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Conserved domains on  [gi|1780607310|emb|VYS50947|]
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unnamed protein product [Arabidopsis thaliana]

Protein Classification

CSTF2_hinge and CSTF_C domain-containing protein( domain architecture ID 10626797)

CSTF2_hinge and CSTF_C domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CSTF2_hinge pfam14327
Hinge domain of cleavage stimulation factor subunit 2; The hinge domain of cleavage ...
 15-72 1.44e-14

Hinge domain of cleavage stimulation factor subunit 2; The hinge domain of cleavage stimulation factor subunit 2 proteins, CSTF2, is necessary for binding to the subunit CstF-77 within the polyadenylation complex and subsequent nuclear localization. This suggests that nuclear import of a pre-formed CSTF complex is an essential step in polyadenylation. Accurate and efficient polyadenylation is essential for transcriptional termination, nuclear export, translation, and stability of eukaryotic mRNAs. CSTF2 is an important regulatory subunit of the polyadenylation complex.


:

Pssm-ID: 433869 [Multi-domain]  Cd Length: 81  Bit Score: 68.34  E-value: 1.44e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1780607310  15 NLAGMTKSQLYDIMSQMKTLIDQNHQQAREILIRNPLLTKALFQAQIMLGMVQPPQVT 72
Cdd:pfam14327  21 TLSSLPPAQLLELLSQMKALAQNNPAQARELLIQNPQLAYALFQALLLMGLVDPDVIT 78
PAT1 super family cl37801
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 71-269 2.29e-07

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


The actual alignment was detected with superfamily member pfam09770:

Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 52.73  E-value: 2.29e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310  71 VTPKVEPQAVQQPQQSHQSIPPKPNVQAHMSsfqgggsVHEPANTMQPQAPIRKHPTPQPMPMPPpppsVSANSAQSQPR 150
Cdd:pfam09770 165 VAPKKAAAPAPAPQPAAQPASLPAPSRKMMS-------LEEVEAAMRAQAKKPAQQPAPAPAQPP----AAPPAQQAQQQ 233

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310 151 FSHPQRQGHLNPAVTSMSHPQSSQVQNAPPPASHHPTSQQPPFHHLDIPASSTQLQQQPMHSGGGP-HVAQQQSRPYHHQ 229
Cdd:pfam09770 234 QQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQRPQSPQPDPAQPSIQPQAQQFHQQPPPVPVQPtQILQNPNRLSAAR 313

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1780607310 230 YGQAQTGPntgFQHHGAPTQHLSQPMYHSGNRPPASGGPQ 269
Cdd:pfam09770 314 VGYPQNPQ---PGVQPAPAHQAHRQQGSFGRQAPIITHPQ 350
CSTF_C pfam14304
Transcription termination and cleavage factor C-terminal; The C-terminal section of CSTF ...
 355-388 8.20e-05

Transcription termination and cleavage factor C-terminal; The C-terminal section of CSTF proteins is a discreet structure is crucial for mRNA 3'-end processing. This domain interacts with Pcf11 and possibly PC4, thus linking CstF2 to transcription, transcriptional termination, and cell growth.


:

Pssm-ID: 464130  Cd Length: 41  Bit Score: 39.62  E-value: 8.20e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1780607310 355 ALLQQVMSLTPEQINLLPPEQRNQVLQLQQILRQ 388
Cdd:pfam14304   7 ELIQQVLQLSEAQIAALPPDQRRSIMELRQQLRR 40
 
Name Accession Description Interval E-value
CSTF2_hinge pfam14327
Hinge domain of cleavage stimulation factor subunit 2; The hinge domain of cleavage ...
 15-72 1.44e-14

Hinge domain of cleavage stimulation factor subunit 2; The hinge domain of cleavage stimulation factor subunit 2 proteins, CSTF2, is necessary for binding to the subunit CstF-77 within the polyadenylation complex and subsequent nuclear localization. This suggests that nuclear import of a pre-formed CSTF complex is an essential step in polyadenylation. Accurate and efficient polyadenylation is essential for transcriptional termination, nuclear export, translation, and stability of eukaryotic mRNAs. CSTF2 is an important regulatory subunit of the polyadenylation complex.


Pssm-ID: 433869 [Multi-domain]  Cd Length: 81  Bit Score: 68.34  E-value: 1.44e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1780607310  15 NLAGMTKSQLYDIMSQMKTLIDQNHQQAREILIRNPLLTKALFQAQIMLGMVQPPQVT 72
Cdd:pfam14327  21 TLSSLPPAQLLELLSQMKALAQNNPAQARELLIQNPQLAYALFQALLLMGLVDPDVIT 78
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 71-269 2.29e-07

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 52.73  E-value: 2.29e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310  71 VTPKVEPQAVQQPQQSHQSIPPKPNVQAHMSsfqgggsVHEPANTMQPQAPIRKHPTPQPMPMPPpppsVSANSAQSQPR 150
Cdd:pfam09770 165 VAPKKAAAPAPAPQPAAQPASLPAPSRKMMS-------LEEVEAAMRAQAKKPAQQPAPAPAQPP----AAPPAQQAQQQ 233

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310 151 FSHPQRQGHLNPAVTSMSHPQSSQVQNAPPPASHHPTSQQPPFHHLDIPASSTQLQQQPMHSGGGP-HVAQQQSRPYHHQ 229
Cdd:pfam09770 234 QQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQRPQSPQPDPAQPSIQPQAQQFHQQPPPVPVQPtQILQNPNRLSAAR 313

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1780607310 230 YGQAQTGPntgFQHHGAPTQHLSQPMYHSGNRPPASGGPQ 269
Cdd:pfam09770 314 VGYPQNPQ---PGVQPAPAHQAHRQQGSFGRQAPIITHPQ 350
CSTF_C pfam14304
Transcription termination and cleavage factor C-terminal; The C-terminal section of CSTF ...
 355-388 8.20e-05

Transcription termination and cleavage factor C-terminal; The C-terminal section of CSTF proteins is a discreet structure is crucial for mRNA 3'-end processing. This domain interacts with Pcf11 and possibly PC4, thus linking CstF2 to transcription, transcriptional termination, and cell growth.


Pssm-ID: 464130  Cd Length: 41  Bit Score: 39.62  E-value: 8.20e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1780607310 355 ALLQQVMSLTPEQINLLPPEQRNQVLQLQQILRQ 388
Cdd:pfam14304   7 ELIQQVLQLSEAQIAALPPDQRRSIMELRQQLRR 40
PHA03247 PHA03247
large tegument protein UL36; Provisional
 67-183 6.86e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 38.77  E-value: 6.86e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310   67 QPPQVTPKVEPQAVQQPQQSHQSIPPKPNVQAHMSSFQGGGSVHEPANTMQPQAPIRKHPTPQPMPMPPPPPSVSANSAq 146
Cdd:PHA03247  2915 PPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREAPASST- 2993

                           90       100       110
                   ....*....|....*....|....*....|....*..
gi 1780607310  147 sqprfshPQRQGHLNPAVTSMSHPQSSQVQNAPPPAS 183
Cdd:PHA03247  2994 -------PPLTGHSLSRVSSWASSLALHEETDPPPVS 3023
 
Name Accession Description Interval E-value
CSTF2_hinge pfam14327
Hinge domain of cleavage stimulation factor subunit 2; The hinge domain of cleavage ...
 15-72 1.44e-14

Hinge domain of cleavage stimulation factor subunit 2; The hinge domain of cleavage stimulation factor subunit 2 proteins, CSTF2, is necessary for binding to the subunit CstF-77 within the polyadenylation complex and subsequent nuclear localization. This suggests that nuclear import of a pre-formed CSTF complex is an essential step in polyadenylation. Accurate and efficient polyadenylation is essential for transcriptional termination, nuclear export, translation, and stability of eukaryotic mRNAs. CSTF2 is an important regulatory subunit of the polyadenylation complex.


Pssm-ID: 433869 [Multi-domain]  Cd Length: 81  Bit Score: 68.34  E-value: 1.44e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1780607310  15 NLAGMTKSQLYDIMSQMKTLIDQNHQQAREILIRNPLLTKALFQAQIMLGMVQPPQVT 72
Cdd:pfam14327  21 TLSSLPPAQLLELLSQMKALAQNNPAQARELLIQNPQLAYALFQALLLMGLVDPDVIT 78
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 71-269 2.29e-07

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 52.73  E-value: 2.29e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310  71 VTPKVEPQAVQQPQQSHQSIPPKPNVQAHMSsfqgggsVHEPANTMQPQAPIRKHPTPQPMPMPPpppsVSANSAQSQPR 150
Cdd:pfam09770 165 VAPKKAAAPAPAPQPAAQPASLPAPSRKMMS-------LEEVEAAMRAQAKKPAQQPAPAPAQPP----AAPPAQQAQQQ 233

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310 151 FSHPQRQGHLNPAVTSMSHPQSSQVQNAPPPASHHPTSQQPPFHHLDIPASSTQLQQQPMHSGGGP-HVAQQQSRPYHHQ 229
Cdd:pfam09770 234 QQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQRPQSPQPDPAQPSIQPQAQQFHQQPPPVPVQPtQILQNPNRLSAAR 313

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1780607310 230 YGQAQTGPntgFQHHGAPTQHLSQPMYHSGNRPPASGGPQ 269
Cdd:pfam09770 314 VGYPQNPQ---PGVQPAPAHQAHRQQGSFGRQAPIITHPQ 350
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 81-282 5.86e-05

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 45.14  E-value: 5.86e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310  81 QQPQQSHQSIPPKPNVQAHMSSFQGGGSVHEPANTMQPQAPirkhPTPQPMPMPPPPPSVSANSAQSQPRFSHPQRQGHL 160
Cdd:pfam03154 170 QPPVLQAQSGAASPPSPPPPGTTQAATAGPTPSAPSVPPQG----SPATSQPPNQTQSTAAPHTLIQQTPTLHPQRLPSP 245

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310 161 NPAVTSMSHPqssqvqnaPPPASHHPTSQQPPFHHLDIPASSTQLQQQPMHSgggPHVAQQQSRPYHHQYGQAQT--GPN 238
Cdd:pfam03154 246 HPPLQPMTQP--------PPPSQVSPQPLPQPSLHGQMPPMPHSLQTGPSHM---QHPVPPQPFPLTPQSSQSQVppGPS 314

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1780607310 239 TGFQHHGAPTQHL--SQPMYHSGNRPPASGGPQFPQGQPHLPSQPT 282
Cdd:pfam03154 315 PAAPGQSQQRIHTppSQSQLQSQQPPREQPLPPAPLSMPHIKPPPT 360
CSTF_C pfam14304
Transcription termination and cleavage factor C-terminal; The C-terminal section of CSTF ...
 355-388 8.20e-05

Transcription termination and cleavage factor C-terminal; The C-terminal section of CSTF proteins is a discreet structure is crucial for mRNA 3'-end processing. This domain interacts with Pcf11 and possibly PC4, thus linking CstF2 to transcription, transcriptional termination, and cell growth.


Pssm-ID: 464130  Cd Length: 41  Bit Score: 39.62  E-value: 8.20e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1780607310 355 ALLQQVMSLTPEQINLLPPEQRNQVLQLQQILRQ 388
Cdd:pfam14304   7 ELIQQVLQLSEAQIAALPPDQRRSIMELRQQLRR 40
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 169-380 1.12e-03

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 41.17  E-value: 1.12e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310 169 HPQSSQVQNAPPPASHHPTSQQPPFHHLDIPASSTQLQQQPMHSGGGPHVAQQQsRPYHHQYGQAQ-TGPNTGFQHHGAP 247
Cdd:pfam09770 214 PAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQ-RPQSPQPDPAQpSIQPQAQQFHQQP 292

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310 248 TQHLSQPMY--HSGNRPPASGGPQFPQGQPHLPSQPTYQGGGQYRGDYNNNQLaglmaqdrgpswmagqsessnITHlpg 325
Cdd:pfam09770 293 PPVPVQPTQilQNPNRLSAARVGYPQNPQPGVQPAPAHQAHRQQGSFGRQAPI---------------------ITH--- 348

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1780607310 326 lgpvpppsqvgpgggppprpapisaemekallqqvmsltPEQINLLPPEQRNQVL 380
Cdd:pfam09770 349 ---------------------------------------PQQLAQLSEEEKAAYL 364
partial_CstF pfam15861
Partial cleavage stimulation factor domain; Partial_CstF domain is a protein domain that ...
 353-387 2.06e-03

Partial cleavage stimulation factor domain; Partial_CstF domain is a protein domain that occurs in proteins from apicomplexan parasites. Currently (as of 2012), little is known about the function of this domain. However, it is homologous to the amino-terminal part of the cleavage stimulation factor, which is thought to be involved with mRNA maturation in mammals.


Pssm-ID: 406321  Cd Length: 62  Bit Score: 36.26  E-value: 2.06e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1780607310 353 EKALLQQVMSLTPEQINLLPPEQRNQVLQLQQILR 387
Cdd:pfam15861  24 NPDILTNILKSKPEDMTSWPSEQKQQVLSIQKALF 58
PHA03247 PHA03247
large tegument protein UL36; Provisional
 67-183 6.86e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 38.77  E-value: 6.86e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310   67 QPPQVTPKVEPQAVQQPQQSHQSIPPKPNVQAHMSSFQGGGSVHEPANTMQPQAPIRKHPTPQPMPMPPPPPSVSANSAq 146
Cdd:PHA03247  2915 PPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREAPASST- 2993

                           90       100       110
                   ....*....|....*....|....*....|....*..
gi 1780607310  147 sqprfshPQRQGHLNPAVTSMSHPQSSQVQNAPPPAS 183
Cdd:PHA03247  2994 -------PPLTGHSLSRVSSWASSLALHEETDPPPVS 3023
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 67-207 8.11e-03

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 38.48  E-value: 8.11e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780607310  67 QPPQVTPKVEPQAVQQPQQSHQSIPPKPNVQAHMSSFQGGGSVHEPANTMQPQAPIRKHPTPQPMPMPPPPPSVSANSAQ 146
Cdd:pfam09770 212 QQPAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQRPQSPQPDPAQPSIQPQAQQFHQQ 291

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1780607310 147 SQPRFSHPqRQGHLNPAVTSMSH---PQSSQVQNAPPPASHHPTSQQPPFHHLDIPASSTQLQQ 207
Cdd:pfam09770 292 PPPVPVQP-TQILQNPNRLSAARvgyPQNPQPGVQPAPAHQAHRQQGSFGRQAPIITHPQQLAQ 354
 
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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