<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 MDP28033

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMKDEHVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTEPGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPSRSRKSKVSARKIGLQKLWEWCLGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQARNQCPLFLKASLHHHISVAQTDELLPARTSQRAPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNML
Length475
PositionMiddle
OrganismCricetulus griseus (Chinese hamster) (Cricetulus barabensis griseus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Cricetidae> Cricetinae> Cricetulus.
Aromaticity0.08
Grand average of hydropathy-0.153
Instability index60.27
Isoelectric point6.53
Molecular weight52532.67
Publications
PubMed=21804562

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
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

>MDP28033
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     122.43|      29|      29|     119|     147|       1
---------------------------------------------------------------------------
  114-  142 (44.39/30.24)	ELLETC..VV..NI.ALPSRSRKSKVSARKIGLQ
  143-  172 (40.44/26.88)	KLWEWClgIV..QMtSLPWRVVIGRLG..RLGHG
  173-  202 (37.61/24.48)	ELKDWS..ILlgEC.SLQTISKQLKDVCRMCGI.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.84|      23|      29|     419|     441|       2
---------------------------------------------------------------------------
  419-  441 (40.93/24.95)	PHPLDSKTTSDVLRFVLEQ.YNAL
  448-  471 (37.91/22.65)	PATQDRTSCLPVHFVVLTQlYNAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.37|      18|      29|     284|     306|       3
---------------------------------------------------------------------------
  284-  306 (25.52/29.30)	SPNNDdmfvDLPFPDDmDNDIGI
  315-  332 (34.86/20.46)	SPNSS....PVPSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.91|      22|      28|     339|     360|       4
---------------------------------------------------------------------------
  339-  360 (36.99/21.76)	SRSQGERL...LSREAPEELKQQPL
  367-  391 (34.91/20.16)	STAKAENLpqwFWSSCPQARNQCPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.72|      28|     197|      27|      56|       5
---------------------------------------------------------------------------
   27-   56 (44.55/38.71)	LPTQIHIKSLtgFGPAASIEM...TLKNPERPS
  227-  257 (44.17/30.83)	MPDAVTMGSV..FGRSTALNMqssQLNTPQDAS
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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 MDP28033 with Med13 domain of Kingdom Metazoa
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