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Conserved domains on  [gi|62897979|dbj|BAD96929|]
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protein x 0004 variant, partial [Homo sapiens]

Protein Classification

ATP/GTP-binding protein( domain architecture ID 13027395)

ATP/GTP-binding protein such as GPN-loop GTPase, a small eukaryotic GTPase which is required for proper nuclear import of RNA polymerase II (RNAPII), and may act at an RNAP assembly step prior to nuclear import

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
GPN3 cd17872
GPN-loop GTPase 3; GPN-loop GTPase 3 (GPN3) is a small GTPase that is required for nuclear ...
4-249 3.69e-128

GPN-loop GTPase 3; GPN-loop GTPase 3 (GPN3) is a small GTPase that is required for nuclear targeting of RNA polymerase II. It forms heterodimers with GPN1.


:

Pssm-ID: 349781 [Multi-domain]  Cd Length: 196  Bit Score: 362.23  E-value: 3.69e-128
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   4 YAQLVMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDdsLRFGPNGGLVFCMEY 83
Cdd:cd17872   1 YAQLVMGPAGSGKSTYCSTLQEHCETLGRSVHVVNLDPAAEEFEYPVSIDIRDLISLEDVMEE--LGLGPNGGLVYCMEY 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979  84 FANNFDWLENCLGHVEDDYILFDCPGQIELYTHLPVMKQLVQQLEQWEFRVCGVFLVDSQFMVESFKFISGILAALSAMI 163
Cdd:cd17872  79 LLENLDWLEEQLGDYEDDYLIFDCPGQIELYTHLPVMKRLVDALQRWGFRLCAVYLLDSQFISDASKFISGVLSALSAMI 158
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979 164 SLEIPQVNIMTKMDLlskkakkeiekfldpdmyslledstsdlrskkfkkltkaicgliddysmVRFLPYDQSDEESMNI 243
Cdd:cd17872 159 QLELPHVNVLTKMDL-------------------------------------------------VSFLPLDITDEESINN 189

                ....*.
gi 62897979 244 VLQHID 249
Cdd:cd17872 190 VLSQID 195
 
Name Accession Description Interval E-value
GPN3 cd17872
GPN-loop GTPase 3; GPN-loop GTPase 3 (GPN3) is a small GTPase that is required for nuclear ...
4-249 3.69e-128

GPN-loop GTPase 3; GPN-loop GTPase 3 (GPN3) is a small GTPase that is required for nuclear targeting of RNA polymerase II. It forms heterodimers with GPN1.


Pssm-ID: 349781 [Multi-domain]  Cd Length: 196  Bit Score: 362.23  E-value: 3.69e-128
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   4 YAQLVMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDdsLRFGPNGGLVFCMEY 83
Cdd:cd17872   1 YAQLVMGPAGSGKSTYCSTLQEHCETLGRSVHVVNLDPAAEEFEYPVSIDIRDLISLEDVMEE--LGLGPNGGLVYCMEY 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979  84 FANNFDWLENCLGHVEDDYILFDCPGQIELYTHLPVMKQLVQQLEQWEFRVCGVFLVDSQFMVESFKFISGILAALSAMI 163
Cdd:cd17872  79 LLENLDWLEEQLGDYEDDYLIFDCPGQIELYTHLPVMKRLVDALQRWGFRLCAVYLLDSQFISDASKFISGVLSALSAMI 158
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979 164 SLEIPQVNIMTKMDLlskkakkeiekfldpdmyslledstsdlrskkfkkltkaicgliddysmVRFLPYDQSDEESMNI 243
Cdd:cd17872 159 QLELPHVNVLTKMDL-------------------------------------------------VSFLPLDITDEESINN 189

                ....*.
gi 62897979 244 VLQHID 249
Cdd:cd17872 190 VLSQID 195
ATP_bind_1 pfam03029
Conserved hypothetical ATP binding protein; Members of this family are found in a range of ...
8-254 4.28e-103

Conserved hypothetical ATP binding protein; Members of this family are found in a range of archaea and eukaryotes and have hypothesized ATP binding activity.


Pssm-ID: 397252 [Multi-domain]  Cd Length: 238  Bit Score: 300.44  E-value: 4.28e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979     8 VMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDdsLRFGPNGGLVFCMEYFANN 87
Cdd:pfam03029   1 VVGPAGSGKTTFVGALSEILPLRGRPVYVVNLDPAAENLPYPADIDIRELITVADVMED--YGLGPNGALTVAMDFGRIT 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979    88 FDWLENCLgHVEDDYILFDCPGQIELYTHLPVMKQLVQQLEQwEFRVCGVFLVDSQFMVESFKFISGILAALSAMISLEI 167
Cdd:pfam03029  79 LDWLDEEL-KREDDYYLFDTPGQIELFTHWDSLAIIVEALES-RGALGAVYLVDTRRLTDPTDFFSGLLYALSIMLRLGL 156
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   168 PQVNIMTKMDLLskKAKKEIEKFLDPDMYSLLEDSTsdlrSKKFKKLTKAICGLIDDYSMV-RFLPYDQSDEESMNIVLQ 246
Cdd:pfam03029 157 PFVVALNKFDLL--SLEFALKWFTDPEDLQLLLELD----DGKYRKLNEAIREALDLFYLVpVFLPDARERGESMEDLLT 230

                  ....*...
gi 62897979   247 HIDFAIQY 254
Cdd:pfam03029 231 LIDEALQY 238
PRK13768 PRK13768
GTPase; Provisional
8-232 4.29e-39

GTPase; Provisional


Pssm-ID: 237498 [Multi-domain]  Cd Length: 253  Bit Score: 137.31  E-value: 4.29e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979    8 VMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDDSLrfGPNGGLVFCMEYFANN 87
Cdd:PRK13768   7 FLGTAGSGKTTLTKALSDWLEEQGYDVAIVNLDPAVEYLPYTPDFDVRDYVTAREIMKKYGL--GPNGALIASVDLLLTK 84
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   88 FDWLENCLGHVEDDYILFDCPGQIELYTHLPVMKQLVQQLEQwEFRVCGVFLVDSQFMVESFKFISGILAALSAMISLEI 167
Cdd:PRK13768  85 ADEIKEEIESLDADYVLVDTPGQMELFAFRESGRKLVERLSG-SSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGL 163
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 62897979  168 PQVNIMTKMDLLSKKAKKEIEKFL-DPDmysLLEDSTSDLRSKKfKKLTKAICGLIDDY-SMVRFLP 232
Cdd:PRK13768 164 PQIPVLNKADLLSEEELERILKWLeDPE---YLLEELKLEKGLQ-GLLSLELLRALEETgLPVRVIP 226
 
Name Accession Description Interval E-value
GPN3 cd17872
GPN-loop GTPase 3; GPN-loop GTPase 3 (GPN3) is a small GTPase that is required for nuclear ...
4-249 3.69e-128

GPN-loop GTPase 3; GPN-loop GTPase 3 (GPN3) is a small GTPase that is required for nuclear targeting of RNA polymerase II. It forms heterodimers with GPN1.


Pssm-ID: 349781 [Multi-domain]  Cd Length: 196  Bit Score: 362.23  E-value: 3.69e-128
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   4 YAQLVMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDdsLRFGPNGGLVFCMEY 83
Cdd:cd17872   1 YAQLVMGPAGSGKSTYCSTLQEHCETLGRSVHVVNLDPAAEEFEYPVSIDIRDLISLEDVMEE--LGLGPNGGLVYCMEY 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979  84 FANNFDWLENCLGHVEDDYILFDCPGQIELYTHLPVMKQLVQQLEQWEFRVCGVFLVDSQFMVESFKFISGILAALSAMI 163
Cdd:cd17872  79 LLENLDWLEEQLGDYEDDYLIFDCPGQIELYTHLPVMKRLVDALQRWGFRLCAVYLLDSQFISDASKFISGVLSALSAMI 158
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979 164 SLEIPQVNIMTKMDLlskkakkeiekfldpdmyslledstsdlrskkfkkltkaicgliddysmVRFLPYDQSDEESMNI 243
Cdd:cd17872 159 QLELPHVNVLTKMDL-------------------------------------------------VSFLPLDITDEESINN 189

                ....*.
gi 62897979 244 VLQHID 249
Cdd:cd17872 190 VLSQID 195
ATP_bind_1 pfam03029
Conserved hypothetical ATP binding protein; Members of this family are found in a range of ...
8-254 4.28e-103

Conserved hypothetical ATP binding protein; Members of this family are found in a range of archaea and eukaryotes and have hypothesized ATP binding activity.


Pssm-ID: 397252 [Multi-domain]  Cd Length: 238  Bit Score: 300.44  E-value: 4.28e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979     8 VMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDdsLRFGPNGGLVFCMEYFANN 87
Cdd:pfam03029   1 VVGPAGSGKTTFVGALSEILPLRGRPVYVVNLDPAAENLPYPADIDIRELITVADVMED--YGLGPNGALTVAMDFGRIT 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979    88 FDWLENCLgHVEDDYILFDCPGQIELYTHLPVMKQLVQQLEQwEFRVCGVFLVDSQFMVESFKFISGILAALSAMISLEI 167
Cdd:pfam03029  79 LDWLDEEL-KREDDYYLFDTPGQIELFTHWDSLAIIVEALES-RGALGAVYLVDTRRLTDPTDFFSGLLYALSIMLRLGL 156
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   168 PQVNIMTKMDLLskKAKKEIEKFLDPDMYSLLEDSTsdlrSKKFKKLTKAICGLIDDYSMV-RFLPYDQSDEESMNIVLQ 246
Cdd:pfam03029 157 PFVVALNKFDLL--SLEFALKWFTDPEDLQLLLELD----DGKYRKLNEAIREALDLFYLVpVFLPDARERGESMEDLLT 230

                  ....*...
gi 62897979   247 HIDFAIQY 254
Cdd:pfam03029 231 LIDEALQY 238
GPN cd17868
GPN-loop GTPase; GPN-loop GTPases are deeply evolutionarily conserved family of three small ...
4-250 1.65e-90

GPN-loop GTPase; GPN-loop GTPases are deeply evolutionarily conserved family of three small GTPases, Gpn1, 2, and 3. They form heterodimers, interact with RNA polymerase II and may function in nuclear import of RNA polymerase II.


Pssm-ID: 349777 [Multi-domain]  Cd Length: 198  Bit Score: 266.88  E-value: 1.65e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   4 YAQLVMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDdsLRFGPNGGLVFCMEY 83
Cdd:cd17868   1 YAILVIGPAGSGKTTFCKNMKEHLRARKRNPYVINLDPGNINEPLDYDIDIRDLIKYDDIMEE--LDLGPNGSIVYSLEY 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979  84 FANNFDWLENCLGHVED--DYILFDCPGQIELYTHLPVMKQLVQQLEQWEFRVCGVFLVDSQFMVESFKFISGILAALSA 161
Cdd:cd17868  79 FEKNFDWFEKKLENEDKnpHYILFDCPGQIELFTHSDSLPKIIERFASWFISVVIVNLIDSQFLSDKSKFLSNLLIALSS 158
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979 162 MISLEIPQVNIMTKMDLLSkkakkeiekfldpdmyslledstsdlrskkfkkltkaicgliddysmvrFLPYDQSDEESM 241
Cdd:cd17868 159 MFRLELPQINVISKMDLLD-------------------------------------------------FIPLNYSDEESI 189

                ....*....
gi 62897979 242 NIVLQHIDF 250
Cdd:cd17868 190 KLLLQNIDK 198
GPN2 cd17871
GPN-loop GTPase 2; GPN-loop GTPase 2 (GPN2) is a small GTPase required for proper localization ...
4-180 4.40e-84

GPN-loop GTPase 2; GPN-loop GTPase 2 (GPN2) is a small GTPase required for proper localization of RNA polymerase II and III (RNAPII and RNAPIII). It forms heterodimers with GPN1 or GPN3.


Pssm-ID: 349780  Cd Length: 196  Bit Score: 250.53  E-value: 4.40e-84
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   4 YAQLVMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDdsLRFGPNGGLVFCMEY 83
Cdd:cd17871   1 FGQVVIGPPGSGKTTYCKGMQQFLSALGRKVAVVNLDPANEFLPYPCDVDIRELITVEDVMEE--LKLGPNGGLLYCMEY 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979  84 FANNFDWLENCLGHVEDDYILFDCPGQIELYTHLPVMKQLVQQLEQWEFRVCGVFLVDSQFMVESFKFISGILAALSAMI 163
Cdd:cd17871  79 LEKNIDWLIDKLKKLKDSYLIFDCPGQVELYTHHNSLRNILDKLQKWLYRLVAVHLVDSHYCSDPSKFISALLLSLSTML 158
                       170
                ....*....|....*..
gi 62897979 164 SLEIPQVNIMTKMDLLS 180
Cdd:cd17871 159 RLELPHVNVLSKIDLVS 175
PRK13768 PRK13768
GTPase; Provisional
8-232 4.29e-39

GTPase; Provisional


Pssm-ID: 237498 [Multi-domain]  Cd Length: 253  Bit Score: 137.31  E-value: 4.29e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979    8 VMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDDSLrfGPNGGLVFCMEYFANN 87
Cdd:PRK13768   7 FLGTAGSGKTTLTKALSDWLEEQGYDVAIVNLDPAVEYLPYTPDFDVRDYVTAREIMKKYGL--GPNGALIASVDLLLTK 84
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   88 FDWLENCLGHVEDDYILFDCPGQIELYTHLPVMKQLVQQLEQwEFRVCGVFLVDSQFMVESFKFISGILAALSAMISLEI 167
Cdd:PRK13768  85 ADEIKEEIESLDADYVLVDTPGQMELFAFRESGRKLVERLSG-SSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGL 163
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 62897979  168 PQVNIMTKMDLLSKKAKKEIEKFL-DPDmysLLEDSTSDLRSKKfKKLTKAICGLIDDY-SMVRFLP 232
Cdd:PRK13768 164 PQIPVLNKADLLSEEELERILKWLeDPE---YLLEELKLEKGLQ-GLLSLELLRALEETgLPVRVIP 226
GPN1 cd17870
GPN-loop GTPase 1; GPN-loop GTPase 1 (GPN1, also kown as MBD2-interacting protein or MBDin, ...
7-204 3.16e-32

GPN-loop GTPase 1; GPN-loop GTPase 1 (GPN1, also kown as MBD2-interacting protein or MBDin, RNAPII-associated protein 4, and XPA-binding protein 1) is a GTPase is required for nuclear targeting of RNA polymerase II. It forms heterodimers with GPN3.


Pssm-ID: 349779 [Multi-domain]  Cd Length: 241  Bit Score: 118.82  E-value: 3.16e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979   7 LVMGPAGSGKSTYCATMVQHCEALNRSVQVVNLDPAAEHFNYSVMADIRELIEVDDVMEDDSLrfGPNGGLVFCMEYFAN 86
Cdd:cd17870   4 IVVGMAGSGKTTFVQRLNAYLHDNKKPPYVINLDPAVKSLPYPPNIDIRDTVNYKEVMKQYGL--GPNGAIVTSLNLFAT 81
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62897979  87 NFDWLENCLGHVED--DYILFDCPGQIELYThlpvmkqlvqqleqW-------------EFRVCGVFLVDSQFMVESFKF 151
Cdd:cd17870  82 KFDQVINLIEKRASelDYVIIDTPGQIEVFT--------------WsasgsiitealasSFPTVVVYVVDTPRCTSPITF 147
                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 62897979 152 ISGILAALSAMISLEIPQVNIMTKMDLLSKKAKKE----IEKF-----LDPDMYSLLEDSTS 204
Cdd:cd17870 148 MSNMLYACSILYKTKLPFILVFNKTDVVSHDFAIEwmedFESFqdalkEDSSYMSSLSRSMS 209
 
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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