<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 MDP28060

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLKNYPLKSKCIPWTTQRWGSSFCKECPSFGMFVQLQKLYHTCSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHVTLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCGLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGSSHCSASCLGIHQVPASTRDPAMSSVTLTPPTSPEEVQAVDPQSAQKWVKFSSVSDGFSTDSTSHHGGKIPRKLANHVVDRVWQECNMNRLQNKRKYSAASSGLCEDESADKIACWDFVEATQRTSCSCLSDGSNMDQDYGPAYTPQTHTSFGMPPSSAPPSNGGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTDCGKEAEKRFEALRATSAENVNGGIKESEKVPDELILLLQDQCTNLFSPFGAADQDPFPKMGIISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWAKQNGPYLASQPLDSSLLSQPNLVAPTNQSLLTAPQMTNTGNANTPSATLASAASSTMTMTSGVAISTSVATANSTLTTTSSSSSSNMSSGVSSNKLPSFPPFGSMNTSGSGSMSAQTSTVQSGQLGGQQSSSLQAAGMSGESASLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKGSARRFGLQKLWEWCVGLVQMSSLPWRVVIGRLGRIGHGELKDSVSTGSVFGRSTTLNMQTPQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIISILPASPTASPVHSPGSHYPHGGDAGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length1336
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-0.309
Instability index50.05
Isoelectric point5.51
Molecular weight145814.76
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

>MDP28060
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     655.15|     198|     399|     339|     564|       1
---------------------------------------------------------------------------
  187-  305 (114.87/40.49)	........................................................................................................SCGLKE.MSEEKQEDMDW.EDDSLAAVEVLVAGVRM..IYPACFVlvPQ...S..DIPtPSSVGSSHCSAsclGIHQVPASTRDPAMSsvtlTP..PTSPEevQAVDPQSAQK.....WVKFSSvSDGFSTDSTS......................
  306-  479 (295.19/132.72)	HHGGKIPRKLANHVVDR.VWQECNMN..........................RLQNkRKY.........................................SAASSGLCEDESADKIACWDFvEATQRTSCSCLSDGSNMDqDYGPAYT..PQ.THTSFGMP.PSSAPPSNGGA...GILPSPSTPRFPTPR....TPRTPRTPR..GAGGPASAQG.....SVKYEN.SDLYSPASTPSTCRPlNSVEPATVPSIPEAHS
  485-  564 (35.13/39.09)	ILSESVMNLFKDCNFDScCICVCNMNikgadvgvyipdptqeaQYRCTCGFSAVMN.RKFG.NNSGLFleDELDIIG.....RNTDC..............................................................................................................................................................................
  602-  778 (209.96/84.29)	...........................................QDQCTNLFS......PFGaADQDPF..PKMGIISnwvrvEERDCcndcylalehgrqfMDNMSGGKVD............EA..LVKSSCLHPWAKQN...GPYLA..SQpLDSSLLSQ.PNLVAPTN..Q...SLLTAPQMTNTGNAN....TPSATLASA..ASSTMTMTSGvaistSVATAN.STLTTTSSSSSSNMS.SGVSSNKLPSFPPFGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     213.85|      65|      70|     850|     919|       2
---------------------------------------------------------------------------
  850-  919 (101.81/82.68)	YPPAIVVYIIDPFTYENKDESTnSSNVWTLGLLRCFLEMVQTL.PPHIKSTVSVQIVPcqYLLQPVKheDR
  922-  987 (112.04/72.06)	YTQHLKSLAFSAFTQCRRPLPT.STNVKTLTGFGPGLAMETALkSPDRPECIRLYTPP..FILAPVK..DK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.93|      19|      19|     784|     802|       3
---------------------------------------------------------------------------
  784-  802 (32.45/16.51)	SGSMSAQTSTVQSGQLGGQ
  804-  822 (31.48/15.81)	SSSLQAAGMSGESASLPTQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.92|      24|     996|      11|      43|       4
---------------------------------------------------------------------------
   11-   43 (35.69/44.56)	CIPwTTQRWGSSFCKECpsFGmfvqlqKLYHTC
 1010- 1033 (47.23/27.21)	CLS.HDQRWILASCTDL..YG......ELLETC
---------------------------------------------------------------------------




































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 MDP28060 with Med13 domain of Kingdom Metazoa
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