P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767950870 308 EGVVLVDIPGTGDFNSKRDEMWKKTIDKCSVIWVISDIERVsggQAHEDLlnESIKACQRGFCRDVALVVTKMDKLhlpe 387
Cdd:cd09912   46 KGVVLVDTPGLNSTIEHHTEITESFLPRADAVIFVLSADQP---LTESER--EFLKEILKWSGKKIFFVLNKIDLL---- 116

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767950870 388 ylrerkagnqaiqSQREavlERNEMIKLQRTRILKEKLKRKLPadfkvleasdlVYTVSAQ---EYWQQ-ALLTEEETEI 463
Cdd:cd09912  117 -------------SEEE---LEEVLEYSREELGVLELGGGEPR-----------IFPVSAKealEARLQgDEELLEQSGF 169

                        170
                 ....*....|.
gi 767950870 464 PKLREYIRKSL 474
Cdd:cd09912  170 EELEEHLEEFL 180

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.

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 767950870 128 ALFGSTGAGKSSLINAIIQQaMFLPVSGESICTSCIVQVS 167
Cdd:cd00882    1 VVVGRGGVGKSSLLNALLGG-EVGEVSDVPGTTRDPDVYV 39

Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767950870  71 LIPDEKLESRTRRVLSNTYQKL---IQSVFLDDSiPNGvkYLINRLLALIEKPTVDPIYIALFGSTGAGKSSLINAIIQQ 147
Cdd:cd01855   72 LLPKDVKPNRLKQWVKKRLKIGglkIKDVILVSA-KKG--WGVEELIEEIKKLAKYRGDVYVVGATNVGKSTLINALLKS 148

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.

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 767950870 128 ALFGSTGAGKSSLINAIIQQaMFLPVSGESICTSCIVQVS 167
Cdd:cd00882    1 VVVGRGGVGKSSLLNALLGG-EVGEVSDVPGTTRDPDVYV 39

Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767950870  71 LIPDEKLESRTRRVLSNTYQKL---IQSVFLDDSiPNGvkYLINRLLALIEKPTVDPIYIALFGSTGAGKSSLINAIIQQ 147
Cdd:cd01855   72 LLPKDVKPNRLKQWVKKRLKIGglkIKDVILVSA-KKG--WGVEELIEEIKKLAKYRGDVYVVGATNVGKSTLINALLKS 148

YfjP GTPase; The Era (E. coli Ras-like protein)-like YfjP subfamily includes several uncharacterized bacterial GTPases that are similar to Era. They generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain.

                         10        20        30
                 ....*....|....*....|....*....|....
gi 767950870 128 ALFGSTGAGKSSLINAIIQQAMfLPVSGESICTS 161
Cdd:cd11383    1 GLMGKTGAGKSSLCNALFGTEV-AAVGDRRPTTR 33

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.

                          10        20
                  ....*....|....*....|.
gi 767950870  127 IALFGSTGAGKSSLINAIIQQ 147
Cdd:pfam01926   2 VALVGRPNVGKSTLINALTGA 22