<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 MDP16564

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSLSELTRNSFQSGITAKKWANLCKLFLAKNGVHDATDEVQTDISNSVLVLFRNYPGDPALQGYLKRAIQDGLLSLPRFIATFLSAARSPDLHTPATLDMLCRVALDAHYATGLSNPIGSIVAYTVSTTELLATVQDSMALLRVAYSLPMSHFHQLTTSTSELLALLLSCITDVTQIPTNEAVVFLAEANDLMHVLHLPPFVKQELETFVLSLGLLLGDDGKAAQAQMMRSLQVANDLLGPGSDTDIISCSLLLQSLVLGRAHEFGAGEGNRATAVLLAMLRWSSWTPVVHHTQLIQSALTCLFQNVSMNAQTKPGIIWRAFVIGRLPTLLNALHKAADQEGGVESDWHSVVQAAVSNVMHRSDILDRCEIVLQSGGTEINADRLTHSRVLQSEFLYQLMKAGLLDQAFAATLQPSLVNDFHPRLPTEAQELGLDLAAYIESKLATEVSVEDAIAFVDKVCRDACSHAAFADAVYKKFVSLHHPDLDSLSHICKILSRHELAVDIVSLHHPLTDMVTHALKLVEDYDCETVGDPQTAVSHLGDVVLFLQETVVRYNFNHSTLNLGDQRLNLSLICSVSTVHTTRELSSEDTSAVQAWAKALFDKHSEGIEDTILRNTRPRTLLHIAATLFSHAIMMCDEGKMEKDVLSDGISYFMGPLLNWTLVGVVKSLLSEIQRRGLNAPLHLEVLQTLLLSQSCPQTVIRLSAASVLRLSTSKLQQHVVRFDWTALQSVAAKAIGLPEKNLQGTSSHAINGALAAARAGRAPALDVDRCLLFTPPAKFLHALWKELMGVATLGEIEAPRRLTTFVLSMPRRFHSPPLLPIFLHVVVPGLVAAADHLPPTDQAIAVELLVSVISSALTMALHLERALLNTCGEQRPALGQSAAAMARRMGSDLRRKGHGQTSGVIAQRLAALPPFVANFPTFIADM
Length928
PositionTail
OrganismWolfiporia cocos (strain MD-104) (Brown rot fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Polyporales> Wolfiporia.
Aromaticity0.06
Grand average of hydropathy0.183
Instability index43.30
Isoelectric point6.12
Molecular weight101034.39
Publications
PubMed=22745431

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

>MDP16564
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.98|      17|      24|     479|     499|       1
---------------------------------------------------------------------------
  479-  495 (33.09/24.98)	VSLHHPDLDSLSHICKI
  506-  522 (31.89/13.57)	VSLHHPLTDMVTHALKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.62|      19|      19|     685|     703|       2
---------------------------------------------------------------------------
  684-  702 (31.99/17.94)	HLEVLQTLLLSQS.CPQTVI
  703-  722 (25.62/13.01)	RLSAASVLRLSTSkLQQHVV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.54|      16|      19|     876|     891|       3
---------------------------------------------------------------------------
  876-  891 (27.87/17.71)	QRPALGQSAAAMARRM
  896-  911 (26.67/16.61)	RRKGHGQTSGVIAQRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     119.15|      30|      30|     104|     133|       4
---------------------------------------------------------------------------
   84-  102 (26.65/15.27)	..LS..AARSPDLHTP.........ATLDMLC
  104-  133 (49.47/35.90)	VALD..AHYATGLSNPIGSIVAYTVSTTELLA
  135-  165 (43.03/30.08)	VQ.DsmALLRVAYSLPMSHFHQLTTSTSELLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     143.55|      45|     134|     413|     466|       6
---------------------------------------------------------------------------
  422-  466 (76.14/63.12)	HPRLPTEAQELGLDLAAYIESKLAT.EVSVED..AIAFVDKVCRDACS
  559-  606 (67.41/37.83)	HSTLNLGDQRLNLSLICSVSTVHTTrELSSEDtsAVQAWAKALFDKHS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.64|      10|      23|      44|      53|       7
---------------------------------------------------------------------------
   44-   53 (16.23/ 9.00)	ISNSVLVLFR
   69-   78 (17.41/10.21)	IQDGLLSLPR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.88|      23|      26|     311|     336|       8
---------------------------------------------------------------------------
  311-  336 (35.95/25.26)	AQTKPGI..IWRAFVIGRLPtllNALHK
  338-  362 (35.93/18.46)	ADQEGGVesDWHSVVQAAVS...NVMHR
---------------------------------------------------------------------------




































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 MDP16564 with Med5 domain of Kingdom Fungi
Unable to open file!