmIDTPGI 205
Cdd:PRK09518 491 EIVEIDGEDWLF-IDTAGI 508
YjeQ_EngC cd01854
Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; ...
 68-205 2.39e-04

Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; YjeQ (YloQ in Bacillus subtilis) is a ribosomal small subunit-dependent GTPase; hence also known as RsgA. YjeQ is a late-stage ribosomal biogenesis factor involved in the 30S subunit maturation, and it represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain.


Pssm-ID: 206747 [Multi-domain]  Cd Length: 211  Bit Score: 41.61  E-value: 2.39e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  68 SGVKPhILVLNKVDLLGAKQQRSVLQQLRRQQPElqhILFTNCKDQRNhgvldILPLATRLVGESSrfnrtqaaehnlMI 147
Cdd:cd01854   32 SGIEP-VIVLNKADLVDDEELEELLEIYEKLGYP---VLAVSAKTGEG-----LDELRELLKGKTS------------VL 90

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 194910747 148 IGVPNVGKSSVINvlrnvHLKKRSAARVGAeagI----------TRSVgERIKIQENppVYMIDTPGI 205
Cdd:cd01854   91 VGQSGVGKSTLLN-----ALLPELVLATGE---IseklgrgrhtTTHR-ELFPLPGG--GLIIDTPGF 147
MnmE_helical pfam12631
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ...
 147-205 2.50e-04

MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An N-terminal domain, a helical domain and a GTPase domain which is nested within the helical domain. This family represents the helical domain.


Pssm-ID: 463649 [Multi-domain]  Cd Length: 326  Bit Score: 42.08  E-value: 2.50e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  147 IIGVPNVGKSSVINVLRNvhlkkRSAARVGAEAGITR-SVGERIKIqENPPVYMIDTPGI 205
Cdd:pfam12631  99 IVGKPNVGKSSLLNALLG-----EERAIVTDIPGTTRdVIEETINI-GGIPLRLIDTAGI 152
small_GTP TIGR00231
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this ...
 144-205 2.86e-04

small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model. [Unknown function, General]


Pssm-ID: 272973 [Multi-domain]  Cd Length: 162  Bit Score: 40.82  E-value: 2.86e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 194910747  144 NLMIIGVPNVGKSSVINVlrnvhLKKRSAARVGAEAGITRSVGERiKIQENPPVY---MIDTPGI 205
Cdd:TIGR00231   3 KIVIVGHPNVGKSTLLNS-----LLGNKGSITEYYPGTTRNYVTT-VIEEDGKTYkfnLLDTAGQ 61
YihA_EngB cd01876
YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli ...
 147-204 4.43e-04

YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.


Pssm-ID: 206665 [Multi-domain]  Cd Length: 170  Bit Score: 40.19  E-value: 4.43e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 194910747 147 IIGVPNVGKSSVINVLrnvhLKKRSAARVGAEAGITRsvgeriKIQE---NPPVYMIDTPG 204
Cdd:cd01876    4 FAGRSNVGKSSLINAL----TNRKKLARTSKTPGRTQ------LINFfnvGDKFRLVDLPG 54
trmE PRK05291
tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;
147-205 4.75e-04

tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;


Pssm-ID: 235392 [Multi-domain]  Cd Length: 449  Bit Score: 41.63  E-value: 4.75e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 147 IIGVPNVGKSSVINvlrnvHLKKRSAARVGAEAGITRSV-GERIKIqENPPVYMIDTPGI 205
Cdd:PRK05291 220 IAGRPNVGKSSLLN-----ALLGEERAIVTDIAGTTRDViEEHINL-DGIPLRLIDTAGI 273
RsgA COG1162
Ribosome biogenesis GTPase RsgA [Translation, ribosomal structure and biogenesis];
68-205 7.32e-04

Ribosome biogenesis GTPase RsgA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440776 [Multi-domain]  Cd Length: 300  Bit Score: 40.48  E-value: 7.32e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  68 SGVKPhILVLNKVDLLGAKQQRSVLQQLRrqQPELQhILFTNCKDQRNhgvldILPLATRLVGESSrfnrtqaaehnlMI 147
Cdd:COG1162  113 AGIEP-VIVLNKADLADDEELEELLAIYE--ALGYP-VLAVSAKTGEG-----LDELRELLKGKTS------------VL 171

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 194910747 148 IGVPNVGKSSVINvlrnvHLKKRSAARVGAeagI----------TRSVgERIKIQENppVYMIDTPGI 205
Cdd:COG1162  172 VGQSGVGKSTLIN-----ALLPDADLATGE---IseklgrgrhtTTHA-ELYPLPGG--GWLIDTPGF 228
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 147-205 9.73e-04

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 40.42  E-value: 9.73e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 194910747 147 IIGVPNVGKSSVINVLrnvhLKKRSAArVGAEAGITRSVGERIKIQENPPVYMIDTPGI 205
Cdd:PRK00093   6 IVGRPNVGKSTLFNRL----TGKRDAI-VADTPGVTRDRIYGEAEWLGREFILIDTGGI 59
MnmE COG0486
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal ...
 147-205 9.88e-04

tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal structure and biogenesis]; tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 440253 [Multi-domain]  Cd Length: 448  Bit Score: 40.43  E-value: 9.88e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747 147 IIGVPNVGKSSVINVLrnvhLkKRSAARVGAEAGITR-SVGERIKIqENPPVYMIDTPGI 205
Cdd:COG0486  218 IVGRPNVGKSSLLNAL----L-GEERAIVTDIAGTTRdVIEERINI-GGIPVRLIDTAGL 271
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 71-115 1.20e-03

Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions.


Pssm-ID: 206648 [Multi-domain]  Cd Length: 161  Bit Score: 38.98  E-value: 1.20e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 194910747  71 KPHILVLNKVDLLGAKQQRSVLQQLRRQQPELQHILFTNCKDQRN 115
Cdd:cd00882  107 IPIILVGNKIDLLEEREVEELLRLEELAKILGVPVFEVSAKTGEG 151
Era cd04163
E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is ...
 31-88 2.04e-03

E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.


Pssm-ID: 206726 [Multi-domain]  Cd Length: 168  Bit Score: 38.21  E-value: 2.04e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 194910747  31 MRQIQQKLRNVDCIVEIHDARIPLAGRNSQFFDTITGSGvKPHILVLNKVDLLGAKQQ 88
Cdd:cd04163   73 VKAAWSALKDVDLVLFVVDASEWIGEGDEFILELLKKSK-TPVILVLNKIDLVKDKED 129
YeeP COG3596
Predicted GTPase [General function prediction only];
144-205 2.35e-03

Predicted GTPase [General function prediction only];


Pssm-ID: 442815 [Multi-domain]  Cd Length: 318  Bit Score: 39.36  E-value: 2.35e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 194910747 144 NLMIIGVPNVGKSSVINVlrnvhLKKRSAARVGAEAGITRSVgERIKIQENPPVYM--IDTPGI 205
Cdd:COG3596   41 VIALVGKTGAGKSSLINA-----LFGAEVAEVGVGRPCTREI-QRYRLESDGLPGLvlLDTPGL 98
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 71-115 3.66e-03

E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family.


Pssm-ID: 206646 [Multi-domain]  Cd Length: 161  Bit Score: 37.61  E-value: 3.66e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 194910747  71 KPHILVLNKVDLLGAKQQRSVLQQLRRQQPELQHILFTNCKDQRN 115
Cdd:cd00880  105 KPVLLVLNKIDLVPESEEEELLRERKLELLPDLPVIAVSALPGEG 149
Era COG1159
GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis];
31-100 4.08e-03

GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440773 [Multi-domain]  Cd Length: 290  Bit Score: 38.43  E-value: 4.08e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  31 MRQIQQKLRNVDCIVEIHDARIPLAGRNSQFFDTITGSGvKPHILVLNKVDLLGAKQQRSVLQQLRRQQP 100
Cdd:COG1159   73 NKAAWSALEDVDVILFVVDATEKIGEGDEFILELLKKLK-TPVILVINKIDLVKKEELLPLLAEYSELLD 141
NOG cd01897
Nucleolar GTP-binding protein (NOG); NOG1 is a nucleolar GTP-binding protein present in ...
 144-206 4.96e-03

Nucleolar GTP-binding protein (NOG); NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.


Pssm-ID: 206684 [Multi-domain]  Cd Length: 167  Bit Score: 37.15  E-value: 4.96e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 194910747 144 NLMIIGVPNVGKSSVINVLRNVHLKkrsaarVGAEAGITRS--VG--ER--IKIQenppvyMIDTPGIL 206
Cdd:cd01897    2 TLVIAGYPNVGKSSLVNKLTRAKPE------VAPYPFTTKSlfVGhfDYkyLRWQ------VIDTPGIL 58
GTPase_YsxC TIGR03598
ribosome biogenesis GTP-binding protein YsxC/EngB; Members of this protein family are a GTPase ...
 152-204 6.13e-03

ribosome biogenesis GTP-binding protein YsxC/EngB; Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes. [Protein synthesis, Other]


Pssm-ID: 274670 [Multi-domain]  Cd Length: 179  Bit Score: 37.07  E-value: 6.13e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 194910747  152 NVGKSSVINVLRNvhlkKRSAARVGAEAGITR-----SVGERIkiqenppvYMIDTPG 204
Cdd:TIGR03598  28 NVGKSSLINALTN----RKKLARTSKTPGRTQlinffEVNDGF--------RLVDLPG 73
feoB TIGR00437
ferrous iron transporter FeoB; FeoB (773 amino acids in E. coli), a cytoplasmic membrane ...
 149-238 7.00e-03

ferrous iron transporter FeoB; FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum. [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 273077 [Multi-domain]  Cd Length: 591  Bit Score: 38.18  E-value: 7.00e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194910747  149 GVPNVGKSSVINVLRNVHlkkrsaARVGAEAGIT--RSVGErIKIQENpPVYMIDTPGIlqpsikddemgmkLALVGCLP 226
Cdd:TIGR00437   1 GNPNVGKSTLFNALTGAN------QTVGNWPGVTveKKEGK-LGFQGE-DIEIVDLPGI-------------YSLTTFSL 59

                          90
                  ....*....|..
gi 194910747  227 DHIVGEDLIADY 238
Cdd:TIGR00437  60 EEEVARDYLLNE 71
Obg_like cd01881
Obg-like family of GTPases consist of five subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1; ...
 147-212 7.83e-03

Obg-like family of GTPases consist of five subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1; The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to form one major branch of the Obg family and the Ygr210 and YchF subfamilies form another branch. No GEFs, GAPs, or GDIs for Obg have been identified.


Pssm-ID: 206668 [Multi-domain]  Cd Length: 167  Bit Score: 36.60  E-value: 7.83e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 194910747 147 IIGVPNVGKSSVINVLrnvhlkKRSAARVGAEAGITRS--VGErIKIQENPPVYMIDTPGILQPSIKD 212
Cdd:cd01881    2 LVGLPNVGKSTLLSAL------TSAKVEIASYPFTTLEpnVGV-FEFGDGVDIQIIDLPGLLDGASEG 62
 
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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