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Conserved domains on  [gi|19113451|ref|NP_596659|]
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splicing factor Cwf28 [Schizosaccharomyces pombe]

Protein Classification

pre-mRNA-splicing factor SPP2( domain architecture ID 10576961)

pre-mRNA-splicing factor SPP2 is involved in pre-mRNA splicing; specifically in the final stages of spliceosome maturation

Gene Ontology:  GO:0003676|GO:0000398|GO:0001671
PubMed:  10470032|33857358

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
G-patch_2 pfam12656
G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ...
 180-233 3.79e-19

G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ATP-dependent DExH-box splicing factor Prp2. As this interaction involves the G-patch sequence in Spp2 and is required for the recruitment of Prp2 to the spliceosome before the first catalytic step of splicing, it is proposed that Spp2 might be an accessory factor that confers spliceosome specificity on Prp2.


:

Pssm-ID: 432700 [Multi-domain]  Cd Length: 61  Bit Score: 80.40  E-value: 3.79e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 19113451   180 PEPSNMKDYSEIPVEEFGAAMLRGMGWN-GQLSSK------DAFDVNQRPTFLGMGAKPVD 233
Cdd:pfam12656   1 PDEASLEDYEKVPVEEFGAAMLRGMGWKpGQGIGKnkkgdvKPKEYKRRPGGLGLGAKPAE 61
SF-CC1 super family cl36939
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 264-378 2.99e-04

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: 42.60  E-value: 2.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113451   264 SQNEHTEVQKKSNSIDNLTPSSELFRKRSRDNNLSRESSvsskhldynsrnynkRDRDPDRTKYREYHSERRKQHRTDRY 343
Cdd:TIGR01622   2 YRDRERERLRDSSSAGDRDRRRDKGRERSRDRSRDRERS---------------RSRRRDRHRDRDYYRGRERRSRSRRP 66

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 19113451   344 SddyyqGRSYSYKKRSHRSDRYTERENPDRSYRST 378
Cdd:TIGR01622  67 N-----RRYRPREKRRRRGDSYRRRRDDRRSRREK 96
 
Name Accession Description Interval E-value
G-patch_2 pfam12656
G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ...
 180-233 3.79e-19

G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ATP-dependent DExH-box splicing factor Prp2. As this interaction involves the G-patch sequence in Spp2 and is required for the recruitment of Prp2 to the spliceosome before the first catalytic step of splicing, it is proposed that Spp2 might be an accessory factor that confers spliceosome specificity on Prp2.


Pssm-ID: 432700 [Multi-domain]  Cd Length: 61  Bit Score: 80.40  E-value: 3.79e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 19113451   180 PEPSNMKDYSEIPVEEFGAAMLRGMGWN-GQLSSK------DAFDVNQRPTFLGMGAKPVD 233
Cdd:pfam12656   1 PDEASLEDYEKVPVEEFGAAMLRGMGWKpGQGIGKnkkgdvKPKEYKRRPGGLGLGAKPAE 61
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 264-378 2.99e-04

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: 42.60  E-value: 2.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113451   264 SQNEHTEVQKKSNSIDNLTPSSELFRKRSRDNNLSRESSvsskhldynsrnynkRDRDPDRTKYREYHSERRKQHRTDRY 343
Cdd:TIGR01622   2 YRDRERERLRDSSSAGDRDRRRDKGRERSRDRSRDRERS---------------RSRRRDRHRDRDYYRGRERRSRSRRP 66

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 19113451   344 SddyyqGRSYSYKKRSHRSDRYTERENPDRSYRST 378
Cdd:TIGR01622  67 N-----RRYRPREKRRRRGDSYRRRRDDRRSRREK 96
 
Name Accession Description Interval E-value
G-patch_2 pfam12656
G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ...
 180-233 3.79e-19

G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ATP-dependent DExH-box splicing factor Prp2. As this interaction involves the G-patch sequence in Spp2 and is required for the recruitment of Prp2 to the spliceosome before the first catalytic step of splicing, it is proposed that Spp2 might be an accessory factor that confers spliceosome specificity on Prp2.


Pssm-ID: 432700 [Multi-domain]  Cd Length: 61  Bit Score: 80.40  E-value: 3.79e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 19113451   180 PEPSNMKDYSEIPVEEFGAAMLRGMGWN-GQLSSK------DAFDVNQRPTFLGMGAKPVD 233
Cdd:pfam12656   1 PDEASLEDYEKVPVEEFGAAMLRGMGWKpGQGIGKnkkgdvKPKEYKRRPGGLGLGAKPAE 61
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 264-378 2.99e-04

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: 42.60  E-value: 2.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113451   264 SQNEHTEVQKKSNSIDNLTPSSELFRKRSRDNNLSRESSvsskhldynsrnynkRDRDPDRTKYREYHSERRKQHRTDRY 343
Cdd:TIGR01622   2 YRDRERERLRDSSSAGDRDRRRDKGRERSRDRSRDRERS---------------RSRRRDRHRDRDYYRGRERRSRSRRP 66

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 19113451   344 SddyyqGRSYSYKKRSHRSDRYTERENPDRSYRST 378
Cdd:TIGR01622  67 N-----RRYRPREKRRRRGDSYRRRRDDRRSRREK 96
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 284-375 1.02e-03

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 41.03  E-value: 1.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113451   284 SSELFRKRSRDNNLSRessvsSKHLDYNSRNYNKRDRDPDRTKYR-------EYHSERRKQHRTDRYSDDYYQGRSYSYK 356
Cdd:TIGR01642  20 SSERPRRRSRDRSRFR-----DRHRRSRERSYREDSRPRDRRRYDsrsprslRYSSVRRSRDRPRRRSRSVRSIEQHRRR 94

                          90
                  ....*....|....*....
gi 19113451   357 KRSHRSDRYTERENPDRSY 375
Cdd:TIGR01642  95 LRDRSPSNQWRKDDKKRSL 113
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 289-379 5.44e-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: 38.75  E-value: 5.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113451   289 RKRSRDNNLSRESSvSSKHLDYNSRNYNKRDRDPDRTKYREYHSERRKQHRTDRYSDDYYQGRSYSYKKRSHRSDRYTER 368
Cdd:TIGR01622   1 RYRDRERERLRDSS-SAGDRDRRRDKGRERSRDRSRDRERSRSRRRDRHRDRDYYRGRERRSRSRRPNRRYRPREKRRRR 79

                          90
                  ....*....|.
gi 19113451   369 ENPDRSYRSTR 379
Cdd:TIGR01622  80 GDSYRRRRDDR 90
 
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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