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Conserved domains on  [gi|446791857|ref|WP_000869113|]
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MULTISPECIES: ribosome biogenesis GTP-binding protein YsxC [Bacillus]

Protein Classification

GTP-binding protein( domain architecture ID 10785093)

GTP-binding protein similar to YsxC/EngB, a GTPase associated with ribosome biogenesis; belongs to the large superfamily of translation factor-related (TRAFAC) GTPases

CATH:  3.40.50.300
Gene Ontology:  GO:0046872|GO:0005525
PubMed:  16333325|11916378|11489118
SCOP:  4004043

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
EngB COG0218
GTP-binding protein EngB required for normal cell division [Cell cycle control, cell division, ...
 1-192 3.26e-113

GTP-binding protein EngB required for normal cell division [Cell cycle control, cell division, chromosome partitioning];


:

Pssm-ID: 439988 [Multi-domain]  Cd Length: 194  Bit Score: 320.48  E-value: 3.26e-113
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   1 MKVTKADIVISAVKPEQYPDGDLPEIALAGRSNVGKSSFINKILNRKKLVRISSKPGKTQTLNFFLINEMMHFVDVPGYG 80
Cdd:COG0218    1 MKIKKAEFVTSAVKLEQLPPDDLPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFLINDKFYLVDLPGYG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  81 YAKVSKTERAAWGKMIETYFTTREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPKGKWQKHLKVVK 160
Cdd:COG0218   81 YAKVSKAEKEKWQKLIEDYLEGRENLKGVVLLIDIRHPPKELDLEMLEWLDEAGIPFLIVLTKADKLKKSELAKQLKAIK 160

                        170       180       190
                 ....*....|....*....|....*....|...
gi 446791857 161 ETLDIESG-DEVVLFSSETGLGKEEAWKAIHKF 192
Cdd:COG0218  161 KALGKDPAaPEVILFSSLKKEGIDELRAAIEEW 193
 
Name Accession Description Interval E-value
EngB COG0218
GTP-binding protein EngB required for normal cell division [Cell cycle control, cell division, ...
 1-192 3.26e-113

GTP-binding protein EngB required for normal cell division [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 439988 [Multi-domain]  Cd Length: 194  Bit Score: 320.48  E-value: 3.26e-113
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   1 MKVTKADIVISAVKPEQYPDGDLPEIALAGRSNVGKSSFINKILNRKKLVRISSKPGKTQTLNFFLINEMMHFVDVPGYG 80
Cdd:COG0218    1 MKIKKAEFVTSAVKLEQLPPDDLPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFLINDKFYLVDLPGYG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  81 YAKVSKTERAAWGKMIETYFTTREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPKGKWQKHLKVVK 160
Cdd:COG0218   81 YAKVSKAEKEKWQKLIEDYLEGRENLKGVVLLIDIRHPPKELDLEMLEWLDEAGIPFLIVLTKADKLKKSELAKQLKAIK 160

                        170       180       190
                 ....*....|....*....|....*....|...
gi 446791857 161 ETLDIESG-DEVVLFSSETGLGKEEAWKAIHKF 192
Cdd:COG0218  161 KALGKDPAaPEVILFSSLKKEGIDELRAAIEEW 193
GTPase_YsxC TIGR03598
ribosome biogenesis GTP-binding protein YsxC/EngB; Members of this protein family are a GTPase ...
 6-183 1.40e-100

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: 288.22  E-value: 1.40e-100
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857    6 ADIVISAVKPEQYPDGDLPEIALAGRSNVGKSSFINKILNRKKLVRISSKPGKTQTLNFFLINEMMHFVDVPGYGYAKVS 85
Cdd:TIGR03598   1 AEFVKSAVKLKQLPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVNDGFRLVDLPGYGYAKVS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   86 KTERAAWGKMIETYFTTREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPKGKWQKHLKVVKETLDI 165
Cdd:TIGR03598  81 KEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDLEMIEWLRERGIPVLIVLTKADKLKKSELNKQLKKIKKALKK 160

                         170
                  ....*....|....*....
gi 446791857  166 ESGD-EVVLFSSETGLGKE 183
Cdd:TIGR03598 161 DADDpSVQLFSSLKKTGID 179
YihA_EngB cd01876
YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli ...
 25-193 2.49e-87

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: 254.36  E-value: 2.49e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  25 EIALAGRSNVGKSSFINKILNRKKLVRISSKPGKTQTLNFFLINEMMHFVDVPGYGYAKVSKTERAAWGKMIETYFTTRE 104
Cdd:cd01876    1 EVAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFNVGDKFRLVDLPGYGYAKVSKEVREKWGKLIEEYLENRE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857 105 QLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPKGKWQKHLKVVKETLDIESG-DEVVLFSSETGLGKE 183
Cdd:cd01876   81 NLKGVVLLIDARHGPTPIDLEMLEFLEELGIPFLIVLTKADKLKKSELAKVLKKIKEELNLFNIlPPVILFSSKKGTGID 160

                        170
                 ....*....|
gi 446791857 184 EAWKAIHKFT 193
Cdd:cd01876  161 ELRALIAEWL 170
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 25-143 5.51e-24

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: 91.14  E-value: 5.51e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   25 EIALAGRSNVGKSSFINKILNRKklVRISSKPGKTQTLNFFLIN---EMMHFVDVPGYgyakvskTERAAWGKMIETYFT 101
Cdd:pfam01926   1 RVALVGRPNVGKSTLINALTGAK--AIVSDYPGTTRDPNEGRLElkgKQIILVDTPGL-------IEGASEGEGLGRAFL 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 446791857  102 TREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATK 143
Cdd:pfam01926  72 AIIEADLILFVVDSEEGITPLDEELLELLRENKKPIILVLNK 113
PRK04213 PRK04213
GTP-binding protein EngB;
24-147 1.51e-19

GTP-binding protein EngB;


Pssm-ID: 179790 [Multi-domain]  Cd Length: 201  Bit Score: 81.89  E-value: 1.51e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  24 PEIALAGRSNVGKSSFINKILNRKklVRISSKPGKTQTLNFFLINEMMhFVDVPGYGY-AKVSKTERAAWGKMIETYF-T 101
Cdd:PRK04213  10 PEIVFVGRSNVGKSTLVRELTGKK--VRVGKRPGVTRKPNHYDWGDFI-LTDLPGFGFmSGVPKEVQEKIKDEIVRYIeD 86

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 446791857 102 TREQLDAAVLVVDL--------RHKPTND---DVMMYDFLKHYDIPTIIIATKADKI 147
Cdd:PRK04213  87 NADRILAAVLVVDGksfieiieRWEGRGEipiDVEMFDFLRELGIPPIVAVNKMDKI 143
 
Name Accession Description Interval E-value
EngB COG0218
GTP-binding protein EngB required for normal cell division [Cell cycle control, cell division, ...
 1-192 3.26e-113

GTP-binding protein EngB required for normal cell division [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 439988 [Multi-domain]  Cd Length: 194  Bit Score: 320.48  E-value: 3.26e-113
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   1 MKVTKADIVISAVKPEQYPDGDLPEIALAGRSNVGKSSFINKILNRKKLVRISSKPGKTQTLNFFLINEMMHFVDVPGYG 80
Cdd:COG0218    1 MKIKKAEFVTSAVKLEQLPPDDLPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFLINDKFYLVDLPGYG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  81 YAKVSKTERAAWGKMIETYFTTREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPKGKWQKHLKVVK 160
Cdd:COG0218   81 YAKVSKAEKEKWQKLIEDYLEGRENLKGVVLLIDIRHPPKELDLEMLEWLDEAGIPFLIVLTKADKLKKSELAKQLKAIK 160

                        170       180       190
                 ....*....|....*....|....*....|...
gi 446791857 161 ETLDIESG-DEVVLFSSETGLGKEEAWKAIHKF 192
Cdd:COG0218  161 KALGKDPAaPEVILFSSLKKEGIDELRAAIEEW 193
GTPase_YsxC TIGR03598
ribosome biogenesis GTP-binding protein YsxC/EngB; Members of this protein family are a GTPase ...
 6-183 1.40e-100

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: 288.22  E-value: 1.40e-100
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857    6 ADIVISAVKPEQYPDGDLPEIALAGRSNVGKSSFINKILNRKKLVRISSKPGKTQTLNFFLINEMMHFVDVPGYGYAKVS 85
Cdd:TIGR03598   1 AEFVKSAVKLKQLPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVNDGFRLVDLPGYGYAKVS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   86 KTERAAWGKMIETYFTTREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPKGKWQKHLKVVKETLDI 165
Cdd:TIGR03598  81 KEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDLEMIEWLRERGIPVLIVLTKADKLKKSELNKQLKKIKKALKK 160

                         170
                  ....*....|....*....
gi 446791857  166 ESGD-EVVLFSSETGLGKE 183
Cdd:TIGR03598 161 DADDpSVQLFSSLKKTGID 179
YihA_EngB cd01876
YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli ...
 25-193 2.49e-87

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: 254.36  E-value: 2.49e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  25 EIALAGRSNVGKSSFINKILNRKKLVRISSKPGKTQTLNFFLINEMMHFVDVPGYGYAKVSKTERAAWGKMIETYFTTRE 104
Cdd:cd01876    1 EVAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFNVGDKFRLVDLPGYGYAKVSKEVREKWGKLIEEYLENRE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857 105 QLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPKGKWQKHLKVVKETLDIESG-DEVVLFSSETGLGKE 183
Cdd:cd01876   81 NLKGVVLLIDARHGPTPIDLEMLEFLEELGIPFLIVLTKADKLKKSELAKVLKKIKEELNLFNIlPPVILFSSKKGTGID 160

                        170
                 ....*....|
gi 446791857 184 EAWKAIHKFT 193
Cdd:cd01876  161 ELRALIAEWL 170
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 25-143 5.51e-24

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: 91.14  E-value: 5.51e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   25 EIALAGRSNVGKSSFINKILNRKklVRISSKPGKTQTLNFFLIN---EMMHFVDVPGYgyakvskTERAAWGKMIETYFT 101
Cdd:pfam01926   1 RVALVGRPNVGKSTLINALTGAK--AIVSDYPGTTRDPNEGRLElkgKQIILVDTPGL-------IEGASEGEGLGRAFL 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 446791857  102 TREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATK 143
Cdd:pfam01926  72 AIIEADLILFVVDSEEGITPLDEELLELLRENKKPIILVLNK 113
PRK04213 PRK04213
GTP-binding protein EngB;
24-147 1.51e-19

GTP-binding protein EngB;


Pssm-ID: 179790 [Multi-domain]  Cd Length: 201  Bit Score: 81.89  E-value: 1.51e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  24 PEIALAGRSNVGKSSFINKILNRKklVRISSKPGKTQTLNFFLINEMMhFVDVPGYGY-AKVSKTERAAWGKMIETYF-T 101
Cdd:PRK04213  10 PEIVFVGRSNVGKSTLVRELTGKK--VRVGKRPGVTRKPNHYDWGDFI-LTDLPGFGFmSGVPKEVQEKIKDEIVRYIeD 86

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 446791857 102 TREQLDAAVLVVDL--------RHKPTND---DVMMYDFLKHYDIPTIIIATKADKI 147
Cdd:PRK04213  87 NADRILAAVLVVDGksfieiieRWEGRGEipiDVEMFDFLRELGIPPIVAVNKMDKI 143
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 27-189 1.01e-18

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: 79.04  E-value: 1.01e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  27 ALAGRSNVGKSSFINKILNRKKLVRiSSKPGKTQTLNFF-----LINEMMHFVDVPGYGYAKVSKTERAAWGKMietyft 101
Cdd:cd00882    1 VVVGRGGVGKSSLLNALLGGEVGEV-SDVPGTTRDPDVYvkeldKGKVKLVLVDTPGLDEFGGLGREELARLLL------ 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857 102 trEQLDAAVLVVDLRHKPTNDDVMMY--DFLKHYDIPTIIIATKADKIPkgKWQKHLKVVKETLDIESGDEVVLFSSETG 179
Cdd:cd00882   74 --RGADLILLVVDSTDRESEEDAKLLilRRLRKEGIPIILVGNKIDLLE--EREVEELLRLEELAKILGVPVFEVSAKTG 149

                        170
                 ....*....|
gi 446791857 180 LGKEEAWKAI 189
Cdd:cd00882  150 EGVDELFEKL 159
Era cd04163
E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is ...
 26-184 8.75e-18

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: 76.73  E-value: 8.75e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  26 IALAGRSNVGKSSFINKILNRKklVRI-SSKPGKTQTLNFFLINEMMH---FVDVPGygyakVSKTERAAWGKMIETYFT 101
Cdd:cd04163    6 VAIIGRPNVGKSTLLNALVGQK--ISIvSPKPQTTRNRIRGIYTDDDAqiiFVDTPG-----IHKPKKKLGERMVKAAWS 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857 102 TREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKI-PKGKWQKHLKVVKETLDiesGDEVVLFSSETGL 180
Cdd:cd04163   79 ALKDVDLVLFVVDASEWIGEGDEFILELLKKSKTPVILVLNKIDLVkDKEDLLPLLEKLKELHP---FAEIFPISALKGE 155


                 ....
gi 446791857 181 GKEE 184
Cdd:cd04163  156 NVDE 159
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 27-184 6.27e-16

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: 71.51  E-value: 6.27e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  27 ALAGRSNVGKSSFINKILNRKKLVrISSKPGKTQTLN----FFLINEMMHFVDVPGYGYAKVSKTERaawgkmIETYFTT 102
Cdd:cd00880    1 AIFGRPNVGKSSLLNALLGQNVGI-VSPIPGTTRDPVrkewELLPLGPVVLIDTPGLDEEGGLGRER------VEEARQV 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857 103 REQLDAAVLVVDLRHKPTnDDVMMYDFLKHYDIPTIIIATKADKIPKG--KWQKHLKVVKETLDIesgdEVVLFSSETGL 180
Cdd:cd00880   74 ADRADLVLLVVDSDLTPV-EEEAKLGLLRERGKPVLLVLNKIDLVPESeeEELLRERKLELLPDL----PVIAVSALPGE 148


                 ....
gi 446791857 181 GKEE 184
Cdd:cd00880  149 GIDE 152
Era COG1159
GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis];
26-184 2.78e-15

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


Pssm-ID: 440773 [Multi-domain]  Cd Length: 290  Bit Score: 71.94  E-value: 2.78e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  26 IALAGRSNVGKSSFINKILNrKKLVRISSKP-------------GKTQtlnffLInemmhFVDVPGYgyakvsKTERAAW 92
Cdd:COG1159    6 VAIVGRPNVGKSTLLNALVG-QKVSIVSPKPqttrhrirgivtrEDAQ-----IV-----FVDTPGI------HKPKRKL 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  93 GK-MIETYFTTREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPKGKWQKHLKVVKETLDIesgDEV 171
Cdd:COG1159   69 GRrMNKAAWSALEDVDVILFVVDATEKIGEGDEFILELLKKLKTPVILVINKIDLVKKEELLPLLAEYSELLDF---AEI 145

                        170
                 ....*....|...
gi 446791857 172 VLFSSETGLGKEE 184
Cdd:COG1159  146 VPISALKGDNVDE 158
era PRK00089
GTPase Era; Reviewed
 26-184 4.25e-14

GTPase Era; Reviewed


Pssm-ID: 234624 [Multi-domain]  Cd Length: 292  Bit Score: 68.92  E-value: 4.25e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  26 IALAGRSNVGKSSFINKILNRKklVRI-SSKPgktQT----LNFFLINEMMH--FVDVPGYgyakvsKTERAAWGK-MIE 97
Cdd:PRK00089   8 VAIVGRPNVGKSTLLNALVGQK--ISIvSPKP---QTtrhrIRGIVTEDDAQiiFVDTPGI------HKPKRALNRaMNK 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  98 TYFTTREQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKI-PKGKWQKHLKVVKETLDiesGDEVVLFSS 176
Cdd:PRK00089  77 AAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTPVILVLNKIDLVkDKEELLPLLEELSELMD---FAEIVPISA 153


                 ....*...
gi 446791857 177 ETGLGKEE 184
Cdd:PRK00089 154 LKGDNVDE 161
YeeP COG3596
Predicted GTPase [General function prediction only];
24-189 2.53e-11

Predicted GTPase [General function prediction only];


Pssm-ID: 442815 [Multi-domain]  Cd Length: 318  Bit Score: 61.32  E-value: 2.53e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  24 PEIALAGRSNVGKSSFINKILNRKkLVRIS-SKPGKTQTLNFFLINEM---MHFVDVPGYG-----YAKVSKTERAAwgk 94
Cdd:COG3596   40 PVIALVGKTGAGKSSLINALFGAE-VAEVGvGRPCTREIQRYRLESDGlpgLVLLDTPGLGevnerDREYRELRELL--- 115

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  95 mietyfttrEQLDAAVLVVdlrhKPTN-DDVMMYDFLK-----HYDIPTIIIATKADKI-PKGKWQKH------------ 155
Cdd:COG3596  116 ---------PEADLILWVV----KADDrALATDEEFLQalraqYPDPPVLVVLTQVDRLePEREWDPPynwpsppkeqni 182

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 446791857 156 ---LKVVKETLDIESGD--EVVLFSSETGLGKEEAWKAI 189
Cdd:COG3596  183 rraLEAIAEQLGVPIDRviPVSAAEDRTGYGLEELVDAL 221
EngA1 cd01894
EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first ...
 27-149 4.56e-10

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: 55.90  E-value: 4.56e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  27 ALAGRSNVGKSSFINKILNRKK-LVriSSKPGKT----------QTLNFFLInemmhfvDVPGYGYAKVS-------KTE 88
Cdd:cd01894    1 AIVGRPNVGKSTLFNRLTGRRDaIV--SDTPGVTrdrkygeaewGGREFILI-------DTGGIEPDDEGiskeireQAE 71

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446791857  89 RAAwgkmietyfttrEQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPK 149
Cdd:cd01894   72 IAI------------EEADVILFVVDGREGLTPADEEIAKYLRKSKKPVILVVNKIDNIKE 120
MnmE COG0486
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal ...
 25-184 1.76e-09

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: 56.22  E-value: 1.76e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  25 EIALAGRSNVGKSSFINKILNRKK-LVriSSKPGKT-----QTLNfflINEM-MHFVDvpgygyakvskT---------- 87
Cdd:COG0486  215 KVVIVGRPNVGKSSLLNALLGEERaIV--TDIAGTTrdvieERIN---IGGIpVRLID-----------Taglretedev 278

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  88 -----ERAawgkmietyfttREQLDAA---VLVVDLRHKPTNDDVMMYDFLKhyDIPTIIIATKADKIPKgkwqkhlkvV 159
Cdd:COG0486  279 ekigiERA------------REAIEEAdlvLLLLDASEPLTEEDEEILEKLK--DKPVIVVLNKIDLPSE---------A 335

                        170       180
                 ....*....|....*....|....*
gi 446791857 160 KETLDIESGDEVVLFSSETGLGKEE 184
Cdd:COG0486  336 DGELKSLPGEPVIAISAKTGEGIDE 360
HSR1_MMR1 cd01857
A circularly permuted subfamily of the Ras GTPases; Human HSR1 is localized to the human MHC ...
 26-78 5.42e-09

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: 52.62  E-value: 5.42e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446791857  26 IALAGRSNVGKSSFINKILNRKKlVRISSKPGKT---QTLNfflINEMMHFVDVPG 78
Cdd:cd01857   85 IGLVGYPNVGKSSLINALVGSKK-VSVSSTPGKTkhfQTIF---LEPGITLCDCPG 136
PRK09518 PRK09518
bifunctional cytidylate kinase/GTPase Der; Reviewed
 26-145 3.28e-08

bifunctional cytidylate kinase/GTPase Der; Reviewed


Pssm-ID: 236546 [Multi-domain]  Cd Length: 712  Bit Score: 52.49  E-value: 3.28e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  26 IALAGRSNVGKSSFINKILNRKKLVrISSKPGKTQT----------LNFFLINEMMHFVDVPGYGYAKVSKTERAAwgkm 95
Cdd:PRK09518 278 VAIVGRPNVGKSTLVNRILGRREAV-VEDTPGVTRDrvsydaewagTDFKLVDTGGWEADVEGIDSAIASQAQIAV---- 352

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 446791857  96 ietyfttrEQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKAD 145
Cdd:PRK09518 353 --------SLADAVVFVVDGQVGLTSTDERIVRMLRRAGKPVVLAVNKID 394
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 23-147 5.17e-08

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 51.97  E-value: 5.17e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  23 LPEIALAGRSNVGKSSFINKILNRKK-LVriSSKPGKT----------QTLNFFLInemmhfvDVPGYGYAKVS------ 85
Cdd:PRK00093   1 KPVVAIVGRPNVGKSTLFNRLTGKRDaIV--ADTPGVTrdriygeaewLGREFILI-------DTGGIEPDDDGfekqir 71

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446791857  86 -KTERAAwgkmietyfttrEQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKI 147
Cdd:PRK00093  72 eQAELAI------------EEADVILFVVDGRAGLTPADEEIAKILRKSNKPVILVVNKVDGP 122
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
 26-192 1.11e-07

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: 49.42  E-value: 1.11e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  26 IALAGRSNVGKSSFINKILNRKK-LVriSSKPGKT-----QTLNfflINEM-MHFVDVPGygyakVSKT---------ER 89
Cdd:cd04164    6 VVIAGKPNVGKSSLLNALAGRDRaIV--SDIAGTTrdvieEEID---LGGIpVRLIDTAG-----LRETedeiekigiER 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  90 AAwgKMIetyfttrEQLDAAVLVVDLRHKPTNDDVMMYDFLKhyDIPTIIIATKADKIPKgkwqkhlkvvKETLDIESGD 169
Cdd:cd04164   76 AR--EAI-------EEADLVLLVVDASEGLDEEDLEILELPA--KKPVIVVLNKSDLLSD----------AEGISELNGK 134

                        170       180
                 ....*....|....*....|...
gi 446791857 170 EVVLFSSETGLGKEEAWKAIHKF 192
Cdd:cd04164  135 PIIAISAKTGEGIDELKEALLEL 157
Obg_like cd01881
Obg-like family of GTPases consist of five subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1; ...
 27-191 1.57e-07

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: 48.93  E-value: 1.57e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  27 ALAGRSNVGKSSFINKILNRKklVRISSKPGKTQTLNFFLInEM-----MHFVDVPGYgyakvskTERAAWGK-MIETYF 100
Cdd:cd01881    1 GLVGLPNVGKSTLLSALTSAK--VEIASYPFTTLEPNVGVF-EFgdgvdIQIIDLPGL-------LDGASEGRgLGEQIL 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857 101 TTREQLDAAVLVVDLRHKPTNDDVMMYDFLK---HY------DIPTIIIATKADKIpkgkwqkHLKVVKETLDIESGDE- 170
Cdd:cd01881   71 AHLYRSDLILHVIDASEDCVGDPLEDQKTLNeevSGsflflkNKPEMIVANKIDMA-------SENNLKRLKLDKLKRGi 143

                        170       180
                 ....*....|....*....|..
gi 446791857 171 -VVLFSSETGLGKEEAWKAIHK 191
Cdd:cd01881  144 pVVPTSALTRLGLDRVIRTIRK 165
EngA2 cd01895
EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second ...
 26-191 3.12e-07

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: 48.20  E-value: 3.12e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  26 IALAGRSNVGKSSFINKILNRKKLVrISSKPGKTQ---TLNFFLINEMMHFVDVPGYgYAKVSKTERaawgkmIETYFTT 102
Cdd:cd01895    5 IAIIGRPNVGKSSLLNALLGEERVI-VSDIAGTTRdsiDVPFEYDGQKYTLIDTAGI-RKKGKVTEG------IEKYSVL 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857 103 R-----EQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKIPkgKWQKHLKVVKETLDIE----SGDEVVL 173
Cdd:cd01895   77 RtlkaiERADVVLLVLDASEGITEQDLRIAGLILEEGKALIIVVNKWDLVE--KDEKTMKEFEKELRRKlpflDYAPIVF 154

                        170
                 ....*....|....*...
gi 446791857 174 FSSETGLGKEEAWKAIHK 191
Cdd:cd01895  155 ISALTGQGVDKLFDAIKE 172
trmE PRK05291
tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;
26-192 4.73e-07

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


Pssm-ID: 235392 [Multi-domain]  Cd Length: 449  Bit Score: 48.95  E-value: 4.73e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  26 IALAGRSNVGKSSFINKILNRKK-LVriSSKPGKT-----QTLNfflINEM-MHFVDVPGygyakVSKTE--------RA 90
Cdd:PRK05291 218 VVIAGRPNVGKSSLLNALLGEERaIV--TDIAGTTrdvieEHIN---LDGIpLRLIDTAG-----IRETDdevekigiER 287

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  91 AWGKMietyfttrEQLDAAVLVVDLRHKPTNDDVMMYDFLKhyDIPTIIIATKADKIPkgkwqkhlkvvKETLDIESGDE 170
Cdd:PRK05291 288 SREAI--------EEADLVLLVLDASEPLTEEDDEILEELK--DKPVIVVLNKADLTG-----------EIDLEEENGKP 346

                        170       180
                 ....*....|....*....|..
gi 446791857 171 VVLFSSETGLGKEEAWKAIHKF 192
Cdd:PRK05291 347 VIRISAKTGEGIDELREAIKEL 368
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
23-147 9.88e-07

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


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 48.10  E-value: 9.88e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  23 LPEIALAGRSNVGKSSFINKILNRKK-LV---------RISSKpGKTQTLNFFLInemmhfvDVPGYGYAKVS------- 85
Cdd:COG1160    2 SPVVAIVGRPNVGKSTLFNRLTGRRDaIVddtpgvtrdRIYGE-AEWGGREFTLI-------DTGGIEPDDDDgleaeir 73

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446791857  86 -KTERAAwgkmietyfttrEQLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKADKI 147
Cdd:COG1160   74 eQAELAI------------EEADVILFVVDGRAGLTPLDEEIAKLLRRSGKPVILVVNKVDGP 124
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
14-59 2.54e-06

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


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 46.94  E-value: 2.54e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 446791857  14 KPEQYPDGDLPEIALAGRSNVGKSSFINKILNRKKLVrISSKPGKT 59
Cdd:COG1160  166 EEEEEEEDDPIKIAIVGRPNVGKSSLINALLGEERVI-VSDIAGTT 210
YlqF cd01856
Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs ...
 33-78 4.00e-06

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: 45.21  E-value: 4.00e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 446791857  33 NVGKSSFINKILNrKKLVRISSKPGKTQTLNFFLINEMMHFVDVPG 78
Cdd:cd01856  125 NVGKSTLINRLRG-KKVAKVGNKPGVTRGQQWIRIGPNIELLDTPG 169
GTP_translation_factor cd00881
GTP translation factor family primarily contains translation initiation, elongation and ...
 58-184 5.49e-06

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


Pssm-ID: 206647 [Multi-domain]  Cd Length: 183  Bit Score: 44.98  E-value: 5.49e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  58 KTQTLNFFLINEMMHFVDVPGYGyAKVSKTERAAWgkmietyfttreQLDAAVLVVDLRH--KPTNDDVMMYdfLKHYDI 135
Cdd:cd00881   51 KTGVVEFEWPKRRINFIDTPGHE-DFSKETVRGLA------------QADGALLVVDANEgvEPQTREHLNI--ALAGGL 115

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446791857 136 PTIIIATKADKIPKGKWQKHLKVVKETL-----DIESGD--EVVLFSSETGLGKEE 184
Cdd:cd00881  116 PIIVAVNKIDRVGEEDFDEVLREIKELLkligfTFLKGKdvPIIPISALTGEGIEE 171
PRK03003 PRK03003
GTP-binding protein Der; Reviewed
 16-145 1.24e-05

GTP-binding protein Der; Reviewed


Pssm-ID: 179525 [Multi-domain]  Cd Length: 472  Bit Score: 44.96  E-value: 1.24e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  16 EQYPDGDLPEIALAGRSNVGKSSFINKILNRKKLVrISSKPGKT----------QTLNFFLINEMMHFVDVPGYGYAKVS 85
Cdd:PRK03003  31 EAAEGGPLPVVAVVGRPNVGKSTLVNRILGRREAV-VEDVPGVTrdrvsydaewNGRRFTVVDTGGWEPDAKGLQASVAE 109

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  86 KTERAawgkmIETyfttreqLDAAVLVVDLRHKPTNDDVMMYDFLKHYDIPTIIIATKAD 145
Cdd:PRK03003 110 QAEVA-----MRT-------ADAVLFVVDATVGATATDEAVARVLRRSGKPVILAANKVD 157
small_GTP TIGR00231
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this ...
 26-189 1.73e-05

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: 43.13  E-value: 1.73e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   26 IALAGRSNVGKSSFINKILnRKKLVRISSKPGKTQTLNFFLINE-----MMHFVDVPGygyakvskteRAAWGKMIETYF 100
Cdd:TIGR00231   4 IVIVGHPNVGKSTLLNSLL-GNKGSITEYYPGTTRNYVTTVIEEdgktyKFNLLDTAG----------QEDYDAIRRLYY 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  101 TTREQ----LDAAVLVVDLRHKPTNDDVMMYDFLKhYDIPTIIIATKADKipkgKWQKHLKVVKETLDIESGDEVVLFSS 176
Cdd:TIGR00231  73 PQVERslrvFDIVILVLDVEEILEKQTKEIIHHAD-SGVPIILVGNKIDL----KDADLKTHVASEFAKLNGEPIIPLSA 147

                         170
                  ....*....|...
gi 446791857  177 ETGLGKEEAWKAI 189
Cdd:TIGR00231 148 ETGKNIDSAFKIV 160
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 7-59 1.89e-05

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 44.27  E-value: 1.89e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 446791857   7 DIVISAVKPEQYPDGDLPEIALA--GRSNVGKSSFINKILNRKKLVrISSKPGKT 59
Cdd:PRK00093 155 DAILEELPEEEEEDEEDEPIKIAiiGRPNVGKSSLINALLGEERVI-VSDIAGTT 208
MnmE_helical pfam12631
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ...
 26-184 5.35e-05

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: 42.85  E-value: 5.35e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   26 IALAGRSNVGKSSFINKILNRKK-LVriSSKPGKT-----QTLNfflINEM-MHFVDvpgygyakvskT----------- 87
Cdd:pfam12631  97 VVIVGKPNVGKSSLLNALLGEERaIV--TDIPGTTrdvieETIN---IGGIpLRLID-----------Tagiretddeve 160

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   88 ----ERAawgkmietyfttREQLDAA---VLVVDLRHKPTNDDVMMYDFLKHyDIPTIIIATKADkipkgkwqkhLKVVK 160
Cdd:pfam12631 161 kigiERA------------REAIEEAdlvLLVLDASRPLDEEDLEILELLKD-KKPIIVVLNKSD----------LLGEI 217

                         170       180
                  ....*....|....*....|....
gi 446791857  161 ETLDIESGDEVVLFSSETGLGKEE 184
Cdd:pfam12631 218 DELEELKGKPVLAISAKTGEGLDE 241
YqeH cd01855
Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH ...
 9-79 1.41e-04

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: 41.10  E-value: 1.41e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857   9 VISAVKPEQYPDGDlpeIALAGRSNVGKSSFINKILNRKKLVR----------ISSKPGKTQTLNFFLINEMMHFVDVPG 78
Cdd:cd01855  114 LIEEIKKLAKYRGD---VYVVGATNVGKSTLINALLKSNGGKVqaqalvqrltVSPIPGTTLGLIKIPLGEGKKLYDTPG 190


                 .
gi 446791857  79 Y 79
Cdd:cd01855  191 I 191
RbgA COG1161
Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];
33-78 1.54e-04

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


Pssm-ID: 440775 [Multi-domain]  Cd Length: 279  Bit Score: 41.25  E-value: 1.54e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 446791857  33 NVGKSSFINKILNRKKlVRISSKPGKTQTLNFFLINEMMHFVDVPG 78
Cdd:COG1161  123 NVGKSTLINRLAGKKV-AKTGNKPGVTKGQQWIKLDDGLELLDTPG 167
YfjP cd11383
YfjP GTPase; The Era (E. coli Ras-like protein)-like YfjP subfamily includes several ...
 27-147 3.74e-04

YfjP GTPase; The Era (E. coli Ras-like protein)-like YfjP subfamily includes several uncharacterized bacterial GTPases that are similar to Era. They 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. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain.


Pssm-ID: 206743 [Multi-domain]  Cd Length: 140  Bit Score: 39.25  E-value: 3.74e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  27 ALAGRSNVGKSSFINKiLNRKKLVRISSKPGKT---QTLNFFLINEMMHFVDVPGYGYAKVSKTERAawgkmiETYFTTR 103
Cdd:cd11383    1 GLMGKTGAGKSSLCNA-LFGTEVAAVGDRRPTTraaQAYVWQTGGDGLVLLDLPGVGERGRRDREYE------ELYRRLL 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 446791857 104 EQLDAAVLVVDLRHKPTNDDVMMYD-FLKHYDIPTIIIATKADKI 147
Cdd:cd11383   74 PEADLVLWLLDADDRALAADHDFYLlPLAGHDAPLLFVLNQVDPV 118
DLP_2 cd09912
Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The ...
 26-176 9.89e-04

Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner.


Pssm-ID: 206739 [Multi-domain]  Cd Length: 180  Bit Score: 38.30  E-value: 9.89e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857  26 IALAGRSNVGKSSFINKILNRKKL----VRISSKPgktqTLNFFLINEMMHFVDVPGYGyakVSKTERAAWgkmietyft 101
Cdd:cd09912    3 LAVVGEFSAGKSTLLNALLGEEVLptgvTPTTAVI----TVLRYGLLKGVVLVDTPGLN---STIEHHTEI--------- 66

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446791857 102 TREQL---DAAVLVVDLRHKPTNDDVmmyDFLKHY----DIPTIIIATKADKI---PKGKWQKHLKVVKETLDIESGDEV 171
Cdd:cd09912   67 TESFLpraDAVIFVLSADQPLTESER---EFLKEIlkwsGKKIFFVLNKIDLLseeELEEVLEYSREELGVLELGGGEPR 143


                 ....*
gi 446791857 172 VLFSS 176
Cdd:cd09912  144 IFPVS 148
Nog1 COG1084
GTP-binding protein, GTP1/Obg family [General function prediction only];
20-43 1.25e-03

GTP-binding protein, GTP1/Obg family [General function prediction only];


Pssm-ID: 440701 [Multi-domain]  Cd Length: 330  Bit Score: 38.66  E-value: 1.25e-03
                         10        20
                 ....*....|....*....|....
gi 446791857  20 DGDLPEIALAGRSNVGKSSFINKI 43
Cdd:COG1084  157 DPDLPTIVVAGYPNVGKSSLVSKV 180
YlqF_related_GTPase cd01849
Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, ...
 26-78 2.39e-03

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: 36.98  E-value: 2.39e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 446791857  26 IALAGRSNVGKSSFINKILNRKKLvRISSKPGKTQTLNFFLINEMMHFVDVPG 78
Cdd:cd01849   94 VGVVGLPNVGKSSFINALLNKFKL-KVGSIPGTTKLQQDVKLDKEIYLYDTPG 145
PRK09518 PRK09518
bifunctional cytidylate kinase/GTPase Der; Reviewed
 23-50 2.78e-03

bifunctional cytidylate kinase/GTPase Der; Reviewed


Pssm-ID: 236546 [Multi-domain]  Cd Length: 712  Bit Score: 37.85  E-value: 2.78e-03
                         10        20
                 ....*....|....*....|....*...
gi 446791857  23 LPEIALAGRSNVGKSSFINKILNRKKLV 50
Cdd:PRK09518 450 LRRVALVGRPNVGKSSLLNQLTHEERAV 477
PRK03003 PRK03003
GTP-binding protein Der; Reviewed
 7-43 3.45e-03

GTP-binding protein Der; Reviewed


Pssm-ID: 179525 [Multi-domain]  Cd Length: 472  Bit Score: 37.64  E-value: 3.45e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 446791857   7 DIVISAVkPEQYPDGDLPE----IALAGRSNVGKSSFINKI 43
Cdd:PRK03003 192 DAVLAAL-PEVPRVGSASGgprrVALVGKPNVGKSSLLNKL 231
DPBB_YuiC-like cd22786
double-psi beta-barrel fold of YuiC subfamily proteins; The YuiC subfamily includes a group of ...
 74-105 3.79e-03

double-psi beta-barrel fold of YuiC subfamily proteins; The YuiC subfamily includes a group of conserved double-psi beta-barrel (DPBB) fold proteins, such as Bacillus subtilis protein YuiC, cell wall shaping protein YabE, cell wall-binding protein YocH, as well as Clostridium tetani phosphatase-associated protein PapQ. YuiC is a Firmicute stationary phase survival (Sps) protein that closely resembles the Barwin-like endoglucanase beta barrel of MltA. It is a double-psi beta-barrel (DPBB) fold that consists of two interlocked "psi-structure" motifs related by a pseudo-2-fold axis and may be involved in substrate binding and catalysis.


Pssm-ID: 439263 [Multi-domain]  Cd Length: 96  Bit Score: 35.27  E-value: 3.79e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 446791857  74 VDVPGYGYAKVSKTERAAWGKMIETYFTTREQ 105
Cdd:cd22786   50 VYIPGYGYAVVADTGGAIKGNRIDLYFPTHEE 81
YqeH cd01855
Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH ...
 136-197 7.38e-03

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: 36.09  E-value: 7.38e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446791857 136 PTIIIATKADKIPKGKWQKHLK-VVKETLDIESG--DEVVLFSSETGLGKEEAWKAIHKFTKTKN 197
Cdd:cd01855   62 PVILVGNKIDLLPKDVKPNRLKqWVKKRLKIGGLkiKDVILVSAKKGWGVEELIEEIKKLAKYRG 126
RsgA_GTPase pfam03193
RsgA GTPase; RsgA (also known as EngC and YjeQ) represents a protein family whose members are ...
 26-78 8.70e-03

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: 35.60  E-value: 8.70e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446791857   26 IALAGRSNVGKSSFINKILNRKKL----VRISSKPGKTQTLNffliNEMMHF------VDVPG 78
Cdd:pfam03193 109 TVLAGQSGVGKSTLLNALLPELDLrtgeISEKLGRGRHTTTH----VELFPLpgggllIDTPG 167
 
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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