<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 MDP13965

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDSMVKEWTVYLDRCLNQRVSVDVFDAATAQLYRKSPLSGRKLAALLLKPRSSCVNNVDPRVIAYLERLLALKKVDASDVLSATFYHSKDRQTQAGGDVLDRESTWSNSPELEEIVCHRLHRTFAAEERPLSNTEGLQTLIVVTRWMKAMVTSHTSDTMMQAMAGISQQPQQQSINVREALGVLVVGLIENSKILQTLNHPTTKGLRKRLAQSLASFIPFLSHNSLGSQSSIEIANRLEMSQKQHELYEKPISVEGVPGRNANLEVAALQLEAVMDLPLVSTRAGLYVFLNSLLVARPLTDEFLIINYLHSRYKMDPQNMGADLVTASFDILANAMYRSEPPSTMFSLKSFLINKVPILLSQLAGSIFPMTPEMSITQALSHLDPNAFPAFSQGFDDIMGGTNSLSDVRQDFLNACALHGHITTATVERLLGEPPIQGPPALRYEKKALLDQCKNNFDKANTYIDEMENLDGNAGAIAGAVTEFIAHLCETQGTMHLKQICSLLSKRSQCLDVMLQFTSPASVLRPLCQFLDDWHYDSDQGEYQPVYDEFGAILLLVMVFVYRYSLSPADIGIGPESFIARLIERSNHGIAPDELTEEQGKHLASWLKGLYDSGNEGLSNDVFASCRPQDFYLMVPTFFSQTVMACSAGVLSHETVKSGMEYLGETFLLPSLIGGLSWMTGHALKQNHNDLDAMLRIFNDAVLTVPSSGDAQAMHSTIIAMVSSRLEKCLRALQRREPTRTNIEPLLEAIKANAHYDRTVYASIRELEQWTNAPNSTLNTALRHTIRQLAQWASTAAINPNPPSYTHRQMYTSSSTLGVYQTVLAIVDEVKAQTEAGNGAVALDIGAAIICAPTIENSPISIDWIGSSLPAPAPPRTRMNLREMLKHAAEHAAPLVSLDPSLAEATVRLHRRVEAQLASLGQAGALHQAAGAMHLPNVNVNVNVVGMDMQAQSLSDDITKAMEHAANASLVADDPLDLPDADKKALERSMEELAGPAGGLHLSNMGMSGGEGLTAADMGANLGSLPDLDLSEMGGMGMEMEMEMGMGGGGDDDWGLDFDNM
Length1061
PositionTail
OrganismEpicoccum nigrum (Soil fungus) (Epicoccum purpurascens)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Pleosporomycetidae> Pleosporales> Pleosporineae> Didymellaceae> Epicoccum.
Aromaticity0.06
Grand average of hydropathy-0.116
Instability index44.93
Isoelectric point5.17
Molecular weight115966.92
Publications









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

>MDP13965
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.40|      19|      19|     752|     770|       1
---------------------------------------------------------------------------
  752-  770 (34.29/26.25)	ANAHYDRTVYASIRELEQW
  774-  792 (34.11/26.08)	PNSTLNTALRHTIRQLAQW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.13|      26|      27|     909|     934|       2
---------------------------------------------------------------------------
  909-  929 (29.77/16.56)	...........................LH.RRVEAQLASLG...QAGALHQA
  930-  957 (30.00/16.75)	AGAM.H.......................lPNVNVNVNVVGmdmQAQSLSDD
  959- 1001 (17.37/ 6.44)	TKAMeHaanaslvaddpldlpdadkkaLE.RSME.ELA..G...PAGGLH..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.31|      21|      27|    1003|    1029|       3
---------------------------------------------------------------------------
  970- 1010 (30.75/ 9.73)	LVADD...PL.DLPDADkkalersmeelagpagglhlSNMGMSGG
 1013- 1038 (26.56/24.23)	LTAADmgaNLgSLPDLD...................lSEMGGMGM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.54|      17|      25|     577|     593|       4
---------------------------------------------------------------------------
  577-  593 (29.58/18.21)	SFIARLIERSNHGIAPD
  605-  621 (30.97/19.41)	SWLKGLYDSGNEGLSND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.28|      10|      18|     360|     369|       5
---------------------------------------------------------------------------
  360-  369 (18.25/ 9.87)	LSQLAGSIFP
  380-  389 (20.03/11.55)	LSHLDPNAFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.53|      29|     295|      25|      60|       6
---------------------------------------------------------------------------
   25-   60 (41.11/40.83)	FDAATAQLYRKSPLSGrklaalLLKPRSSCVNNVdP
  329-  357 (52.42/32.47)	FDILANAMYRSEPPST......MFSLKSFLINKV.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     192.68|      65|     295|      94|     225|       7
---------------------------------------------------------------------------
  157-  221 (106.01/126.07)	DTMMQAMAGISQQPQQQSINVREALGVLVV..GLIENSKI........LQTLNHPTTK.GLRKRLAQSLASFIPFL
  821-  896 (86.67/26.98)	QTVLAIVDEVKAQTEAGNGAVALDIGAAIIcaPTIENSPIsidwigssLPAPAPPRTRmNLREMLKHAAEHAAPLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.41|      31|     217|     495|     527|      10
---------------------------------------------------------------------------
  495-  527 (46.98/35.23)	MHlKQICSLLSKR.SQCLDVmLQFTSPA.SVLRPL
  714-  746 (46.43/26.07)	MH.STIIAMVSSRlEKCLRA.LQRREPTrTNIEPL
---------------------------------------------------------------------------




































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 MDP13965 with Med5 domain of Kingdom Fungi
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