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Conserved domains on  [gi|17556352|ref|NP_499490|]
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C2H2-type domain-containing protein [Caenorhabditis elegans]

Protein Classification

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 ...
 112-191 3.36e-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: 39.11  E-value: 3.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17556352   112 SRRPGSLSQHELRGEERSPRIKKRPSSKAMKTSDTPLTGHDQILALLSNLMSAQQQQQQAPVATPTIPASWIDQLLAATP 191
Cdd:TIGR01642  82 SRSVRSIEQHRRRLRDRSPSNQWRKDDKKRSLWDIKPPGYELVTADQAKASQVFSVPGTAPRPAMTDPEKLLAEGSIITP 161
COG5236 super family cl28715
Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];
15-92 7.38e-03

Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];


The actual alignment was detected with superfamily member COG5236:

Pssm-ID: 227561 [Multi-domain]  Cd Length: 493  Bit Score: 38.08  E-value: 7.38e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17556352  15 KGEFLCGHCGKTFCHAASLNRHRLNFHgddQQCLVCD--TKIPHN-----DTIRRHMQKEHNIQRVFTC--GCCnWTFPD 85
Cdd:COG5236 218 KGHPLCIFCKIYFYDDDELRRHCRLRH---EACHICDmvGPIRYQyfksyEDLEAHFRNAHYCCTFQTCrvGKC-YVFPY 293


                ....*..
gi 17556352  86 KKELHSH 92
Cdd:COG5236 294 HTELLEH 300
 
Name Accession Description Interval E-value
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 112-191 3.36e-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: 39.11  E-value: 3.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17556352   112 SRRPGSLSQHELRGEERSPRIKKRPSSKAMKTSDTPLTGHDQILALLSNLMSAQQQQQQAPVATPTIPASWIDQLLAATP 191
Cdd:TIGR01642  82 SRSVRSIEQHRRRLRDRSPSNQWRKDDKKRSLWDIKPPGYELVTADQAKASQVFSVPGTAPRPAMTDPEKLLAEGSIITP 161
COG5236 COG5236
Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];
15-92 7.38e-03

Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];


Pssm-ID: 227561 [Multi-domain]  Cd Length: 493  Bit Score: 38.08  E-value: 7.38e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17556352  15 KGEFLCGHCGKTFCHAASLNRHRLNFHgddQQCLVCD--TKIPHN-----DTIRRHMQKEHNIQRVFTC--GCCnWTFPD 85
Cdd:COG5236 218 KGHPLCIFCKIYFYDDDELRRHCRLRH---EACHICDmvGPIRYQyfksyEDLEAHFRNAHYCCTFQTCrvGKC-YVFPY 293


                ....*..
gi 17556352  86 KKELHSH 92
Cdd:COG5236 294 HTELLEH 300
 
Name Accession Description Interval E-value
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 112-191 3.36e-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: 39.11  E-value: 3.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17556352   112 SRRPGSLSQHELRGEERSPRIKKRPSSKAMKTSDTPLTGHDQILALLSNLMSAQQQQQQAPVATPTIPASWIDQLLAATP 191
Cdd:TIGR01642  82 SRSVRSIEQHRRRLRDRSPSNQWRKDDKKRSLWDIKPPGYELVTADQAKASQVFSVPGTAPRPAMTDPEKLLAEGSIITP 161
COG5236 COG5236
Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];
15-92 7.38e-03

Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];


Pssm-ID: 227561 [Multi-domain]  Cd Length: 493  Bit Score: 38.08  E-value: 7.38e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17556352  15 KGEFLCGHCGKTFCHAASLNRHRLNFHgddQQCLVCD--TKIPHN-----DTIRRHMQKEHNIQRVFTC--GCCnWTFPD 85
Cdd:COG5236 218 KGHPLCIFCKIYFYDDDELRRHCRLRH---EACHICDmvGPIRYQyfksyEDLEAHFRNAHYCCTFQTCrvGKC-YVFPY 293


                ....*..
gi 17556352  86 KKELHSH 92
Cdd:COG5236 294 HTELLEH 300
 
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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