<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 MDP28277

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceVADLQRMFPTPPSLEQHPAFSPVMNYKDGVSSETVTALGMMESPMISMVSTQITEFKMEVEDGLGSPKPEEIKDFSYVHQVPTLQPFMGSSLFAPLKMLPSQCLLPLKVPDACLFRPSWAAPPKIEQLPLPPAAAFVRDGYKTKKELFVLRDRELNVCLSTPHADVMLSLVGAALACALFEGWYHKHFQPKYVYLFPTPVFTNRNRAPGSGSVGGDGERWGQPGADGLSPSERLMSLCSLCRSNVPSVGSLADQDYLNTDSVLNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDEVDIFGKNSDLAQAAERRLMMCQTAFLPQVEGARKPQEPPVSLLLLLQNQHTQPFTALSCLGYIFPSHRHTVPGTHWSYDRVQADHNDSWTECVNALEQGRQYVDNPTGGRVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTVLVGYDKDYLTISPFSLPFWERLSLEPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPISRVLRDGIMRVGKTVTPKLTDELMSEWFSQPWSSEDSDNHSRLRLYAQVCRHHLAPYLATLQLDSSLLVPPKYPASPPVAAAAPGAPGSVGPAASNPGCASGPGAPPAGTSNGSSGSTSAAAGSSGPPASSASSGPGVTPGSVTSSSGFGGGGGTGQTPSAGTSMADRAPGSLGSGGDAEPGQNSSQQPPPEGQDSVTERERIGIPTEPESADSQAYPPAVVIYMVDPFTYTAEEESTPANFWLLSLMRCYTDMLDNLPENMRNSFILQIVPCQYMLQTMKDEQFFYIQHLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIETTLKNPERPSPIELYSPPFVLAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLQGELLETCIVNIDLPNRSLFSPLFFLSRSRRSKVSPRKIGLQKLWEWCIGIVQMTSVPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKHLKEACRMCGLSAADSPSILSACLVAMEPQGAFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDATCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGMGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQMDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPIHFVVLTQLYNAIMNIL
Length1363
PositionMiddle
OrganismSarcophilus harrisii (Tasmanian devil) (Sarcophilus laniarius)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Metatheria> Dasyuromorphia> Dasyuridae> Sarcophilus.
Aromaticity0.08
Grand average of hydropathy-0.242
Instability index59.34
Isoelectric point5.62
Molecular weight149305.96
Publications
PubMed=21709235

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

>MDP28277
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     146.49|      25|      27|     673|     697|       1
---------------------------------------------------------------------------
  673-  697 (49.38/20.03)	PASPPVAAAA..PG.APGSVGPAASNPG
  702-  722 (31.03/10.06)	PGAPP.AGTS..NG.SSGSTSAAAG...
  724-  747 (24.34/ 6.42)	.SGPPASSASsgPGvTPGSV...TSSSG
  759-  781 (41.74/15.87)	SAGTSMADRA..PG.SLGSGGDA..EPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.85|      11|      25|     531|     541|       2
---------------------------------------------------------------------------
  531-  541 (21.77/11.89)	GYDKD..YLTISP
  556-  568 (18.07/ 8.71)	GGHRDvaYIVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     127.73|      39|     471|     353|     433|       5
---------------------------------------------------------------------------
   59-  102 (60.72/16.59)	EVEdglGSPKPEEIK.DFSYVHQVPTLQPFMGSSLFAplKMLPSQ
  354-  393 (67.01/80.96)	QVE...GARKPQEPPvSLLLLLQNQHTQPFTALSCLG..YIFPSH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     309.72|      92|     100|    1117|    1212|       6
---------------------------------------------------------------------------
 1117- 1212 (154.41/92.09)	PDAVTMGSVF..GRSTALNLQSSQlnTPQDATCTHILVFPTSSTIQVapANYPNEDGFS.PNNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSP
 1215- 1309 (155.31/82.63)	PSGMGVGSHFqhSRSQGERLLSRE..APEELKQQPLALGYFVSTAKA..ENLPQWFWSScPQAQNQCPLFLKASLHHHISVAQMDELLPARNSQRVPHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     109.18|      36|     100|     936|     986|       7
---------------------------------------------------------------------------
  114-  160 (49.65/18.53)	LFRPSWA.APPKIEQLPLppAAAFvrdGYKTKKE..LFVlrdrelNVCLS
  938-  976 (59.53/62.49)	LYSPPFVlAPVKDKQTEL..GETF...GEASQKYnvLFV......GYCLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.26|      28|     408|     220|     263|       9
---------------------------------------------------------------------------
  232-  261 (45.60/39.08)	ERLMSLCSLCRSNVPSVGslADQDYLNTDS
  268-  295 (54.65/16.27)	DRNFDSCCICACNMNIKG..ADVGLYIPDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.87|      27|     187|       7|      44|      10
---------------------------------------------------------------------------
    9-   37 (45.79/43.61)	PTPPSLEQHPAFSP.VMNYKdgVSSETVTA
  805-  832 (47.08/16.94)	PTEPESADSQAYPPaVVIYM..VDPFTYTA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.52|      14|      19|    1073|    1086|      14
---------------------------------------------------------------------------
 1073- 1086 (25.68/18.63)	CSLQTI.SKHLKEAC
 1089- 1103 (20.85/13.43)	CGLSAAdSPSILSAC
---------------------------------------------------------------------------




































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 MDP28277 with Med13 domain of Kingdom Metazoa
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