<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Detailed information on MDP26135

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSGVRAVRISIESACEKQVQEVGLDGTETYLQPLSMSQNLARLAQRIDFSQGSGSEEEEAAGPDGDAPDWAGAGADQDDEEGLVKFQPSLWPWDSVRNNLRSALTEMCVLYDVLSIVRDKKFMTLDPVSQDALPPKQSPQTLQLISKKKSLAGAAQILLKGAERLTKSVTENQENKLQRDFNSELLRLRQHWKLRKVGDKILGDLSYRSAGSLFPHHGTFEVIKNTDIDLDKKIPEDYCPLDVQIPSDLEGSAYIKVSIQKQAPDIGDLGTVNLFKRPLPKSKPGSPHWQTKLEAAQNVLLCKEIFAQLSREAVQIKSQIPHIVVKNQIISQPFPSLQLSISLCHSSDDKKSQKCAPEKPGQEGHLYVLEHNLHLLIREFHKQTLSSIVMPHPASAPFGHKRMRLSGPQAFDKNEINSIQSTEGLLEKIIKQAKHIFLRSRTAATIDSLASRIEDPQIQAHWSNINDVYESSVKVLITSQGYEQICKSIQLQLNIGVEQVRVVHRDGRVITLSHQEQELQDFLLSQMSQHQVHAVQQLAKVMGWQVLSFSNHVGLGPIESIGNASAITVASPSGDYAIS
Length579
PositionHead
OrganismRattus norvegicus (Rat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Muridae> Murinae> Rattus.
Aromaticity0.05
Grand average of hydropathy-0.383
Instability index53.73
Isoelectric point6.45
Molecular weight64336.42
Publications
PubMed=15057822
PubMed=22673903

Function

Annotated function Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. 
GO - Cellular Component
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	ISO:RGD
nucleus	GO:0005634	ISO:RGD
transcription regulator complex	GO:0005667	ISO:RGD
ubiquitin ligase complex	GO:0000151	IDA:RGD

GO - Biological Function
nuclear receptor coactivator activity	GO:0030374	ISO:RGD
thyroid hormone receptor binding	GO:0046966	ISO:RGD
transcription coactivator activity	GO:0003713	ISO:RGD
transcription coregulator activity	GO:0003712	ISO:RGD

GO - Biological Process
positive regulation of transcription by RNA polymerase II	GO:0045944	ISO:RGD
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	ISO:RGD
positive regulation of transcription, DNA-templated	GO:0045893	ISO:RGD
protein ubiquitination	GO:0016567	IDA:RGD
regulation of transcription by RNA polymerase II	GO:0006357	ISO:RGD
stem cell population maintenance	GO:0019827	ISO:RGD









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP26135
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     131.80|      39|     339|     140|     215|       2
---------------------------------------------------------------------------
  117-  135 (20.05/40.35)	........................VRD..KKFM..TLDPVSQDALPP
  173-  215 (53.31/34.27)	QENKLQrDFnsELLRLRQHwKLRKVGD..KILG..DLSYRSAGSLFP
  515-  557 (58.44/21.88)	QEQELQ.DF..LLSQMSQH.QVHAVQQlaKVMGwqVLSFSNHVGLGP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     223.14|      51|     110|     278|     328|       3
---------------------------------------------------------------------------
  216-  260 (40.32/14.77)	...........HHGT.FEV.IKNtdI.DLDKKIPEDYCPLDV..QIPSDLEgsaYIKVSIQ
  278-  328 (87.16/37.99)	PLPKSKP.GSPHWQTKLEA.AQN..V.LLCKEIFAQLSREAV..QIKSQIP...HIVVKNQ
  351-  392 (44.31/16.75)	KSQKCAP.EKPGQEGHLYVlEHN..LhLLIREFHKQTLSSIV.......MP...H......
  393-  441 (51.36/20.25)	..PASAPfG..HKRMRLSG.PQA....FDKNEINSIQSTEGLleKIIKQAK...HIFLRSR
---------------------------------------------------------------------------




































Explaination for Stockholm format
  The  "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is used by HMMER, Pfam, and Belvu. Mark-up lines include any characters except whitespace. Underscore ("_") is used instead of space. 

 #=GR (seqname) PP (Generic per-Sequence AND per-Column markup, exactly 1 char per column) where PP is Posterior Probability  [0-9*], (0=0.00-0.05; 1=0.05-0.15; *=0.95-1.00) 
 
 #=GC PP_cons line is Stockholm-format consensus posterior probability annotation for the entire column.  It’s calculated simply as the arithmetic mean of the per-residue posterior probabilities in that column.  This should prove useful in phylogenetic inference applications, for example, where it’s common to mask away non confidently aligned columns of a multiple alignment. The PP_cons line provides an objective measure of the confidence assigned to each column.
 
 #=GC RF line is Stockholm-format reference coordinate annotation, with an x marking each column that the profile considered to be consensus.





Alignment of MDP26135 with Med17 domain of Kingdom Metazoa
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