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Conserved domains on  [gi|1063696889|ref|NP_001322570|]
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Minichromosome maintenance (MCM2/3/5) family protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK12289 super family cl36096
small ribosomal subunit biogenesis GTPase RsgA;
81-268 3.93e-65

small ribosomal subunit biogenesis GTPase RsgA;


The actual alignment was detected with superfamily member PRK12289:

Pssm-ID: 237040 [Multi-domain]  Cd Length: 352  Bit Score: 207.95  E-value: 3.93e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889  81 GTIATALADYMRVIVQDVPESDNGEddkigvELLCVVRKLLKKIGRTVLVGDKVLVDKVDWVDRRAKIINVFDRVSEVLD 160
Cdd:PRK12289   11 GTVVAVQANFYRVQLDEPQNLNPPS------LLLCTRRTRLKKIGQQVMVGDRVIVEEPDWQGQRGAIAEVLPRKTELDR 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 161 PPVANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCELVTQEEVESWKIRLRSWNYEPLFCSVGTKVGID 240
Cdd:PRK12289   85 PPVANADQILLVFALAEPPLDPWQLSRFLVKAESTGLEIVLCLNKADLVSPTEQQQWQDRLQQWGYQPLFISVETGIGLE 164

                         170       180
                  ....*....|....*....|....*...
gi 1063696889 241 EIAFNLRNQTSVIVGPSGVGKSSLINIL 268
Cdd:PRK12289  165 ALLEQLRNKITVVAGPSGVGKSSLINRL 192
 
Name Accession Description Interval E-value
PRK12289 PRK12289
small ribosomal subunit biogenesis GTPase RsgA;
81-268 3.93e-65

small ribosomal subunit biogenesis GTPase RsgA;


Pssm-ID: 237040 [Multi-domain]  Cd Length: 352  Bit Score: 207.95  E-value: 3.93e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889  81 GTIATALADYMRVIVQDVPESDNGEddkigvELLCVVRKLLKKIGRTVLVGDKVLVDKVDWVDRRAKIINVFDRVSEVLD 160
Cdd:PRK12289   11 GTVVAVQANFYRVQLDEPQNLNPPS------LLLCTRRTRLKKIGQQVMVGDRVIVEEPDWQGQRGAIAEVLPRKTELDR 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 161 PPVANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCELVTQEEVESWKIRLRSWNYEPLFCSVGTKVGID 240
Cdd:PRK12289   85 PPVANADQILLVFALAEPPLDPWQLSRFLVKAESTGLEIVLCLNKADLVSPTEQQQWQDRLQQWGYQPLFISVETGIGLE 164

                         170       180
                  ....*....|....*....|....*...
gi 1063696889 241 EIAFNLRNQTSVIVGPSGVGKSSLINIL 268
Cdd:PRK12289  165 ALLEQLRNKITVVAGPSGVGKSSLINRL 192
RsgA COG1162
Ribosome biogenesis GTPase RsgA [Translation, ribosomal structure and biogenesis];
81-268 5.00e-38

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


Pssm-ID: 440776 [Multi-domain]  Cd Length: 300  Bit Score: 136.01  E-value: 5.00e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889  81 GTIATALADYMRVIVQDvpesdngeddkiGVELLCVVRKLLKKIGRTVLVGDKVLVDKVDwvDRRAKIINVFDRVSEVLD 160
Cdd:COG1162     4 GRVIKVHGGRYYVETED------------GERYRCRLRGKLRKKGISPVVGDWVEIEPDD--DGEGVIEEILPRKNLLVR 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 161 PPV---------ANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCELVTQEEVESWKIRLRSWNYEPLFC 231
Cdd:COG1162    70 PAVgrdkeqviaANIDQVLIVVALAEPDFNLRLLDRYLVAAEAAGIEPVIVLNKADLADDEELEELLAIYEALGYPVLAV 149

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1063696889 232 SVGTKVGIDEIAFNLRNQTSVIVGPSGVGKSSLINIL 268
Cdd:COG1162   150 SAKTGEGLDELRELLKGKTSVLVGQSGVGKSTLINAL 186
RsgA_GTPase pfam03193
RsgA GTPase; RsgA (also known as EngC and YjeQ) represents a protein family whose members are ...
 151-271 1.48e-37

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: 131.12  E-value: 1.48e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 151 VFDRVSEVLDPP-------VANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCELVT-QEEVESWKIRLR 222
Cdd:pfam03193   1 VLPRKNLLVRPPagrrqiiVANVDQAVIVFSLKEPDFNLNLLDRFLVLAEASGIEPVIVLNKIDLLDeEEELEELLKIYR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1063696889 223 SWNYEPLFCSVGTKVGIDEIAFNLRNQTSVIVGPSGVGKSSLINILRSS 271
Cdd:pfam03193  81 AIGYPVLFVSAKTGEGIEALKELLKGKTTVLAGQSGVGKSTLLNALLPE 129
YjeQ_EngC cd01854
Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; ...
 164-268 5.15e-36

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: 128.28  E-value: 5.15e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 164 ANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCELVTQEEVESWKIRLRSWNYEPLFCSVGTKVGIDEIA 243
Cdd:cd01854     1 ANVDQVLIVFSLKEPFFNLRLLDRYLVAAEASGIEPVIVLNKADLVDDEELEELLEIYEKLGYPVLAVSAKTGEGLDELR 80

                          90       100
                  ....*....|....*....|....*
gi 1063696889 244 FNLRNQTSVIVGPSGVGKSSLINIL 268
Cdd:cd01854    81 ELLKGKTSVLVGQSGVGKSTLLNAL 105
TIGR00157 TIGR00157
ribosome small subunit-dependent GTPase A; Members of this protein were designated YjeQ and ...
 128-271 8.78e-34

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: 123.29  E-value: 8.78e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 128 VLVGDKVLVDkvDWVDRRAKIINVFDRVSEVLDPPVANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCE 207
Cdd:TIGR00157   1 LVVGDRVVWE--PGNPVKVYGGAIAERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIEPIIVLNKID 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1063696889 208 LVTQEEVES-WKIRLRSWNYEPLFCSVGTKVGIDEIAFNLRNQTSVIVGPSGVGKSSLINILRSS 271
Cdd:TIGR00157  79 LLDDEDMEKeQLDIYRNIGYQVLMTSSKNQDGLKELIEALQNRISVFAGQSGVGKSSLINALDPS 143
 
Name Accession Description Interval E-value
PRK12289 PRK12289
small ribosomal subunit biogenesis GTPase RsgA;
81-268 3.93e-65

small ribosomal subunit biogenesis GTPase RsgA;


Pssm-ID: 237040 [Multi-domain]  Cd Length: 352  Bit Score: 207.95  E-value: 3.93e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889  81 GTIATALADYMRVIVQDVPESDNGEddkigvELLCVVRKLLKKIGRTVLVGDKVLVDKVDWVDRRAKIINVFDRVSEVLD 160
Cdd:PRK12289   11 GTVVAVQANFYRVQLDEPQNLNPPS------LLLCTRRTRLKKIGQQVMVGDRVIVEEPDWQGQRGAIAEVLPRKTELDR 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 161 PPVANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCELVTQEEVESWKIRLRSWNYEPLFCSVGTKVGID 240
Cdd:PRK12289   85 PPVANADQILLVFALAEPPLDPWQLSRFLVKAESTGLEIVLCLNKADLVSPTEQQQWQDRLQQWGYQPLFISVETGIGLE 164

                         170       180
                  ....*....|....*....|....*...
gi 1063696889 241 EIAFNLRNQTSVIVGPSGVGKSSLINIL 268
Cdd:PRK12289  165 ALLEQLRNKITVVAGPSGVGKSSLINRL 192
RsgA COG1162
Ribosome biogenesis GTPase RsgA [Translation, ribosomal structure and biogenesis];
81-268 5.00e-38

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


Pssm-ID: 440776 [Multi-domain]  Cd Length: 300  Bit Score: 136.01  E-value: 5.00e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889  81 GTIATALADYMRVIVQDvpesdngeddkiGVELLCVVRKLLKKIGRTVLVGDKVLVDKVDwvDRRAKIINVFDRVSEVLD 160
Cdd:COG1162     4 GRVIKVHGGRYYVETED------------GERYRCRLRGKLRKKGISPVVGDWVEIEPDD--DGEGVIEEILPRKNLLVR 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 161 PPV---------ANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCELVTQEEVESWKIRLRSWNYEPLFC 231
Cdd:COG1162    70 PAVgrdkeqviaANIDQVLIVVALAEPDFNLRLLDRYLVAAEAAGIEPVIVLNKADLADDEELEELLAIYEALGYPVLAV 149

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1063696889 232 SVGTKVGIDEIAFNLRNQTSVIVGPSGVGKSSLINIL 268
Cdd:COG1162   150 SAKTGEGLDELRELLKGKTSVLVGQSGVGKSTLINAL 186
RsgA_GTPase pfam03193
RsgA GTPase; RsgA (also known as EngC and YjeQ) represents a protein family whose members are ...
 151-271 1.48e-37

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: 131.12  E-value: 1.48e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 151 VFDRVSEVLDPP-------VANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCELVT-QEEVESWKIRLR 222
Cdd:pfam03193   1 VLPRKNLLVRPPagrrqiiVANVDQAVIVFSLKEPDFNLNLLDRFLVLAEASGIEPVIVLNKIDLLDeEEELEELLKIYR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1063696889 223 SWNYEPLFCSVGTKVGIDEIAFNLRNQTSVIVGPSGVGKSSLINILRSS 271
Cdd:pfam03193  81 AIGYPVLFVSAKTGEGIEALKELLKGKTTVLAGQSGVGKSTLLNALLPE 129
YjeQ_EngC cd01854
Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; ...
 164-268 5.15e-36

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: 128.28  E-value: 5.15e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 164 ANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCELVTQEEVESWKIRLRSWNYEPLFCSVGTKVGIDEIA 243
Cdd:cd01854     1 ANVDQVLIVFSLKEPFFNLRLLDRYLVAAEASGIEPVIVLNKADLVDDEELEELLEIYEKLGYPVLAVSAKTGEGLDELR 80

                          90       100
                  ....*....|....*....|....*
gi 1063696889 244 FNLRNQTSVIVGPSGVGKSSLINIL 268
Cdd:cd01854    81 ELLKGKTSVLVGQSGVGKSTLLNAL 105
TIGR00157 TIGR00157
ribosome small subunit-dependent GTPase A; Members of this protein were designated YjeQ and ...
 128-271 8.78e-34

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: 123.29  E-value: 8.78e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 128 VLVGDKVLVDkvDWVDRRAKIINVFDRVSEVLDPPVANVDHLVILFSLDQPKIDPFTLTRFLVEAESIGIRITVALNKCE 207
Cdd:TIGR00157   1 LVVGDRVVWE--PGNPVKVYGGAIAERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIEPIIVLNKID 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1063696889 208 LVTQEEVES-WKIRLRSWNYEPLFCSVGTKVGIDEIAFNLRNQTSVIVGPSGVGKSSLINILRSS 271
Cdd:TIGR00157  79 LLDDEDMEKeQLDIYRNIGYQVLMTSSKNQDGLKELIEALQNRISVFAGQSGVGKSSLINALDPS 143
PRK00098 PRK00098
GTPase RsgA; Reviewed
 110-268 2.62e-29

GTPase RsgA; Reviewed


Pssm-ID: 234631 [Multi-domain]  Cd Length: 298  Bit Score: 112.99  E-value: 2.62e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 110 GVELLCVVRKLLKKIGRTVLVGDKVLVDKVDwvDRRAKIINVFDRVSEVLDPPV-------ANVDHLVILFSLDQPKIDP 182
Cdd:PRK00098   20 GQVYQCRARGKFRKKTNTPAVGDRVEFSAEN--NDEGVILEIHERKNLLVRPPIfkskliaANVDQAVLVFAAKEPDFST 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 183 FTLTRFLVEAESIGIRITVALNKCELVTQ-EEVESWKIRLRSWNYEPLFCSVGTKVGIDEIAFNLRNQTSVIVGPSGVGK 261
Cdd:PRK00098   98 DLLDRFLVLAEANGIKPIIVLNKIDLLDDlEEARELLALYRAIGYDVLELSAKEGEGLDELKPLLAGKVTVLAGQSGVGK 177


                  ....*..
gi 1063696889 262 SSLINIL 268
Cdd:PRK00098  178 STLLNAL 184
PRK12288 PRK12288
small ribosomal subunit biogenesis GTPase RsgA;
126-268 1.23e-19

small ribosomal subunit biogenesis GTPase RsgA;


Pssm-ID: 237039 [Multi-domain]  Cd Length: 347  Bit Score: 87.22  E-value: 1.23e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 126 RTVLVGDKVLvdkvdWvdRRAK---------IINVFDRVSEVLDP-------PVA-NVDHLVILFSLdQPKIDPFTLTRF 188
Cdd:PRK12288   71 RSLVTGDRVV-----W--RPGKealegvsgvVEAVHPRTSVLTRPdyydgvkPIAaNIDQIVIVSAV-LPELSLNIIDRY 142

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 189 LVEAESIGIRITVALNKCELVTQEE---VESWKIRLRSWNYEPLFCSVGTKVGIDEIAFNLRNQTSVIVGPSGVGKSSLI 265
Cdd:PRK12288  143 LVACETLGIEPLIVLNKIDLLDDEGrafVNEQLDIYRNIGYRVLMVSSHTGEGLEELEAALTGRISIFVGQSGVGKSSLI 222


                  ...
gi 1063696889 266 NIL 268
Cdd:PRK12288  223 NAL 225
MJ1464 cd01859
An uncharacterized, circularly permuted subfamily of the Ras GTPases; This family represents ...
 191-269 4.87e-09

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


Pssm-ID: 206752 [Multi-domain]  Cd Length: 157  Bit Score: 54.25  E-value: 4.87e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 191 EAESIGIRITVALNKCELVTQEEVESWKIRLRSWNYEPLFCS----VGTKV---GIDEIAFNLRNQTSVIVGPSGVGKSS 263
Cdd:cd01859    35 MALELGKKLIIVLNKADLVPREVLEKWKEVFESEGLPVVYVSarerLGTRIlrrTIKELAIDGKPVIVGVVGYPKVGKSS 114


                  ....*.
gi 1063696889 264 LINILR 269
Cdd:cd01859   115 IINALK 120
PRK01889 PRK01889
GTPase RsgA; Reviewed
 125-268 1.02e-08

GTPase RsgA; Reviewed


Pssm-ID: 234988 [Multi-domain]  Cd Length: 356  Bit Score: 55.32  E-value: 1.02e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 125 GRTVLVGDKVLVDKvdwvDRRAKIINVFDRVS-------------EVLdppVANVDHLVILFSLDQPkIDPFTLTRFLVE 191
Cdd:PRK01889   66 GDRPAVGDWVLLDN----EKKARIVRLLPRRSlfsrkaagtrseeQLI---AANVDTVFIVCSLNHD-FNLRRIERYLAL 137

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 192 AESIGIRITVALNKCELVtqEEVESWKIRLRSWNYEPLFCSVG--TKVGIDEIAFNLRN-QTSVIVGPSGVGKSSLINIL 268
Cdd:PRK01889  138 AWESGAEPVIVLTKADLC--EDAEEKIAEVEALAPGVPVLAVSalDGEGLDVLAAWLSGgKTVALLGSSGVGKSTLVNAL 215
YlqF_related_GTPase cd01849
Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, ...
 196-271 5.68e-07

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: 48.15  E-value: 5.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 196 GIRITVALNKCELVTQEEVESWKIRLR-SWNYEPLFCSVGTKVGIDEIAFNLRNQTSV----------IVGPSGVGKSSL 264
Cdd:cd01849    28 NKKLIMVLNKADLVPKEVLRKWVAELSeLYGTKTFFISATNGQGILKLKAEITKQKLKlkykkgirvgVVGLPNVGKSSF 107


                  ....*..
gi 1063696889 265 INILRSS 271
Cdd:cd01849   108 INALLNK 114
CydD COG4988
ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease ...
 230-277 4.76e-05

ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 444012 [Multi-domain]  Cd Length: 563  Bit Score: 44.75  E-value: 4.76e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1063696889 230 FCSVGTKVGIDEIAFNLR-NQTSVIVGPSGVGKSSLINIL---RSSYGGDIK 277
Cdd:COG4988   344 FSYPGGRPALDGLSLTIPpGERVALVGPSGAGKSTLLNLLlgfLPPYSGSIL 395
PRK11174 PRK11174
cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
 242-268 9.83e-04

cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed


Pssm-ID: 236870 [Multi-domain]  Cd Length: 588  Bit Score: 40.60  E-value: 9.83e-04
                          10        20
                  ....*....|....*....|....*...
gi 1063696889 242 IAFNLR-NQTSVIVGPSGVGKSSLINIL 268
Cdd:PRK11174  369 LNFTLPaGQRIALVGPSGAGKTSLLNAL 396
ABC_NrtD_SsuB_transporters cd03293
ATP-binding cassette domain of the nitrate and sulfonate transporters; NrtD and SsuB are the ...
 234-268 2.92e-03

ATP-binding cassette domain of the nitrate and sulfonate transporters; NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213260 [Multi-domain]  Cd Length: 220  Bit Score: 38.22  E-value: 2.92e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1063696889 234 GTKVGIDEIAFNL-RNQTSVIVGPSGVGKSSLINIL 268
Cdd:cd03293    15 GAVTALEDISLSVeEGEFVALVGPSGCGKSTLLRII 50
ABC_ATPase cd00267
ATP-binding cassette transporter nucleotide-binding domain; ABC transporters are a large ...
 232-268 4.05e-03

ATP-binding cassette transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213179 [Multi-domain]  Cd Length: 157  Bit Score: 37.22  E-value: 4.05e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1063696889 232 SVGTKVGIDEIAFNL-RNQTSVIVGPSGVGKSSLINIL 268
Cdd:cd00267     8 RYGGRTALDNVSLTLkAGEIVALVGPNGSGKSTLLRAI 45
PRK13657 PRK13657
glucan ABC transporter ATP-binding protein/ permease;
234-272 4.12e-03

glucan ABC transporter ATP-binding protein/ permease;


Pssm-ID: 184214 [Multi-domain]  Cd Length: 588  Bit Score: 38.40  E-value: 4.12e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1063696889 234 GTKVGIDEIAFNLR-NQTSVIVGPSGVGKSSLINILRSSY 272
Cdd:PRK13657  346 NSRQGVEDVSFEAKpGQTVAIVGPTGAGKSTLINLLQRVF 385
HSR1_MMR1 cd01857
A circularly permuted subfamily of the Ras GTPases; Human HSR1 is localized to the human MHC ...
 203-278 5.08e-03

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: 36.44  E-value: 5.08e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063696889 203 LNKCELVTQEEVESWKIRLRSWNYEPLFCSVgtkvgideiafnLRNQTSVIVGPSGVGKSSLINILR-------SSYGGD 275
Cdd:cd01857    49 LNKADLVTEEQRKAWARYFKKEGIVVLFFSA------------LNEATIGLVGYPNVGKSSLINALVgskkvsvSSTPGK 116


                  ...
gi 1063696889 276 IKH 278
Cdd:cd01857   117 TKH 119
CydD TIGR02857
thiol reductant ABC exporter, CydD subunit; The gene pair cydCD encodes an ABC-family ...
 234-268 8.07e-03

thiol reductant ABC exporter, CydD subunit; The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex. Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD


Pssm-ID: 274323 [Multi-domain]  Cd Length: 529  Bit Score: 37.65  E-value: 8.07e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1063696889 234 GTKVGIDEIAFNLRNQTSV-IVGPSGVGKSSLINIL 268
Cdd:TIGR02857 333 GRRPALRPVSFTVPPGERVaLVGPSGAGKSTLLNLL 368
FetA COG4619
ABC-type iron transporter FetAB, ATPase component [Inorganic ion transport and metabolism];
226-276 8.67e-03

ABC-type iron transporter FetAB, ATPase component [Inorganic ion transport and metabolism];


Pssm-ID: 443661 [Multi-domain]  Cd Length: 209  Bit Score: 36.72  E-value: 8.67e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1063696889 226 YEPLFCSVGTKVGIDEIAFNLR-NQTSVIVGPSGVGKSSL---INILRSSYGGDI 276
Cdd:COG4619     3 LEGLSFRVGGKPILSPVSLTLEaGECVAITGPSGSGKSTLlraLADLDPPTSGEI 57
Gmk COG0194
Guanylate kinase [Nucleotide transport and metabolism];
252-272 9.89e-03

Guanylate kinase [Nucleotide transport and metabolism];


Pssm-ID: 439964  Cd Length: 190  Bit Score: 36.20  E-value: 9.89e-03
                          10        20
                  ....*....|....*....|.
gi 1063696889 252 VIVGPSGVGKSSLINILRSSY 272
Cdd:COG0194     6 VLSGPSGAGKTTLVKALLERD 26
TauB COG1116
ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion ...
 252-268 9.96e-03

ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism];


Pssm-ID: 440733 [Multi-domain]  Cd Length: 260  Bit Score: 36.99  E-value: 9.96e-03
                          10
                  ....*....|....*..
gi 1063696889 252 VIVGPSGVGKSSLINIL 268
Cdd:COG1116    41 ALVGPSGCGKSTLLRLI 57
 
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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