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Conserved domains on  [gi|1159839505|ref|WP_079375786|]
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redox-regulated ATPase YchF [Helicobacter pylori]

Protein Classification

redox-regulated ATPase YchF( domain architecture ID 17564584)

redox-regulated ATPase YchF belongs to the Obg (GTPase) family, but actually prefers ATP, associates with ribosomes, and appears to be regulated by the redox state of the cell

CATH:  3.40.50.300|3.10.20.30|1.10.150.300
EC:  3.6.-.-
Gene Ontology:  GO:0005524|GO:0016887|GO:0046872|GO:0043022
PubMed:  16333325|11489118|21527254
SCOP:  4004039

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GTP1 COG0012
Ribosome-binding ATPase YchF, GTP1/OBG family [Translation, ribosomal structure and biogenesis] ...
 3-366 0e+00

Ribosome-binding ATPase YchF, GTP1/OBG family [Translation, ribosomal structure and biogenesis];


:

Pssm-ID: 439783 [Multi-domain]  Cd Length: 362  Bit Score: 632.83  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   3 LSVGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDRRLDALAQIVKPERILHSVVEFVDIAGLIKGAS 82
Cdd:COG0012     1 LKCGIVGLPNVGKSTLFNALTKA-GAEAANYPFCTIEPNVGVVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGAS 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  83 KGEGLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIATLDKRIDRLQKALKS-SKDAKNL 161
Cdd:COG0012    80 KGEGLGNQFLANIREVDAIVHVVRCFEDDNVTHVEGSVDPLRDIETINTELILADLETVEKRLERLEKKAKSgDKEAKAE 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 162 LECALSLKTHLEELKPAKTFPLNTSEafLELDKELRFLSHKKMIYAANVGEEYLNALNEHAKKVQNYAKDQKSEFVALCA 241
Cdd:COG0012   160 LELLEKLKEHLEEGKPARSLELSEEE--KKLLKELQLLTAKPVLYVANVDEDDLAEGNPYVEKVREYAAKEGAEVVVICA 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 242 KLEEEMVSMSEDEVKEFLQSLGVEESGLEKTIRLSFKELGLINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFEKGFIR 321
Cdd:COG0012   238 KIEAELAELDEEERAEFLEELGLEESGLDRLIRAGYDLLGLITFFTAGPKEVRAWTIKKGTTAPQAAGVIHTDFERGFIR 317

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*
gi 1159839505 322 AETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDVLHFRFNV 366
Cdd:COG0012   318 AEVISYDDLIAYGSEAAAKEAGKLRLEGKDYVVQDGDVIHFRFNV 362
 
Name Accession Description Interval E-value
GTP1 COG0012
Ribosome-binding ATPase YchF, GTP1/OBG family [Translation, ribosomal structure and biogenesis] ...
 3-366 0e+00

Ribosome-binding ATPase YchF, GTP1/OBG family [Translation, ribosomal structure and biogenesis];


Pssm-ID: 439783 [Multi-domain]  Cd Length: 362  Bit Score: 632.83  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   3 LSVGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDRRLDALAQIVKPERILHSVVEFVDIAGLIKGAS 82
Cdd:COG0012     1 LKCGIVGLPNVGKSTLFNALTKA-GAEAANYPFCTIEPNVGVVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGAS 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  83 KGEGLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIATLDKRIDRLQKALKS-SKDAKNL 161
Cdd:COG0012    80 KGEGLGNQFLANIREVDAIVHVVRCFEDDNVTHVEGSVDPLRDIETINTELILADLETVEKRLERLEKKAKSgDKEAKAE 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 162 LECALSLKTHLEELKPAKTFPLNTSEafLELDKELRFLSHKKMIYAANVGEEYLNALNEHAKKVQNYAKDQKSEFVALCA 241
Cdd:COG0012   160 LELLEKLKEHLEEGKPARSLELSEEE--KKLLKELQLLTAKPVLYVANVDEDDLAEGNPYVEKVREYAAKEGAEVVVICA 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 242 KLEEEMVSMSEDEVKEFLQSLGVEESGLEKTIRLSFKELGLINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFEKGFIR 321
Cdd:COG0012   238 KIEAELAELDEEERAEFLEELGLEESGLDRLIRAGYDLLGLITFFTAGPKEVRAWTIKKGTTAPQAAGVIHTDFERGFIR 317

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*
gi 1159839505 322 AETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDVLHFRFNV 366
Cdd:COG0012   318 AEVISYDDLIAYGSEAAAKEAGKLRLEGKDYVVQDGDVIHFRFNV 362
PTZ00258 PTZ00258
GTP-binding protein; Provisional
 3-366 3.99e-163

GTP-binding protein; Provisional


Pssm-ID: 240334 [Multi-domain]  Cd Length: 390  Bit Score: 461.72  E-value: 3.99e-163
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   3 LSVGIVGLPNVGKSSTFNALTKtQNAESANYPFCTIEPNKAIVNVPDRRLDALAQIVKPERILHSVVEFVDIAGLIKGAS 82
Cdd:PTZ00258   22 LKMGIVGLPNVGKSTTFNALCK-QQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGAS 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  83 KGEGLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIATLDKRIDRLQKAL---KSSKDAK 159
Cdd:PTZ00258  101 EGEGLGNAFLSHIRAVDGIYHVVRAFEDEDITHVEGEIDPVRDLEIISSELILKDLEFVEKRLDELTKKRkkkKKKKEEK 180

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 160 NLLECALSLKTHLEELKPAKTFPLNTSEafLELDKELRFLSHKKMIYAANVGEE-YLNALNEHAKKVQNYAKDQ-KSEFV 237
Cdd:PTZ00258  181 VELDVLKKVLEWLEEGKPVRDGDWTDKE--IEILNEYQLLTAKPMIYLVNMSEKdFIRQKNKWLAKIKEWVGEKgGGPII 258

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 238 ALCAKLEEEMVSM-SEDEVKEFLQSLGVEESGLEKTIRLSFKELGLINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFE 316
Cdd:PTZ00258  259 PYSAEFEEELAELgSEEERKEYLEEYGIKQSMLDKIIKTGYKLLNLIHFFTAGPDEVRCWTIQKGTKAPQAAGVIHSDFE 338

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|
gi 1159839505 317 KGFIRAETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDVLHFRFNV 366
Cdd:PTZ00258  339 KGFICAEVMKYEDFLELGSEAAVKAEGKYRQEGKDYVVQDGDIIFFKFNV 388
YchF cd01900
YchF GTPase; YchF is a member of the Obg family, which includes four other subfamilies of ...
 5-280 9.29e-148

YchF GTPase; YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.


Pssm-ID: 206687 [Multi-domain]  Cd Length: 274  Bit Score: 418.40  E-value: 9.29e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDRRLDALAQIVKPERILHSVVEFVDIAGLIKGASKG 84
Cdd:cd01900     1 IGIVGLPNVGKSTLFNALTKS-NAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  85 EGLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIATLDKRIDRLQKALKSS-KDAKNLLE 163
Cdd:cd01900    80 EGLGNKFLSHIREVDAIAHVVRCFEDDDITHVEGSVDPVRDIEIINTELILADLETIEKRLERLEKKAKSGdKEAKEELE 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 164 CALSLKTHLEELKPAKTFPLNTSEAflELDKELRFLSHKKMIYAANVGEEYLNALNEHAKKVQNYAKDQKSEFVALCAKL 243
Cdd:cd01900   160 LLEKIKEHLEEGKPARTLELTDEEI--KILKSLQLLTAKPVIYVANVSEDDLIRGNNKVLKVREIAAKEGAEVIPISAKL 237

                         250       260       270
                  ....*....|....*....|....*....|....*..
gi 1159839505 244 EEEMVSMSEDEVKEFLQSLGVEESGLEKTIRLSFKEL 280
Cdd:cd01900   238 EAELAELDEEEAAEFLEELGLEESGLDKLIRAGYELL 274
TIGR00092 TIGR00092
GTP-binding protein YchF; This predicted GTP-binding protein is found in a single copy in ...
 1-366 8.16e-124

GTP-binding protein YchF; This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor. [Unknown function, General]


Pssm-ID: 129200 [Multi-domain]  Cd Length: 368  Bit Score: 361.02  E-value: 8.16e-124
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   1 MGLSVGIVGLPNVGKSSTFNALTKTQNAESANYPFCTIEPNKAIVNVPDRRLDALAQIVKPERILHSVVEFVDIAGLIKG 80
Cdd:TIGR00092   1 MGLSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  81 ASKGEGLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIATLDKRIDRLQKALKSSKDAKN 160
Cdd:TIGR00092  81 ASKGEGLGNQFLANIREVDIIQHVVRCFEDDIIHHVGNVDDPRDDFEIIDEELLKADEFLVEKRIGRSKKSAEGGKDKKE 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 161 LLECALSLKTHLEELKPAKTfpLNTSEAFLELDKELRFLSHKKMIYAANVGEEYLNALNEH-AKKVQNYAKDQKSEFVAL 239
Cdd:TIGR00092 161 ELLLLEIILPLLNGGQMARH--VDLSKEELILIKSLNLLTKKPIILIANVSEDYLRNLNNNyLLIVEWIAAYSKGDPKVV 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 240 --CAKLEEEMVSMSEDEVKEFLQSLGVEES-GLEKTIRLSFKELGLINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFE 316
Cdd:TIGR00092 239 fvCALEESELSELDDEERQEFLQKLGLTESaGLNIIIRARYKLLLLSFFFTGGKEEVRAWTRKGGWAAPQAAGIIHTDFE 318

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|
gi 1159839505 317 KGFIRAETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDVLHFRFNV 366
Cdd:TIGR00092 319 TGFIAAEVISWDDFIYKKSSQGAKKGGLMRLEGKYYVVDDGDVLFFAFNV 368
YchF-GTPase_C pfam06071
Protein of unknown function (DUF933); This domain is found at the C terminus of the YchF ...
 282-363 5.88e-56

Protein of unknown function (DUF933); This domain is found at the C terminus of the YchF GTP-binding protein and is possibly related to the ubiquitin-like and MoaD/ThiS superfamilies.


Pssm-ID: 461819 [Multi-domain]  Cd Length: 82  Bit Score: 177.55  E-value: 5.88e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 282 LINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFEKGFIRAETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDVLH 361
Cdd:pfam06071   1 LITFFTAGPKEVRAWTIRKGTTAPQAAGVIHTDFEKGFIRAEVISYDDLIEYGSEAAAKEAGKLRLEGKDYVVQDGDIIH 80


                  ..
gi 1159839505 362 FR 363
Cdd:pfam06071  81 FR 82
 
Name Accession Description Interval E-value
GTP1 COG0012
Ribosome-binding ATPase YchF, GTP1/OBG family [Translation, ribosomal structure and biogenesis] ...
 3-366 0e+00

Ribosome-binding ATPase YchF, GTP1/OBG family [Translation, ribosomal structure and biogenesis];


Pssm-ID: 439783 [Multi-domain]  Cd Length: 362  Bit Score: 632.83  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   3 LSVGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDRRLDALAQIVKPERILHSVVEFVDIAGLIKGAS 82
Cdd:COG0012     1 LKCGIVGLPNVGKSTLFNALTKA-GAEAANYPFCTIEPNVGVVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGAS 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  83 KGEGLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIATLDKRIDRLQKALKS-SKDAKNL 161
Cdd:COG0012    80 KGEGLGNQFLANIREVDAIVHVVRCFEDDNVTHVEGSVDPLRDIETINTELILADLETVEKRLERLEKKAKSgDKEAKAE 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 162 LECALSLKTHLEELKPAKTFPLNTSEafLELDKELRFLSHKKMIYAANVGEEYLNALNEHAKKVQNYAKDQKSEFVALCA 241
Cdd:COG0012   160 LELLEKLKEHLEEGKPARSLELSEEE--KKLLKELQLLTAKPVLYVANVDEDDLAEGNPYVEKVREYAAKEGAEVVVICA 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 242 KLEEEMVSMSEDEVKEFLQSLGVEESGLEKTIRLSFKELGLINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFEKGFIR 321
Cdd:COG0012   238 KIEAELAELDEEERAEFLEELGLEESGLDRLIRAGYDLLGLITFFTAGPKEVRAWTIKKGTTAPQAAGVIHTDFERGFIR 317

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*
gi 1159839505 322 AETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDVLHFRFNV 366
Cdd:COG0012   318 AEVISYDDLIAYGSEAAAKEAGKLRLEGKDYVVQDGDVIHFRFNV 362
PTZ00258 PTZ00258
GTP-binding protein; Provisional
 3-366 3.99e-163

GTP-binding protein; Provisional


Pssm-ID: 240334 [Multi-domain]  Cd Length: 390  Bit Score: 461.72  E-value: 3.99e-163
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   3 LSVGIVGLPNVGKSSTFNALTKtQNAESANYPFCTIEPNKAIVNVPDRRLDALAQIVKPERILHSVVEFVDIAGLIKGAS 82
Cdd:PTZ00258   22 LKMGIVGLPNVGKSTTFNALCK-QQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGAS 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  83 KGEGLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIATLDKRIDRLQKAL---KSSKDAK 159
Cdd:PTZ00258  101 EGEGLGNAFLSHIRAVDGIYHVVRAFEDEDITHVEGEIDPVRDLEIISSELILKDLEFVEKRLDELTKKRkkkKKKKEEK 180

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 160 NLLECALSLKTHLEELKPAKTFPLNTSEafLELDKELRFLSHKKMIYAANVGEE-YLNALNEHAKKVQNYAKDQ-KSEFV 237
Cdd:PTZ00258  181 VELDVLKKVLEWLEEGKPVRDGDWTDKE--IEILNEYQLLTAKPMIYLVNMSEKdFIRQKNKWLAKIKEWVGEKgGGPII 258

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 238 ALCAKLEEEMVSM-SEDEVKEFLQSLGVEESGLEKTIRLSFKELGLINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFE 316
Cdd:PTZ00258  259 PYSAEFEEELAELgSEEERKEYLEEYGIKQSMLDKIIKTGYKLLNLIHFFTAGPDEVRCWTIQKGTKAPQAAGVIHSDFE 338

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|
gi 1159839505 317 KGFIRAETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDVLHFRFNV 366
Cdd:PTZ00258  339 KGFICAEVMKYEDFLELGSEAAVKAEGKYRQEGKDYVVQDGDIIFFKFNV 388
YchF cd01900
YchF GTPase; YchF is a member of the Obg family, which includes four other subfamilies of ...
 5-280 9.29e-148

YchF GTPase; YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.


Pssm-ID: 206687 [Multi-domain]  Cd Length: 274  Bit Score: 418.40  E-value: 9.29e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDRRLDALAQIVKPERILHSVVEFVDIAGLIKGASKG 84
Cdd:cd01900     1 IGIVGLPNVGKSTLFNALTKS-NAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  85 EGLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIATLDKRIDRLQKALKSS-KDAKNLLE 163
Cdd:cd01900    80 EGLGNKFLSHIREVDAIAHVVRCFEDDDITHVEGSVDPVRDIEIINTELILADLETIEKRLERLEKKAKSGdKEAKEELE 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 164 CALSLKTHLEELKPAKTFPLNTSEAflELDKELRFLSHKKMIYAANVGEEYLNALNEHAKKVQNYAKDQKSEFVALCAKL 243
Cdd:cd01900   160 LLEKIKEHLEEGKPARTLELTDEEI--KILKSLQLLTAKPVIYVANVSEDDLIRGNNKVLKVREIAAKEGAEVIPISAKL 237

                         250       260       270
                  ....*....|....*....|....*....|....*..
gi 1159839505 244 EEEMVSMSEDEVKEFLQSLGVEESGLEKTIRLSFKEL 280
Cdd:cd01900   238 EAELAELDEEEAAEFLEELGLEESGLDKLIRAGYELL 274
TIGR00092 TIGR00092
GTP-binding protein YchF; This predicted GTP-binding protein is found in a single copy in ...
 1-366 8.16e-124

GTP-binding protein YchF; This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor. [Unknown function, General]


Pssm-ID: 129200 [Multi-domain]  Cd Length: 368  Bit Score: 361.02  E-value: 8.16e-124
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   1 MGLSVGIVGLPNVGKSSTFNALTKTQNAESANYPFCTIEPNKAIVNVPDRRLDALAQIVKPERILHSVVEFVDIAGLIKG 80
Cdd:TIGR00092   1 MGLSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  81 ASKGEGLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIATLDKRIDRLQKALKSSKDAKN 160
Cdd:TIGR00092  81 ASKGEGLGNQFLANIREVDIIQHVVRCFEDDIIHHVGNVDDPRDDFEIIDEELLKADEFLVEKRIGRSKKSAEGGKDKKE 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 161 LLECALSLKTHLEELKPAKTfpLNTSEAFLELDKELRFLSHKKMIYAANVGEEYLNALNEH-AKKVQNYAKDQKSEFVAL 239
Cdd:TIGR00092 161 ELLLLEIILPLLNGGQMARH--VDLSKEELILIKSLNLLTKKPIILIANVSEDYLRNLNNNyLLIVEWIAAYSKGDPKVV 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 240 --CAKLEEEMVSMSEDEVKEFLQSLGVEES-GLEKTIRLSFKELGLINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFE 316
Cdd:TIGR00092 239 fvCALEESELSELDDEERQEFLQKLGLTESaGLNIIIRARYKLLLLSFFFTGGKEEVRAWTRKGGWAAPQAAGIIHTDFE 318

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|
gi 1159839505 317 KGFIRAETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDVLHFRFNV 366
Cdd:TIGR00092 319 TGFIAAEVISWDDFIYKKSSQGAKKGGLMRLEGKYYVVDDGDVLFFAFNV 368
YchF-GTPase_C pfam06071
Protein of unknown function (DUF933); This domain is found at the C terminus of the YchF ...
 282-363 5.88e-56

Protein of unknown function (DUF933); This domain is found at the C terminus of the YchF GTP-binding protein and is possibly related to the ubiquitin-like and MoaD/ThiS superfamilies.


Pssm-ID: 461819 [Multi-domain]  Cd Length: 82  Bit Score: 177.55  E-value: 5.88e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 282 LINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFEKGFIRAETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDVLH 361
Cdd:pfam06071   1 LITFFTAGPKEVRAWTIRKGTTAPQAAGVIHTDFEKGFIRAEVISYDDLIEYGSEAAAKEAGKLRLEGKDYVVQDGDIIH 80


                  ..
gi 1159839505 362 FR 363
Cdd:pfam06071  81 FR 82
TGS_YchF_OLA1 cd04867
TGS (ThrRS, GTPase and SpoT) domain found in the YchF/OLA1 family proteins; The YchF/Ola1 ...
 280-364 7.44e-55

TGS (ThrRS, GTPase and SpoT) domain found in the YchF/OLA1 family proteins; The YchF/Ola1 family includes bacterial ribosome-binding ATPase YchF as well as its human homolog Obg-like ATPase 1 (OLA1), both of which belong to the Obg family of GTPases, and are novel ATPases that bind and hydrolyze ATP more efficiently than GTP. They have been associated with various cellular processes and pathologies, including DNA repair, tumorigenesis, and apoptosis, in addition to the regulation of the oxidative stress response. OLA1 is also termed DNA damage-regulated overexpressed in cancer 45 (DOC45), or GTP-binding protein 9 (GTPBP9). It is over-expressed in several human malignancies, including cancers of the colon, rectum, ovary, lung, stomach, and uterus. It is linked to the cellular stress response and tumorigenesis, and may also serve as a valuable tumor marker. Members in this family contain a central Obg-type G (guanine nucleotide-binding) domain, flanked by a coiled-coil domain and this TGS (ThrRS, GTPase, SpoT) domain of unknown function.


Pssm-ID: 340516 [Multi-domain]  Cd Length: 85  Bit Score: 174.64  E-value: 7.44e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 280 LGLINYFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFEKGFIRAETISYDDFIAYKGEAGAKEKGALRIEGKDYIVQDGDV 359
Cdd:cd04867     1 LNLITFFTAGPDEVRAWTIRKGTKAPQAAGVIHTDFEKGFIRAEVIKYDDLKELGSEAAAKEAGKYRQEGKDYVVQDGDI 80


                  ....*
gi 1159839505 360 LHFRF 364
Cdd:cd04867    81 IHFKF 85
PRK09602 PRK09602
translation-associated GTPase; Reviewed
 3-359 2.59e-35

translation-associated GTPase; Reviewed


Pssm-ID: 236584 [Multi-domain]  Cd Length: 396  Bit Score: 133.01  E-value: 2.59e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   3 LSVGIVGLPNVGKSSTFNALTkTQNAESANYPFCTIEPNKAIVNV----PDRRLDalaqiVKPER--------ILHSVVE 70
Cdd:PRK09602    2 ITIGLVGKPNVGKSTFFNAAT-LADVEIANYPFTTIDPNVGVAYVrvecPCKELG-----VKCNPrngkcidgTRFIPVE 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  71 FVDIAGLIKGASKGEGLGNQFLANIKECEVILQVV----RCFEDDNITHVNDKiDPLNDIETIELELI--LADIatLDKR 144
Cdd:PRK09602   76 LIDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVdasgSTDEEGNPVEPGSH-DPVEDIKFLEEELDmwIYGI--LEKN 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 145 IDRLQKALKSSKD--AKNLLEcALS--------LKTHLEELKPAKTFPLNTSEAFLELDKELRFLShKKMIYAAN----- 209
Cdd:PRK09602  153 WEKFSRKAQAEKFdiEEALAE-QLSglgineehVKEALRELGLPEDPSKWTDEDLLELARELRKIS-KPMVIAANkadlp 230

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 210 VGEEYLNALNE-----------HAKKVQNYAKDQK--------SEFVALcAKLEEEMVSMSEdEVKEFLQ---SLGVEES 267
Cdd:PRK09602  231 PAEENIERLKEekyyivvptsaEAELALRRAAKAGlidyipgdSDFEIL-GELSEKQKKALE-YIREVLKkygGTGVQEA 308

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 268 gLEKTIrlsFKELGLINYFTagVKEVRSWT------------IKKGSSAPVAAGVIHKDFEKGFIRAetisyddfiaykg 335
Cdd:PRK09602  309 -INTAV---FDLLDMIVVYP--VEDENKLTdkkgnvlpdaflLPKGSTARDLAYKIHTDIGEGFLYA------------- 369

                         410       420
                  ....*....|....*....|....
gi 1159839505 336 eAGAKEKgaLRIeGKDYIVQDGDV 359
Cdd:PRK09602  370 -IDARTK--RRI-GEDYELKDGDV 389
Obg_like cd01881
Obg-like family of GTPases consist of five subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1; ...
 6-143 1.03e-28

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: 109.41  E-value: 1.03e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   6 GIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDRRldalaqivkperilhsVVEFVDIAGLIKGASKGE 85
Cdd:cd01881     1 GLVGLPNVGKSTLLSALTSA-KVEIASYPFTTLEPNVGVFEFGDGV----------------DIQIIDLPGLLDGASEGR 63

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1159839505  86 GLGNQFLANIKECEVILQVVRCFEDdnithvnDKIDPLNDIETIELELILADIATLDK 143
Cdd:cd01881    64 GLGEQILAHLYRSDLILHVIDASED-------CVGDPLEDQKTLNEEVSGSFLFLKNK 114
Ygr210 cd01899
Ygr210 GTPase; Ygr210 is a member of Obg-like family and present in archaea and fungi. They ...
 5-209 4.13e-28

Ygr210 GTPase; Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.


Pssm-ID: 206686 [Multi-domain]  Cd Length: 318  Bit Score: 111.94  E-value: 4.13e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKtQNAESANYPFCTIEPNKAI----VNVPDRRLDAlaqIVKP------ERILHSVVEFVDI 74
Cdd:cd01899     1 IGLVGKPNVGKSTFFNAATL-ADVEIANYPFTTIDPNVGVgyvrVECPCKELGV---SCNPrygkciDGKRYVPVELIDV 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  75 AGLIKGASKGEGLGNQFLANIKECEVILQVVrcfeD-------DNITHVNDKIDPLNDIETIELELI--LADIatLDKRI 145
Cdd:cd01899    77 AGLVPGAHEGKGLGNQFLDDLRDADVLIHVV----DasggtdaEGNGVETGGYDPLEDIEFLENEIDmwIYGI--LERNW 150

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1159839505 146 DRL-QKALKSSKDAKNLLECALS----LKTHLEELKPAKTFPLN----TSEAFLELDKELRFLShKKMIYAAN 209
Cdd:cd01899   151 EKIvRKAKAEKTDIVEALSEQLSgfgvNEDVVIEALEELELPADlskwDDEDLLRLARELRKRR-KPMVIAAN 222
Obg cd01898
Obg GTPase; The Obg nucleotide binding protein subfamily has been implicated in stress ...
 5-176 5.04e-27

Obg GTPase; The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.


Pssm-ID: 206685 [Multi-domain]  Cd Length: 170  Bit Score: 104.81  E-value: 5.04e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTktqNAES--ANYPFCTIEPNKAIVNVPDRRldalaQIVkperilhsvveFVDIAGLIKGAS 82
Cdd:cd01898     3 VGLVGLPNAGKSTLLSAIS---NAKPkiADYPFTTLVPNLGVVRVDDGR-----SFV-----------IADIPGLIEGAS 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  83 KGEGLGNQFLANIKECEVILQVVRCFEDDnithvndkiDPLNDIETIELELIL----------------ADIATLDKRID 146
Cdd:cd01898    64 EGKGLGHRFLRHIERTRVLLHVIDLSGED---------DPVEDYETIRNELEAynpglaekprivvlnkIDLLDAEERFE 134

                         170       180       190
                  ....*....|....*....|....*....|
gi 1159839505 147 RLQKALKSSKDAKNLLECALSlKTHLEELK 176
Cdd:cd01898   135 KLKELLKELKGKKVFPISALT-GEGLDELL 163
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 5-135 8.47e-25

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: 97.30  E-value: 8.47e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKtQNAESANYPFCTIEPNKAIVNVPDRRldalaqivkperilhsvVEFVDIAGLIKGASKG 84
Cdd:pfam01926   2 VALVGRPNVGKSTLINALTG-AKAIVSDYPGTTRDPNEGRLELKGKQ-----------------IILVDTPGLIEGASEG 63

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1159839505  85 EGLGNQFLAnIKECEVILQVVRCfeDDNITHVNDKIDPLNDIETIELELIL 135
Cdd:pfam01926  64 EGLGRAFLA-IIEADLILFVVDS--EEGITPLDEELLELLRENKKPIILVL 111
obgE PRK12299
GTPase CgtA; Reviewed
 5-176 9.67e-23

GTPase CgtA; Reviewed


Pssm-ID: 237048 [Multi-domain]  Cd Length: 335  Bit Score: 97.45  E-value: 9.67e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTktqNAES--ANYPFCTIEPNKAIVNVPDRRldalaqivkperilhsvvEFV--DIAGLIKG 80
Cdd:PRK12299  161 VGLVGLPNAGKSTLISAVS---AAKPkiADYPFTTLHPNLGVVRVDDYK------------------SFViaDIPGLIEG 219

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  81 ASKGEGLGNQFLANIKECEVILQVVrcfeddNITHVndkiDPLNDIETIELEL------------ILA----DIATLDKR 144
Cdd:PRK12299  220 ASEGAGLGHRFLKHIERTRLLLHLV------DIEAV----DPVEDYKTIRNELekyspeladkprILVlnkiDLLDEEEE 289

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1159839505 145 IDRLQKALKSSKDAKNLLECALSlKTHLEELK 176
Cdd:PRK12299  290 REKRAALELAALGGPVFLISAVT-GEGLDELL 320
obgE PRK12297
GTPase CgtA; Reviewed
 5-153 1.44e-22

GTPase CgtA; Reviewed


Pssm-ID: 237046 [Multi-domain]  Cd Length: 424  Bit Score: 97.86  E-value: 1.44e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDRRldalaqivkperilhsvvEFV--DIAGLIKGAS 82
Cdd:PRK12297  161 VGLVGFPNVGKSTLLSVVSNA-KPKIANYHFTTLVPNLGVVETDDGR------------------SFVmaDIPGLIEGAS 221

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  83 KGEGLGNQFLANIKECEVILQVVrcfeddNITHVNDKiDPLNDIETI--ELE-----------LILA---DIATLDKRID 146
Cdd:PRK12297  222 EGVGLGHQFLRHIERTRVIVHVI------DMSGSEGR-DPIEDYEKInkELKlynprllerpqIVVAnkmDLPEAEENLE 294


                  ....*..
gi 1159839505 147 RLQKALK 153
Cdd:PRK12297  295 EFKEKLG 301
obgE PRK12296
GTPase CgtA; Reviewed
 5-133 7.98e-18

GTPase CgtA; Reviewed


Pssm-ID: 237045 [Multi-domain]  Cd Length: 500  Bit Score: 84.53  E-value: 7.98e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALT----KTqnaesANYPFCTIEPNKAIVNVPDRRldalaqivkperilhsvveFV--DIAGLI 78
Cdd:PRK12296  162 VGLVGFPSAGKSSLISALSaakpKI-----ADYPFTTLVPNLGVVQAGDTR-------------------FTvaDVPGLI 217

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1159839505  79 KGASKGEGLGNQFLANIKECEVILQVVRC--FEDDNithvndkiDPLNDIETIELEL 133
Cdd:PRK12296  218 PGASEGKGLGLDFLRHIERCAVLVHVVDCatLEPGR--------DPLSDIDALEAEL 266
obgE PRK12298
GTPase CgtA; Reviewed
 5-133 6.25e-17

GTPase CgtA; Reviewed


Pssm-ID: 237047 [Multi-domain]  Cd Length: 390  Bit Score: 81.07  E-value: 6.25e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTktqNAES--ANYPFCTIEPNKAIVNVPDRRldalaqivkperilhsvvEFV--DIAGLIKG 80
Cdd:PRK12298  162 VGLLGLPNAGKSTFIRAVS---AAKPkvADYPFTTLVPNLGVVRVDDER------------------SFVvaDIPGLIEG 220

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1159839505  81 ASKGEGLGNQFLANIKECEVILQVVrcfeddNITHVnDKIDPLNDIETIELEL 133
Cdd:PRK12298  221 ASEGAGLGIRFLKHLERCRVLLHLI------DIAPI-DGSDPVENARIIINEL 266
DRG cd01896
Developmentally Regulated GTP-binding protein (DRG); The developmentally regulated GTP-binding ...
 5-133 4.47e-16

Developmentally Regulated GTP-binding protein (DRG); The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.


Pssm-ID: 206683 [Multi-domain]  Cd Length: 233  Bit Score: 76.43  E-value: 4.47e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDrrldalAQIvkperilhsvvEFVDIAGLIKGASKG 84
Cdd:cd01896     3 VALVGFPSVGKSTLLSKLTNT-KSEVAAYEFTTLTCVPGVMEYKG------AKI-----------QLLDLPGIIEGASDG 64

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1159839505  85 EGLGNQFLANIKECEVILQVVRCFEddnithvndkidPLNDIETIELEL 133
Cdd:cd01896    65 KGRGRQVIAVARTADLILIVLDATK------------PEGQREILEREL 101
TGS cd01616
TGS (ThrRS, GTPase and SpoT) domain structurally similar to a beta-grasp ubiquitin-like fold; ...
 285-363 1.40e-14

TGS (ThrRS, GTPase and SpoT) domain structurally similar to a beta-grasp ubiquitin-like fold; This family includes eukaryotic and some bacterial threonyl-tRNA synthetases (ThrRSs), a distinct Obg family GTPases, and guanosine polyphosphate hydrolase (SpoT) and synthetase (RelA), which are involved in stringent response in bacteria, as well as uridine kinase (UDK) from Thermotogales. All family members contain a TGS domain named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs. It is a small domain with a beta-grasp ubiquitin-like fold, a common structure involved in protein-protein interactions. The functions of the TGS domain remains unclear, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, with a regulatory role.


Pssm-ID: 340455 [Multi-domain]  Cd Length: 61  Bit Score: 67.63  E-value: 1.40e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1159839505 285 YFTAGVKEVRSWTIKKGSSAPVAAGVIHKDFEKGFIRAETISyddfiaykgeagakekgalRIEGKDYIVQDGDVLHFR 363
Cdd:cd01616     2 VFTVGKTPGTVFVMNKGATAYSCAMHLHEDYCRKSILALVDG-------------------QLWDMYYPLTKGDEIKFL 61
Rbg1 COG1163
Ribosome-interacting GTPase RBG1 [Translation, ribosomal structure and biogenesis];
5-360 4.45e-14

Ribosome-interacting GTPase RBG1 [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440777 [Multi-domain]  Cd Length: 368  Bit Score: 72.52  E-value: 4.45e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDrrldalAQIvkperilhsvvEFVDIAGLIKGASKG 84
Cdd:COG1163    66 VVLVGFPSVGKSTLLNKLTNA-KSEVGAYEFTTLDVVPGMLEYKG------AKI-----------QILDVPGLIEGAASG 127

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  85 EGLGNQFLANIKECEVILQVVRCFEDDNithvndkidplndIETIELELILADIatldkRIDRLQKALKSSKDAKNLLEC 164
Cdd:COG1163   128 KGRGKEVLSVVRNADLILIVLDVFELEQ-------------YDVLKEELYDAGI-----RLNKPPPDVTIEKKGKGGIRV 189

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 165 ALSLKTHLEElkpaktfplNTSEAFLE----------------LDKELRFLSH----KKMIYAAN----VGEEYLNALNE 220
Cdd:COG1163   190 NSTGKLDLDE---------EDIKKILReygivnadvliredvtLDDLIDALMGnrvyKPAIVVVNkidlADEEYVEELKS 260

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 221 HAKKvqnyakdqKSEFVALCAKLEEEMvsmseDEVKEFLqslgveesglektirlsFKELGLINYFT----AGVKEVRSW 296
Cdd:COG1163   261 KLPD--------GVPVIFISAEKGIGL-----EELKEEI-----------------FEELGLIRVYLkppgGKADMEEPL 310

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1159839505 297 TIKKGSSAPVAAGVIHKDFEKGF----IRAETISYDdfiaykGEagakekgalRIeGKDYIVQDGDVL 360
Cdd:COG1163   311 ILRKGSTVGDVCEKIHRDFVERFryarVWGKSAKHP------GQ---------RV-GLDHVLEDGDIV 362
TGS_Obg cd04938
TGS (ThrRS, GTPase and SpoT) domain found in the Obg protein family; The Obg family of GTPases ...
 281-363 2.24e-13

TGS (ThrRS, GTPase and SpoT) domain found in the Obg protein family; The Obg family of GTPases function has been implicated in cellular processes as diverse as sporulation, stress response, control of DNA replication, and ribosome assembly. It consists of several subfamilies such as DRG and YchF with TGS domain. The TGS domain is named after the various RNA-binding multidomain ThrRS, GTPase, and SpoT/RelA proteins in which this domain occurs. The TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF has a beta-grasp ubiquitin-like fold, a common structure involved in protein-protein interactions.


Pssm-ID: 340517 [Multi-domain]  Cd Length: 77  Bit Score: 64.77  E-value: 2.24e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505 281 GLINYFTAGVK-----------EVRSWTIKKGSSAPVAAGVIHKDFEKGFIRAETIsyddfiaykgeagakekGALRIEG 349
Cdd:cd04938     1 GLIPVYPVKNIqtftngsgnsvFRDCVLVKKGTTVKDFANKIHTDLEKGFINAEGI-----------------GGRRLEG 63

                          90
                  ....*....|....
gi 1159839505 350 KDYIVQDGDVLHFR 363
Cdd:cd04938    64 EDYILQDNDVVKFT 77
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 6-152 1.10e-08

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


Pssm-ID: 206646 [Multi-domain]  Cd Length: 161  Bit Score: 53.79  E-value: 1.10e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   6 GIVGLPNVGKSSTFNALTKTQNAESANYPFCTIEPNKAIVnvpdrrldalaqIVKPERIlhsvVEFVDIAGLIKGASKGE 85
Cdd:cd00880     1 AIFGRPNVGKSSLLNALLGQNVGIVSPIPGTTRDPVRKEW------------ELLPLGP----VVLIDTPGLDEEGGLGR 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505  86 GLGNQFLANIKECEVILQVV----RCFEDDNITH-----------VNDKID--PLNDIETIELELILADIATLD------ 142
Cdd:cd00880    65 ERVEEARQVADRADLVLLVVdsdlTPVEEEAKLGllrergkpvllVLNKIDlvPESEEEELLRERKLELLPDLPviavsa 144

                         170
                  ....*....|...
gi 1159839505 143 ---KRIDRLQKAL 152
Cdd:cd00880   145 lpgEGIDELRKKI 157
FeoB cd01879
Ferrous iron transport protein B (FeoB) family; Ferrous iron transport protein B (FeoB) ...
 7-39 2.58e-05

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


Pssm-ID: 206667 [Multi-domain]  Cd Length: 159  Bit Score: 43.98  E-value: 2.58e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1159839505   7 IVGLPNVGKSSTFNALTKTqNAESANYPFCTIE 39
Cdd:cd01879     2 LVGNPNVGKTTLFNALTGA-RQKVGNWPGVTVE 33
YlqF cd01856
Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs ...
 2-34 4.12e-05

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: 43.67  E-value: 4.12e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1159839505   2 GLSVGIVGLPNVGKSSTFNALTKTQNAESANYP 34
Cdd:cd01856   115 PLRAMVVGIPNVGKSTLINRLRGKKVAKVGNKP 147
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 6-164 5.01e-05

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


Pssm-ID: 206648 [Multi-domain]  Cd Length: 161  Bit Score: 43.21  E-value: 5.01e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   6 GIVGLPNVGKSSTFNALTKTQNAESANYPFCTIEPNKAIVnvpdrrldalaQIVKPERILHsvveFVDIAGLIKGAskGE 85
Cdd:cd00882     1 VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVK-----------ELDKGKVKLV----LVDTPGLDEFG--GL 63

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1159839505  86 GLGNQFLANIKECEVILQVVRCFEDDNITHVNDKIDPLNDIETIELELILADIatlDKRIDRLQKALKSSKDAKNLLEC 164
Cdd:cd00882    64 GREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIPIILVGNKI---DLLEEREVEELLRLEELAKILGV 139
EngA1 cd01894
EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first ...
 7-34 7.45e-05

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


Pssm-ID: 206681 [Multi-domain]  Cd Length: 157  Bit Score: 42.42  E-value: 7.45e-05
                          10        20
                  ....*....|....*....|....*...
gi 1159839505   7 IVGLPNVGKSSTFNALTKTQNAESANYP 34
Cdd:cd01894     2 IVGRPNVGKSTLFNRLTGRRDAIVSDTP 29
Nucleostemin_like cd04178
A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein ...
 3-37 7.57e-05

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


Pssm-ID: 206753 [Multi-domain]  Cd Length: 171  Bit Score: 42.95  E-value: 7.57e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1159839505   3 LSVGIVGLPNVGKSSTFNALTKTQNAESANYPFCT 37
Cdd:cd04178   117 ITVGVVGYPNVGKSSVINSLKRSRACNVGATPGVT 151
FeoB COG0370
Fe2+ transporter FeoB [Inorganic ion transport and metabolism];
1-39 8.94e-05

Fe2+ transporter FeoB [Inorganic ion transport and metabolism];


Pssm-ID: 440139 [Multi-domain]  Cd Length: 662  Bit Score: 44.34  E-value: 8.94e-05
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1159839505   1 MGLSVGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIE 39
Cdd:COG0370     2 KMITIALVGNPNVGKTTLFNALTGS-RQKVGNWPGVTVE 39
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
1-28 9.95e-05

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


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 43.86  E-value: 9.95e-05
                          10        20
                  ....*....|....*....|....*...
gi 1159839505   1 MGLSVGIVGLPNVGKSSTFNALTKTQNA 28
Cdd:COG1160     1 MSPVVAIVGRPNVGKSTLFNRLTGRRDA 28
FeoB_N pfam02421
Ferrous iron transport protein B; Escherichia coli has an iron(II) transport system (feo) ...
 3-39 1.19e-04

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


Pssm-ID: 460552 [Multi-domain]  Cd Length: 156  Bit Score: 42.05  E-value: 1.19e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1159839505   3 LSVGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIE 39
Cdd:pfam02421   1 ITIALVGNPNVGKTTLFNALTGA-NQHVGNWPGVTVE 36
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
 2-28 1.90e-04

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: 41.33  E-value: 1.90e-04
                          10        20
                  ....*....|....*....|....*..
gi 1159839505   2 GLSVGIVGLPNVGKSSTFNALTKTQNA 28
Cdd:cd04164     3 GIKVVIAGKPNVGKSSLLNALAGRDRA 29
small_GTP TIGR00231
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this ...
 5-106 2.23e-04

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


Pssm-ID: 272973 [Multi-domain]  Cd Length: 162  Bit Score: 41.20  E-value: 2.23e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKTQNAESANYPFCTIEPNKAIVNvpdrrldalaqiVKPERILhsvVEFVDIAGLIKGASKG 84
Cdd:TIGR00231   4 IVIVGHPNVGKSTLLNSLLGNKGSITEYYPGTTRNYVTTVIE------------EDGKTYK---FNLLDTAGQEDYDAIR 68

                          90       100
                  ....*....|....*....|..
gi 1159839505  85 EGLGNQFLANIKECEVILQVVR 106
Cdd:TIGR00231  69 RLYYPQVERSLRVFDIVILVLD 90
NOG cd01897
Nucleolar GTP-binding protein (NOG); NOG1 is a nucleolar GTP-binding protein present in ...
 7-37 2.70e-04

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


Pssm-ID: 206684 [Multi-domain]  Cd Length: 167  Bit Score: 41.01  E-value: 2.70e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1159839505   7 IVGLPNVGKSSTFNALTkTQNAESANYPFCT 37
Cdd:cd01897     5 IAGYPNVGKSSLVNKLT-RAKPEVAPYPFTT 34
MnmE COG0486
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal ...
 2-24 3.71e-04

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


Pssm-ID: 440253 [Multi-domain]  Cd Length: 448  Bit Score: 42.36  E-value: 3.71e-04
                          10        20
                  ....*....|....*....|...
gi 1159839505   2 GLSVGIVGLPNVGKSSTFNALTK 24
Cdd:COG0486   213 GIKVVIVGRPNVGKSSLLNALLG 235
MnmE_helical pfam12631
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ...
 2-45 3.76e-04

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


Pssm-ID: 463649 [Multi-domain]  Cd Length: 326  Bit Score: 42.08  E-value: 3.76e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1159839505   2 GLSVGIVGLPNVGKSSTFNALTKTqnaesanypfctiepNKAIV 45
Cdd:pfam12631  94 GIKVVIVGKPNVGKSSLLNALLGE---------------ERAIV 122
trmE PRK05291
tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;
2-45 3.85e-04

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


Pssm-ID: 235392 [Multi-domain]  Cd Length: 449  Bit Score: 42.02  E-value: 3.85e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1159839505   2 GLSVGIVGLPNVGKSSTFNALTKTqnaesanypfctiepNKAIV 45
Cdd:PRK05291  215 GLKVVIAGRPNVGKSSLLNALLGE---------------ERAIV 243
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 5-28 4.59e-04

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 41.96  E-value: 4.59e-04
                          10        20
                  ....*....|....*....|....
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKTQNA 28
Cdd:PRK00093    4 VAIVGRPNVGKSTLFNRLTGKRDA 27
HSR1_MMR1 cd01857
A circularly permuted subfamily of the Ras GTPases; Human HSR1 is localized to the human MHC ...
 5-22 5.11e-04

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: 39.91  E-value: 5.11e-04
                          10
                  ....*....|....*...
gi 1159839505   5 VGIVGLPNVGKSSTFNAL 22
Cdd:cd01857    85 IGLVGYPNVGKSSLINAL 102
NGP_1 cd01858
A novel nucleolar GTP-binding protein, circularly permuted subfamily of the Ras GTPases; ...
 3-34 6.65e-04

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


Pssm-ID: 206751 [Multi-domain]  Cd Length: 157  Bit Score: 39.97  E-value: 6.65e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1159839505   3 LSVGIVGLPNVGKSSTFNALTKTQNAESANYP 34
Cdd:cd01858   103 ISVGFIGYPNVGKSSVINTLRSKKVCKVAPIP 134
YlqF_related_GTPase cd01849
Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, ...
 2-34 8.58e-04

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: 39.29  E-value: 8.58e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1159839505   2 GLSVGIVGLPNVGKSSTFNALTKTQNAESANYP 34
Cdd:cd01849    91 GIRVGVVGLPNVGKSSFINALLNKFKLKVGSIP 123
MJ1464 cd01859
An uncharacterized, circularly permuted subfamily of the Ras GTPases; This family represents ...
 5-34 1.44e-03

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: 38.84  E-value: 1.44e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKTQNAESANYP 34
Cdd:cd01859   102 VGVVGYPKVGKSSIINALKGRHSASTSPIP 131
PRK09518 PRK09518
bifunctional cytidylate kinase/GTPase Der; Reviewed
 5-102 2.20e-03

bifunctional cytidylate kinase/GTPase Der; Reviewed


Pssm-ID: 236546 [Multi-domain]  Cd Length: 712  Bit Score: 40.16  E-value: 2.20e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   5 VGIVGLPNVGKSSTFNALTKTQNAESANYPFCTIEPNKAIVNVPDRrlDALaqivkperilhsvveFVDIAGL------I 78
Cdd:PRK09518  453 VALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGE--DWL---------------FIDTAGIkrrqhkL 515

                          90       100
                  ....*....|....*....|....
gi 1159839505  79 KGASKGEGLGNQflANIKECEVIL 102
Cdd:PRK09518  516 TGAEYYSSLRTQ--AAIERSELAL 537
feoB TIGR00437
ferrous iron transporter FeoB; FeoB (773 amino acids in E. coli), a cytoplasmic membrane ...
 9-105 2.52e-03

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


Pssm-ID: 273077 [Multi-domain]  Cd Length: 591  Bit Score: 39.72  E-value: 2.52e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1159839505   9 GLPNVGKSSTFNALTKTqNAESANYPFCTIEPNKAIVNVPDRRldalaqivkperilhsvVEFVDIAGL--IKGASKGEG 86
Cdd:TIGR00437   1 GNPNVGKSTLFNALTGA-NQTVGNWPGVTVEKKEGKLGFQGED-----------------IEIVDLPGIysLTTFSLEEE 62

                          90
                  ....*....|....*....
gi 1159839505  87 LGNQFLANiKECEVILQVV 105
Cdd:TIGR00437  63 VARDYLLN-EKPDLVVNVV 80
GTPase_YlqF TIGR03596
ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding ...
 7-34 4.69e-03

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


Pssm-ID: 274669 [Multi-domain]  Cd Length: 276  Bit Score: 38.26  E-value: 4.69e-03
                          10        20
                  ....*....|....*....|....*...
gi 1159839505   7 IVGLPNVGKSSTFNALTKTQNAESANYP 34
Cdd:TIGR03596 123 IVGIPNVGKSTLINRLAGKKVAKVGNRP 150
HflX cd01878
HflX GTPase family; HflX subfamily. A distinct conserved domain with a glycine-rich segment ...
 4-40 4.85e-03

HflX GTPase family; HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.


Pssm-ID: 206666 [Multi-domain]  Cd Length: 204  Bit Score: 37.82  E-value: 4.85e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1159839505   4 SVGIVGLPNVGKSSTFNALTKTqNAESANYPFCTIEP 40
Cdd:cd01878    43 TVALVGYTNAGKSTLFNALTGA-DVLAEDQLFATLDP 78
Nog1 COG1084
GTP-binding protein, GTP1/Obg family [General function prediction only];
7-37 8.60e-03

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


Pssm-ID: 440701 [Multi-domain]  Cd Length: 330  Bit Score: 37.89  E-value: 8.60e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1159839505   7 IVGLPNVGKSSTFNALTKTQNaESANYPFCT 37
Cdd:COG1084   165 VAGYPNVGKSSLVSKVTSAKP-EIASYPFTT 194
 
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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