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Conserved domains on  [gi|688583289|ref|XP_009305706|]
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RNA-binding protein 25 isoform X2 [Danio rerio]

Protein Classification

PWI domain-containing protein( domain architecture ID 10645659)

PWI domain-containing protein may function as a splicing factor; similar to Saccharomyces cerevisiae U1 small nuclear ribonucleoprotein component SNU71, a component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA

CATH:  1.20.1390.10
Gene Ontology:  GO:0006397|GO:0003676
PubMed:  10322432|12600940
SCOP:  4000671

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PWI smart00311
PWI, domain in splicing factors;
526-599 5.13e-23

PWI, domain in splicing factors;


:

Pssm-ID: 214609 [Multi-domain]  Cd Length: 74  Bit Score: 92.79  E-value: 5.13e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 688583289   526 DTTLMDRRIRPWINKKIIEYIGEEEATLVDFVCSKVMAHSTPEGILDDVAMVLDEEAEVFIVKMWRLLIYETEA 599
Cdd:smart00311   1 LSKLKLDEIKPWITKKVIEFLGFEEDTLVEFILSQIRQHKGPQAKLLQINLTGFEDAEEFVDKLWRLLIFELKN 74
U2AF_lg super family cl36941
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 134-229 2.61e-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.


The actual alignment was detected with superfamily member TIGR01642:

Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 40.65  E-value: 2.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688583289  134 KEKEREKERSRDRSKDRSRSREKNREEKKREREEDEEEAYERRKLERKLREKEVAYQERLKNwEIRERKKSRDySKETER 213
Cdd:TIGR01642  15 RDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRPRDRRRYDSRSPRSLRYSSVRRSRD-RPRRRSRSVR-SIEQHR 92

                          90
                  ....*....|....*.
gi 688583289  214 EDERQREMTKEAKRLK 229
Cdd:TIGR01642  93 RRLRDRSPSNQWRKDD 108
 
Name Accession Description Interval E-value
PWI smart00311
PWI, domain in splicing factors;
526-599 5.13e-23

PWI, domain in splicing factors;


Pssm-ID: 214609 [Multi-domain]  Cd Length: 74  Bit Score: 92.79  E-value: 5.13e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 688583289   526 DTTLMDRRIRPWINKKIIEYIGEEEATLVDFVCSKVMAHSTPEGILDDVAMVLDEEAEVFIVKMWRLLIYETEA 599
Cdd:smart00311   1 LSKLKLDEIKPWITKKVIEFLGFEEDTLVEFILSQIRQHKGPQAKLLQINLTGFEDAEEFVDKLWRLLIFELKN 74
PWI pfam01480
PWI domain;
534-601 8.78e-12

PWI domain;


Pssm-ID: 460224 [Multi-domain]  Cd Length: 71  Bit Score: 60.60  E-value: 8.78e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 688583289  534 IRPWINKKIIEYIGEEEATLVDFVCSKV-MAHSTPEGILDDVAMVLDEEAEVFIVKMWRLLIYETEAKK 601
Cdd:pfam01480   3 LKPWIEKKITEILGFEDDVVVEYVVNLLeEKFPDPKELQIQLTGFLDKDAAKFVKELWKLLLSAQESPS 71
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 134-229 2.61e-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: 40.65  E-value: 2.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688583289  134 KEKEREKERSRDRSKDRSRSREKNREEKKREREEDEEEAYERRKLERKLREKEVAYQERLKNwEIRERKKSRDySKETER 213
Cdd:TIGR01642  15 RDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRPRDRRRYDSRSPRSLRYSSVRRSRD-RPRRRSRSVR-SIEQHR 92

                          90
                  ....*....|....*.
gi 688583289  214 EDERQREMTKEAKRLK 229
Cdd:TIGR01642  93 RRLRDRSPSNQWRKDD 108
 
Name Accession Description Interval E-value
PWI smart00311
PWI, domain in splicing factors;
526-599 5.13e-23

PWI, domain in splicing factors;


Pssm-ID: 214609 [Multi-domain]  Cd Length: 74  Bit Score: 92.79  E-value: 5.13e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 688583289   526 DTTLMDRRIRPWINKKIIEYIGEEEATLVDFVCSKVMAHSTPEGILDDVAMVLDEEAEVFIVKMWRLLIYETEA 599
Cdd:smart00311   1 LSKLKLDEIKPWITKKVIEFLGFEEDTLVEFILSQIRQHKGPQAKLLQINLTGFEDAEEFVDKLWRLLIFELKN 74
PWI pfam01480
PWI domain;
534-601 8.78e-12

PWI domain;


Pssm-ID: 460224 [Multi-domain]  Cd Length: 71  Bit Score: 60.60  E-value: 8.78e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 688583289  534 IRPWINKKIIEYIGEEEATLVDFVCSKV-MAHSTPEGILDDVAMVLDEEAEVFIVKMWRLLIYETEAKK 601
Cdd:pfam01480   3 LKPWIEKKITEILGFEDDVVVEYVVNLLeEKFPDPKELQIQLTGFLDKDAAKFVKELWKLLLSAQESPS 71
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 134-229 2.61e-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: 40.65  E-value: 2.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688583289  134 KEKEREKERSRDRSKDRSRSREKNREEKKREREEDEEEAYERRKLERKLREKEVAYQERLKNwEIRERKKSRDySKETER 213
Cdd:TIGR01642  15 RDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRPRDRRRYDSRSPRSLRYSSVRRSRD-RPRRRSRSVR-SIEQHR 92

                          90
                  ....*....|....*.
gi 688583289  214 EDERQREMTKEAKRLK 229
Cdd:TIGR01642  93 RRLRDRSPSNQWRKDD 108
 
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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