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Conserved domains on  [gi|328871862|gb|EGG20232|]
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hypothetical protein DFA_07353 [Cavenderia fasciculata]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Elongin_A super family cl06096
RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a ...
 31-119 1.02e-18

RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a conserved region within RNA polymerase II transcription factor SIII (Elongin) subunit A. In mammals, the Elongin complex activates elongation by RNA polymerase II by suppressing transient pausing of the polymerase at many sites within transcription units. Elongin is a heterotrimer composed of A, B, and C subunits of 110, 18, and 15 kilodaltons, respectively. Subunit A has been shown to function as the transcriptionally active component of Elongin.


The actual alignment was detected with superfamily member pfam06881:

Pssm-ID: 462026  Cd Length: 105  Bit Score: 77.64  E-value: 1.02e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 328871862   31 VVQKCSPNQLMSVEnrLASTGRRLDTNELWHKHVIQTFPN-SESMNIF---GDSWKQLYADLEKKNQERQLKVGMRLREK 106
Cdd:pfam06881  15 ILLKCSPEQLRRIE--ENSPHLAGDTDELWKRFIKRDFPNwAEEKDYEpknPKSWRKLYEKLKEEREEKLKAAAERLRQA 92

                          90
                  ....*....|...
gi 328871862  107 YDNSNIEKKSKQI 119
Cdd:pfam06881  93 YAGLQKEKQSKQI 105
 
Name Accession Description Interval E-value
Elongin_A pfam06881
RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a ...
 31-119 1.02e-18

RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a conserved region within RNA polymerase II transcription factor SIII (Elongin) subunit A. In mammals, the Elongin complex activates elongation by RNA polymerase II by suppressing transient pausing of the polymerase at many sites within transcription units. Elongin is a heterotrimer composed of A, B, and C subunits of 110, 18, and 15 kilodaltons, respectively. Subunit A has been shown to function as the transcriptionally active component of Elongin.


Pssm-ID: 462026  Cd Length: 105  Bit Score: 77.64  E-value: 1.02e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 328871862   31 VVQKCSPNQLMSVEnrLASTGRRLDTNELWHKHVIQTFPN-SESMNIF---GDSWKQLYADLEKKNQERQLKVGMRLREK 106
Cdd:pfam06881  15 ILLKCSPEQLRRIE--ENSPHLAGDTDELWKRFIKRDFPNwAEEKDYEpknPKSWRKLYEKLKEEREEKLKAAAERLRQA 92

                          90
                  ....*....|...
gi 328871862  107 YDNSNIEKKSKQI 119
Cdd:pfam06881  93 YAGLQKEKQSKQI 105
 
Name Accession Description Interval E-value
Elongin_A pfam06881
RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a ...
 31-119 1.02e-18

RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a conserved region within RNA polymerase II transcription factor SIII (Elongin) subunit A. In mammals, the Elongin complex activates elongation by RNA polymerase II by suppressing transient pausing of the polymerase at many sites within transcription units. Elongin is a heterotrimer composed of A, B, and C subunits of 110, 18, and 15 kilodaltons, respectively. Subunit A has been shown to function as the transcriptionally active component of Elongin.


Pssm-ID: 462026  Cd Length: 105  Bit Score: 77.64  E-value: 1.02e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 328871862   31 VVQKCSPNQLMSVEnrLASTGRRLDTNELWHKHVIQTFPN-SESMNIF---GDSWKQLYADLEKKNQERQLKVGMRLREK 106
Cdd:pfam06881  15 ILLKCSPEQLRRIE--ENSPHLAGDTDELWKRFIKRDFPNwAEEKDYEpknPKSWRKLYEKLKEEREEKLKAAAERLRQA 92

                          90
                  ....*....|...
gi 328871862  107 YDNSNIEKKSKQI 119
Cdd:pfam06881  93 YAGLQKEKQSKQI 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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