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Conserved domains on  [gi|6321831|ref|NP_011907|]
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Srb2p [Saccharomyces cerevisiae S288C]

Protein Classification

mediator of RNA polymerase II transcription subunit 20( domain architecture ID 10554348)

mediator of RNA polymerase II transcription subunit 20 (Med20) is a component of the mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Med20 pfam08612
TATA-binding related factor (TRF) of subunit 20 of Mediator complex; This family of proteins ...
 1-209 1.36e-54

TATA-binding related factor (TRF) of subunit 20 of Mediator complex; This family of proteins is related to TATA-binding protein (TBP). TBP is a highly conserved RNA polymerase II general transcription factor that binds to the core promoter and initiates assembly of the preinitiation complex. Human TRF has been shown to associate with an RNA polymerase II-SRB complex. This Med20 subunit of Mediator is found in the non-essential part of the head.


:

Pssm-ID: 400779  Cd Length: 200  Bit Score: 172.93  E-value: 1.36e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321831      1 MGkSAVIFVERATP------ATLTELKDALSNSILSVRDPWSIDFRTYRCSIKNLPAdvSKLMYSITFHHHGRQTVLIKD 74
Cdd:pfam08612   1 MG-VTVIFFQKATPetitqsQTVNELHDRLEALGAVKQGRWSVECKTYRPTPSDIQP--SKLLYVLSLSEHPNSTFSIIN 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321831     75 NSAMVttaaaadippalvfngSSTGVPESIDTILSSKLSNIWMQRQLIKGDAGETLILDGLTVRLVNLFSSTGFKGLLIE 154
Cdd:pfam08612  78 NTAIK----------------CPTLVADSFFQLLMEKLQSFWTQRQTVKGEGGGTYELGDFRVRVGNVFQTTTFRGILVE 141

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 6321831    155 LQADEAGEFETKIAGIEGHLAEIRAKEYKTSS---DSLGPDTSNEI-CDLAYQYVRALE 209
Cdd:pfam08612 142 VEYDPCTEFEKCRALIREFLQKFGINGAKESIpdvPNLGPEKLNDLgFDTAVQYLEILN 200
 
Name Accession Description Interval E-value
Med20 pfam08612
TATA-binding related factor (TRF) of subunit 20 of Mediator complex; This family of proteins ...
 1-209 1.36e-54

TATA-binding related factor (TRF) of subunit 20 of Mediator complex; This family of proteins is related to TATA-binding protein (TBP). TBP is a highly conserved RNA polymerase II general transcription factor that binds to the core promoter and initiates assembly of the preinitiation complex. Human TRF has been shown to associate with an RNA polymerase II-SRB complex. This Med20 subunit of Mediator is found in the non-essential part of the head.


Pssm-ID: 400779  Cd Length: 200  Bit Score: 172.93  E-value: 1.36e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321831      1 MGkSAVIFVERATP------ATLTELKDALSNSILSVRDPWSIDFRTYRCSIKNLPAdvSKLMYSITFHHHGRQTVLIKD 74
Cdd:pfam08612   1 MG-VTVIFFQKATPetitqsQTVNELHDRLEALGAVKQGRWSVECKTYRPTPSDIQP--SKLLYVLSLSEHPNSTFSIIN 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321831     75 NSAMVttaaaadippalvfngSSTGVPESIDTILSSKLSNIWMQRQLIKGDAGETLILDGLTVRLVNLFSSTGFKGLLIE 154
Cdd:pfam08612  78 NTAIK----------------CPTLVADSFFQLLMEKLQSFWTQRQTVKGEGGGTYELGDFRVRVGNVFQTTTFRGILVE 141

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 6321831    155 LQADEAGEFETKIAGIEGHLAEIRAKEYKTSS---DSLGPDTSNEI-CDLAYQYVRALE 209
Cdd:pfam08612 142 VEYDPCTEFEKCRALIREFLQKFGINGAKESIpdvPNLGPEKLNDLgFDTAVQYLEILN 200
 
Name Accession Description Interval E-value
Med20 pfam08612
TATA-binding related factor (TRF) of subunit 20 of Mediator complex; This family of proteins ...
 1-209 1.36e-54

TATA-binding related factor (TRF) of subunit 20 of Mediator complex; This family of proteins is related to TATA-binding protein (TBP). TBP is a highly conserved RNA polymerase II general transcription factor that binds to the core promoter and initiates assembly of the preinitiation complex. Human TRF has been shown to associate with an RNA polymerase II-SRB complex. This Med20 subunit of Mediator is found in the non-essential part of the head.


Pssm-ID: 400779  Cd Length: 200  Bit Score: 172.93  E-value: 1.36e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321831      1 MGkSAVIFVERATP------ATLTELKDALSNSILSVRDPWSIDFRTYRCSIKNLPAdvSKLMYSITFHHHGRQTVLIKD 74
Cdd:pfam08612   1 MG-VTVIFFQKATPetitqsQTVNELHDRLEALGAVKQGRWSVECKTYRPTPSDIQP--SKLLYVLSLSEHPNSTFSIIN 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321831     75 NSAMVttaaaadippalvfngSSTGVPESIDTILSSKLSNIWMQRQLIKGDAGETLILDGLTVRLVNLFSSTGFKGLLIE 154
Cdd:pfam08612  78 NTAIK----------------CPTLVADSFFQLLMEKLQSFWTQRQTVKGEGGGTYELGDFRVRVGNVFQTTTFRGILVE 141

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 6321831    155 LQADEAGEFETKIAGIEGHLAEIRAKEYKTSS---DSLGPDTSNEI-CDLAYQYVRALE 209
Cdd:pfam08612 142 VEYDPCTEFEKCRALIREFLQKFGINGAKESIpdvPNLGPEKLNDLgFDTAVQYLEILN 200
 
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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