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Conserved domains on  [gi|787758364|ref|WP_045762398|]
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MULTISPECIES: redox-regulated ATPase YchF [Streptococcus]

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] ...
 3-371 0e+00

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


:

Pssm-ID: 439783 [Multi-domain]  Cd Length: 362  Bit Score: 691.76  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   3 LTAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQKLTEMITPKKTVPTTFEFTDIAGIVKGASR 82
Cdd:COG0012    1 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  83 GEGLGNKFLANIREVDAIVHVVRAFDDENVMREQGRedafVDPLADIDTINLELILADLESVNKRYARVEKMARTqKDKE 162
Cdd:COG0012   81 GEGLGNQFLANIREVDAIVHVVRCFEDDNVTHVEGS----VDPLRDIETINTELILADLETVEKRLERLEKKAKS-GDKE 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 163 SVAEFNVLQKIKPVLEDGKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANVDEDVVgdPESIDYVKQIREFAATENAEVV 242
Cdd:COG0012  156 AKAELELLEKLKEHLEEGKPARSLELSEEEKKLLKELQLLTAKPVLYVANVDEDDL--AEGNPYVEKVREYAAKEGAEVV 233

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 243 VISARAEEEISELDDEDKKEFLEAIGLTESGVDKLTRAAYHLLGLGTYFTAGEKEVRAWTFKRGMKAPQAAGIIHSDFEK 322
Cdd:COG0012  234 VICAKIEAELAELDEEERAEFLEELGLEESGLDRLIRAGYDLLGLITFFTAGPKEVRAWTIKKGTTAPQAAGVIHTDFER 313

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 787758364 323 GFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDIMEFRFNV 371
Cdd:COG0012  314 GFIRAEVISYDDLIAYGSEAAAKEAGKLRLEGKDYVVQDGDVIHFRFNV 362
 
Name Accession Description Interval E-value
GTP1 COG0012
Ribosome-binding ATPase YchF, GTP1/OBG family [Translation, ribosomal structure and biogenesis] ...
 3-371 0e+00

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


Pssm-ID: 439783 [Multi-domain]  Cd Length: 362  Bit Score: 691.76  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   3 LTAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQKLTEMITPKKTVPTTFEFTDIAGIVKGASR 82
Cdd:COG0012    1 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  83 GEGLGNKFLANIREVDAIVHVVRAFDDENVMREQGRedafVDPLADIDTINLELILADLESVNKRYARVEKMARTqKDKE 162
Cdd:COG0012   81 GEGLGNQFLANIREVDAIVHVVRCFEDDNVTHVEGS----VDPLRDIETINTELILADLETVEKRLERLEKKAKS-GDKE 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 163 SVAEFNVLQKIKPVLEDGKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANVDEDVVgdPESIDYVKQIREFAATENAEVV 242
Cdd:COG0012  156 AKAELELLEKLKEHLEEGKPARSLELSEEEKKLLKELQLLTAKPVLYVANVDEDDL--AEGNPYVEKVREYAAKEGAEVV 233

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 243 VISARAEEEISELDDEDKKEFLEAIGLTESGVDKLTRAAYHLLGLGTYFTAGEKEVRAWTFKRGMKAPQAAGIIHSDFEK 322
Cdd:COG0012  234 VICAKIEAELAELDEEERAEFLEELGLEESGLDRLIRAGYDLLGLITFFTAGPKEVRAWTIKKGTTAPQAAGVIHTDFER 313

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 787758364 323 GFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDIMEFRFNV 371
Cdd:COG0012  314 GFIRAEVISYDDLIAYGSEAAAKEAGKLRLEGKDYVVQDGDVIHFRFNV 362
PTZ00258 PTZ00258
GTP-binding protein; Provisional
 3-371 2.85e-169

GTP-binding protein; Provisional


Pssm-ID: 240334 [Multi-domain]  Cd Length: 390  Bit Score: 477.52  E-value: 2.85e-169
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   3 LTAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQKLTEMITPKKTVPTTFEFTDIAGIVKGASR 82
Cdd:PTZ00258  22 LKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGASE 101

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  83 GEGLGNKFLANIREVDAIVHVVRAFDDENVMREQGRedafVDPLADIDTINLELILADLESVNKRYARVEKMART-QKDK 161
Cdd:PTZ00258 102 GEGLGNAFLSHIRAVDGIYHVVRAFEDEDITHVEGE----IDPVRDLEIISSELILKDLEFVEKRLDELTKKRKKkKKKK 177

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 162 ESVAEFNVLQKIKPVLEDGKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANVDEDvvgdpesiDYVKQ-------IREFA 234
Cdd:PTZ00258 178 EEKVELDVLKKVLEWLEEGKPVRDGDWTDKEIEILNEYQLLTAKPMIYLVNMSEK--------DFIRQknkwlakIKEWV 249

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 235 ATENA-EVVVISARAEEEISEL-DDEDKKEFLEAIGLTESGVDKLTRAAYHLLGLGTYFTAGEKEVRAWTFKRGMKAPQA 312
Cdd:PTZ00258 250 GEKGGgPIIPYSAEFEEELAELgSEEERKEYLEEYGIKQSMLDKIIKTGYKLLNLIHFFTAGPDEVRCWTIQKGTKAPQA 329

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 787758364 313 AGIIHSDFEKGFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDIMEFRFNV 371
Cdd:PTZ00258 330 AGVIHSDFEKGFICAEVMKYEDFLELGSEAAVKAEGKYRQEGKDYVVQDGDIIFFKFNV 388
YchF cd01900
YchF GTPase; YchF is a member of the Obg family, which includes four other subfamilies of ...
 5-285 2.05e-164

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: 460.77  E-value: 2.05e-164
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   5 AGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQKLTEMITPKKTVPTTFEFTDIAGIVKGASRGE 84
Cdd:cd01900    1 IGIVGLPNVGKSTLFNALTKSNAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  85 GLGNKFLANIREVDAIVHVVRAFDDENVMREQGRedafVDPLADIDTINLELILADLESVNKRYARVEKMARTqKDKESV 164
Cdd:cd01900   81 GLGNKFLSHIREVDAIAHVVRCFEDDDITHVEGS----VDPVRDIEIINTELILADLETIEKRLERLEKKAKS-GDKEAK 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 165 AEFNVLQKIKPVLEDGKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANVDEDVVGDPESidYVKQIREFAATENAEVVVI 244
Cdd:cd01900  156 EELELLEKIKEHLEEGKPARTLELTDEEIKILKSLQLLTAKPVIYVANVSEDDLIRGNN--KVLKVREIAAKEGAEVIPI 233

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|.
gi 787758364 245 SARAEEEISELDDEDKKEFLEAIGLTESGVDKLTRAAYHLL 285
Cdd:cd01900  234 SAKLEAELAELDEEEAAEFLEELGLEESGLDKLIRAGYELL 274
TIGR00092 TIGR00092
GTP-binding protein YchF; This predicted GTP-binding protein is found in a single copy in ...
 1-371 6.77e-129

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: 374.11  E-value: 6.77e-129
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364    1 MALTAGIVGLPNVGKSTLFNAITKA-GAEAANYPFATIDPNVGMVEVPDERLQKLTEMITPKKTVPTTFEFTDIAGIVKG 79
Cdd:TIGR00092   1 MGLSGGIVGLPNVGKSTLFAATTNLlGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   80 ASRGEGLGNKFLANIREVDAIVHVVRAFDDENVMREQGRedafVDPLADIDTINLELILADLESVNKRYARVEKMARTQK 159
Cdd:TIGR00092  81 ASKGEGLGNQFLANIREVDIIQHVVRCFEDDIIHHVGNV----DDPRDDFEIIDEELLKADEFLVEKRIGRSKKSAEGGK 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  160 DKEsvAEFNVLQKIKPVLEDGKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANVDEDVVGDpESIDYVKQIREFAAT--E 237
Cdd:TIGR00092 157 DKK--EELLLLEIILPLLNGGQMARHVDLSKEELILIKSLNLLTKKPIILIANVSEDYLRN-LNNNYLLIVEWIAAYskG 233

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  238 NAEVVVISARAEEEISELDDEDKKEFLEAIGLTES-GVDKLTRAAYHLLGLGTYFTAGEKEVRAWTFKRGMKAPQAAGII 316
Cdd:TIGR00092 234 DPKVVFVCALEESELSELDDEERQEFLQKLGLTESaGLNIIIRARYKLLLLSFFFTGGKEEVRAWTRKGGWAAPQAAGII 313

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 787758364  317 HSDFEKGFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDIMEFRFNV 371
Cdd:TIGR00092 314 HTDFETGFIAAEVISWDDFIYKKSSQGAKKGGLMRLEGKYYVVDDGDVLFFAFNV 368
YchF-GTPase_C pfam06071
Protein of unknown function (DUF933); This domain is found at the C terminus of the YchF ...
 287-368 3.15e-55

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: 175.62  E-value: 3.15e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  287 LGTYFTAGEKEVRAWTFKRGMKAPQAAGIIHSDFEKGFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDIME 366
Cdd:pfam06071   1 LITFFTAGPKEVRAWTIRKGTTAPQAAGVIHTDFEKGFIRAEVISYDDLIEYGSEAAAKEAGKLRLEGKDYVVQDGDIIH 80


                  ..
gi 787758364  367 FR 368
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] ...
 3-371 0e+00

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


Pssm-ID: 439783 [Multi-domain]  Cd Length: 362  Bit Score: 691.76  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   3 LTAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQKLTEMITPKKTVPTTFEFTDIAGIVKGASR 82
Cdd:COG0012    1 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  83 GEGLGNKFLANIREVDAIVHVVRAFDDENVMREQGRedafVDPLADIDTINLELILADLESVNKRYARVEKMARTqKDKE 162
Cdd:COG0012   81 GEGLGNQFLANIREVDAIVHVVRCFEDDNVTHVEGS----VDPLRDIETINTELILADLETVEKRLERLEKKAKS-GDKE 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 163 SVAEFNVLQKIKPVLEDGKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANVDEDVVgdPESIDYVKQIREFAATENAEVV 242
Cdd:COG0012  156 AKAELELLEKLKEHLEEGKPARSLELSEEEKKLLKELQLLTAKPVLYVANVDEDDL--AEGNPYVEKVREYAAKEGAEVV 233

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 243 VISARAEEEISELDDEDKKEFLEAIGLTESGVDKLTRAAYHLLGLGTYFTAGEKEVRAWTFKRGMKAPQAAGIIHSDFEK 322
Cdd:COG0012  234 VICAKIEAELAELDEEERAEFLEELGLEESGLDRLIRAGYDLLGLITFFTAGPKEVRAWTIKKGTTAPQAAGVIHTDFER 313

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 787758364 323 GFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDIMEFRFNV 371
Cdd:COG0012  314 GFIRAEVISYDDLIAYGSEAAAKEAGKLRLEGKDYVVQDGDVIHFRFNV 362
PTZ00258 PTZ00258
GTP-binding protein; Provisional
 3-371 2.85e-169

GTP-binding protein; Provisional


Pssm-ID: 240334 [Multi-domain]  Cd Length: 390  Bit Score: 477.52  E-value: 2.85e-169
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   3 LTAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQKLTEMITPKKTVPTTFEFTDIAGIVKGASR 82
Cdd:PTZ00258  22 LKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGASE 101

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  83 GEGLGNKFLANIREVDAIVHVVRAFDDENVMREQGRedafVDPLADIDTINLELILADLESVNKRYARVEKMART-QKDK 161
Cdd:PTZ00258 102 GEGLGNAFLSHIRAVDGIYHVVRAFEDEDITHVEGE----IDPVRDLEIISSELILKDLEFVEKRLDELTKKRKKkKKKK 177

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 162 ESVAEFNVLQKIKPVLEDGKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANVDEDvvgdpesiDYVKQ-------IREFA 234
Cdd:PTZ00258 178 EEKVELDVLKKVLEWLEEGKPVRDGDWTDKEIEILNEYQLLTAKPMIYLVNMSEK--------DFIRQknkwlakIKEWV 249

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 235 ATENA-EVVVISARAEEEISEL-DDEDKKEFLEAIGLTESGVDKLTRAAYHLLGLGTYFTAGEKEVRAWTFKRGMKAPQA 312
Cdd:PTZ00258 250 GEKGGgPIIPYSAEFEEELAELgSEEERKEYLEEYGIKQSMLDKIIKTGYKLLNLIHFFTAGPDEVRCWTIQKGTKAPQA 329

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 787758364 313 AGIIHSDFEKGFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDIMEFRFNV 371
Cdd:PTZ00258 330 AGVIHSDFEKGFICAEVMKYEDFLELGSEAAVKAEGKYRQEGKDYVVQDGDIIFFKFNV 388
YchF cd01900
YchF GTPase; YchF is a member of the Obg family, which includes four other subfamilies of ...
 5-285 2.05e-164

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: 460.77  E-value: 2.05e-164
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   5 AGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQKLTEMITPKKTVPTTFEFTDIAGIVKGASRGE 84
Cdd:cd01900    1 IGIVGLPNVGKSTLFNALTKSNAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  85 GLGNKFLANIREVDAIVHVVRAFDDENVMREQGRedafVDPLADIDTINLELILADLESVNKRYARVEKMARTqKDKESV 164
Cdd:cd01900   81 GLGNKFLSHIREVDAIAHVVRCFEDDDITHVEGS----VDPVRDIEIINTELILADLETIEKRLERLEKKAKS-GDKEAK 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 165 AEFNVLQKIKPVLEDGKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANVDEDVVGDPESidYVKQIREFAATENAEVVVI 244
Cdd:cd01900  156 EELELLEKIKEHLEEGKPARTLELTDEEIKILKSLQLLTAKPVIYVANVSEDDLIRGNN--KVLKVREIAAKEGAEVIPI 233

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|.
gi 787758364 245 SARAEEEISELDDEDKKEFLEAIGLTESGVDKLTRAAYHLL 285
Cdd:cd01900  234 SAKLEAELAELDEEEAAEFLEELGLEESGLDKLIRAGYELL 274
TIGR00092 TIGR00092
GTP-binding protein YchF; This predicted GTP-binding protein is found in a single copy in ...
 1-371 6.77e-129

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: 374.11  E-value: 6.77e-129
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364    1 MALTAGIVGLPNVGKSTLFNAITKA-GAEAANYPFATIDPNVGMVEVPDERLQKLTEMITPKKTVPTTFEFTDIAGIVKG 79
Cdd:TIGR00092   1 MGLSGGIVGLPNVGKSTLFAATTNLlGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   80 ASRGEGLGNKFLANIREVDAIVHVVRAFDDENVMREQGRedafVDPLADIDTINLELILADLESVNKRYARVEKMARTQK 159
Cdd:TIGR00092  81 ASKGEGLGNQFLANIREVDIIQHVVRCFEDDIIHHVGNV----DDPRDDFEIIDEELLKADEFLVEKRIGRSKKSAEGGK 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  160 DKEsvAEFNVLQKIKPVLEDGKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANVDEDVVGDpESIDYVKQIREFAAT--E 237
Cdd:TIGR00092 157 DKK--EELLLLEIILPLLNGGQMARHVDLSKEELILIKSLNLLTKKPIILIANVSEDYLRN-LNNNYLLIVEWIAAYskG 233

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  238 NAEVVVISARAEEEISELDDEDKKEFLEAIGLTES-GVDKLTRAAYHLLGLGTYFTAGEKEVRAWTFKRGMKAPQAAGII 316
Cdd:TIGR00092 234 DPKVVFVCALEESELSELDDEERQEFLQKLGLTESaGLNIIIRARYKLLLLSFFFTGGKEEVRAWTRKGGWAAPQAAGII 313

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 787758364  317 HSDFEKGFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDIMEFRFNV 371
Cdd:TIGR00092 314 HTDFETGFIAAEVISWDDFIYKKSSQGAKKGGLMRLEGKYYVVDDGDVLFFAFNV 368
YchF-GTPase_C pfam06071
Protein of unknown function (DUF933); This domain is found at the C terminus of the YchF ...
 287-368 3.15e-55

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: 175.62  E-value: 3.15e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  287 LGTYFTAGEKEVRAWTFKRGMKAPQAAGIIHSDFEKGFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDIME 366
Cdd:pfam06071   1 LITFFTAGPKEVRAWTIRKGTTAPQAAGVIHTDFEKGFIRAEVISYDDLIEYGSEAAAKEAGKLRLEGKDYVVQDGDIIH 80


                  ..
gi 787758364  367 FR 368
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 ...
 285-369 1.87e-54

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: 173.87  E-value: 1.87e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 285 LGLGTYFTAGEKEVRAWTFKRGMKAPQAAGIIHSDFEKGFIRAVTMSYDDLVKYGSEKAVKEAGRLREEGKEYVVQDGDI 364
Cdd:cd04867    1 LNLITFFTAGPDEVRAWTIRKGTKAPQAAGVIHTDFEKGFIRAEVIKYDDLKELGSEAAAKEAGKYRQEGKDYVVQDGDI 80


                 ....*
gi 787758364 365 MEFRF 369
Cdd:cd04867   81 IHFKF 85
PRK09602 PRK09602
translation-associated GTPase; Reviewed
 3-366 8.22e-42

translation-associated GTPase; Reviewed


Pssm-ID: 236584 [Multi-domain]  Cd Length: 396  Bit Score: 150.73  E-value: 8.22e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   3 LTAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGM----VEVPDerlQKLTEMITPKKT--------VPTtfEF 70
Cdd:PRK09602   2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVayvrVECPC---KELGVKCNPRNGkcidgtrfIPV--EL 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  71 TDIAGIVKGASRGEGLGNKFLANIREVDAIVHVVRA---FDDENVMREQGredaFVDPLADIDTINLELILADLESVNKR 147
Cdd:PRK09602  77 IDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDAsgsTDEEGNPVEPG----SHDPVEDIKFLEEELDMWIYGILEKN 152

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 148 YARVEKMARTQKDK--ESVAE----FNVLQK-IKPVLED-GKSARTIEFTDEEQKVVKGLFLLTTKPVLYVANvDEDVVG 219
Cdd:PRK09602 153 WEKFSRKAQAEKFDieEALAEqlsgLGINEEhVKEALRElGLPEDPSKWTDEDLLELARELRKISKPMVIAAN-KADLPP 231

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 220 DPESIDYVKQIREFaatenaEVVVISARAE---------------------EEISELDDEDKK------EFLEAIGLTes 272
Cdd:PRK09602 232 AEENIERLKEEKYY------IVVPTSAEAElalrraakaglidyipgdsdfEILGELSEKQKKaleyirEVLKKYGGT-- 303

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 273 GVDK-LTRAAYHLLGL--------GTYFTAGEKEV--RAWTFKRGMKAPQAAGIIHSDFEKGFIRAVTmsyddlvkygse 341
Cdd:PRK09602 304 GVQEaINTAVFDLLDMivvypvedENKLTDKKGNVlpDAFLLPKGSTARDLAYKIHTDIGEGFLYAID------------ 371

                        410       420
                 ....*....|....*....|....*
gi 787758364 342 kaVKEAGRLreeGKEYVVQDGDIME 366
Cdd:PRK09602 372 --ARTKRRI---GEDYELKDGDVIK 391
Ygr210 cd01899
Ygr210 GTPase; Ygr210 is a member of Obg-like family and present in archaea and fungi. They ...
 6-249 3.88e-35

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: 130.81  E-value: 3.88e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   6 GIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGM----VEVPDERLQ-----KLTEMITPKKTVPTtfEFTDIAGI 76
Cdd:cd01899    2 GLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVgyvrVECPCKELGvscnpRYGKCIDGKRYVPV--ELIDVAGL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  77 VKGASRGEGLGNKFLANIREVDAIVHVVRA---FDDENVMREQGREdafvDPLADIDTINLELILADLESVNKRYARVEK 153
Cdd:cd01899   80 VPGAHEGKGLGNQFLDDLRDADVLIHVVDAsggTDAEGNGVETGGY----DPLEDIEFLENEIDMWIYGILERNWEKIVR 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 154 MARTQKDK------ESVAEFNVLQK-IKPVLEDGK-SARTIEFTDEEQKVVKGLFLLTTKPVLYVAN----VDEDVVGDP 221
Cdd:cd01899  156 KAKAEKTDivealsEQLSGFGVNEDvVIEALEELElPADLSKWDDEDLLRLARELRKRRKPMVIAANkadiPDAEENISK 235

                        250       260
                 ....*....|....*....|....*...
gi 787758364 222 ESIDYvkqirefaatENAEVVVISARAE 249
Cdd:cd01899  236 LRLKY----------PDEIVVPTSAEAE 253
Obg_like cd01881
Obg-like family of GTPases consist of five subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1; ...
 6-146 1.39e-34

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: 125.20  E-value: 1.39e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   6 GIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDerlqkltemitpkktvPTTFEFTDIAGIVKGASRGEG 85
Cdd:cd01881    1 GLVGLPNVGKSTLLSALTSAKVEIASYPFTTLEPNVGVFEFGD----------------GVDIQIIDLPGLLDGASEGRG 64

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 787758364  86 LGNKFLANIREVDAIVHVVRAFddenvmreqgrEDAFVDPLADIDTINLELILADLESVNK 146
Cdd:cd01881   65 LGEQILAHLYRSDLILHVIDAS-----------EDCVGDPLEDQKTLNEEVSGSFLFLKNK 114
Obg cd01898
Obg GTPase; The Obg nucleotide binding protein subfamily has been implicated in stress ...
 5-138 9.40e-28

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: 107.13  E-value: 9.40e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   5 AGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERlqkltemitpkktvptTFEFTDIAGIVKGASRGE 84
Cdd:cd01898    3 VGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDGR----------------SFVIADIPGLIEGASEGK 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 787758364  85 GLGNKFLANIREVDAIVHVVRAFDDEnvmreqgredafvDPLADIDTINLELIL 138
Cdd:cd01898   67 GLGHRFLRHIERTRVLLHVIDLSGED-------------DPVEDYETIRNELEA 107
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 4-116 6.35e-27

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: 103.08  E-value: 6.35e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364    4 TAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERlqkltemitpkktvpttFEFTDIAGIVKGASRG 83
Cdd:pfam01926   1 RVALVGRPNVGKSTLINALTGAKAIVSDYPGTTRDPNEGRLELKGKQ-----------------IILVDTPGLIEGASEG 63

                          90       100       110
                  ....*....|....*....|....*....|...
gi 787758364   84 EGLGNKFLAnIREVDAIVHVVRAFDDENVMREQ 116
Cdd:pfam01926  64 EGLGRAFLA-IIEADLILFVVDSEEGITPLDEE 95
Obg_CgtA TIGR02729
Obg family GTPase CgtA; This model describes a univeral, mostly one-gene-per-genome ...
 6-146 2.32e-26

Obg family GTPase CgtA; This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal. [Protein synthesis, Other]


Pssm-ID: 274271 [Multi-domain]  Cd Length: 328  Bit Score: 107.51  E-value: 2.32e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364    6 GIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERlqkltemitpkktvptTFEFTDIAGIVKGASRGEG 85
Cdd:TIGR02729 161 GLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDDGR----------------SFVIADIPGLIEGASEGAG 224

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 787758364   86 LGNKFLANIREVDAIVHVVrafddeNVMREQGRedafvDPLADIDTINLELILADLESVNK 146
Cdd:TIGR02729 225 LGHRFLKHIERTRVLLHLI------DISPEDGS-----DPVEDYEIIRNELKKYSPELAEK 274
obgE PRK12297
GTPase CgtA; Reviewed
 5-146 6.46e-26

GTPase CgtA; Reviewed


Pssm-ID: 237046 [Multi-domain]  Cd Length: 424  Bit Score: 107.49  E-value: 6.46e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   5 AGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERlqkltemitpkktvptTFEFTDIAGIVKGASRGE 84
Cdd:PRK12297 161 VGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDDGR----------------SFVMADIPGLIEGASEGV 224

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 787758364  85 GLGNKFLANIREVDAIVHVVRAFDDEnvmreqGRedafvDPLADIDTINLELILADLESVNK 146
Cdd:PRK12297 225 GLGHQFLRHIERTRVIVHVIDMSGSE------GR-----DPIEDYEKINKELKLYNPRLLER 275
Obg COG0536
GTPase involved in cell partioning and DNA repair [Cell cycle control, cell division, ...
 5-136 2.33e-24

GTPase involved in cell partioning and DNA repair [Cell cycle control, cell division, chromosome partitioning, Replication, recombination, and repair];


Pssm-ID: 440302 [Multi-domain]  Cd Length: 343  Bit Score: 101.98  E-value: 2.33e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   5 AGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERlqkltemitpkktvptTFEFTDIAGIVKGASRGE 84
Cdd:COG0536  160 VGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVGDGR----------------SFVIADIPGLIEGASEGA 223

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 787758364  85 GLGNKFLANIREVDAIVHVVRAFDDENvmreqgredafVDPLADIDTINLEL 136
Cdd:COG0536  224 GLGHRFLRHIERTRVLLHVVDAAPLDG-----------RDPVEDYEIIRNEL 264
obgE PRK12299
GTPase CgtA; Reviewed
 5-136 3.04e-24

GTPase CgtA; Reviewed


Pssm-ID: 237048 [Multi-domain]  Cd Length: 335  Bit Score: 101.69  E-value: 3.04e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   5 AGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERlqkltemitpkktvptTFEFTDIAGIVKGASRGE 84
Cdd:PRK12299 161 VGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDDYK----------------SFVIADIPGLIEGASEGA 224

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 787758364  85 GLGNKFLANIREVDAIVHVVRAfddenvmreqgredAFVDPLADIDTINLEL 136
Cdd:PRK12299 225 GLGHRFLKHIERTRLLLHLVDI--------------EAVDPVEDYKTIRNEL 262
Rbg1 COG1163
Ribosome-interacting GTPase RBG1 [Translation, ribosomal structure and biogenesis];
4-367 1.01e-19

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


Pssm-ID: 440777 [Multi-domain]  Cd Length: 368  Bit Score: 89.09  E-value: 1.01e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   4 TAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQKLtemitpkktvpttfeftDIAGIVKGASRG 83
Cdd:COG1163   65 TVVLVGFPSVGKSTLLNKLTNAKSEVGAYEFTTLDVVPGMLEYKGAKIQIL-----------------DVPGLIEGAASG 127

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  84 EGLGNKFLANIREVDAIVHVVRAFDDEnvmreqgredafvdpladidtiNLELILADLES----VNKR--YARVEKMAR- 156
Cdd:COG1163  128 KGRGKEVLSVVRNADLILIVLDVFELE----------------------QYDVLKEELYDagirLNKPppDVTIEKKGKg 185

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 157 ----TQKDKESVAEfnvlQKIKPVLEDGK--SAR-TI--EFTDEEqkVVKGLFLLTT-KPVLYVAN-VDedvVGDPEsid 225
Cdd:COG1163  186 girvNSTGKLDLDE----EDIKKILREYGivNADvLIreDVTLDD--LIDALMGNRVyKPAIVVVNkID---LADEE--- 253

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 226 YVKQIREfAATENAEVVVISARaeeeiselddedkkefleaiglTESGVDKLTRAAYHLLGLgtyftagekeVRAWTFKR 305
Cdd:COG1163  254 YVEELKS-KLPDGVPVIFISAE----------------------KGIGLEELKEEIFEELGL----------IRVYLKPP 300

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 787758364 306 GMKAPQ--------------AAGIIHSDFEKGFIRA-VTMSYddlVKYGSEKAvkeagrlreeGKEYVVQDGDIMEF 367
Cdd:COG1163  301 GGKADMeeplilrkgstvgdVCEKIHRDFVERFRYArVWGKS---AKHPGQRV----------GLDHVLEDGDIVEI 364
obgE PRK12296
GTPase CgtA; Reviewed
 6-136 5.88e-19

GTPase CgtA; Reviewed


Pssm-ID: 237045 [Multi-domain]  Cd Length: 500  Bit Score: 88.00  E-value: 5.88e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   6 GIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDerlqkltemitpkktvpTTFEFTDIAGIVKGASRGEG 85
Cdd:PRK12296 163 GLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGD-----------------TRFTVADVPGLIPGASEGKG 225

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 787758364  86 LGNKFLANIREVDAIVHVVrafdDENVMrEQGRedafvDPLADIDTINLEL 136
Cdd:PRK12296 226 LGLDFLRHIERCAVLVHVV----DCATL-EPGR-----DPLSDIDALEAEL 266
DRG cd01896
Developmentally Regulated GTP-binding protein (DRG); The developmentally regulated GTP-binding ...
 4-114 2.04e-18

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: 83.36  E-value: 2.04e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   4 TAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQKLtemitpkktvpttfeftDIAGIVKGASRG 83
Cdd:cd01896    2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVMEYKGAKIQLL-----------------DLPGIIEGASDG 64

                         90       100       110
                 ....*....|....*....|....*....|.
gi 787758364  84 EGLGNKFLANIREVDAIVHVVRAFDDENVMR 114
Cdd:cd01896   65 KGRGRQVIAVARTADLILIVLDATKPEGQRE 95
obgE PRK12298
GTPase CgtA; Reviewed
 6-91 2.55e-15

GTPase CgtA; Reviewed


Pssm-ID: 237047 [Multi-domain]  Cd Length: 390  Bit Score: 76.44  E-value: 2.55e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   6 GIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERlqkltemitpkktvptTFEFTDIAGIVKGASRGEG 85
Cdd:PRK12298 163 GLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDDER----------------SFVVADIPGLIEGASEGAG 226


                 ....*.
gi 787758364  86 LGNKFL 91
Cdd:PRK12298 227 LGIRFL 232
TGS cd01616
TGS (ThrRS, GTPase and SpoT) domain structurally similar to a beta-grasp ubiquitin-like fold; ...
 289-368 3.63e-11

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: 58.00  E-value: 3.63e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 289 TYFTAGEKEVRAWTFKRGMKAPQAAGIIHSDFEKGFIRAvtmsyddlvkygsekavKEAGRLreEGKEYVVQDGDIMEFR 368
Cdd:cd01616    1 EVFTVGKTPGTVFVMNKGATAYSCAMHLHEDYCRKSILA-----------------LVDGQL--WDMYYPLTKGDEIKFL 61
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 6-106 3.57e-10

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: 58.03  E-value: 3.57e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   6 GIVGLPNVGKSTLFNAITKAG-AEAANYPFATIDPNVGMVEVPDERlqkltemitpkktvptTFEFTDIAGIVKGASRGE 84
Cdd:cd00880    1 AIFGRPNVGKSSLLNALLGQNvGIVSPIPGTTRDPVRKEWELLPLG----------------PVVLIDTPGLDEEGGLGR 64

                         90       100
                 ....*....|....*....|..
gi 787758364  85 GLGNKFLANIREVDAIVHVVRA 106
Cdd:cd00880   65 ERVEEARQVADRADLVLLVVDS 86
HflX COG2262
50S ribosomal subunit-associated GTPase HflX [Translation, ribosomal structure and biogenesis]; ...
 4-50 5.56e-09

50S ribosomal subunit-associated GTPase HflX [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441863 [Multi-domain]  Cd Length: 419  Bit Score: 57.40  E-value: 5.56e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 787758364   4 TAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDER 50
Cdd:COG2262  201 TVALVGYTNAGKSTLFNRLTGADVLAEDKLFATLDPTTRRLELPDGR 247
NOG cd01897
Nucleolar GTP-binding protein (NOG); NOG1 is a nucleolar GTP-binding protein present in ...
 7-52 1.18e-08

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: 53.72  E-value: 1.18e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 787758364   7 IVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQ 52
Cdd:cd01897    5 IAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDYKYLRWQ 50
GTP_HflX TIGR03156
GTP-binding protein HflX; This protein family is one of a number of homologous small, ...
 4-50 1.96e-08

GTP-binding protein HflX; This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like). [Unknown function, General]


Pssm-ID: 274455 [Multi-domain]  Cd Length: 351  Bit Score: 55.17  E-value: 1.96e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 787758364    4 TAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDER 50
Cdd:TIGR03156 191 TVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDGG 237
HflX cd01878
HflX GTPase family; HflX subfamily. A distinct conserved domain with a glycine-rich segment ...
 4-50 2.35e-08

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: 53.62  E-value: 2.35e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 787758364   4 TAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDER 50
Cdd:cd01878   43 TVALVGYTNAGKSTLFNALTGADVLAEDQLFATLDPTTRRIKLPGGR 89
FeoB cd01879
Ferrous iron transport protein B (FeoB) family; Ferrous iron transport protein B (FeoB) ...
 7-106 2.57e-08

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: 52.84  E-value: 2.57e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   7 IVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDErlqkltemitpkktvptTFEFTDIAGI--VKGASRGE 84
Cdd:cd01879    2 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGEFKLGGK-----------------EIEIVDLPGTysLTPYSEDE 64

                         90       100
                 ....*....|....*....|..
gi 787758364  85 GLGNKFLANiREVDAIVHVVRA 106
Cdd:cd01879   65 KVARDFLLG-EEPDLIVNVVDA 85
Nog1 COG1084
GTP-binding protein, GTP1/Obg family [General function prediction only];
7-52 6.38e-08

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


Pssm-ID: 440701 [Multi-domain]  Cd Length: 330  Bit Score: 53.68  E-value: 6.38e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 787758364   7 IVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQ 52
Cdd:COG1084  165 VAGYPNVGKSSLVSKVTSAKPEIASYPFTTKGIIVGHFERGHGRYQ 210
feoB TIGR00437
ferrous iron transporter FeoB; FeoB (773 amino acids in E. coli), a cytoplasmic membrane ...
 9-106 9.15e-08

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: 53.98  E-value: 9.15e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364    9 GLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDErlqkltemitpkktvptTFEFTDIAGI--VKGASRGEGL 86
Cdd:TIGR00437   1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQGE-----------------DIEIVDLPGIysLTTFSLEEEV 63

                          90       100
                  ....*....|....*....|
gi 787758364   87 GNKFLANiREVDAIVHVVRA 106
Cdd:TIGR00437  64 ARDYLLN-EKPDLVVNVVDA 82
FeoB_N pfam02421
Ferrous iron transport protein B; Escherichia coli has an iron(II) transport system (feo) ...
 3-106 1.57e-07

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: 50.53  E-value: 1.57e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364    3 LTAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDerlqkltemitpkktvpTTFEFTDIAGI--VKGA 80
Cdd:pfam02421   1 ITIALVGNPNVGKTTLFNALTGANQHVGNWPGVTVEKKEGKFKYKG-----------------YEIEIVDLPGIysLSPY 63

                          90       100
                  ....*....|....*....|....*.
gi 787758364   81 SRGEGLGNKFLANiREVDAIVHVVRA 106
Cdd:pfam02421  64 SEEERVARDYLLN-EKPDVIVNVVDA 88
PRK11058 PRK11058
GTPase HflX; Provisional
 4-48 2.59e-07

GTPase HflX; Provisional


Pssm-ID: 182934 [Multi-domain]  Cd Length: 426  Bit Score: 52.03  E-value: 2.59e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 787758364   4 TAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPD 48
Cdd:PRK11058 199 TVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVAD 243
FeoB COG0370
Fe2+ transporter FeoB [Inorganic ion transport and metabolism];
1-52 3.23e-07

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


Pssm-ID: 440139 [Multi-domain]  Cd Length: 662  Bit Score: 52.04  E-value: 3.23e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 787758364   1 MALTAGIVGLPNVGKSTLFNAITKAGAEAANYPFATIDPNVGMVEVPDERLQ 52
Cdd:COG0370    2 KMITIALVGNPNVGKTTLFNALTGSRQKVGNWPGVTVEKKEGKFKLKGKEIE 53
TGS_Obg cd04938
TGS (ThrRS, GTPase and SpoT) domain found in the Obg protein family; The Obg family of GTPases ...
 289-368 4.09e-07

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: 47.06  E-value: 4.09e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364 289 TYFTAGEKEVRAWTFKRGMKAPQAAGIIHSDFEKGFIRAVTmsyddlvkygsekavkeAGRLREEGKEYVVQDGDIMEFR 368
Cdd:cd04938   15 TNGSGNSVFRDCVLVKKGTTVKDFANKIHTDLEKGFINAEG-----------------IGGRRLEGEDYILQDNDVVKFT 77
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 6-116 1.46e-06

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: 47.84  E-value: 1.46e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   6 GIVGLPNVGKSTLFNAITKA-GAEAANYPFATIDPNVGMVEVPDERLQkltemitpkktvpttFEFTDIAGIVKGasRGE 84
Cdd:cd00882    1 VVVGRGGVGKSSLLNALLGGeVGEVSDVPGTTRDPDVYVKELDKGKVK---------------LVLVDTPGLDEF--GGL 63

                         90       100       110
                 ....*....|....*....|....*....|..
gi 787758364  85 GLGNKFLANIREVDAIVHVVRAFDDENVMREQ 116
Cdd:cd00882   64 GREELARLLLRGADLILLVVDSTDRESEEDAK 95
small_GTP TIGR00231
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this ...
 6-119 1.24e-05

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


Pssm-ID: 272973 [Multi-domain]  Cd Length: 162  Bit Score: 45.06  E-value: 1.24e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364    6 GIVGLPNVGKSTLFNAITK-AGAEAANYPFATIDPNVGMVEVpderlqkltemitpkKTVPTTFEFTDIAGIVKGASRGE 84
Cdd:TIGR00231   5 VIVGHPNVGKSTLLNSLLGnKGSITEYYPGTTRNYVTTVIEE---------------DGKTYKFNLLDTAGQEDYDAIRR 69

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 787758364   85 GLGNKFLANIREVDAIVHVVRAfddENVMREQGRE 119
Cdd:TIGR00231  70 LYYPQVERSLRVFDIVILVLDV---EEILEKQTKE 101
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
1-24 2.18e-05

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


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 46.17  E-value: 2.18e-05
                         10        20
                 ....*....|....*....|....
gi 787758364   1 MALTAGIVGLPNVGKSTLFNAITK 24
Cdd:COG1160    1 MSPVVAIVGRPNVGKSTLFNRLTG 24
EngA1 cd01894
EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first ...
 7-24 2.69e-05

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


Pssm-ID: 206681 [Multi-domain]  Cd Length: 157  Bit Score: 43.96  E-value: 2.69e-05
                         10
                 ....*....|....*...
gi 787758364   7 IVGLPNVGKSTLFNAITK 24
Cdd:cd01894    2 IVGRPNVGKSTLFNRLTG 19
YlqF cd01856
Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs ...
 2-33 4.23e-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: 4.23e-05
                         10        20        30
                 ....*....|....*....|....*....|...
gi 787758364   2 ALTAGIVGLPNVGKSTLFNAITKAG-AEAANYP 33
Cdd:cd01856  115 PLRAMVVGIPNVGKSTLINRLRGKKvAKVGNKP 147
GTPase_EngA TIGR03594
ribosome-associated GTPase EngA; EngA (YfgK, Der) is a ribosome-associated essential GTPase ...
 7-106 5.61e-05

ribosome-associated GTPase EngA; EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability. [Protein synthesis, Other]


Pssm-ID: 274667 [Multi-domain]  Cd Length: 428  Bit Score: 44.75  E-value: 5.61e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364    7 IVGLPNVGKSTLFNAITKA-GAEAANYPFATIDPNVGMVEVPDERlqkltemitpkktvpttFEFTDIAGIVkgaSRGEG 85
Cdd:TIGR03594   3 IVGRPNVGKSTLFNRLTGKrDAIVDDTPGVTRDRIYGDAEWGGRE-----------------FILIDTGGIE---EDDDG 62

                          90       100
                  ....*....|....*....|....*
gi 787758364   86 LGNKFLAN----IREVDAIVHVVRA 106
Cdd:TIGR03594  63 IDAQIREQaeiaIEEADVILFVVDG 87
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 7-24 7.26e-05

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 44.66  E-value: 7.26e-05
                         10
                 ....*....|....*...
gi 787758364   7 IVGLPNVGKSTLFNAITK 24
Cdd:PRK00093   6 IVGRPNVGKSTLFNRLTG 23
Era cd04163
E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is ...
 7-200 8.66e-05

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


Pssm-ID: 206726 [Multi-domain]  Cd Length: 168  Bit Score: 42.45  E-value: 8.66e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   7 IVGLPNVGKSTLFNAItkagaeaanypfatidpnVGmvevpderlQKLTeMITPKKTvpTT--------------FEFTD 72
Cdd:cd04163    8 IIGRPNVGKSTLLNAL------------------VG---------QKIS-IVSPKPQ--TTrnrirgiytdddaqIIFVD 57

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  73 IAGIVKGASRgegLGNKFLAN----IREVDAIVHVVrafddeNVMREQGREDAFVdpLADIDTINLELILAdlesVNKRY 148
Cdd:cd04163   58 TPGIHKPKKK---LGERMVKAawsaLKDVDLVLFVV------DASEWIGEGDEFI--LELLKKSKTPVILV----LNKID 122

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 787758364 149 aRVEKMARTQKDKESVAEFNVLQKIKPVledgkSARTIEFTDEEQKVVKGLF 200
Cdd:cd04163  123 -LVKDKEDLLPLLEKLKELHPFAEIFPI-----SALKGENVDELLEYIVEYL 168
MnmE COG0486
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal ...
 7-30 2.22e-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: 43.13  E-value: 2.22e-04
                         10        20
                 ....*....|....*....|....
gi 787758364   7 IVGLPNVGKSTLFNAItkAGAEAA 30
Cdd:COG0486  218 IVGRPNVGKSSLLNAL--LGEERA 239
feoB PRK09554
Fe(2+) transporter permease subunit FeoB;
2-47 3.92e-04

Fe(2+) transporter permease subunit FeoB;


Pssm-ID: 236563 [Multi-domain]  Cd Length: 772  Bit Score: 42.40  E-value: 3.92e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 787758364   2 ALTAGIVGLPNVGKSTLFNAITKAGAEAANYP----------FATIDPNVGMVEVP 47
Cdd:PRK09554   3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAgvtverkegqFSTTDHQVTLVDLP 58
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
 7-30 4.94e-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: 40.17  E-value: 4.94e-04
                         10        20
                 ....*....|....*....|....
gi 787758364   7 IVGLPNVGKSTLFNAItkAGAEAA 30
Cdd:cd04164    8 IAGKPNVGKSSLLNAL--AGRDRA 29
Nucleostemin_like cd04178
A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein ...
 2-27 7.05e-04

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: 39.87  E-value: 7.05e-04
                         10        20
                 ....*....|....*....|....*.
gi 787758364   2 ALTAGIVGLPNVGKSTLFNAITKAGA 27
Cdd:cd04178  116 SITVGVVGYPNVGKSSVINSLKRSRA 141
EngA2 cd01895
EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second ...
 7-106 8.85e-04

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


Pssm-ID: 206682 [Multi-domain]  Cd Length: 174  Bit Score: 39.72  E-value: 8.85e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   7 IVGLPNVGKSTLFNAITkaGAEAA---NYPFATIDPnvgmVEVPDERLQKltemitpkktvptTFEFTDIAGIVKGASRG 83
Cdd:cd01895    7 IIGRPNVGKSSLLNALL--GEERVivsDIAGTTRDS----IDVPFEYDGQ-------------KYTLIDTAGIRKKGKVT 67

                         90       100
                 ....*....|....*....|....*...
gi 787758364  84 EGLgNKF-----LANIREVDAIVHVVRA 106
Cdd:cd01895   68 EGI-EKYsvlrtLKAIERADVVLLVLDA 94
trmE PRK05291
tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;
7-30 1.32e-03

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


Pssm-ID: 235392 [Multi-domain]  Cd Length: 449  Bit Score: 40.48  E-value: 1.32e-03
                         10        20
                 ....*....|....*....|....
gi 787758364   7 IVGLPNVGKSTLFNAItkAGAEAA 30
Cdd:PRK05291 220 IAGRPNVGKSSLLNAL--LGEERA 241
MnmE_helical pfam12631
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ...
 7-30 1.70e-03

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: 39.77  E-value: 1.70e-03
                          10        20
                  ....*....|....*....|....
gi 787758364    7 IVGLPNVGKSTLFNAItkAGAEAA 30
Cdd:pfam12631  99 IVGKPNVGKSSLLNAL--LGEERA 120
era PRK00089
GTPase Era; Reviewed
 7-146 2.38e-03

GTPase Era; Reviewed


Pssm-ID: 234624 [Multi-domain]  Cd Length: 292  Bit Score: 39.26  E-value: 2.38e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   7 IVGLPNVGKSTLFNAItkagaeaanypfatidpnVGmvevpderlQKLTeMITPKktVPTT--------------FEFTD 72
Cdd:PRK00089  10 IVGRPNVGKSTLLNAL------------------VG---------QKIS-IVSPK--PQTTrhrirgivteddaqIIFVD 59

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 787758364  73 IAGIVKGASR-GEGLGNKFLANIREVDAIVHVVrafddeNVMREQGREDAFVdpLADIDTINLELILAdlesVNK 146
Cdd:PRK00089  60 TPGIHKPKRAlNRAMNKAAWSSLKDVDLVLFVV------DADEKIGPGDEFI--LEKLKKVKTPVILV----LNK 122
YlqF_related_GTPase cd01849
Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, ...
 3-25 2.49e-03

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


Pssm-ID: 206746 [Multi-domain]  Cd Length: 146  Bit Score: 38.13  E-value: 2.49e-03
                         10        20
                 ....*....|....*....|...
gi 787758364   3 LTAGIVGLPNVGKSTLFNAITKA 25
Cdd:cd01849   92 IRVGVVGLPNVGKSSFINALLNK 114
Era COG1159
GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis];
7-148 2.84e-03

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


Pssm-ID: 440773 [Multi-domain]  Cd Length: 290  Bit Score: 39.20  E-value: 2.84e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364   7 IVGLPNVGKSTLFNAItkagaeaanypfatidpnVGmvevpderlQKLTeMITPK-----------KTVPTT-FEFTDIA 74
Cdd:COG1159    8 IVGRPNVGKSTLLNAL------------------VG---------QKVS-IVSPKpqttrhrirgiVTREDAqIVFVDTP 59

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 787758364  75 GIVKGASR-GEGLgNKF-LANIREVDAIVHVVrafddeNVMREQGREDAFV-DPLAD-----------IDTINLELILAD 140
Cdd:COG1159   60 GIHKPKRKlGRRM-NKAaWSALEDVDVILFVV------DATEKIGEGDEFIlELLKKlktpvilvinkIDLVKKEELLPL 132


                 ....*...
gi 787758364 141 LESVNKRY 148
Cdd:COG1159  133 LAEYSELL 140
RbgA COG1161
Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];
7-33 3.88e-03

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


Pssm-ID: 440775 [Multi-domain]  Cd Length: 279  Bit Score: 38.55  E-value: 3.88e-03
                         10        20
                 ....*....|....*....|....*...
gi 787758364   7 IVGLPNVGKSTLFNAIT-KAGAEAANYP 33
Cdd:COG1161  118 IVGIPNVGKSTLINRLAgKKVAKTGNKP 145
GTPase_YlqF TIGR03596
ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding ...
 7-33 4.54e-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: 4.54e-03
                          10        20
                  ....*....|....*....|....*...
gi 787758364    7 IVGLPNVGKSTLFNA-ITKAGAEAANYP 33
Cdd:TIGR03596 123 IVGIPNVGKSTLINRlAGKKVAKVGNRP 150
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
7-22 5.10e-03

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


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 38.47  E-value: 5.10e-03
                         10
                 ....*....|....*.
gi 787758364   7 IVGLPNVGKSTLFNAI 22
Cdd:COG1160  180 IVGRPNVGKSSLINAL 195
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 7-24 7.88e-03

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 38.11  E-value: 7.88e-03
                         10
                 ....*....|....*...
gi 787758364   7 IVGLPNVGKSTLFNAITK 24
Cdd:PRK00093 178 IIGRPNVGKSSLINALLG 195
 
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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