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Conserved domains on  [gi|211999866|gb|EEB05526|]
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elongin-A [Schizosaccharomyces japonicus yFS275]

Protein Classification

elongin A domain-containing protein( domain architecture ID 10536397)

elongin A domain-containing protein such as Caenorhabditis elegans elongin A (also known as Transcription elongation factor B polypeptide 3) that acts as an activator of the RNA polymerase II elongation complex

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Elongin_A pfam06881
RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a ...
 21-123 6.42e-35

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: 120.40  E-value: 6.42e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 211999866   21 IEDLGDHPFSLVEPILACARPDHLIRLEQNSPHLRDDTQGLWKVHVYREFGLDITDQD--TSNIQDWRRAYEDFKKRRNA 98
Cdd:pfam06881   1 IDDVGDVPYHLLRPILLKCSPEQLRRIEENSPHLAGDTDELWKRFIKRDFPNWAEEKDyePKNPKSWRKLYEKLKEEREE 80

                          90       100
                  ....*....|....*....|....*
gi 211999866   99 QYNLASKKLRSAYTKLEQNKQHKRI 123
Cdd:pfam06881  81 KLKAAAERLRQAYAGLQKEKQSKQI 105
PTZ00449 super family cl33186
104 kDa microneme/rhoptry antigen; Provisional
 115-242 7.12e-03

104 kDa microneme/rhoptry antigen; Provisional


The actual alignment was detected with superfamily member PTZ00449:

Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 37.36  E-value: 7.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 211999866 115 EQNKQHKRivslefdPKSIQQRKRGRTVLPT--YTPTSSLMNRAKCDFMKKASMYRqgKPNKPLSSTFRFPSSRPTGTtc 192
Cdd:PTZ00449 541 DEPKEGGK-------PGETKEGEVGKKPGPAkeHKPSKIPTLSKKPEFPKDPKHPK--DPEEPKKPKRPRSAQRPTRP-- 609

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 211999866 193 PVPATPQASVIrpPVSKLRPE-----KQNVLPKRQSSPPRPVLPR----HNPTSAPRIP 242
Cdd:PTZ00449 610 KSPKLPELLDI--PKSPKRPEspkspKRPPPPQRPSSPERPEGPKiiksPKPPKSPKPP 666
 
Name Accession Description Interval E-value
Elongin_A pfam06881
RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a ...
 21-123 6.42e-35

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: 120.40  E-value: 6.42e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 211999866   21 IEDLGDHPFSLVEPILACARPDHLIRLEQNSPHLRDDTQGLWKVHVYREFGLDITDQD--TSNIQDWRRAYEDFKKRRNA 98
Cdd:pfam06881   1 IDDVGDVPYHLLRPILLKCSPEQLRRIEENSPHLAGDTDELWKRFIKRDFPNWAEEKDyePKNPKSWRKLYEKLKEEREE 80

                          90       100
                  ....*....|....*....|....*
gi 211999866   99 QYNLASKKLRSAYTKLEQNKQHKRI 123
Cdd:pfam06881  81 KLKAAAERLRQAYAGLQKEKQSKQI 105
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 115-242 7.12e-03

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 37.36  E-value: 7.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 211999866 115 EQNKQHKRivslefdPKSIQQRKRGRTVLPT--YTPTSSLMNRAKCDFMKKASMYRqgKPNKPLSSTFRFPSSRPTGTtc 192
Cdd:PTZ00449 541 DEPKEGGK-------PGETKEGEVGKKPGPAkeHKPSKIPTLSKKPEFPKDPKHPK--DPEEPKKPKRPRSAQRPTRP-- 609

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 211999866 193 PVPATPQASVIrpPVSKLRPE-----KQNVLPKRQSSPPRPVLPR----HNPTSAPRIP 242
Cdd:PTZ00449 610 KSPKLPELLDI--PKSPKRPEspkspKRPPPPQRPSSPERPEGPKiiksPKPPKSPKPP 666
 
Name Accession Description Interval E-value
Elongin_A pfam06881
RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a ...
 21-123 6.42e-35

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: 120.40  E-value: 6.42e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 211999866   21 IEDLGDHPFSLVEPILACARPDHLIRLEQNSPHLRDDTQGLWKVHVYREFGLDITDQD--TSNIQDWRRAYEDFKKRRNA 98
Cdd:pfam06881   1 IDDVGDVPYHLLRPILLKCSPEQLRRIEENSPHLAGDTDELWKRFIKRDFPNWAEEKDyePKNPKSWRKLYEKLKEEREE 80

                          90       100
                  ....*....|....*....|....*
gi 211999866   99 QYNLASKKLRSAYTKLEQNKQHKRI 123
Cdd:pfam06881  81 KLKAAAERLRQAYAGLQKEKQSKQI 105
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 115-242 7.12e-03

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 37.36  E-value: 7.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 211999866 115 EQNKQHKRivslefdPKSIQQRKRGRTVLPT--YTPTSSLMNRAKCDFMKKASMYRqgKPNKPLSSTFRFPSSRPTGTtc 192
Cdd:PTZ00449 541 DEPKEGGK-------PGETKEGEVGKKPGPAkeHKPSKIPTLSKKPEFPKDPKHPK--DPEEPKKPKRPRSAQRPTRP-- 609

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 211999866 193 PVPATPQASVIrpPVSKLRPE-----KQNVLPKRQSSPPRPVLPR----HNPTSAPRIP 242
Cdd:PTZ00449 610 KSPKLPELLDI--PKSPKRPEspkspKRPPPPQRPSSPERPEGPKiiksPKPPKSPKPP 666
 
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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