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Conserved domains on  [gi|22122445|ref|NP_666103|]
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parafibromin [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
CDC73_N pfam16050
Paf1 complex subunit CDC73 N-terminal; CDC73_N is the N-terminal region of the members of ...
1-297 0e+00

Paf1 complex subunit CDC73 N-terminal; CDC73_N is the N-terminal region of the members of CDC73_C, pfam05179. CDC73 forms part of the Paf1 post-initiation complex. The exact function within the complex is not known.


:

Pssm-ID: 464994  Cd Length: 301  Bit Score: 524.67  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445     1 MADVLSVLRQYNIQKKEIVVKGDEVIFGEFSWPKNVKTNYVVWGTGKEGQPREYYTLDSILFLLNNVHLSHPVYVRRAAT 80
Cdd:pfam16050   1 MADPLSLLRQYNINKKEIIERDGQIIFGEFSWPKTVKTNYLIYGTGKDGAPKEYYTLECLLFLLKNVHLSHPVYVRQAAA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445    81 ENIPVVRRPDRKDLLGYLNGEASTSASIDRSAPLEIGLQRSTQVKRAADEVLAE--AKKPRIEDeECVRLDKERLAARLE 158
Cdd:pfam16050  81 ASIPVVRRPDRKDLLAYLNGETSTSASIDKSAPLEIALQRPTQVKRPADEDTGEsaAKKPRLEE-EQVQKDKERLAARLD 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445   159 G-HKEGIVQTEQIRSLSEAMSVEKIAAIKAKIMAKKRSTIKTDLDDDITALKQRSFVDAEVDVTRDIVSRERVWRTRTTI 237
Cdd:pfam16050 160 AnPKEESVTTDQIKSLSEAMSVEKIAAIKAKRLAKKRTTIKKDDDDELTGLELRSFVDAEVDVTRDIISRERVWRTRTTV 239
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 22122445   238 LQSTGKNFSKNIFAILQSVKAREEGRAPEQ--RPAPNAAPVDPTLRTKQPIPAAYNRYDQER 297
Cdd:pfam16050 240 LQSAGKSFSKNIFAILQSIKAREEGRGKEGkdKPAQPAKPSPPSVKASAPQPAAYNRYDQER 301
CDC73_C pfam05179
RNA pol II accessory factor, Cdc73 family, C-terminal; CDC73 is an RNA polymerase II accessory ...
357-520 9.20e-73

RNA pol II accessory factor, Cdc73 family, C-terminal; CDC73 is an RNA polymerase II accessory factor, and forms part of the Paf1 complex that has roles in post-initiation events. More specifically, crystal structure analysis shows the C-terminus to be a Ras-like domain that adopts a fold that is highly similar to GTPases of the Ras superfamily. The canonical nucleotide binding pocket is altered in CDC73, and there is no nucleotide ligand, but it contributes to histone methylation and Paf1C recruitment to active genes. Thus together with Rtf1 it combines to couple the Paf1 complex to elongating polymerase. The family has been added to the P-loop clan on the basis of the topology of the b-stranded core, and its similarity to Ras.


:

Pssm-ID: 461570  Cd Length: 157  Bit Score: 228.24  E-value: 9.20e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445   357 SRTPIIIIPAATTSLITMLNAKDLLQDLKFVPSDEKKKQGCQR-ENETLIQRRKDQMQPGGTaisvtVPYRVVDQPLKLM 435
Cdd:pfam05179   2 RKDPIILVPPSATSLITMYNVKQFLEDGKFVPPDEKKKAGSKKaENEVTIQRKLRKIAPGRP-----VKFRVVDNPEKLT 76
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445   436 PQDWDRVVAVFVQGPAWQFKGWPWllpdGSPVDIFAKIKAFHLKYDEVRLDPNVQKWDVTVLELSYHKRHLDRPVFLRFW 515
Cdd:pfam05179  77 KEDWDRVVAVFTTGQAWQFKGYKW----SDPVELFQKVKGFYLKFDGDPVPEQVKKWNVKVLQLSRNKRHLDREVVEEFW 152

                  ....*
gi 22122445   516 ETLDR 520
Cdd:pfam05179 153 ESLEK 157
 
Name Accession Description Interval E-value
CDC73_N pfam16050
Paf1 complex subunit CDC73 N-terminal; CDC73_N is the N-terminal region of the members of ...
1-297 0e+00

Paf1 complex subunit CDC73 N-terminal; CDC73_N is the N-terminal region of the members of CDC73_C, pfam05179. CDC73 forms part of the Paf1 post-initiation complex. The exact function within the complex is not known.


Pssm-ID: 464994  Cd Length: 301  Bit Score: 524.67  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445     1 MADVLSVLRQYNIQKKEIVVKGDEVIFGEFSWPKNVKTNYVVWGTGKEGQPREYYTLDSILFLLNNVHLSHPVYVRRAAT 80
Cdd:pfam16050   1 MADPLSLLRQYNINKKEIIERDGQIIFGEFSWPKTVKTNYLIYGTGKDGAPKEYYTLECLLFLLKNVHLSHPVYVRQAAA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445    81 ENIPVVRRPDRKDLLGYLNGEASTSASIDRSAPLEIGLQRSTQVKRAADEVLAE--AKKPRIEDeECVRLDKERLAARLE 158
Cdd:pfam16050  81 ASIPVVRRPDRKDLLAYLNGETSTSASIDKSAPLEIALQRPTQVKRPADEDTGEsaAKKPRLEE-EQVQKDKERLAARLD 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445   159 G-HKEGIVQTEQIRSLSEAMSVEKIAAIKAKIMAKKRSTIKTDLDDDITALKQRSFVDAEVDVTRDIVSRERVWRTRTTI 237
Cdd:pfam16050 160 AnPKEESVTTDQIKSLSEAMSVEKIAAIKAKRLAKKRTTIKKDDDDELTGLELRSFVDAEVDVTRDIISRERVWRTRTTV 239
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 22122445   238 LQSTGKNFSKNIFAILQSVKAREEGRAPEQ--RPAPNAAPVDPTLRTKQPIPAAYNRYDQER 297
Cdd:pfam16050 240 LQSAGKSFSKNIFAILQSIKAREEGRGKEGkdKPAQPAKPSPPSVKASAPQPAAYNRYDQER 301
CDC73_C pfam05179
RNA pol II accessory factor, Cdc73 family, C-terminal; CDC73 is an RNA polymerase II accessory ...
357-520 9.20e-73

RNA pol II accessory factor, Cdc73 family, C-terminal; CDC73 is an RNA polymerase II accessory factor, and forms part of the Paf1 complex that has roles in post-initiation events. More specifically, crystal structure analysis shows the C-terminus to be a Ras-like domain that adopts a fold that is highly similar to GTPases of the Ras superfamily. The canonical nucleotide binding pocket is altered in CDC73, and there is no nucleotide ligand, but it contributes to histone methylation and Paf1C recruitment to active genes. Thus together with Rtf1 it combines to couple the Paf1 complex to elongating polymerase. The family has been added to the P-loop clan on the basis of the topology of the b-stranded core, and its similarity to Ras.


Pssm-ID: 461570  Cd Length: 157  Bit Score: 228.24  E-value: 9.20e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445   357 SRTPIIIIPAATTSLITMLNAKDLLQDLKFVPSDEKKKQGCQR-ENETLIQRRKDQMQPGGTaisvtVPYRVVDQPLKLM 435
Cdd:pfam05179   2 RKDPIILVPPSATSLITMYNVKQFLEDGKFVPPDEKKKAGSKKaENEVTIQRKLRKIAPGRP-----VKFRVVDNPEKLT 76
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445   436 PQDWDRVVAVFVQGPAWQFKGWPWllpdGSPVDIFAKIKAFHLKYDEVRLDPNVQKWDVTVLELSYHKRHLDRPVFLRFW 515
Cdd:pfam05179  77 KEDWDRVVAVFTTGQAWQFKGYKW----SDPVELFQKVKGFYLKFDGDPVPEQVKKWNVKVLQLSRNKRHLDREVVEEFW 152

                  ....*
gi 22122445   516 ETLDR 520
Cdd:pfam05179 153 ESLEK 157
CDC73 COG5157
RNA polymerase II assessory factor [Transcription];
345-523 2.73e-25

RNA polymerase II assessory factor [Transcription];


Pssm-ID: 227486 [Multi-domain]  Cd Length: 362  Bit Score: 107.08  E-value: 2.73e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445 345 SQARPppnQKKGSRTPIIIIPAATTSLITMLNAKDLLQDLKFVPSDEKKK--QGCQRENETLIQRRKDQmqpggtaisvT 422
Cdd:COG5157 194 AHGRP---TKYYAKDPIILVPQSASSPLTLSNIKEFLEEGKYVNPRNLPScsDGIRISEVEKVELDLDG----------P 260
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445 423 VPYRVVDQPLKLMPQDWDRVVAVFVQGPAWQFKGWPWllpdGSPVDIFAKIKAFHLKYDEVRLDPNVQKWDVTVLELSYH 502
Cdd:COG5157 261 FRFIIVDDTGGFKPEYWDRVVCIFTTGSKWQFGRYNW----RDPGELFNTIKGFYFARRGDQSNLYMRNWNVEEIGVHDG 336
                       170       180
                ....*....|....*....|.
gi 22122445 503 KRHLDRPVFLRFWETLDRYMV 523
Cdd:COG5157 337 KRFVDREVVSSIWERLEGCIL 357
 
Name Accession Description Interval E-value
CDC73_N pfam16050
Paf1 complex subunit CDC73 N-terminal; CDC73_N is the N-terminal region of the members of ...
1-297 0e+00

Paf1 complex subunit CDC73 N-terminal; CDC73_N is the N-terminal region of the members of CDC73_C, pfam05179. CDC73 forms part of the Paf1 post-initiation complex. The exact function within the complex is not known.


Pssm-ID: 464994  Cd Length: 301  Bit Score: 524.67  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445     1 MADVLSVLRQYNIQKKEIVVKGDEVIFGEFSWPKNVKTNYVVWGTGKEGQPREYYTLDSILFLLNNVHLSHPVYVRRAAT 80
Cdd:pfam16050   1 MADPLSLLRQYNINKKEIIERDGQIIFGEFSWPKTVKTNYLIYGTGKDGAPKEYYTLECLLFLLKNVHLSHPVYVRQAAA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445    81 ENIPVVRRPDRKDLLGYLNGEASTSASIDRSAPLEIGLQRSTQVKRAADEVLAE--AKKPRIEDeECVRLDKERLAARLE 158
Cdd:pfam16050  81 ASIPVVRRPDRKDLLAYLNGETSTSASIDKSAPLEIALQRPTQVKRPADEDTGEsaAKKPRLEE-EQVQKDKERLAARLD 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445   159 G-HKEGIVQTEQIRSLSEAMSVEKIAAIKAKIMAKKRSTIKTDLDDDITALKQRSFVDAEVDVTRDIVSRERVWRTRTTI 237
Cdd:pfam16050 160 AnPKEESVTTDQIKSLSEAMSVEKIAAIKAKRLAKKRTTIKKDDDDELTGLELRSFVDAEVDVTRDIISRERVWRTRTTV 239
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 22122445   238 LQSTGKNFSKNIFAILQSVKAREEGRAPEQ--RPAPNAAPVDPTLRTKQPIPAAYNRYDQER 297
Cdd:pfam16050 240 LQSAGKSFSKNIFAILQSIKAREEGRGKEGkdKPAQPAKPSPPSVKASAPQPAAYNRYDQER 301
CDC73_C pfam05179
RNA pol II accessory factor, Cdc73 family, C-terminal; CDC73 is an RNA polymerase II accessory ...
357-520 9.20e-73

RNA pol II accessory factor, Cdc73 family, C-terminal; CDC73 is an RNA polymerase II accessory factor, and forms part of the Paf1 complex that has roles in post-initiation events. More specifically, crystal structure analysis shows the C-terminus to be a Ras-like domain that adopts a fold that is highly similar to GTPases of the Ras superfamily. The canonical nucleotide binding pocket is altered in CDC73, and there is no nucleotide ligand, but it contributes to histone methylation and Paf1C recruitment to active genes. Thus together with Rtf1 it combines to couple the Paf1 complex to elongating polymerase. The family has been added to the P-loop clan on the basis of the topology of the b-stranded core, and its similarity to Ras.


Pssm-ID: 461570  Cd Length: 157  Bit Score: 228.24  E-value: 9.20e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445   357 SRTPIIIIPAATTSLITMLNAKDLLQDLKFVPSDEKKKQGCQR-ENETLIQRRKDQMQPGGTaisvtVPYRVVDQPLKLM 435
Cdd:pfam05179   2 RKDPIILVPPSATSLITMYNVKQFLEDGKFVPPDEKKKAGSKKaENEVTIQRKLRKIAPGRP-----VKFRVVDNPEKLT 76
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445   436 PQDWDRVVAVFVQGPAWQFKGWPWllpdGSPVDIFAKIKAFHLKYDEVRLDPNVQKWDVTVLELSYHKRHLDRPVFLRFW 515
Cdd:pfam05179  77 KEDWDRVVAVFTTGQAWQFKGYKW----SDPVELFQKVKGFYLKFDGDPVPEQVKKWNVKVLQLSRNKRHLDREVVEEFW 152

                  ....*
gi 22122445   516 ETLDR 520
Cdd:pfam05179 153 ESLEK 157
CDC73 COG5157
RNA polymerase II assessory factor [Transcription];
345-523 2.73e-25

RNA polymerase II assessory factor [Transcription];


Pssm-ID: 227486 [Multi-domain]  Cd Length: 362  Bit Score: 107.08  E-value: 2.73e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445 345 SQARPppnQKKGSRTPIIIIPAATTSLITMLNAKDLLQDLKFVPSDEKKK--QGCQRENETLIQRRKDQmqpggtaisvT 422
Cdd:COG5157 194 AHGRP---TKYYAKDPIILVPQSASSPLTLSNIKEFLEEGKYVNPRNLPScsDGIRISEVEKVELDLDG----------P 260
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22122445 423 VPYRVVDQPLKLMPQDWDRVVAVFVQGPAWQFKGWPWllpdGSPVDIFAKIKAFHLKYDEVRLDPNVQKWDVTVLELSYH 502
Cdd:COG5157 261 FRFIIVDDTGGFKPEYWDRVVCIFTTGSKWQFGRYNW----RDPGELFNTIKGFYFARRGDQSNLYMRNWNVEEIGVHDG 336
                       170       180
                ....*....|....*....|.
gi 22122445 503 KRHLDRPVFLRFWETLDRYMV 523
Cdd:COG5157 337 KRFVDREVVSSIWERLEGCIL 357
 
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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