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Conserved domains on  [gi|9506611|ref|NP_061940|]
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guanine nucleotide-binding protein-like 3-like protein [Homo sapiens]

Protein Classification

Nucleostemin_like domain-containing protein( domain architecture ID 10135269)

Nucleostemin_like domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nucleostemin_like cd04178
A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein ...
 136-307 1.03e-108

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: 322.99  E-value: 1.03e-108
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  136 DVILEVLDARDPLGCRCFQMEEAVLRAQGNKKLVLVLNKIDLVPKEVVEKWLDYLRNELPTVAFKASTQHQVKNLNRCSV 215
Cdd:cd04178   1 DVILEVLDARDPLGCRCPQVERAVLVLGPNKKLVLVLNKIDLVPKENVEKWLKYLRNEFPTVAFKASTQQQKKNLSRKSK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  216 PVDqASESLLKSKACFGAENLMRVLGNYCRLGEVRTHIRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGITKFMQEVYL 295
Cdd:cd04178  81 KVK-ASDDLLSSSACLGADALLKLLKNYARNKGIKTSITVGVVGYPNVGKSSVINSLKRSRACNVGATPGVTKSMQEVHL 159

                       170
                ....*....|..
gi 9506611  296 DKFIRLLDAPGI 307
Cdd:cd04178 160 DKHVKLLDSPGV 171
 
Name Accession Description Interval E-value
Nucleostemin_like cd04178
A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein ...
 136-307 1.03e-108

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: 322.99  E-value: 1.03e-108
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  136 DVILEVLDARDPLGCRCFQMEEAVLRAQGNKKLVLVLNKIDLVPKEVVEKWLDYLRNELPTVAFKASTQHQVKNLNRCSV 215
Cdd:cd04178   1 DVILEVLDARDPLGCRCPQVERAVLVLGPNKKLVLVLNKIDLVPKENVEKWLKYLRNEFPTVAFKASTQQQKKNLSRKSK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  216 PVDqASESLLKSKACFGAENLMRVLGNYCRLGEVRTHIRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGITKFMQEVYL 295
Cdd:cd04178  81 KVK-ASDDLLSSSACLGADALLKLLKNYARNKGIKTSITVGVVGYPNVGKSSVINSLKRSRACNVGATPGVTKSMQEVHL 159

                       170
                ....*....|..
gi 9506611  296 DKFIRLLDAPGI 307
Cdd:cd04178 160 DKHVKLLDSPGV 171
RbgA COG1161
Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];
136-397 2.87e-43

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


Pssm-ID: 440775 [Multi-domain]  Cd Length: 279  Bit Score: 156.04  E-value: 2.87e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  136 DVILEVLDARDPLGCRCFQMEEAVlraqGNKKLVLVLNKIDLVPKEVVEKWLDYLRNE-LPTVAFKASTQHQVKNLNrcs 214
Cdd:COG1161  25 DLVIEVVDARIPLSSRNPMLDELV----GNKPRLLVLNKADLADPSVTKQWLKYFEKQgVDALAISAKKGKGIKELI--- 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  215 vpvdQASESLLKSKacfgaenlmrvlgnycrlGEVRTHIRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGITKFMQEVY 294
Cdd:COG1161  98 ----EAIRELAPEK------------------GIKRRPIRVMIVGIPNVGKSTLINRLAGKKVAKTGNKPGVTKGQQWIK 155

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  295 LDKFIRLLDAPGIVPgPNSEVGTILRncvhvqKLA------DPVTPVETI-------LQRCNLEEISNYYGVSGFQTTEH 361
Cdd:COG1161 156 LDDGLELLDTPGILW-PKFEDPEVGY------KLAatgaikDEVLDLEEValfllgyLARRYPELLKERYKLDELPRTKL 228

                       250       260       270
                ....*....|....*....|....*....|....*..
gi 9506611  362 -FLTAVAHRLGKKKKGGLYSQEQAAKAVLADWVSGKI 397
Cdd:COG1161 229 eLLEAIGRKRGCLLSGGEVDLEKAAEILLTDFRSGKL 265
GTPase_YlqF TIGR03596
ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding ...
 126-397 5.86e-37

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: 138.41  E-value: 5.86e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611    126 KEFRKVVEYSDVILEVLDARDPLGCRCFQMEEAVlraqGNKKLVLVLNKIDLVPKEVVEKWLDYLRNE-LPTVAFKASTQ 204
Cdd:TIGR03596  13 REIKENLKLVDVVIEVLDARIPLSSRNPMIDEIR----GNKPRLIVLNKADLADPAVTKQWLKYFEEKgIKALAVNAKKG 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611    205 HQVKNLNrcsvpvdQASESLLKSKacfgaenlmrvLGNYCRLGEVRTHIRVGVVGLPNVGKSSLINSLKRSRACSVGAVP 284
Cdd:TIGR03596  89 AGVKKII-------KAAKKLLKEK-----------NEKLKAKGLKNRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRP 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611    285 GITKFMQEVYLDKFIRLLDAPGIVPgPNSE----------VGTILRNCVHVQKLAdpvtpVET--ILQRCNLEEISNYYG 352
Cdd:TIGR03596 151 GVTKGQQWIKLSDNLELLDTPGILW-PKFEdqevglklaaTGAIKDEALDLEDVA-----LFLleYLLEHYPELLKERYK 224

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*.
gi 9506611    353 VSGFQTTEH-FLTAVAHRLGKKKKGGLYSQEQAAKAVLADWVSGKI 397
Cdd:TIGR03596 225 LDELPEDPVeLLEAIAKKRGCLLKGGELDLDRAAEILLNDFRKGKL 270
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 254-316 8.77e-16

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: 73.42  E-value: 8.77e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 9506611    254 RVGVVGLPNVGKSSLINSLKRSRAcSVGAVPGITKFMQEVYL---DKFIRLLDAPGIVPGPNSEVG 316
Cdd:pfam01926   1 RVALVGRPNVGKSTLINALTGAKA-IVSDYPGTTRDPNEGRLelkGKQIILVDTPGLIEGASEGEG 65
era PRK00089
GTPase Era; Reviewed
 136-210 2.34e-06

GTPase Era; Reviewed


Pssm-ID: 234624 [Multi-domain]  Cd Length: 292  Bit Score: 49.66  E-value: 2.34e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611   136 DVILEVLDARDPLGcrcfQMEEAVLR--AQGNKKLVLVLNKIDLV-PKEVVEKWLDYLRNELP---TVAFKASTQHQVKN 209
Cdd:PRK00089  86 DLVLFVVDADEKIG----PGDEFILEklKKVKTPVILVLNKIDLVkDKEELLPLLEELSELMDfaeIVPISALKGDNVDE 161


                 .
gi 9506611   210 L 210
Cdd:PRK00089 162 L 162
 
Name Accession Description Interval E-value
Nucleostemin_like cd04178
A circularly permuted subfamily of the Ras GTPases; Nucleostemin (NS) is a nucleolar protein ...
 136-307 1.03e-108

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: 322.99  E-value: 1.03e-108
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  136 DVILEVLDARDPLGCRCFQMEEAVLRAQGNKKLVLVLNKIDLVPKEVVEKWLDYLRNELPTVAFKASTQHQVKNLNRCSV 215
Cdd:cd04178   1 DVILEVLDARDPLGCRCPQVERAVLVLGPNKKLVLVLNKIDLVPKENVEKWLKYLRNEFPTVAFKASTQQQKKNLSRKSK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  216 PVDqASESLLKSKACFGAENLMRVLGNYCRLGEVRTHIRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGITKFMQEVYL 295
Cdd:cd04178  81 KVK-ASDDLLSSSACLGADALLKLLKNYARNKGIKTSITVGVVGYPNVGKSSVINSLKRSRACNVGATPGVTKSMQEVHL 159

                       170
                ....*....|..
gi 9506611  296 DKFIRLLDAPGI 307
Cdd:cd04178 160 DKHVKLLDSPGV 171
YlqF_related_GTPase cd01849
Circularly permuted YlqF-related GTPases; These proteins are found in bacteria, eukaryotes, ...
 136-307 3.99e-55

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: 182.97  E-value: 3.99e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  136 DVILEVLDARDPLGCRCFQMEeaVLRAQGNKKLVLVLNKIDLVPKEVVEKWLDYLRNELPTVAFKASTQHQVKNLNRCSV 215
Cdd:cd01849   1 DVVVEVVDARDPLSSRNPDIE--VLINEKNKKLIMVLNKADLVPKEVLRKWVAELSELYGTKTFFISATNGQGILKLKAE 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  216 PVDQasesllkskacfgaenlmrvlgnyCRLGEVRTHIRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGITKFMQEVYL 295
Cdd:cd01849  79 ITKQ------------------------KLKLKYKKGIRVGVVGLPNVGKSSFINALLNKFKLKVGSIPGTTKLQQDVKL 134

                       170
                ....*....|..
gi 9506611  296 DKFIRLLDAPGI 307
Cdd:cd01849 135 DKEIYLYDTPGI 146
NGP_1 cd01858
A novel nucleolar GTP-binding protein, circularly permuted subfamily of the Ras GTPases; ...
 127-307 9.34e-51

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: 171.71  E-value: 9.34e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  127 EFRKVVEYSDVILEVLDARDPLGCRCFQMEEAVLRAQGNKKLVLVLNKIDLVPKEVVEKWLDYLRNELPTVAFKASTQHq 206
Cdd:cd01858   1 ELYKVIDSSDVIIQVLDARDPMGTRCKHVEKYLRKEKPHKHLIFVLNKCDLVPTWVTKRWVKVLSKEYPTLAFHASITN- 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  207 vknlnrcsvpvdqasesllkskaCFGAENLMRVLGNYCRLGEVRTHIRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGI 286
Cdd:cd01858  80 -----------------------PFGKGALINLLRQFAKLHSDKKQISVGFIGYPNVGKSSVINTLRSKKVCKVAPIPGE 136

                       170       180
                ....*....|....*....|.
gi 9506611  287 TKFMQEVYLDKFIRLLDAPGI 307
Cdd:cd01858 137 TKVWQYITLMKRIYLIDCPGV 157
RbgA COG1161
Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];
136-397 2.87e-43

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


Pssm-ID: 440775 [Multi-domain]  Cd Length: 279  Bit Score: 156.04  E-value: 2.87e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  136 DVILEVLDARDPLGCRCFQMEEAVlraqGNKKLVLVLNKIDLVPKEVVEKWLDYLRNE-LPTVAFKASTQHQVKNLNrcs 214
Cdd:COG1161  25 DLVIEVVDARIPLSSRNPMLDELV----GNKPRLLVLNKADLADPSVTKQWLKYFEKQgVDALAISAKKGKGIKELI--- 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  215 vpvdQASESLLKSKacfgaenlmrvlgnycrlGEVRTHIRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGITKFMQEVY 294
Cdd:COG1161  98 ----EAIRELAPEK------------------GIKRRPIRVMIVGIPNVGKSTLINRLAGKKVAKTGNKPGVTKGQQWIK 155

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  295 LDKFIRLLDAPGIVPgPNSEVGTILRncvhvqKLA------DPVTPVETI-------LQRCNLEEISNYYGVSGFQTTEH 361
Cdd:COG1161 156 LDDGLELLDTPGILW-PKFEDPEVGY------KLAatgaikDEVLDLEEValfllgyLARRYPELLKERYKLDELPRTKL 228

                       250       260       270
                ....*....|....*....|....*....|....*..
gi 9506611  362 -FLTAVAHRLGKKKKGGLYSQEQAAKAVLADWVSGKI 397
Cdd:COG1161 229 eLLEAIGRKRGCLLSGGEVDLEKAAEILLTDFRSGKL 265
GTPase_YlqF TIGR03596
ribosome biogenesis GTP-binding protein YlqF; Members of this protein family are GTP-binding ...
 126-397 5.86e-37

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: 138.41  E-value: 5.86e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611    126 KEFRKVVEYSDVILEVLDARDPLGCRCFQMEEAVlraqGNKKLVLVLNKIDLVPKEVVEKWLDYLRNE-LPTVAFKASTQ 204
Cdd:TIGR03596  13 REIKENLKLVDVVIEVLDARIPLSSRNPMIDEIR----GNKPRLIVLNKADLADPAVTKQWLKYFEEKgIKALAVNAKKG 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611    205 HQVKNLNrcsvpvdQASESLLKSKacfgaenlmrvLGNYCRLGEVRTHIRVGVVGLPNVGKSSLINSLKRSRACSVGAVP 284
Cdd:TIGR03596  89 AGVKKII-------KAAKKLLKEK-----------NEKLKAKGLKNRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRP 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611    285 GITKFMQEVYLDKFIRLLDAPGIVPgPNSE----------VGTILRNCVHVQKLAdpvtpVET--ILQRCNLEEISNYYG 352
Cdd:TIGR03596 151 GVTKGQQWIKLSDNLELLDTPGILW-PKFEdqevglklaaTGAIKDEALDLEDVA-----LFLleYLLEHYPELLKERYK 224

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*.
gi 9506611    353 VSGFQTTEH-FLTAVAHRLGKKKKGGLYSQEQAAKAVLADWVSGKI 397
Cdd:TIGR03596 225 LDELPEDPVeLLEAIAKKRGCLLKGGELDLDRAAEILLNDFRKGKL 270
MJ1464 cd01859
An uncharacterized, circularly permuted subfamily of the Ras GTPases; This family represents ...
 124-307 2.71e-36

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: 132.83  E-value: 2.71e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  124 YYKEFRKVVEYSDVILEVLDARDPLGCRCFQMEEAVLRAqgNKKLVLVLNKIDLVPKEVVEKWLDYLRNE-LPTVaFKAS 202
Cdd:cd01859   1 WKRLVRRIIKEADVVLEVVDARDPELTRSRKLERMALEL--GKKLIIVLNKADLVPREVLEKWKEVFESEgLPVV-YVSA 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  203 TQHqvknlnrcsvpvdqasesllkskacFGAENLMRVLGNYcrLGEVRThIRVGVVGLPNVGKSSLINSLKRSRACS--- 279
Cdd:cd01859  78 RER-------------------------LGTRILRRTIKEL--AIDGKP-VIVGVVGYPKVGKSSIINALKGRHSAStsp 129

                       170       180
                ....*....|....*....|....*...
gi 9506611  280 VGAVPGITKFMQEVYLDKFIRLLDAPGI 307
Cdd:cd01859 130 IPGSPGYTKGIQLVRIDSKIYLIDTPGV 157
YlqF cd01856
Circularly permuted YlqF GTPase; Proteins of the YlqF family contain all sequence motifs ...
 126-307 2.58e-35

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: 130.73  E-value: 2.58e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  126 KEFRKVVEYSDVILEVLDARDPLGCRCFQMEEAVlraqGNKKLVLVLNKIDLVPKEVVEKWLDYLRNELPTVAFK-ASTQ 204
Cdd:cd01856  11 RQIKEKLKLVDVVIEVRDARIPLSSRNPDLDKIL----GNKPRLIVLNKADLADPAKTKKWLKYFKSQGEPVLFVnAKNG 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  205 HQVKNLnrcsvpvDQASESLLKSKAcfgaENLMRVLGNycrlgevRThIRVGVVGLPNVGKSSLINSLKRSRACSVGAVP 284
Cdd:cd01856  87 KGVKKL-------LKKAKKLLKENE----KLKAKGLLP-------RP-LRAMVVGIPNVGKSTLINRLRGKKVAKVGNKP 147

                       170       180
                ....*....|....*....|...
gi 9506611  285 GITKFMQEVYLDKFIRLLDAPGI 307
Cdd:cd01856 148 GVTRGQQWIRIGPNIELLDTPGI 170
HSR1_MMR1 cd01857
A circularly permuted subfamily of the Ras GTPases; Human HSR1 is localized to the human MHC ...
 125-308 1.36e-34

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: 127.35  E-value: 1.36e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  125 YKEFRKVVEYSDVILEVLDARDPLGCRCFQMEEAVLRAQGNKKLVLVLNKIDLVPKEVVEKWLDYLRNELPTVAFKastq 204
Cdd:cd01857   2 WRQLWRVIERSDVVVQIVDARNPLFFRCPDLEKYVKEVDPSKENVLLLNKADLVTEEQRKAWARYFKKEGIVVLFF---- 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  205 hqvknlnrcSVPVDQAsesllkskacfgaenlmrvlgnycrlgevrthirVGVVGLPNVGKSSLINSLKRSRACSVGAVP 284
Cdd:cd01857  78 ---------SALNEAT----------------------------------IGLVGYPNVGKSSLINALVGSKKVSVSSTP 114

                       170       180
                ....*....|....*....|....
gi 9506611  285 GITKFMQEVYLDKFIRLLDAPGIV 308
Cdd:cd01857 115 GKTKHFQTIFLEPGITLCDCPGLV 138
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 254-316 8.77e-16

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: 73.42  E-value: 8.77e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 9506611    254 RVGVVGLPNVGKSSLINSLKRSRAcSVGAVPGITKFMQEVYL---DKFIRLLDAPGIVPGPNSEVG 316
Cdd:pfam01926   1 RVALVGRPNVGKSTLINALTGAKA-IVSDYPGTTRDPNEGRLelkGKQIILVDTPGLIEGASEGEG 65
YqeH cd01855
Circularly permuted YqeH GTPase; YqeH is an essential GTP-binding protein. Depletion of YqeH ...
 137-307 5.03e-14

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


Pssm-ID: 206748 [Multi-domain]  Cd Length: 191  Bit Score: 70.76  E-value: 5.03e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  137 VILEVLDARDPLGcrcfQMEEAVLRAQGNKKLVLVLNKIDLVPKEV----VEKWLdylRNELPTVAFKASTQHQVKNLNR 212
Cdd:cd01855  36 LVVHVVDIFDFPG----SLIPGLAELIGAKPVILVGNKIDLLPKDVkpnrLKQWV---KKRLKIGGLKIKDVILVSAKKG 108

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  213 csvpvdqasesllkskacFGAENLMRVLGNYCRLGEvrthiRVGVVGLPNVGKSSLINSLKRSRAC-----------SVG 281
Cdd:cd01855 109 ------------------WGVEELIEEIKKLAKYRG-----DVYVVGATNVGKSTLINALLKSNGGkvqaqalvqrlTVS 165

                       170       180
                ....*....|....*....|....*.
gi 9506611  282 AVPGITKFMQEVYLDKFIRLLDAPGI 307
Cdd:cd01855 166 PIPGTTLGLIKIPLGEGKKLYDTPGI 191
GTPase_YqeH TIGR03597
ribosome biogenesis GTPase YqeH; This family describes YqeH, a member of a larger family of ...
 161-309 7.34e-12

ribosome biogenesis GTPase YqeH; This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli. [Protein synthesis, Other]


Pssm-ID: 213834 [Multi-domain]  Cd Length: 360  Bit Score: 67.26  E-value: 7.34e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611    161 RAQGNKKLVLVLNKIDLVPKEV-VEKWLDYLRNELPTVAFKastqhqvknlnrcsvPVDQAsesLLKSKACFGAENLMRV 239
Cdd:TIGR03597  86 RFVGGNPVLLVGNKIDLLPKSVnLSKIKEWMKKRAKELGLK---------------PVDII---LVSAKKGNGIDELLDK 147

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 9506611    240 LGNYcrlgevRTHIRVGVVGLPNVGKSSLINSL-----KRSRACSVGAVPGITKFMQEVYLDKFIRLLDAPGIVP 309
Cdd:TIGR03597 148 IKKA------RNKKDVYVVGVTNVGKSSLINKLlkqnnGDKDVITTSPFPGTTLDLIEIPLDDGHSLYDTPGIIN 216
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 126-210 1.17e-09

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: 57.26  E-value: 1.17e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  126 KEFRKVVEYSDVILEVLDARDPlgcRCFQMEEAVLRAQGNKKLVLVLNKIDLVPKEVVEKWLD----YLRNELPTVAFKA 201
Cdd:cd00880  68 EEARQVADRADLVLLVVDSDLT---PVEEEAKLGLLRERGKPVLLVLNKIDLVPESEEEELLRerklELLPDLPVIAVSA 144


                ....*....
gi 9506611  202 STQHQVKNL 210
Cdd:cd00880 145 LPGEGIDEL 153
Rbg1 COG1163
Ribosome-interacting GTPase RBG1 [Translation, ribosomal structure and biogenesis];
255-322 1.18e-07

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


Pssm-ID: 440777 [Multi-domain]  Cd Length: 368  Bit Score: 54.03  E-value: 1.18e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  255 VGVVGLPNVGKSSLINSLKRSRAcSVGA--------VPGItkfMQevYLDKFIRLLDAPGIVP------GPNSEVGTILR 320
Cdd:COG1163  66 VVLVGFPSVGKSTLLNKLTNAKS-EVGAyefttldvVPGM---LE--YKGAKIQILDVPGLIEgaasgkGRGKEVLSVVR 139


                ..
gi 9506611  321 NC 322
Cdd:COG1163 140 NA 141
Era COG1159
GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis];
136-210 1.25e-07

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


Pssm-ID: 440773 [Multi-domain]  Cd Length: 290  Bit Score: 53.45  E-value: 1.25e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  136 DVILEVLDARDPLGcrcfQMEEAVLR--AQGNKKLVLVLNKIDLVPKEVVEKWLDYLRNELP---TVAFKASTQHQVKNL 210
Cdd:COG1159  84 DVILFVVDATEKIG----EGDEFILEllKKLKTPVILVINKIDLVKKEELLPLLAEYSELLDfaeIVPISALKGDNVDEL 159
Obg_like cd01881
Obg-like family of GTPases consist of five subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1; ...
 256-318 2.22e-07

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: 50.86  E-value: 2.22e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 9506611  256 GVVGLPNVGKSSLINSLKRSRA-------CSVGAVPGITKfmqevYLDKF-IRLLDAPGIVPGPNSEVGTI 318
Cdd:cd01881   1 GLVGLPNVGKSTLLSALTSAKVeiasypfTTLEPNVGVFE-----FGDGVdIQIIDLPGLLDGASEGRGLG 66
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 117-210 4.69e-07

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: 49.76  E-value: 4.69e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  117 DEATRKAYYKEFRKVVEYSDVILEVLDARDPlgcRCFQMEEAVLRAQ---GNKKLVLVLNKIDLVPKEVVEKWLD----Y 189
Cdd:cd00882  58 DEFGGLGREELARLLLRGADLILLVVDSTDR---ESEEDAKLLILRRlrkEGIPIILVGNKIDLLEEREVEELLRleelA 134

                        90       100
                ....*....|....*....|.
gi 9506611  190 LRNELPTVAFKASTQHQVKNL 210
Cdd:cd00882 135 KILGVPVFEVSAKTGEGVDEL 155
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 256-308 5.06e-07

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: 49.76  E-value: 5.06e-07
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 9506611  256 GVVGLPNVGKSSLINSLKRSRACSVGAVPGITKF-----MQEVYLDKFIRLLDAPGIV 308
Cdd:cd00882   1 VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDpdvyvKELDKGKVKLVLVDTPGLD 58
DRG cd01896
Developmentally Regulated GTP-binding protein (DRG); The developmentally regulated GTP-binding ...
 253-322 8.94e-07

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: 50.24  E-value: 8.94e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  253 IRVGVVGLPNVGKSSLINSL--KRSRACS-----VGAVPGITKfmqevYLDKFIRLLDAPGIVPGP------NSEVGTIL 319
Cdd:cd01896   1 ARVALVGFPSVGKSTLLSKLtnTKSEVAAyefttLTCVPGVME-----YKGAKIQLLDLPGIIEGAsdgkgrGRQVIAVA 75


                ...
gi 9506611  320 RNC 322
Cdd:cd01896  76 RTA 78
EngA2 cd01895
EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second ...
 253-287 9.02e-07

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: 49.35  E-value: 9.02e-07
                        10        20        30
                ....*....|....*....|....*....|....*
gi 9506611  253 IRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGIT 287
Cdd:cd01895   3 IKIAIIGRPNVGKSSLLNALLGEERVIVSDIAGTT 37
Era_like cd00880
E. coli Ras-like protein (Era)-like GTPase; The Era (E. coli Ras-like protein)-like family ...
 256-307 1.19e-06

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: 48.78  E-value: 1.19e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 9506611  256 GVVGLPNVGKSSLINSLKRSRACSVGAVPGITKFMQ--EVYLDKF--IRLLDAPGI 307
Cdd:cd00880   1 AIFGRPNVGKSSLLNALLGQNVGIVSPIPGTTRDPVrkEWELLPLgpVVLIDTPGL 56
era PRK00089
GTPase Era; Reviewed
 136-210 2.34e-06

GTPase Era; Reviewed


Pssm-ID: 234624 [Multi-domain]  Cd Length: 292  Bit Score: 49.66  E-value: 2.34e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611   136 DVILEVLDARDPLGcrcfQMEEAVLR--AQGNKKLVLVLNKIDLV-PKEVVEKWLDYLRNELP---TVAFKASTQHQVKN 209
Cdd:PRK00089  86 DLVLFVVDADEKIG----PGDEFILEklKKVKTPVILVLNKIDLVkDKEELLPLLEELSELMDfaeIVPISALKGDNVDE 161


                 .
gi 9506611   210 L 210
Cdd:PRK00089 162 L 162
EngA1 cd01894
EngA1 GTPase contains the first domain of EngA; This EngA1 subfamily CD represents the first ...
 258-310 5.45e-06

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: 46.66  E-value: 5.45e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 9506611  258 VGLPNVGKSSLINSLKRSRACSVGAVPGIT---KFMQEVYLDKFIRLLDAPGIVPG 310
Cdd:cd01894   3 VGRPNVGKSTLFNRLTGRRDAIVSDTPGVTrdrKYGEAEWGGREFILIDTGGIEPD 58
FeoB_N pfam02421
Ferrous iron transport protein B; Escherichia coli has an iron(II) transport system (feo) ...
 253-307 5.95e-06

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: 46.29  E-value: 5.95e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 9506611    253 IRVGVVGLPNVGKSSLINSLKRSRAcSVGAVPGIT------KFmqeVYLDKFIRLLDAPGI 307
Cdd:pfam02421   1 ITIALVGNPNVGKTTLFNALTGANQ-HVGNWPGVTvekkegKF---KYKGYEIEIVDLPGI 57
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 252-287 7.17e-06

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 48.51  E-value: 7.17e-06
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 9506611   252 HIRVGVVGLPNVGKSSLINS-LKRSRACsVGAVPGIT 287
Cdd:PRK00093 173 PIKIAIIGRPNVGKSSLINAlLGEERVI-VSDIAGTT 208
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
135-287 7.67e-06

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


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 48.48  E-value: 7.67e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  135 SDVILEVLDARDPLGcrcfQMEEAV---LRAQgNKKLVLVLNKIDLVPKE--VVEKWldylrnEL----PtvaFKASTQH 205
Cdd:COG1160  83 ADVILFVVDGRAGLT----PLDEEIaklLRRS-GKPVILVVNKVDGPKREadAAEFY------SLglgeP---IPISAEH 148

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  206 qvkNLNrcsvpvdqaSESLLkskacfgaENLMRVLGNYCRLGEVRTHIRVGVVGLPNVGKSSLINSL---KRSracSVGA 282
Cdd:COG1160 149 ---GRG---------VGDLL--------DAVLELLPEEEEEEEEDDPIKIAIVGRPNVGKSSLINALlgeERV---IVSD 205


                ....*
gi 9506611  283 VPGIT 287
Cdd:COG1160 206 IAGTT 210
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
 129-210 9.86e-06

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: 45.95  E-value: 9.86e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  129 RKVVEYSDVILEVLDARDPLGcrcfQMEEAVLRAQGNKKLVLVLNKIDLVPkevvEKWLDYLRNELPTVAFKASTQHQVK 208
Cdd:cd04164  77 REAIEEADLVLLVVDASEGLD----EEDLEILELPAKKPVIVVLNKSDLLS----DAEGISELNGKPIIAISAKTGEGID 148


                ..
gi 9506611  209 NL 210
Cdd:cd04164 149 EL 150
HflX cd01878
HflX GTPase family; HflX subfamily. A distinct conserved domain with a glycine-rich segment ...
 132-193 1.20e-05

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: 46.30  E-value: 1.20e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 9506611  132 VEYSDVILEVLDARDPlgCRCFQME--EAVLRAQG--NKKLVLVLNKIDLVPKEVVEKWLDYLRNE 193
Cdd:cd01878 118 VAEADLLLHVVDASDP--DREEQIEtvEEVLKELGadDIPIILVLNKIDLLDDEELEERLRAGRPD 181
YeeP COG3596
Predicted GTPase [General function prediction only];
252-307 1.40e-05

Predicted GTPase [General function prediction only];


Pssm-ID: 442815 [Multi-domain]  Cd Length: 318  Bit Score: 47.45  E-value: 1.40e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  252 HIRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGITKFMQEVYL----DKFIRLLDAPGI 307
Cdd:COG3596  39 PPVIALVGKTGAGKSSLINALFGAEVAEVGVGRPCTREIQRYRLesdgLPGLVLLDTPGL 98
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 254-313 2.21e-05

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 46.97  E-value: 2.21e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 9506611   254 RVGVVGLPNVGKSSLINSLKRSRACSVGAVPGIT---KFMQEVYLDKFIRLLDAPGIVPGPNS 313
Cdd:PRK00093   3 VVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTrdrIYGEAEWLGREFILIDTGGIEPDDDG 65
Gem1 COG1100
GTPase SAR1 family domain [General function prediction only];
114-210 4.80e-05

GTPase SAR1 family domain [General function prediction only];


Pssm-ID: 440717 [Multi-domain]  Cd Length: 177  Bit Score: 44.20  E-value: 4.80e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  114 QLDDEATRKAYYKEFRKvveySDVILEVLDARDPLGCRCF-QMEEAVLRAQGNKKLVLVLNKIDLVPKEVVEKWlDYLRN 192
Cdd:COG1100  63 QDEFRETRQFYARQLTG----ASLYLFVVDGTREETLQSLyELLESLRRLGKKSPIILVLNKIDLYDEEEIEDE-ERLKE 137

                        90       100
                ....*....|....*....|....
gi 9506611  193 ELPTVAFK------ASTQHQVKNL 210
Cdd:COG1100 138 ALSEDNIVevvatsAKTGEGVEEL 161
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
255-314 5.20e-05

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


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 45.79  E-value: 5.20e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 9506611  255 VGVVGLPNVGKSSLINSLKRSRACSVGAVPGIT---KFMQEVYLDKFIRLLDAPGIVPGPNSE 314
Cdd:COG1160   5 VAIVGRPNVGKSTLFNRLTGRRDAIVDDTPGVTrdrIYGEAEWGGREFTLIDTGGIEPDDDDG 67
FeoB COG0370
Fe2+ transporter FeoB [Inorganic ion transport and metabolism];
250-307 5.41e-05

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


Pssm-ID: 440139 [Multi-domain]  Cd Length: 662  Bit Score: 46.27  E-value: 5.41e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 9506611  250 RTHIRVGVVGLPNVGKSSLINSLKRSRAcSVGAVPGIT------KFmqeVYLDKFIRLLDAPGI 307
Cdd:COG0370   1 MKMITIALVGNPNVGKTTLFNALTGSRQ-KVGNWPGVTvekkegKF---KLKGKEIELVDLPGT 60
PRK00093 PRK00093
GTP-binding protein Der; Reviewed
 130-195 6.61e-05

GTP-binding protein Der; Reviewed


Pssm-ID: 234628 [Multi-domain]  Cd Length: 435  Bit Score: 45.43  E-value: 6.61e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 9506611   130 KVVEYSDVILEVLDARDPLgcrcfqmEEAVLR----AQGNKK-LVLVLNKIDLVPKEVVEKWLDYLRNELP 195
Cdd:PRK00093 251 KAIERADVVLLVIDATEGI-------TEQDLRiaglALEAGRaLVIVVNKWDLVDEKTMEEFKKELRRRLP 314
Era cd04163
E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is ...
 126-210 6.63e-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: 43.60  E-value: 6.63e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  126 KEFRKVVEYSDVILEVLDARDPLGcrcfQMEEAVLR--AQGNKKLVLVLNKIDLV-PKEVVEKWLDYLRNELP---TVAF 199
Cdd:cd04163  74 KAAWSALKDVDLVLFVVDASEWIG----EGDEFILEllKKSKTPVILVLNKIDLVkDKEDLLPLLEKLKELHPfaeIFPI 149

                        90
                ....*....|.
gi 9506611  200 KASTQHQVKNL 210
Cdd:cd04163 150 SALKGENVDEL 160
EngA2 cd01895
EngA2 GTPase contains the second domain of EngA; This EngA2 subfamily CD represents the second ...
 130-199 7.43e-05

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: 43.58  E-value: 7.43e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 9506611  130 KVVEYSDVILEVLDARDPLGCRCFQMEEAVLRAqgNKKLVLVLNKIDLVPK--EVVEKWLDYLRNELPTVAF 199
Cdd:cd01895  80 KAIERADVVLLVLDASEGITEQDLRIAGLILEE--GKALIIVVNKWDLVEKdeKTMKEFEKELRRKLPFLDY 149
trmE PRK05291
tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;
129-210 1.19e-04

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


Pssm-ID: 235392 [Multi-domain]  Cd Length: 449  Bit Score: 44.72  E-value: 1.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611   129 RKVVEYSDVILEVLDARDPLGcrcfQMEEAVLRAQGNKKLVLVLNKIDLVPKEVVEKWLDYlrnelPTVAFKASTQHQVK 208
Cdd:PRK05291 289 REAIEEADLVLLVLDASEPLT----EEDDEILEELKDKPVIVVLNKADLTGEIDLEEENGK-----PVIRISAKTGEGID 359


                 ..
gi 9506611   209 NL 210
Cdd:PRK05291 360 EL 361
trmE cd04164
trmE is a tRNA modification GTPase; TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in ...
 250-277 1.67e-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: 42.48  E-value: 1.67e-04
                        10        20
                ....*....|....*....|....*....
gi 9506611  250 RTHIRVGVVGLPNVGKSSLINSL-KRSRA 277
Cdd:cd04164   1 REGIKVVIAGKPNVGKSSLLNALaGRDRA 29
FeoB cd01879
Ferrous iron transport protein B (FeoB) family; Ferrous iron transport protein B (FeoB) ...
 257-307 1.75e-04

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: 42.06  E-value: 1.75e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 9506611  257 VVGLPNVGKSSLINSLKRSRAcSVGAVPGIT------KFmqeVYLDKFIRLLDAPGI 307
Cdd:cd01879   2 LVGNPNVGKTTLFNALTGARQ-KVGNWPGVTvekkegEF---KLGGKEIEIVDLPGT 54
Der COG1160
Double Era-like domain GTPase Der [Translation, ribosomal structure and biogenesis];
130-199 1.97e-04

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


Pssm-ID: 440774 [Multi-domain]  Cd Length: 438  Bit Score: 44.24  E-value: 1.97e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 9506611  130 KVVEYSDVILEVLDARDPLgcrcfqmEEAVLR----AQGNKK-LVLVLNKIDLVPKE--VVEKWLDYLRNELPTVAF 199
Cdd:COG1160 253 RAIERADVVLLVIDATEGI-------TEQDLKiaglALEAGKaLVIVVNKWDLVEKDrkTREELEKEIRRRLPFLDY 322
Obg cd01898
Obg GTPase; The Obg nucleotide binding protein subfamily has been implicated in stress ...
 255-276 2.13e-04

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: 42.03  E-value: 2.13e-04
                        10        20
                ....*....|....*....|..
gi 9506611  255 VGVVGLPNVGKSSLINSLKRSR 276
Cdd:cd01898   3 VGLVGLPNAGKSTLLSAISNAK 24
MnmE_helical pfam12631
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ...
 253-287 2.13e-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: 43.62  E-value: 2.13e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 9506611    253 IRVGVVGLPNVGKSSLINSL-KRSRACsVGAVPGIT 287
Cdd:pfam12631  95 IKVVIVGKPNVGKSSLLNALlGEERAI-VTDIPGTT 129
MnmE COG0486
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal ...
 245-277 2.50e-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: 43.90  E-value: 2.50e-04
                        10        20        30
                ....*....|....*....|....*....|....*
gi 9506611  245 RLGEV-RTHIRVGVVGLPNVGKSSLINSL-KRSRA 277
Cdd:COG0486 205 RQGELlREGIKVVIVGRPNVGKSSLLNALlGEERA 239
PRK09518 PRK09518
bifunctional cytidylate kinase/GTPase Der; Reviewed
 132-288 2.54e-04

bifunctional cytidylate kinase/GTPase Der; Reviewed


Pssm-ID: 236546 [Multi-domain]  Cd Length: 712  Bit Score: 44.01  E-value: 2.54e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611   132 VEYSDVILEVLDARDPLGcrcfQMEEAV---LRAQGnKKLVLVLNKIDLVPKE--VVEKWLDYLRNELPTVAFKAstqHQ 206
Cdd:PRK09518 352 VSLADAVVFVVDGQVGLT----STDERIvrmLRRAG-KPVVLAVNKIDDQASEydAAEFWKLGLGEPYPISAMHG---RG 423

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611   207 VKNLnrcsvpVDQASESLLKSKACFGaenlmrvlgnYCRLGEVRthiRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGI 286
Cdd:PRK09518 424 VGDL------LDEALDSLKVAEKTSG----------FLTPSGLR---RVALVGRPNVGKSSLLNQLTHEERAVVNDLAGT 484


                 ..
gi 9506611   287 TK 288
Cdd:PRK09518 485 TR 486
feoB TIGR00437
ferrous iron transporter FeoB; FeoB (773 amino acids in E. coli), a cytoplasmic membrane ...
 259-307 2.92e-04

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: 43.58  E-value: 2.92e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 9506611    259 GLPNVGKSSLINSLKRSRAcSVGAVPGITKFMQEVYL---DKFIRLLDAPGI 307
Cdd:TIGR00437   1 GNPNVGKSTLFNALTGANQ-TVGNWPGVTVEKKEGKLgfqGEDIEIVDLPGI 51
small_GTP TIGR00231
small GTP-binding protein domain; Proteins with a small GTP-binding domain recognized by this ...
 253-308 3.22e-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: 41.59  E-value: 3.22e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 9506611    253 IRVGVVGLPNVGKSSLINSLKRSRACSVGAVPGIT------KFMQEVYLDKFIrLLDAPGIV 308
Cdd:TIGR00231   2 IKIVIVGHPNVGKSTLLNSLLGNKGSITEYYPGTTrnyvttVIEEDGKTYKFN-LLDTAGQE 62
YihA_EngB cd01876
YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli ...
 255-306 3.50e-04

YihA (EngB) GTPase family; The YihA (EngB) subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.


Pssm-ID: 206665 [Multi-domain]  Cd Length: 170  Bit Score: 41.73  E-value: 3.50e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 9506611  255 VGVVGLPNVGKSSLINSL-KRSRACSVGAVPGITKFMQEVYLDKFIRLLDAPG 306
Cdd:cd01876   2 VAFAGRSNVGKSSLINALtNRKKLARTSKTPGRTQLINFFNVGDKFRLVDLPG 54
HflX COG2262
50S ribosomal subunit-associated GTPase HflX [Translation, ribosomal structure and biogenesis]; ...
 132-199 4.30e-04

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


Pssm-ID: 441863 [Multi-domain]  Cd Length: 419  Bit Score: 42.77  E-value: 4.30e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 9506611  132 VEYSDVILEVLDARDPLgcRCFQME--EAVLRAQG--NKKLVLVLNKIDLVPKEVvekwLDYLRNELPTVAF 199
Cdd:COG2262 276 VREADLLLHVVDASDPD--FEEQIEtvNEVLEELGadDKPIILVFNKIDLLDDEE----LERLRAGYPDAVF 341
Era cd04163
E. coli Ras-like protein (Era) is a multifunctional GTPase; Era (E. coli Ras-like protein) is ...
 255-307 4.89e-04

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: 40.91  E-value: 4.89e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 9506611  255 VGVVGLPNVGKSSLINSLKRSRACSVGAVPGITKF-MQEVYLDK---FIrLLDAPGI 307
Cdd:cd04163   6 VAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNrIRGIYTDDdaqII-FVDTPGI 61
PRK03003 PRK03003
GTP-binding protein Der; Reviewed
 255-288 5.68e-04

GTP-binding protein Der; Reviewed


Pssm-ID: 179525 [Multi-domain]  Cd Length: 472  Bit Score: 42.65  E-value: 5.68e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 9506611   255 VGVVGLPNVGKSSLINSLKRSRACSVGAVPGITK 288
Cdd:PRK03003  41 VAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTR 74
PTZ00258 PTZ00258
GTP-binding protein; Provisional
 246-272 5.70e-04

GTP-binding protein; Provisional


Pssm-ID: 240334 [Multi-domain]  Cd Length: 390  Bit Score: 42.63  E-value: 5.70e-04
                         10        20
                 ....*....|....*....|....*..
gi 9506611   246 LGEVRTHIRVGVVGLPNVGKSSLINSL 272
Cdd:PTZ00258  15 LGRPGNNLKMGIVGLPNVGKSTTFNAL 41
MnmE COG0486
tRNA U34 5-carboxymethylaminomethyl modifying GTPase MnmE/TrmE [Translation, ribosomal ...
 129-184 9.11e-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: 41.97  E-value: 9.11e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 9506611  129 RKVVEYSDVILEVLDARDPLGcrcfQMEEAVLRAQGNKKLVLVLNKIDLVPKEVVE 184
Cdd:COG0486 287 REAIEEADLVLLLLDASEPLT----EEDEEILEKLKDKPVIVVLNKIDLPSEADGE 338
trmE PRK05291
tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE;
253-307 1.37e-03

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


Pssm-ID: 235392 [Multi-domain]  Cd Length: 449  Bit Score: 41.25  E-value: 1.37e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 9506611   253 IRVGVVGLPNVGKSSLINSL-KRSRACsVGAVPGITKFMQEVYLD---KFIRLLDAPGI 307
Cdd:PRK05291 216 LKVVIAGRPNVGKSSLLNALlGEERAI-VTDIAGTTRDVIEEHINldgIPLRLIDTAGI 273
YchF cd01900
YchF GTPase; YchF is a member of the Obg family, which includes four other subfamilies of ...
 255-277 1.39e-03

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: 40.91  E-value: 1.39e-03
                        10        20
                ....*....|....*....|...
gi 9506611  255 VGVVGLPNVGKSSLINSLKRSRA 277
Cdd:cd01900   1 IGIVGLPNVGKSTLFNALTKSNA 23
PRK03003 PRK03003
GTP-binding protein Der; Reviewed
 254-287 1.45e-03

GTP-binding protein Der; Reviewed


Pssm-ID: 179525 [Multi-domain]  Cd Length: 472  Bit Score: 41.49  E-value: 1.45e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 9506611   254 RVGVVGLPNVGKSSLINSLKRSRACSVGAVPGIT 287
Cdd:PRK03003 213 RVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTT 246
GTP1 COG0012
Ribosome-binding ATPase YchF, GTP1/OBG family [Translation, ribosomal structure and biogenesis] ...
 254-277 1.47e-03

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


Pssm-ID: 439783 [Multi-domain]  Cd Length: 362  Bit Score: 41.16  E-value: 1.47e-03
                        10        20
                ....*....|....*....|....
gi 9506611  254 RVGVVGLPNVGKSSLINSLKRSRA 277
Cdd:COG0012   2 KCGIVGLPNVGKSTLFNALTKAGA 25
obgE PRK12299
GTPase CgtA; Reviewed
 247-276 1.67e-03

GTPase CgtA; Reviewed


Pssm-ID: 237048 [Multi-domain]  Cd Length: 335  Bit Score: 40.82  E-value: 1.67e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 9506611   247 GEVRtHIR--------VGVVGLPNVGKSSLINSLKRSR 276
Cdd:PRK12299 146 GEER-WLRlelklladVGLVGLPNAGKSTLISAVSAAK 182
MnmE_helical pfam12631
MnmE helical domain; The tRNA modification GTPase MnmE consists of three domains. An ...
 129-210 2.44e-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: 40.16  E-value: 2.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611    129 RKVVEYSDVILEVLDARDPLGcrcfQMEEAVLRAQGNKK-LVLVLNKIDLVPKEVVEKWLDylrnELPTVAFKASTQHQV 207
Cdd:pfam12631 168 REAIEEADLVLLVLDASRPLD----EEDLEILELLKDKKpIIVVLNKSDLLGEIDELEELK----GKPVLAISAKTGEGL 239


                  ...
gi 9506611    208 KNL 210
Cdd:pfam12631 240 DEL 242
PRK09518 PRK09518
bifunctional cytidylate kinase/GTPase Der; Reviewed
 255-288 4.74e-03

bifunctional cytidylate kinase/GTPase Der; Reviewed


Pssm-ID: 236546 [Multi-domain]  Cd Length: 712  Bit Score: 39.78  E-value: 4.74e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 9506611   255 VGVVGLPNVGKSSLINSLKRSRACSVGAVPGITK 288
Cdd:PRK09518 278 VAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTR 311
NOG cd01897
Nucleolar GTP-binding protein (NOG); NOG1 is a nucleolar GTP-binding protein present in ...
 257-323 5.09e-03

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: 37.92  E-value: 5.09e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9506611  257 VVGLPNVGKSSLINSLKRSRAcSVGAVPGITKFMQEVYLD-KFIR--LLDAPGIVPGPNSEVGTI----------LRNCV 323
Cdd:cd01897   5 IAGYPNVGKSSLVNKLTRAKP-EVAPYPFTTKSLFVGHFDyKYLRwqVIDTPGILDRPLEERNTIemqaitalahLRAAV 83
obgE PRK12297
GTPase CgtA; Reviewed
 255-277 7.53e-03

GTPase CgtA; Reviewed


Pssm-ID: 237046 [Multi-domain]  Cd Length: 424  Bit Score: 38.93  E-value: 7.53e-03
                         10        20
                 ....*....|....*....|...
gi 9506611   255 VGVVGLPNVGKSSLINSLkrSRA 277
Cdd:PRK12297 161 VGLVGFPNVGKSTLLSVV--SNA 181
Era COG1159
GTPase Era, involved in 16S rRNA processing [Translation, ribosomal structure and biogenesis];
255-272 9.50e-03

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


Pssm-ID: 440773 [Multi-domain]  Cd Length: 290  Bit Score: 38.43  E-value: 9.50e-03
                        10
                ....*....|....*...
gi 9506611  255 VGVVGLPNVGKSSLINSL 272
Cdd:COG1159   6 VAIVGRPNVGKSTLLNAL 23
 
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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