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Conserved domains on  [gi|19924053|ref|NP_612532|]
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pre-mRNA-splicing factor 18 [Rattus norvegicus]

Protein Classification

SFM and Prp18 domain-containing protein( domain architecture ID 10649564)

SFM and Prp18 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Prp18 pfam02840
Prp18 domain; The splicing factor Prp18 is required for the second step of pre-mRNA splicing. ...
 190-330 8.22e-92

Prp18 domain; The splicing factor Prp18 is required for the second step of pre-mRNA splicing. The structure of a large fragment of the Saccharomyces cerevisiae Prp18 is known. This fragment is fully active in yeast splicing in vitro and includes the sequences of Prp18 that have been evolutionarily conserved. The core structure consists of five alpha-helices that adopt a novel fold. The most highly conserved region of Prp18, a nearly invariant stretch of 19 aa, forms part of a loop between two alpha-helices and may interact with the U5 small nuclear ribonucleoprotein particles.


:

Pssm-ID: 460720  Cd Length: 142  Bit Score: 270.13  E-value: 8.22e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19924053   190 KFLKFLLGVWAKELNSREDYVKRSVQGKLNSATQKQTESYLRPLFRKLRKRNLPADIKESITDIIKFMLQREYVKANDAY 269
Cdd:pfam02840   2 VFLKFLLKEWEQELNARPEEEKRSAQGKLASATFKQTKEYLKPLFRKLKKKTLPDDILDSLAEIVYHLQEREYVKANDAY 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 19924053   270 LQMAIGNAPWPIGVTMVGIHARTGREKIFSKHVAHVLNDETQRKYIQGLKRLMTICQKHFP 330
Cdd:pfam02840  82 LKLAIGNAPWPIGVTMVGIHERSAREKIFSKNVAHILNDETTRKYIQSIKRLMTFAQRRYP 142
SFM smart00500
Splicing Factor Motif, present in Prp18 and Pr04;
79-122 2.82e-14

Splicing Factor Motif, present in Prp18 and Pr04;


:

Pssm-ID: 128776  Cd Length: 44  Bit Score: 66.23  E-value: 2.82e-14
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 19924053     79 LSRQEVIRRLRERGEPMRLFGETDYDAFQRLRKIEILTPEVNKG 122
Cdd:smart00500   1 LPDSEVIRRLRELGEPITLFGEDDQERRQRLRQLLIVQDELDKG 44
 
Name Accession Description Interval E-value
Prp18 pfam02840
Prp18 domain; The splicing factor Prp18 is required for the second step of pre-mRNA splicing. ...
 190-330 8.22e-92

Prp18 domain; The splicing factor Prp18 is required for the second step of pre-mRNA splicing. The structure of a large fragment of the Saccharomyces cerevisiae Prp18 is known. This fragment is fully active in yeast splicing in vitro and includes the sequences of Prp18 that have been evolutionarily conserved. The core structure consists of five alpha-helices that adopt a novel fold. The most highly conserved region of Prp18, a nearly invariant stretch of 19 aa, forms part of a loop between two alpha-helices and may interact with the U5 small nuclear ribonucleoprotein particles.


Pssm-ID: 460720  Cd Length: 142  Bit Score: 270.13  E-value: 8.22e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19924053   190 KFLKFLLGVWAKELNSREDYVKRSVQGKLNSATQKQTESYLRPLFRKLRKRNLPADIKESITDIIKFMLQREYVKANDAY 269
Cdd:pfam02840   2 VFLKFLLKEWEQELNARPEEEKRSAQGKLASATFKQTKEYLKPLFRKLKKKTLPDDILDSLAEIVYHLQEREYVKANDAY 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 19924053   270 LQMAIGNAPWPIGVTMVGIHARTGREKIFSKHVAHVLNDETQRKYIQGLKRLMTICQKHFP 330
Cdd:pfam02840  82 LKLAIGNAPWPIGVTMVGIHERSAREKIFSKNVAHILNDETTRKYIQSIKRLMTFAQRRYP 142
SFM smart00500
Splicing Factor Motif, present in Prp18 and Pr04;
79-122 2.82e-14

Splicing Factor Motif, present in Prp18 and Pr04;


Pssm-ID: 128776  Cd Length: 44  Bit Score: 66.23  E-value: 2.82e-14
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 19924053     79 LSRQEVIRRLRERGEPMRLFGETDYDAFQRLRKIEILTPEVNKG 122
Cdd:smart00500   1 LPDSEVIRRLRELGEPITLFGEDDQERRQRLRQLLIVQDELDKG 44
PRP4 pfam08799
pre-mRNA processing factor 4 (PRP4) like; This small domain is found on PRP4 ribonuleoproteins. ...
 84-112 1.17e-09

pre-mRNA processing factor 4 (PRP4) like; This small domain is found on PRP4 ribonuleoproteins. PRP4 is a U4/U6 small nuclear ribonucleoprotein that is involved in pre-mRNA processing.


Pssm-ID: 462606 [Multi-domain]  Cd Length: 29  Bit Score: 52.69  E-value: 1.17e-09
                          10        20
                  ....*....|....*....|....*....
gi 19924053    84 VIRRLRERGEPMRLFGETDYDAFQRLRKI 112
Cdd:pfam08799   1 VRRKLRELGEPITLFGETHADRRERLRKL 29
 
Name Accession Description Interval E-value
Prp18 pfam02840
Prp18 domain; The splicing factor Prp18 is required for the second step of pre-mRNA splicing. ...
 190-330 8.22e-92

Prp18 domain; The splicing factor Prp18 is required for the second step of pre-mRNA splicing. The structure of a large fragment of the Saccharomyces cerevisiae Prp18 is known. This fragment is fully active in yeast splicing in vitro and includes the sequences of Prp18 that have been evolutionarily conserved. The core structure consists of five alpha-helices that adopt a novel fold. The most highly conserved region of Prp18, a nearly invariant stretch of 19 aa, forms part of a loop between two alpha-helices and may interact with the U5 small nuclear ribonucleoprotein particles.


Pssm-ID: 460720  Cd Length: 142  Bit Score: 270.13  E-value: 8.22e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19924053   190 KFLKFLLGVWAKELNSREDYVKRSVQGKLNSATQKQTESYLRPLFRKLRKRNLPADIKESITDIIKFMLQREYVKANDAY 269
Cdd:pfam02840   2 VFLKFLLKEWEQELNARPEEEKRSAQGKLASATFKQTKEYLKPLFRKLKKKTLPDDILDSLAEIVYHLQEREYVKANDAY 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 19924053   270 LQMAIGNAPWPIGVTMVGIHARTGREKIFSKHVAHVLNDETQRKYIQGLKRLMTICQKHFP 330
Cdd:pfam02840  82 LKLAIGNAPWPIGVTMVGIHERSAREKIFSKNVAHILNDETTRKYIQSIKRLMTFAQRRYP 142
SFM smart00500
Splicing Factor Motif, present in Prp18 and Pr04;
79-122 2.82e-14

Splicing Factor Motif, present in Prp18 and Pr04;


Pssm-ID: 128776  Cd Length: 44  Bit Score: 66.23  E-value: 2.82e-14
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 19924053     79 LSRQEVIRRLRERGEPMRLFGETDYDAFQRLRKIEILTPEVNKG 122
Cdd:smart00500   1 LPDSEVIRRLRELGEPITLFGEDDQERRQRLRQLLIVQDELDKG 44
PRP4 pfam08799
pre-mRNA processing factor 4 (PRP4) like; This small domain is found on PRP4 ribonuleoproteins. ...
 84-112 1.17e-09

pre-mRNA processing factor 4 (PRP4) like; This small domain is found on PRP4 ribonuleoproteins. PRP4 is a U4/U6 small nuclear ribonucleoprotein that is involved in pre-mRNA processing.


Pssm-ID: 462606 [Multi-domain]  Cd Length: 29  Bit Score: 52.69  E-value: 1.17e-09
                          10        20
                  ....*....|....*....|....*....
gi 19924053    84 VIRRLRERGEPMRLFGETDYDAFQRLRKI 112
Cdd:pfam08799   1 VRRKLRELGEPITLFGETHADRRERLRKL 29
 
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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