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Conserved domains on  [gi|768711651|ref|NP_001292386|]
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mediator of RNA polymerase II transcription subunit 20 isoform 3 [Homo sapiens]

Protein Classification

mediator of RNA polymerase II transcription subunit 20( domain architecture ID 6425)

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

Gene Ontology:  GO:0061629|GO:0016592
PubMed:  15175151|16263706

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Med20 super family cl07290
TATA-binding related factor (TRF) of subunit 20 of Mediator complex; This family of proteins ...
 1-115 3.43e-39

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.


The actual alignment was detected with superfamily member pfam08612:

Pssm-ID: 400779  Cd Length: 200  Bit Score: 130.17  E-value: 3.43e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768711651    1 MGVT-CVSQMPVAEGKSVQQTVELLTRKLEMLGAEKQGTFCVDCETYHTAASTLgsqgQTGKLMYVMHNSEYPLSCFALF 79
Cdd:pfam08612   1 MGVTvIFFQKATPETITQSQTVNELHDRLEALGAVKQGRWSVECKTYRPTPSDI----QPSKLLYVLSLSEHPNSTFSII 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 768711651   80 ENGP----CLIADTNFDVLMVKLKGFFQSAKASKIETRGT 115
Cdd:pfam08612  77 NNTAikcpTLVADSFFQLLMEKLQSFWTQRQTVKGEGGGT 116
 
Name Accession Description Interval E-value
Med20 pfam08612
TATA-binding related factor (TRF) of subunit 20 of Mediator complex; This family of proteins ...
 1-115 3.43e-39

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: 130.17  E-value: 3.43e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768711651    1 MGVT-CVSQMPVAEGKSVQQTVELLTRKLEMLGAEKQGTFCVDCETYHTAASTLgsqgQTGKLMYVMHNSEYPLSCFALF 79
Cdd:pfam08612   1 MGVTvIFFQKATPETITQSQTVNELHDRLEALGAVKQGRWSVECKTYRPTPSDI----QPSKLLYVLSLSEHPNSTFSII 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 768711651   80 ENGP----CLIADTNFDVLMVKLKGFFQSAKASKIETRGT 115
Cdd:pfam08612  77 NNTAikcpTLVADSFFQLLMEKLQSFWTQRQTVKGEGGGT 116
 
Name Accession Description Interval E-value
Med20 pfam08612
TATA-binding related factor (TRF) of subunit 20 of Mediator complex; This family of proteins ...
 1-115 3.43e-39

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: 130.17  E-value: 3.43e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768711651    1 MGVT-CVSQMPVAEGKSVQQTVELLTRKLEMLGAEKQGTFCVDCETYHTAASTLgsqgQTGKLMYVMHNSEYPLSCFALF 79
Cdd:pfam08612   1 MGVTvIFFQKATPETITQSQTVNELHDRLEALGAVKQGRWSVECKTYRPTPSDI----QPSKLLYVLSLSEHPNSTFSII 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 768711651   80 ENGP----CLIADTNFDVLMVKLKGFFQSAKASKIETRGT 115
Cdd:pfam08612  77 NNTAikcpTLVADSFFQLLMEKLQSFWTQRQTVKGEGGGT 116
 
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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