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Conserved domains on  [gi|15610364|ref|NP_217745|]
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hypothetical protein Rv3228 [Mycobacterium tuberculosis H37Rv]

Protein Classification

ribosome small subunit-dependent GTPase A( domain architecture ID 11439359)

ribosome small subunit-dependent GTPase A is a late-stage ribosome biogenesis factor involved in 30S subunit maturation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RsgA COG1162
Ribosome biogenesis GTPase RsgA [Translation, ribosomal structure and biogenesis];
32-307 1.67e-92

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


:

Pssm-ID: 440776 [Multi-domain]  Cd Length: 300  Bit Score: 277.38  E-value: 1.67e-92
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364  32 AEAAMVVSVDRGRWGcVLGGRPDRRITAMRAReLGRTPIV-------VgddvdvvgdLSGRPDTLARIVRRAPRRTVLRR 104
Cdd:COG1162   1 LMPGRVIKVHGGRYY-VETEDGERYRCRLRGK-LRKKGISpvvgdwvE---------IEPDDDGEGVIEEILPRKNLLVR 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 105 TADDTDPtERVVVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAP---AEPFGKQFADLELTV-- 179
Cdd:COG1162  70 PAVGRDK-EQVIAANIDQVLIVVALAEPDFNLRLLDRYLVAAEAAGIEPVIVLNKADLADdeeLEELLAIYEALGYPVla 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 180 TAAGVDDPLLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTSTRSVALPlgdtLSGSGWVID 258
Cdd:COG1162 149 VSAKTGEGLDELRELLKGKTSVLVGQSGVGKSTLINALLPDADLATGEISEkLGRGRHTTTHAELYP----LPGGGWLID 224

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|
gi 15610364 259 TPGIRSFGLAHIQPDNVLLAFSDLAEATRECP-RGCGHMGppaDPECALD 307
Cdd:COG1162 225 TPGFREFGLWHIEPEELAHYFPEFRELAGQCRfRDCTHLH---EPGCAVK 271
 
Name Accession Description Interval E-value
RsgA COG1162
Ribosome biogenesis GTPase RsgA [Translation, ribosomal structure and biogenesis];
32-307 1.67e-92

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


Pssm-ID: 440776 [Multi-domain]  Cd Length: 300  Bit Score: 277.38  E-value: 1.67e-92
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364  32 AEAAMVVSVDRGRWGcVLGGRPDRRITAMRAReLGRTPIV-------VgddvdvvgdLSGRPDTLARIVRRAPRRTVLRR 104
Cdd:COG1162   1 LMPGRVIKVHGGRYY-VETEDGERYRCRLRGK-LRKKGISpvvgdwvE---------IEPDDDGEGVIEEILPRKNLLVR 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 105 TADDTDPtERVVVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAP---AEPFGKQFADLELTV-- 179
Cdd:COG1162  70 PAVGRDK-EQVIAANIDQVLIVVALAEPDFNLRLLDRYLVAAEAAGIEPVIVLNKADLADdeeLEELLAIYEALGYPVla 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 180 TAAGVDDPLLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTSTRSVALPlgdtLSGSGWVID 258
Cdd:COG1162 149 VSAKTGEGLDELRELLKGKTSVLVGQSGVGKSTLINALLPDADLATGEISEkLGRGRHTTTHAELYP----LPGGGWLID 224

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|
gi 15610364 259 TPGIRSFGLAHIQPDNVLLAFSDLAEATRECP-RGCGHMGppaDPECALD 307
Cdd:COG1162 225 TPGFREFGLWHIEPEELAHYFPEFRELAGQCRfRDCTHLH---EPGCAVK 271
YjeQ_EngC cd01854
Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; ...
 118-306 4.02e-72

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: 222.27  E-value: 4.02e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 118 ANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAPAEPFGKQFADLE-----LTVTAAGVDDPLLAVA 192
Cdd:cd01854   1 ANVDQVLIVFSLKEPFFNLRLLDRYLVAAEASGIEPVIVLNKADLVDDEELEELLEIYEklgypVLAVSAKTGEGLDELR 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 193 DLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTSTRSVALPLGdtlsGSGWVIDTPGIRSFGLAHIQ 271
Cdd:cd01854  81 ELLKGKTSVLVGQSGVGKSTLLNALLPELVLATGEISEkLGRGRHTTTHRELFPLP----GGGLIIDTPGFRELGLLHID 156

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 15610364 272 PDNVLLAFSDLAEATRECP-RGCGHMGppaDPECAL 306
Cdd:cd01854 157 PEELAEYFPEFEELAGQCRfRDCTHIN---EPGCAV 189
RsgA_GTPase pfam03193
RsgA GTPase; RsgA (also known as EngC and YjeQ) represents a protein family whose members are ...
 97-268 1.24e-61

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: 194.30  E-value: 1.24e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364    97 PRRTVLRRTADDTDpteRVVVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAP----AEPFGKQF 172
Cdd:pfam03193   3 PRKNLLVRPPAGRR---QIIVANVDQAVIVFSLKEPDFNLNLLDRFLVLAEASGIEPVIVLNKIDLLDeeeeLEELLKIY 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   173 ADLELTVTAAGVDDP--LLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTSTRSVALPLGDt 249
Cdd:pfam03193  80 RAIGYPVLFVSAKTGegIEALKELLKGKTTVLAGQSGVGKSTLLNALLPELDLRTGEISEkLGRGRHTTTHVELFPLPG- 158

                         170
                  ....*....|....*....
gi 15610364   250 lsgSGWVIDTPGIRSFGLA 268
Cdd:pfam03193 159 ---GGLLIDTPGFRELGLW 174
PRK00098 PRK00098
GTPase RsgA; Reviewed
 92-306 1.03e-54

GTPase RsgA; Reviewed


Pssm-ID: 234631 [Multi-domain]  Cd Length: 298  Bit Score: 180.40  E-value: 1.03e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   92 IVRRAPRRTVL-RRTADDTdpteRVVVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAPAEPFGK 170
Cdd:PRK00098  56 ILEIHERKNLLvRPPIFKS----KLIAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEANGIKPIIVLNKIDLLDDLEEAR 131

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364  171 QFADL------ELTVTAAGVDDPLLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTsTRSVA 243
Cdd:PRK00098 132 ELLALyraigyDVLELSAKEGEGLDELKPLLAGKVTVLAGQSGVGKSTLLNALAPDLELKTGEISEaLGRGKHT-TTHVE 210

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15610364  244 L-PlgdtLSGSGWVIDTPGIRSFGLAHIQPDNVLLAFSDLAEATRECP-RGCGHMgppADPECAL 306
Cdd:PRK00098 211 LyD----LPGGGLLIDTPGFSSFGLHDLEAEELEHYFPEFRPLSGDCKfRNCTHL---HEPGCAV 268
TIGR00157 TIGR00157
ribosome small subunit-dependent GTPase A; Members of this protein were designated YjeQ and ...
 86-306 9.69e-45

ribosome small subunit-dependent GTPase A; Members of this protein were designated YjeQ and are now designated RsgA (ribosome small subunit-dependent GTPase A). The strongest motif in the alignment of these proteins is GXSGVGKS[ST], a classic P-loop for nucleotide binding. This protein has been shown to cleave GTP and remain bound to GDP. A role as a regulator of translation has been suggested. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option). [Protein synthesis, Translation factors]


Pssm-ID: 272934 [Multi-domain]  Cd Length: 245  Bit Score: 152.95  E-value: 9.69e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364    86 PDTLARIVRRAPRRTVLRRTaddtdptervVVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAPA 165
Cdd:TIGR00157  13 NPVKVYGGAIAERKNELTRP----------IVANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIEPIIVLNKIDLLDD 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   166 EPFGKQFADL------ELTVTAAGVDDPLLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTS 238
Cdd:TIGR00157  83 EDMEKEQLDIyrnigyQVLMTSSKNQDGLKELIEALQNRISVFAGQSGVGKSSLINALDPSVKQQVNDISSkLGLGKHTT 162

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 15610364   239 TRSVALPLgdtlsGSGWVIDTPGIRSFGLAHIQPDNVLLAFSDLAEATRECP-RGCGHMGppaDPECAL 306
Cdd:TIGR00157 163 THVELFHF-----HGGLIADTPGFNEFGLWHLEPEQLTQGFVEFRDYLGLCKfRDCLHQS---EPGCAV 223
 
Name Accession Description Interval E-value
RsgA COG1162
Ribosome biogenesis GTPase RsgA [Translation, ribosomal structure and biogenesis];
32-307 1.67e-92

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


Pssm-ID: 440776 [Multi-domain]  Cd Length: 300  Bit Score: 277.38  E-value: 1.67e-92
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364  32 AEAAMVVSVDRGRWGcVLGGRPDRRITAMRAReLGRTPIV-------VgddvdvvgdLSGRPDTLARIVRRAPRRTVLRR 104
Cdd:COG1162   1 LMPGRVIKVHGGRYY-VETEDGERYRCRLRGK-LRKKGISpvvgdwvE---------IEPDDDGEGVIEEILPRKNLLVR 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 105 TADDTDPtERVVVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAP---AEPFGKQFADLELTV-- 179
Cdd:COG1162  70 PAVGRDK-EQVIAANIDQVLIVVALAEPDFNLRLLDRYLVAAEAAGIEPVIVLNKADLADdeeLEELLAIYEALGYPVla 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 180 TAAGVDDPLLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTSTRSVALPlgdtLSGSGWVID 258
Cdd:COG1162 149 VSAKTGEGLDELRELLKGKTSVLVGQSGVGKSTLINALLPDADLATGEISEkLGRGRHTTTHAELYP----LPGGGWLID 224

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|
gi 15610364 259 TPGIRSFGLAHIQPDNVLLAFSDLAEATRECP-RGCGHMGppaDPECALD 307
Cdd:COG1162 225 TPGFREFGLWHIEPEELAHYFPEFRELAGQCRfRDCTHLH---EPGCAVK 271
YjeQ_EngC cd01854
Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; ...
 118-306 4.02e-72

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: 222.27  E-value: 4.02e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 118 ANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAPAEPFGKQFADLE-----LTVTAAGVDDPLLAVA 192
Cdd:cd01854   1 ANVDQVLIVFSLKEPFFNLRLLDRYLVAAEASGIEPVIVLNKADLVDDEELEELLEIYEklgypVLAVSAKTGEGLDELR 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 193 DLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTSTRSVALPLGdtlsGSGWVIDTPGIRSFGLAHIQ 271
Cdd:cd01854  81 ELLKGKTSVLVGQSGVGKSTLLNALLPELVLATGEISEkLGRGRHTTTHRELFPLP----GGGLIIDTPGFRELGLLHID 156

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 15610364 272 PDNVLLAFSDLAEATRECP-RGCGHMGppaDPECAL 306
Cdd:cd01854 157 PEELAEYFPEFEELAGQCRfRDCTHIN---EPGCAV 189
RsgA_GTPase pfam03193
RsgA GTPase; RsgA (also known as EngC and YjeQ) represents a protein family whose members are ...
 97-268 1.24e-61

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: 194.30  E-value: 1.24e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364    97 PRRTVLRRTADDTDpteRVVVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAP----AEPFGKQF 172
Cdd:pfam03193   3 PRKNLLVRPPAGRR---QIIVANVDQAVIVFSLKEPDFNLNLLDRFLVLAEASGIEPVIVLNKIDLLDeeeeLEELLKIY 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   173 ADLELTVTAAGVDDP--LLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTSTRSVALPLGDt 249
Cdd:pfam03193  80 RAIGYPVLFVSAKTGegIEALKELLKGKTTVLAGQSGVGKSTLLNALLPELDLRTGEISEkLGRGRHTTTHVELFPLPG- 158

                         170
                  ....*....|....*....
gi 15610364   250 lsgSGWVIDTPGIRSFGLA 268
Cdd:pfam03193 159 ---GGLLIDTPGFRELGLW 174
PRK00098 PRK00098
GTPase RsgA; Reviewed
 92-306 1.03e-54

GTPase RsgA; Reviewed


Pssm-ID: 234631 [Multi-domain]  Cd Length: 298  Bit Score: 180.40  E-value: 1.03e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   92 IVRRAPRRTVL-RRTADDTdpteRVVVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAPAEPFGK 170
Cdd:PRK00098  56 ILEIHERKNLLvRPPIFKS----KLIAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEANGIKPIIVLNKIDLLDDLEEAR 131

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364  171 QFADL------ELTVTAAGVDDPLLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTsTRSVA 243
Cdd:PRK00098 132 ELLALyraigyDVLELSAKEGEGLDELKPLLAGKVTVLAGQSGVGKSTLLNALAPDLELKTGEISEaLGRGKHT-TTHVE 210

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15610364  244 L-PlgdtLSGSGWVIDTPGIRSFGLAHIQPDNVLLAFSDLAEATRECP-RGCGHMgppADPECAL 306
Cdd:PRK00098 211 LyD----LPGGGLLIDTPGFSSFGLHDLEAEELEHYFPEFRPLSGDCKfRNCTHL---HEPGCAV 268
TIGR00157 TIGR00157
ribosome small subunit-dependent GTPase A; Members of this protein were designated YjeQ and ...
 86-306 9.69e-45

ribosome small subunit-dependent GTPase A; Members of this protein were designated YjeQ and are now designated RsgA (ribosome small subunit-dependent GTPase A). The strongest motif in the alignment of these proteins is GXSGVGKS[ST], a classic P-loop for nucleotide binding. This protein has been shown to cleave GTP and remain bound to GDP. A role as a regulator of translation has been suggested. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option). [Protein synthesis, Translation factors]


Pssm-ID: 272934 [Multi-domain]  Cd Length: 245  Bit Score: 152.95  E-value: 9.69e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364    86 PDTLARIVRRAPRRTVLRRTaddtdptervVVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAPA 165
Cdd:TIGR00157  13 NPVKVYGGAIAERKNELTRP----------IVANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIEPIIVLNKIDLLDD 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   166 EPFGKQFADL------ELTVTAAGVDDPLLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTS 238
Cdd:TIGR00157  83 EDMEKEQLDIyrnigyQVLMTSSKNQDGLKELIEALQNRISVFAGQSGVGKSSLINALDPSVKQQVNDISSkLGLGKHTT 162

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 15610364   239 TRSVALPLgdtlsGSGWVIDTPGIRSFGLAHIQPDNVLLAFSDLAEATRECP-RGCGHMGppaDPECAL 306
Cdd:TIGR00157 163 THVELFHF-----HGGLIADTPGFNEFGLWHLEPEQLTQGFVEFRDYLGLCKfRDCLHQS---EPGCAV 223
PRK12288 PRK12288
small ribosomal subunit biogenesis GTPase RsgA;
92-306 8.08e-37

small ribosomal subunit biogenesis GTPase RsgA;


Pssm-ID: 237039 [Multi-domain]  Cd Length: 347  Bit Score: 134.98  E-value: 8.08e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   92 IVRRAPRRTVLRRtADDTDPTeRVVVANADQLLIVVALAdPPPRTGLVDRALIAAYAGGLTPILCLTKTDLAPAEpfGKQ 171
Cdd:PRK12288  95 VEAVHPRTSVLTR-PDYYDGV-KPIAANIDQIVIVSAVL-PELSLNIIDRYLVACETLGIEPLIVLNKIDLLDDE--GRA 169

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364  172 FADLELTV--------------TAAGVDdpllAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTEI-GRGRH 236
Cdd:PRK12288 170 FVNEQLDIyrnigyrvlmvsshTGEGLE----ELEAALTGRISIFVGQSGVGKSSLINALLPEAEILVGDVSDNsGLGQH 245

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15610364  237 TST--RSVALPLGdtlsgsGWVIDTPGIRSFGLAHIQPDNVLLAFSDLAEATRECP-RGCGHMGppaDPECAL 306
Cdd:PRK12288 246 TTTaaRLYHFPHG------GDLIDSPGVREFGLWHLEPEQVTQGFVEFRDYLGTCKfRDCKHDD---DPGCAL 309
PRK12289 PRK12289
small ribosomal subunit biogenesis GTPase RsgA;
97-305 8.85e-33

small ribosomal subunit biogenesis GTPase RsgA;


Pssm-ID: 237040 [Multi-domain]  Cd Length: 352  Bit Score: 124.36  E-value: 8.85e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   97 PRRTVLRRTAddtdptervvVANADQLLIVVALADPPPRTGLVDRALIAAYAGGLTPILCLTKTDL-APAEPfgKQFAD- 174
Cdd:PRK12289  77 PRKTELDRPP----------VANADQILLVFALAEPPLDPWQLSRFLVKAESTGLEIVLCLNKADLvSPTEQ--QQWQDr 144

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364  175 --------LELTVTAagvDDPLLAVADLLAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTE-IGRGRHTsTRSVALp 245
Cdd:PRK12289 145 lqqwgyqpLFISVET---GIGLEALLEQLRNKITVVAGPSGVGKSSLINRLIPDVELRVGKVSGkLGRGRHT-TRHVEL- 219

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15610364  246 lgDTLSGSGWVIDTPGirsFGLAHIQPDNVLLAF------SDLAEAtrECP-RGCGHMGppaDPECA 305
Cdd:PRK12289 220 --FELPNGGLLADTPG---FNQPDLDCSPRELAHyfpearQRLAQG--NCQfNDCLHRD---EPNCA 276
PRK01889 PRK01889
GTPase RsgA; Reviewed
 85-305 8.24e-31

GTPase RsgA; Reviewed


Pssm-ID: 234988 [Multi-domain]  Cd Length: 356  Bit Score: 119.27  E-value: 8.24e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   85 RPDTLARIVRRAPRRTVLRRTADDTDPTERVVVANADQLLIVVALADP--PPRtglVDRALIAAYAGGLTPILCLTKTDL 162
Cdd:PRK01889  78 DNEKKARIVRLLPRRSLFSRKAAGTRSEEQLIAANVDTVFIVCSLNHDfnLRR---IERYLALAWESGAEPVIVLTKADL 154

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364  163 AP-AEPFGKQFADLeltvtAAGVddPLLAV-------ADLLA-----GKITVLLGHSGVGKSTLVNRLVPEADRAVGEVT 229
Cdd:PRK01889 155 CEdAEEKIAEVEAL-----APGV--PVLAVsaldgegLDVLAawlsgGKTVALLGSSGVGKSTLVNALLGEEVQKTGAVR 227

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364  230 EI-GRGRHTST-RS-VALPLGDTLsgsgwvIDTPGIRSFGLAHIQpDNVLLAFSDLAEATRECP-RGCGHMgppADPECA 305
Cdd:PRK01889 228 EDdSKGRHTTThRElHPLPSGGLL------IDTPGMRELQLWDAE-DGVEETFSDIEELAAQCRfRDCAHE---AEPGCA 297
Gem1 COG1100
GTPase SAR1 family domain [General function prediction only];
198-269 5.02e-05

GTPase SAR1 family domain [General function prediction only];


Pssm-ID: 440717 [Multi-domain]  Cd Length: 177  Bit Score: 43.43  E-value: 5.02e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15610364 198 KItVLLGHSGVGKSTLVNRLVpeaDRAVGEVTEIG-RGRHTSTRSVALPLGD-TLsgsgWVIDTPGIRSFGLAH 269
Cdd:COG1100   5 KI-VVVGTGGVGKTSLVNRLV---GDIFSLEKYLStNGVTIDKKELKLDGLDvDL----VIWDTPGQDEFRETR 70
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 201-277 5.32e-05

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: 41.84  E-value: 5.32e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364   201 VLLGHSGVGKSTLVNRLVpeadRAVGEVTEI-GRGRHTSTRSValplgdTLSGSGWV-IDTPGI-----------RSFgL 267
Cdd:pfam01926   3 ALVGRPNVGKSTLINALT----GAKAIVSDYpGTTRDPNEGRL------ELKGKQIIlVDTPGLiegasegeglgRAF-L 71

                          90
                  ....*....|
gi 15610364   268 AHIQPDNVLL 277
Cdd:pfam01926  72 AIIEADLILF 81
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 201-266 8.00e-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: 42.44  E-value: 8.00e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15610364 201 VLLGHSGVGKSTLVNRLVPeadravGEVTEIGRGRHTSTRSVALPLGDTLSGSGWVI-DTPGIRSFG 266
Cdd:cd00882   1 VVVGRGGVGKSSLLNALLG------GEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLvDTPGLDEFG 61
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 201-262 3.84e-04

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: 40.31  E-value: 3.84e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15610364 201 VLLGHSGVGKSTLVNRLVpeaDRAVGEVTEI-GRGRHTSTRSVALPLGDTLSgsgwVIDTPGI 262
Cdd:cd00880   1 AIFGRPNVGKSSLLNALL---GQNVGIVSPIpGTTRDPVRKEWELLPLGPVV----LIDTPGL 56
YqeH cd01855
Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH ...
 202-262 9.50e-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: 39.56  E-value: 9.50e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 15610364 202 LLGHSGVGKSTLVNRLVPEADRAVGEVTEIGRGrhtsTRSvALPlGDTLS-------GSGWVIDTPGI 262
Cdd:cd01855 130 VVGATNVGKSTLINALLKSNGGKVQAQALVQRL----TVS-PIP-GTTLGlikiplgEGKKLYDTPGI 191
YlqF_related_GTPase cd01849
Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, ...
 154-262 1.29e-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: 38.52  E-value: 1.29e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15610364 154 ILCLTKTDLAPAEPFGK---QFADLELTVTA---AGVDDPLLAVADLL---------AGKITVLL-GHSGVGKSTLVNRL 217
Cdd:cd01849  32 IMVLNKADLVPKEVLRKwvaELSELYGTKTFfisATNGQGILKLKAEItkqklklkyKKGIRVGVvGLPNVGKSSFINAL 111

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
gi 15610364 218 VPEadraVGEVTeiGRGRHTSTRSVALPLGDTLSgsgwVIDTPGI 262
Cdd:cd01849 112 LNK----FKLKV--GSIPGTTKLQQDVKLDKEIY----LYDTPGI 146
Gmk COG0194
Guanylate kinase [Nucleotide transport and metabolism];
197-217 3.28e-03

Guanylate kinase [Nucleotide transport and metabolism];


Pssm-ID: 439964  Cd Length: 190  Bit Score: 38.13  E-value: 3.28e-03
                        10        20
                ....*....|....*....|.
gi 15610364 197 GKITVLLGHSGVGKSTLVNRL 217
Cdd:COG0194   2 GKLIVLSGPSGAGKTTLVKAL 22
ABC_tran pfam00005
ABC transporter; ABC transporters for a large family of proteins responsible for translocation ...
 193-215 4.38e-03

ABC transporter; ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain pfam00664. These four domains may belong to a single polypeptide or belong in different polypeptide chains.


Pssm-ID: 394964 [Multi-domain]  Cd Length: 150  Bit Score: 37.24  E-value: 4.38e-03
                          10        20
                  ....*....|....*....|...
gi 15610364   193 DLLAGKITVLLGHSGVGKSTLVN 215
Cdd:pfam00005   7 TLNPGEILALVGPNGAGKSTLLK 29
Roc pfam08477
Ras of Complex, Roc, domain of DAPkinase; Roc, or Ras of Complex, proteins are mitochondrial ...
 198-218 4.76e-03

Ras of Complex, Roc, domain of DAPkinase; Roc, or Ras of Complex, proteins are mitochondrial Rho proteins (Miro-1, and Miro-2) and atypical Rho GTPases. Full-length proteins have a unique domain organization, with tandem GTP-binding domains and two EF hand domains (pfam00036) that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis.


Pssm-ID: 462490 [Multi-domain]  Cd Length: 114  Bit Score: 36.33  E-value: 4.76e-03
                          10        20
                  ....*....|....*....|.
gi 15610364   198 KItVLLGHSGVGKSTLVNRLV 218
Cdd:pfam08477   1 KV-VLLGDSGVGKTSLLKRFV 20
ABC_subfamily_A cd03263
ATP-binding cassette domain of the lipid transporters, subfamily A; The ABCA subfamily ...
 185-247 6.97e-03

ATP-binding cassette domain of the lipid transporters, subfamily A; The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.


Pssm-ID: 213230 [Multi-domain]  Cd Length: 220  Bit Score: 37.48  E-value: 6.97e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15610364 185 DDPLLAVADL----LAGKITVLLGHSGVGKSTLVNRLVPEADRAVGEVTEIGRGRHTSTRSVALPLG 247
Cdd:cd03263  12 KGTKPAVDDLslnvYKGEIFGLLGHNGAGKTTTLKMLTGELRPTSGTAYINGYSIRTDRKAARQSLG 78
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
208-263 8.22e-03

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


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 37.70  E-value: 8.22e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 15610364 208 VGKSTLVNRLVPEaDRAVgeVTEI-GrgrhTsTR-SVALPLgdTLSGSGWV-IDTPGIR 263
Cdd:COG1160 186 VGKSSLINALLGE-ERVI--VSDIaG----T-TRdSIDTPF--ERDGKKYTlIDTAGIR 234
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
 200-263 8.53e-03

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: 36.32  E-value: 8.53e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15610364 200 TVLLGHSGVGKSTLVNRLVPEaDRAVgeVTEIgrgrHTSTRsvalplgDTLSGS----GW---VIDTPGIR 263
Cdd:cd04164   6 VVIAGKPNVGKSSLLNALAGR-DRAI--VSDI----AGTTR-------DVIEEEidlgGIpvrLIDTAGLR 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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