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Conserved domains on  [gi|28574249|ref|NP_609856|]
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uncharacterized protein Dmel_CG5674, isoform A [Drosophila melanogaster]

Protein Classification

splicing factor U2AF large subunit( domain architecture ID 1002097)

splicing factor U2AF large subunit such as U2AF65, also termed U2AF2, which is the large subunit of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF), which has been implicated in the recruitment of U2 snRNP to pre-mRNAs

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
U2AF_lg super family cl36941
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 37-190 6.84e-05

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: 45.27  E-value: 6.84e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249    37 RDRERKRIkrmnpeyRQMERERDRFRKltprpslmtpEEEARHKFIMRERDRERKRiKRLNPEYRRMERERDRFRKKLTP 116
Cdd:TIGR01642   1 RDEEPDRE-------REKSRGRDRDRS----------SERPRRRSRDRSRFRDRHR-RSRERSYREDSRPRDRRRYDSRS 62

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28574249   117 DEELRLKMIQRERDRERKRIKRMnpeyRRLEQERDRDRKKARRANEafRQLEKLRdkIRKDRKK-GLLVTDPTQL 190
Cdd:TIGR01642  63 PRSLRYSSVRRSRDRPRRRSRSV----RSIEQHRRRLRDRSPSNQW--RKDDKKR--SLWDIKPpGYELVTADQA 129
 
Name Accession Description Interval E-value
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 37-190 6.84e-05

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: 45.27  E-value: 6.84e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249    37 RDRERKRIkrmnpeyRQMERERDRFRKltprpslmtpEEEARHKFIMRERDRERKRiKRLNPEYRRMERERDRFRKKLTP 116
Cdd:TIGR01642   1 RDEEPDRE-------REKSRGRDRDRS----------SERPRRRSRDRSRFRDRHR-RSRERSYREDSRPRDRRRYDSRS 62

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28574249   117 DEELRLKMIQRERDRERKRIKRMnpeyRRLEQERDRDRKKARRANEafRQLEKLRdkIRKDRKK-GLLVTDPTQL 190
Cdd:TIGR01642  63 PRSLRYSSVRRSRDRPRRRSRSV----RSIEQHRRRLRDRSPSNQW--RKDDKKR--SLWDIKPpGYELVTADQA 129
PTZ00121 PTZ00121
MAEBL; Provisional
 26-180 1.41e-04

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 44.75  E-value: 1.41e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249    26 EEARQKFIMRERDRERKRIKRMNPEYRQMERER-DRFRKLTPRPSLMTPE-----EEARHKF-IMRERDRERKRIKRLNP 98
Cdd:PTZ00121 1561 EEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARiEEVMKLYEEEKKMKAEeakkaEEAKIKAeELKKAEEEKKKVEQLKK 1640

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249    99 EYRRMERERDRFRKKltpDEELRLKMIQRERDRERKriKRMNPEYRRLEQERDRDRKKARRANEAFRQLEKLRDKIRKDR 178
Cdd:PTZ00121 1641 KEAEEKKKAEELKKA---EEENKIKAAEEAKKAEED--KKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEK 1715


                  ..
gi 28574249   179 KK 180
Cdd:PTZ00121 1716 KK 1717
COG2433 COG2433
Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];
26-148 9.86e-04

Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];


Pssm-ID: 441980 [Multi-domain]  Cd Length: 644  Bit Score: 41.77  E-value: 9.86e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249  26 EEARQKFIMRERDRERKRIKRMNPEY-RQMERERDRFRKLtprpSLMTPEEEARHKFIMRERDRERKRIKRLNPEYRRME 104
Cdd:COG2433 379 EEALEELIEKELPEEEPEAEREKEHEeRELTEEEEEIRRL----EEQVERLEAEVEELEAELEEKDERIERLERELSEAR 454

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*....
gi 28574249 105 RERdrfRKKLTPDEEL-----RLKMIQRERDRERKRIKRMNPEYRRLEQ 148
Cdd:COG2433 455 SEE---RREIRKDREIsrldrEIERLERELEEERERIEELKRKLERLKE 500
 
Name Accession Description Interval E-value
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 37-190 6.84e-05

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: 45.27  E-value: 6.84e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249    37 RDRERKRIkrmnpeyRQMERERDRFRKltprpslmtpEEEARHKFIMRERDRERKRiKRLNPEYRRMERERDRFRKKLTP 116
Cdd:TIGR01642   1 RDEEPDRE-------REKSRGRDRDRS----------SERPRRRSRDRSRFRDRHR-RSRERSYREDSRPRDRRRYDSRS 62

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28574249   117 DEELRLKMIQRERDRERKRIKRMnpeyRRLEQERDRDRKKARRANEafRQLEKLRdkIRKDRKK-GLLVTDPTQL 190
Cdd:TIGR01642  63 PRSLRYSSVRRSRDRPRRRSRSV----RSIEQHRRRLRDRSPSNQW--RKDDKKR--SLWDIKPpGYELVTADQA 129
PTZ00121 PTZ00121
MAEBL; Provisional
 26-180 1.41e-04

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 44.75  E-value: 1.41e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249    26 EEARQKFIMRERDRERKRIKRMNPEYRQMERER-DRFRKLTPRPSLMTPE-----EEARHKF-IMRERDRERKRIKRLNP 98
Cdd:PTZ00121 1561 EEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARiEEVMKLYEEEKKMKAEeakkaEEAKIKAeELKKAEEEKKKVEQLKK 1640

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249    99 EYRRMERERDRFRKKltpDEELRLKMIQRERDRERKriKRMNPEYRRLEQERDRDRKKARRANEAFRQLEKLRDKIRKDR 178
Cdd:PTZ00121 1641 KEAEEKKKAEELKKA---EEENKIKAAEEAKKAEED--KKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEK 1715


                  ..
gi 28574249   179 KK 180
Cdd:PTZ00121 1716 KK 1717
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 25-143 5.31e-04

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: 42.57  E-value: 5.31e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249    25 EEEARQKFIMRERDRERKRiKRMNPEYRQMERERDRFRKLTPRPSlmtpeeEARHKFIMRERDRERKRIKRLnpeyRRME 104
Cdd:TIGR01642  21 SERPRRRSRDRSRFRDRHR-RSRERSYREDSRPRDRRRYDSRSPR------SLRYSSVRRSRDRPRRRSRSV----RSIE 89

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 28574249   105 RERDRFRKKLTPDEElrlkmiqRERDRERKRIKRMNPEY 143
Cdd:TIGR01642  90 QHRRRLRDRSPSNQW-------RKDDKKRSLWDIKPPGY 121
COG2433 COG2433
Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];
26-148 9.86e-04

Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];


Pssm-ID: 441980 [Multi-domain]  Cd Length: 644  Bit Score: 41.77  E-value: 9.86e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249  26 EEARQKFIMRERDRERKRIKRMNPEY-RQMERERDRFRKLtprpSLMTPEEEARHKFIMRERDRERKRIKRLNPEYRRME 104
Cdd:COG2433 379 EEALEELIEKELPEEEPEAEREKEHEeRELTEEEEEIRRL----EEQVERLEAEVEELEAELEEKDERIERLERELSEAR 454

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*....
gi 28574249 105 RERdrfRKKLTPDEEL-----RLKMIQRERDRERKRIKRMNPEYRRLEQ 148
Cdd:COG2433 455 SEE---RREIRKDREIsrldrEIERLERELEEERERIEELKRKLERLKE 500
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 35-149 1.42e-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: 41.06  E-value: 1.42e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28574249    35 RERDRERKRiKRMNPEYRQMERERDRFRkltprpslmtpeEEARHKFIMRERDRERKRIKRLNPEY---RRMERERDRFR 111
Cdd:TIGR01622   1 RYRDRERER-LRDSSSAGDRDRRRDKGR------------ERSRDRSRDRERSRSRRRDRHRDRDYyrgRERRSRSRRPN 67

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 28574249   112 KKLTPDEELRLKMIQRERDRERKRIKRMNPEYRRLEQE 149
Cdd:TIGR01622  68 RRYRPREKRRRRGDSYRRRRDDRRSRREKPRARDGTPE 105
 
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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