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Conserved domains on  [gi|47087457|ref|NP_998627|]
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pre-mRNA-splicing factor CWC25 homolog [Danio rerio]

Protein Classification

Cir_N and CWC25 domain-containing protein( domain architecture ID 13766338)

protein containing domains Cir_N, CWC25, and SF-CC1

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CWC25 pfam12542
Pre-mRNA splicing factor; This domain family is found in eukaryotes, and is approximately 100 ...
 67-157 5.09e-23

Pre-mRNA splicing factor; This domain family is found in eukaryotes, and is approximately 100 amino acids in length. The family is found in association with pfam10197. There is a single completely conserved residue Y that may be functionally important. Cwc25 has been identified to associate with pre-mRNA splicing factor Cef1/Ntc85, a component of the Prp19-associated complex (NTC) involved in spliceosome activation. Cwc25 is neither tightly associated with NTC nor required for spliceosome activation, but is required for the first catalytic reaction.


:

Pssm-ID: 463626 [Multi-domain]  Cd Length: 97  Bit Score: 92.12  E-value: 5.09e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 47087457    67 DDRLDWMYQGPSGQISR--EEYLLGRP-IDKQITQ---QYEDQESGPSAETGLLPGSIFNPSSAASTNDMAAKIREDPLF 140
Cdd:pfam12542   1 LERLDWMYDGPSGGVEEemEEYLLGKKrVDKLLEGgddAEKKKAAKASFSAASVPGALFLEKAINSARDTARKLREDPLL 80

                          90
                  ....*....|....*..
gi 47087457   141 EIRKREEEKKRGVLTNP 157
Cdd:pfam12542  81 AIKKQEQEARQALLNNP 97
Cir_N pfam10197
N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region ...
 11-37 7.14e-08

N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region at the N-terminal end of a family of proteins referred to as CIRs (CBF1-interacting co-repressors). CBF1 (centromere-binding factor 1) acts as a transcription factor that causes repression by binding specifically to GTGGGAA motifs in responsive promoters, and it requires CIR as a co-repressor. CIR binds to histone deacetylase and to SAP30 and serves as a linker between CBF1 and the histone deacetylase complex.


:

Pssm-ID: 462992 [Multi-domain]  Cd Length: 37  Bit Score: 48.18  E-value: 7.14e-08
                          10        20
                  ....*....|....*....|....*..
gi 47087457    11 SWHPQTLKNIERVWKAEQKHEAERKKI 37
Cdd:pfam10197   1 SWHPGLKKNQEKVWKAEQKALEERKKI 27
SF-CC1 super family cl36939
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 245-360 8.09e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


The actual alignment was detected with superfamily member TIGR01622:

Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 38.36  E-value: 8.09e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 47087457   245 NHTDHRSRDRSRSPLSHKaDRDNHSSRESERKakpKAPSPPRHRDRYQRPQYTNYSKRlsaeELEKKRREMMDFAREREV 324
Cdd:TIGR01622  12 DSSSAGDRDRRRDKGRER-SRDRSRDRERSRS---RRRDRHRDRDYYRGRERRSRSRR----PNRRYRPREKRRRRGDSY 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 47087457   325 ERENNVQRYKRQEEQEKAR-----EDAKQDRHAGFIHEMKL 360
Cdd:TIGR01622  84 RRRRDDRRSRREKPRARDGtpeplTEDERDRRTVFVQQLAA 124
 
Name Accession Description Interval E-value
CWC25 pfam12542
Pre-mRNA splicing factor; This domain family is found in eukaryotes, and is approximately 100 ...
 67-157 5.09e-23

Pre-mRNA splicing factor; This domain family is found in eukaryotes, and is approximately 100 amino acids in length. The family is found in association with pfam10197. There is a single completely conserved residue Y that may be functionally important. Cwc25 has been identified to associate with pre-mRNA splicing factor Cef1/Ntc85, a component of the Prp19-associated complex (NTC) involved in spliceosome activation. Cwc25 is neither tightly associated with NTC nor required for spliceosome activation, but is required for the first catalytic reaction.


Pssm-ID: 463626 [Multi-domain]  Cd Length: 97  Bit Score: 92.12  E-value: 5.09e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 47087457    67 DDRLDWMYQGPSGQISR--EEYLLGRP-IDKQITQ---QYEDQESGPSAETGLLPGSIFNPSSAASTNDMAAKIREDPLF 140
Cdd:pfam12542   1 LERLDWMYDGPSGGVEEemEEYLLGKKrVDKLLEGgddAEKKKAAKASFSAASVPGALFLEKAINSARDTARKLREDPLL 80

                          90
                  ....*....|....*..
gi 47087457   141 EIRKREEEKKRGVLTNP 157
Cdd:pfam12542  81 AIKKQEQEARQALLNNP 97
Cir_N pfam10197
N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region ...
 11-37 7.14e-08

N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region at the N-terminal end of a family of proteins referred to as CIRs (CBF1-interacting co-repressors). CBF1 (centromere-binding factor 1) acts as a transcription factor that causes repression by binding specifically to GTGGGAA motifs in responsive promoters, and it requires CIR as a co-repressor. CIR binds to histone deacetylase and to SAP30 and serves as a linker between CBF1 and the histone deacetylase complex.


Pssm-ID: 462992 [Multi-domain]  Cd Length: 37  Bit Score: 48.18  E-value: 7.14e-08
                          10        20
                  ....*....|....*....|....*..
gi 47087457    11 SWHPQTLKNIERVWKAEQKHEAERKKI 37
Cdd:pfam10197   1 SWHPGLKKNQEKVWKAEQKALEERKKI 27
Cir_N smart01083
N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region ...
 11-37 4.73e-06

N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region at the N-terminal end of a family of proteins referred to as CIRs (CBF1-interacting co-repressors). CBF1 (centromere-binding factor 1) acts as a transcription factor that causes repression by binding specifically to GTGGGAA motifs in responsive promoters, and it requires CIR as a co-repressor. CIR binds to histone deacetylase and to SAP30 and serves as a linker between CBF1 and the histone deacetylase complex.


Pssm-ID: 198151 [Multi-domain]  Cd Length: 37  Bit Score: 42.91  E-value: 4.73e-06
                           10        20
                   ....*....|....*....|....*..
gi 47087457     11 SWHPQTLKNIERVWKAEQKHEAERKKI 37
Cdd:smart01083   1 SWHPGNKKNQKRVWKAEQKAEEEKKKI 27
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 245-360 8.09e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 38.36  E-value: 8.09e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 47087457   245 NHTDHRSRDRSRSPLSHKaDRDNHSSRESERKakpKAPSPPRHRDRYQRPQYTNYSKRlsaeELEKKRREMMDFAREREV 324
Cdd:TIGR01622  12 DSSSAGDRDRRRDKGRER-SRDRSRDRERSRS---RRRDRHRDRDYYRGRERRSRSRR----PNRRYRPREKRRRRGDSY 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 47087457   325 ERENNVQRYKRQEEQEKAR-----EDAKQDRHAGFIHEMKL 360
Cdd:TIGR01622  84 RRRRDDRRSRREKPRARDGtpeplTEDERDRRTVFVQQLAA 124
rne PRK10811
ribonuclease E; Reviewed
 250-341 9.59e-03

ribonuclease E; Reviewed


Pssm-ID: 236766 [Multi-domain]  Cd Length: 1068  Bit Score: 38.10  E-value: 9.59e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 47087457   250 RSRDRSRSPLSHKADRDNHSSRESERkakpkapspprhRDRYQRPQYTNYSKRLSAEELEKKRREMMDFAREREVERENN 329
Cdd:PRK10811  615 RDRNERRDTRDNRTRREGRENREENR------------RNRRQAQQQTAETRESQQAEVTEKARTQDEQQQAPRRERQRR 682

                          90
                  ....*....|..
gi 47087457   330 VQRYKRQEEQEK 341
Cdd:PRK10811  683 RNDEKRQAQQEA 694
 
Name Accession Description Interval E-value
CWC25 pfam12542
Pre-mRNA splicing factor; This domain family is found in eukaryotes, and is approximately 100 ...
 67-157 5.09e-23

Pre-mRNA splicing factor; This domain family is found in eukaryotes, and is approximately 100 amino acids in length. The family is found in association with pfam10197. There is a single completely conserved residue Y that may be functionally important. Cwc25 has been identified to associate with pre-mRNA splicing factor Cef1/Ntc85, a component of the Prp19-associated complex (NTC) involved in spliceosome activation. Cwc25 is neither tightly associated with NTC nor required for spliceosome activation, but is required for the first catalytic reaction.


Pssm-ID: 463626 [Multi-domain]  Cd Length: 97  Bit Score: 92.12  E-value: 5.09e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 47087457    67 DDRLDWMYQGPSGQISR--EEYLLGRP-IDKQITQ---QYEDQESGPSAETGLLPGSIFNPSSAASTNDMAAKIREDPLF 140
Cdd:pfam12542   1 LERLDWMYDGPSGGVEEemEEYLLGKKrVDKLLEGgddAEKKKAAKASFSAASVPGALFLEKAINSARDTARKLREDPLL 80

                          90
                  ....*....|....*..
gi 47087457   141 EIRKREEEKKRGVLTNP 157
Cdd:pfam12542  81 AIKKQEQEARQALLNNP 97
Cir_N pfam10197
N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region ...
 11-37 7.14e-08

N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region at the N-terminal end of a family of proteins referred to as CIRs (CBF1-interacting co-repressors). CBF1 (centromere-binding factor 1) acts as a transcription factor that causes repression by binding specifically to GTGGGAA motifs in responsive promoters, and it requires CIR as a co-repressor. CIR binds to histone deacetylase and to SAP30 and serves as a linker between CBF1 and the histone deacetylase complex.


Pssm-ID: 462992 [Multi-domain]  Cd Length: 37  Bit Score: 48.18  E-value: 7.14e-08
                          10        20
                  ....*....|....*....|....*..
gi 47087457    11 SWHPQTLKNIERVWKAEQKHEAERKKI 37
Cdd:pfam10197   1 SWHPGLKKNQEKVWKAEQKALEERKKI 27
Cir_N smart01083
N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region ...
 11-37 4.73e-06

N-terminal domain of CBF1 interacting co-repressor CIR; This is a 45 residue conserved region at the N-terminal end of a family of proteins referred to as CIRs (CBF1-interacting co-repressors). CBF1 (centromere-binding factor 1) acts as a transcription factor that causes repression by binding specifically to GTGGGAA motifs in responsive promoters, and it requires CIR as a co-repressor. CIR binds to histone deacetylase and to SAP30 and serves as a linker between CBF1 and the histone deacetylase complex.


Pssm-ID: 198151 [Multi-domain]  Cd Length: 37  Bit Score: 42.91  E-value: 4.73e-06
                           10        20
                   ....*....|....*....|....*..
gi 47087457     11 SWHPQTLKNIERVWKAEQKHEAERKKI 37
Cdd:smart01083   1 SWHPGNKKNQKRVWKAEQKAEEEKKKI 27
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 245-360 8.09e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 38.36  E-value: 8.09e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 47087457   245 NHTDHRSRDRSRSPLSHKaDRDNHSSRESERKakpKAPSPPRHRDRYQRPQYTNYSKRlsaeELEKKRREMMDFAREREV 324
Cdd:TIGR01622  12 DSSSAGDRDRRRDKGRER-SRDRSRDRERSRS---RRRDRHRDRDYYRGRERRSRSRR----PNRRYRPREKRRRRGDSY 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 47087457   325 ERENNVQRYKRQEEQEKAR-----EDAKQDRHAGFIHEMKL 360
Cdd:TIGR01622  84 RRRRDDRRSRREKPRARDGtpeplTEDERDRRTVFVQQLAA 124
rne PRK10811
ribonuclease E; Reviewed
 250-341 9.59e-03

ribonuclease E; Reviewed


Pssm-ID: 236766 [Multi-domain]  Cd Length: 1068  Bit Score: 38.10  E-value: 9.59e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 47087457   250 RSRDRSRSPLSHKADRDNHSSRESERkakpkapspprhRDRYQRPQYTNYSKRLSAEELEKKRREMMDFAREREVERENN 329
Cdd:PRK10811  615 RDRNERRDTRDNRTRREGRENREENR------------RNRRQAQQQTAETRESQQAEVTEKARTQDEQQQAPRRERQRR 682

                          90
                  ....*....|..
gi 47087457   330 VQRYKRQEEQEK 341
Cdd:PRK10811  683 RNDEKRQAQQEA 694
 
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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