<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 MDP29089

Description Mediator of RNA polymerase II transcription subunit 13
SequenceDIYRLLVSLKPVLQDAIQKKRISRSFGTTQHVKGPLTWREFCKEAGKNAEPQSIPSFVVGYNHDWICISPESLKHWEKLYLEPYSCPRDVGYVVVCPDGDNLVTSARTFFKELSCLYESSRLGRFKPINKVLKDGGILRIGKNSPKQPNLPDDWFDKLQQQRDDAIDKLILYAKECLHNLDEKSDTISNSKSFFDPCCKHSVCSNVLKATSVFLNPDPRPPGQLLKAEPSLEISSLHVRESRSRGTVNRTTPLTHMSNNIGRSPAQPQSTPATIFIVVYLLDPFNGSFSRGLWHCFRILQKSLPKPLRDHIIFQIVPIEHVLRVASPNNRQSFVHAVRSLSFSTFAQCRRILLHEVKVRSMTGFGPAASDKRYMIEHKENIPCETRLYTPPYVLSIPREPAQAIMKTEPPSNILFVTYCVSHNQKFVLVSATDQSGELLETCCINIDVPPRLSVSRKHRVSVRSEAIDKMWKFCVATVSRMSTTTWRIVIGRLGRLSHGEIRDWGKHLHRRSLLSCSRRASCTQCKLQQCAEGSFIISACLTSLEPDGALMLMPDVVQMNNFGRSNSSINQSNQLRTPEDISCTHIYVFPTSADTQLPGANFQTGVEEDPYMENDNFINDIMGDGADLDDIMGVSSSTVSHQPLKLDDGQVSSPTTESSILPGDPGSQEDVLLSQQPLALGYMVSTAPPGPLPAWFWSTCPYAKNRCPVFLRSALHIQSGSIHLFDQISSSTASVNDATTHQGSIEGNHPLDSNKTAVVLRFVLENYNALSWLTTDPVTKGRRSCLPVHCLSLMQLYHTVRNLL
Length804
PositionKinase
OrganismCiona savignyi (Pacific transparent sea squirt)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Tunicata> Ascidiacea> Phlebobranchia> Cionidae> Ciona.
Aromaticity0.07
Grand average of hydropathy-0.291
Instability index58.84
Isoelectric point8.57
Molecular weight90046.95
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
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
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29089
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     352.57|      83|     446|       4|     122|       1
---------------------------------------------------------------------------
    6-   88 (151.55/86.51)	LVSLKPVLQDAIQKKRISRSFGTTQHVKGPLTWREF..CKEA.GKN.AEPQSIPS..FVVGYNHDWICISP.ESLKHWEKLYLEPY..SCPR
  239-  305 (89.64/10.55)	...............RESRSRGTVNRTT.PLT..HM..SNNI.GRSpAQPQSTPAtiFIVVYLLDPFNGS..FSRGLWHCFRILQK..SLPK
  315-  398 (111.39/43.90)	IVPIEHVLRVASPNNR..QSFV...HAVRSLSFSTFaqCRRIlLHE.VKVRSMTG..FGPAASDKRYMIEHkENIPCETRLYTPPYvlSIPR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     126.14|      40|     277|     399|     438|       2
---------------------------------------------------------------------------
  399-  438 (72.78/46.47)	EP.AQAIM.KTEPPSNI..LFVTYC.VSHNQKFV.LVSATD.QSGEL
  676-  722 (53.36/32.06)	QPlALGYMvSTAPPGPLpaWFWSTCpYAKNRCPVfLRSALHiQSGSI
---------------------------------------------------------------------------




































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 MDP29089 with Med13 domain of Kingdom Metazoa
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