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Conserved domains on  [gi|472587498|gb|EMS24994|]
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RNA polymerase II transcription factor SIII, subunit A [Rhodotorula toruloides NP11]

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 ...
 35-142 2.69e-23

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: 92.67  E-value: 2.69e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 472587498   35 VTDVGDTPYDLISTLLPHSTAPQLLEIEANSPHIAQHTNHIWRDLCVHEFievRKAVEDGRMKKEDePASWREQYAEEEV 114
Cdd:pfam06881   1 IDDVGDVPYHLLRPILLKCSPEQLRRIEENSPHLAGDTDELWKRFIKRDF---PNWAEEKDYEPKN-PKSWRKLYEKLKE 76

                          90       100
                  ....*....|....*....|....*...
gi 472587498  115 KREVKMQAILSKMRGRYEDYKEGRASTQ 142
Cdd:pfam06881  77 EREEKLKAAAERLRQAYAGLQKEKQSKQ 104
PTZ00144 super family cl36517
dihydrolipoamide succinyltransferase; Provisional
 190-252 9.33e-03

dihydrolipoamide succinyltransferase; Provisional


The actual alignment was detected with superfamily member PTZ00144:

Pssm-ID: 240289 [Multi-domain]  Cd Length: 418  Bit Score: 37.74  E-value: 9.33e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 472587498 190 GPRPSPSTAAPSALQPTAKASAPVESKPKAHVSPVKRPADRPDEPPAKRKRPL--ITTVTRRVSR 252
Cdd:PTZ00144 127 AAPAAAAAAKAEKTTPEKPKAAAPTPEPPAASKPTPPAAAKPPEPAPAAKPPPtpVARADPRETR 191
 
Name Accession Description Interval E-value
Elongin_A pfam06881
RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a ...
 35-142 2.69e-23

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: 92.67  E-value: 2.69e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 472587498   35 VTDVGDTPYDLISTLLPHSTAPQLLEIEANSPHIAQHTNHIWRDLCVHEFievRKAVEDGRMKKEDePASWREQYAEEEV 114
Cdd:pfam06881   1 IDDVGDVPYHLLRPILLKCSPEQLRRIEENSPHLAGDTDELWKRFIKRDF---PNWAEEKDYEPKN-PKSWRKLYEKLKE 76

                          90       100
                  ....*....|....*....|....*...
gi 472587498  115 KREVKMQAILSKMRGRYEDYKEGRASTQ 142
Cdd:pfam06881  77 EREEKLKAAAERLRQAYAGLQKEKQSKQ 104
PTZ00144 PTZ00144
dihydrolipoamide succinyltransferase; Provisional
 190-252 9.33e-03

dihydrolipoamide succinyltransferase; Provisional


Pssm-ID: 240289 [Multi-domain]  Cd Length: 418  Bit Score: 37.74  E-value: 9.33e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 472587498 190 GPRPSPSTAAPSALQPTAKASAPVESKPKAHVSPVKRPADRPDEPPAKRKRPL--ITTVTRRVSR 252
Cdd:PTZ00144 127 AAPAAAAAAKAEKTTPEKPKAAAPTPEPPAASKPTPPAAAKPPEPAPAAKPPPtpVARADPRETR 191
 
Name Accession Description Interval E-value
Elongin_A pfam06881
RNA polymerase II transcription factor SIII (Elongin) subunit A; This family represents a ...
 35-142 2.69e-23

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: 92.67  E-value: 2.69e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 472587498   35 VTDVGDTPYDLISTLLPHSTAPQLLEIEANSPHIAQHTNHIWRDLCVHEFievRKAVEDGRMKKEDePASWREQYAEEEV 114
Cdd:pfam06881   1 IDDVGDVPYHLLRPILLKCSPEQLRRIEENSPHLAGDTDELWKRFIKRDF---PNWAEEKDYEPKN-PKSWRKLYEKLKE 76

                          90       100
                  ....*....|....*....|....*...
gi 472587498  115 KREVKMQAILSKMRGRYEDYKEGRASTQ 142
Cdd:pfam06881  77 EREEKLKAAAERLRQAYAGLQKEKQSKQ 104
PTZ00144 PTZ00144
dihydrolipoamide succinyltransferase; Provisional
 190-252 9.33e-03

dihydrolipoamide succinyltransferase; Provisional


Pssm-ID: 240289 [Multi-domain]  Cd Length: 418  Bit Score: 37.74  E-value: 9.33e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 472587498 190 GPRPSPSTAAPSALQPTAKASAPVESKPKAHVSPVKRPADRPDEPPAKRKRPL--ITTVTRRVSR 252
Cdd:PTZ00144 127 AAPAAAAAAKAEKTTPEKPKAAAPTPEPPAASKPTPPAAAKPPEPAPAAKPPPtpVARADPRETR 191
 
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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