<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 MDP13427

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMETDFTNHHGDGDATSSRSHWARYLSQCLSSRLDTEQFDSHVPVLYNKHPLPSVAIADIFLRPQPSNHESLDPRISRYLEVLTQRNLVDTPSILNGLYKYSTSQIYLPPAGVDGPGQAPPRWASSYTPEEVLFYRLSKAVRLGSGIKNAGEALAICVLMARWMTMFTTASAAFAQDAIIGQLQNSSRDEMEAARAAFVMLLLSVCENHLALRGLSRPTAKDVRRVLSDSLTSFIPSILQSSSQIASRLELFRTETLASFEPIDKDKKDIPNMEMDDLESSMALDSVVIPELPVSNSRAGLYIYLNASLVGRPLIDDAALFNHLHHRYQGDIQTTTIDLILASFDVLANAVFRREGQKTGHLLRSYLINKLPLLLTTLASSMFAPLTPQYCITEALAQVDTNAFPTLSGMFDDTNNNNAFTDGVRQEFCFACCLQGLIPESSIEGLLGEITYQTLPQEGRHVKEKLVERCIADPERIQDLIREIDNMDGNVGAVCQALIEIIGRLCANKETMSLKHLCSQLAKKPLSLDVMLLFGKPAVILHPLCEVLDNWRYDEDQGEYQPVYEEFGAILLLVLAFVYRYNLTAVDLGVRSTDSFVAKLLNQGQLSRPLDELNDSEKAHLDGWIQGLFDTETGGLGDDLMSSCPPQDFYLLVSTLFHNIMLAIDAKCLGDESLKTGVEYLVDTFLLPSLVVAITYMSNQLWTENRPDQRAVITILQLILLNKKGSPEAQAMLSAVLNIVAKPLEHSLRSYQRQEPKCQEIEPLLNAIKENIRLSRRTAGAGHNELEAWAGTANGGLAASVRHTIQSLVQWSLHPGINMMPTSYTHRQILAAHRILGARRLLHIILDEVKQQTDTSSYSIVYDIATALICAPDATNVPPPAVMALLVDPSNPPVTPQTRISLREALKAEAEDFKTIQKSDPALAEHVVRLYRRVEAQLIMSQPAEAMLQDGLDLDLDENAAAALAAAQGDGLVAGDGGMNLNLGNGSDMGLSGGADSGGGLDFGTDDDIFGNLGAGGSGADLLEGWDGMELS
Length1031
PositionTail
OrganismRosellinia necatrix (White root-rot fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Xylariomycetidae> Xylariales> Xylariaceae> Rosellinia.
Aromaticity0.06
Grand average of hydropathy-0.074
Instability index44.93
Isoelectric point4.90
Molecular weight113041.44
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

>MDP13427
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.31|      27|      31|     965|     992|       1
---------------------------------------------------------------------------
  965-  992 (45.49/32.83)	AAQGDGLVAG.DGGMNLNLG...NGSDMgLSG
  994- 1024 (40.82/24.22)	ADSGGGLDFGtDDDIFGNLGaggSGADL.LEG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.32|      25|      31|     627|     656|       2
---------------------------------------------------------------------------
  627-  653 (40.84/41.47)	LFDTETggLGDDLMSSCPPQ..DFYLLVS
  662-  688 (38.49/21.38)	AIDAKC..LGDESLKTGVEYlvDTFLLPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.88|      26|      31|     726|     754|       3
---------------------------------------------------------------------------
  722-  748 (36.33/33.74)	KKGSPEAQAmLSAVLNIVAKPLEHSLR
  751-  776 (43.55/26.30)	QRQEPKCQE.IEPLLNAIKENIRLSRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      58.66|      17|      31|     537|     553|       4
---------------------------------------------------------------------------
  514-  540 (18.69/ 8.30)	KHLCSQLAKKPLS....ldvmllfgkpAVIL
  541-  571 (22.32/11.19)	HPLCEVLDNWRYDedqgeyqpvyeefgAILL
  572-  587 (17.65/ 7.47)	LVLAFV...YRYN............ltAVDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.81|      29|      37|      90|     126|       5
---------------------------------------------------------------------------
   90-  122 (43.02/52.41)	TP.SILngLYKYSTSqIYLpPAGVDGPGQA......PPRW
  127-  162 (41.78/21.94)	TPeEVL..FYRLSKA.VRL.GSGIKNAGEAlaicvlMARW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      25.76|      11|      32|     796|     813|      11
---------------------------------------------------------------------------
  796-  813 ( 9.91/20.44)	LAAsvrHTI...QSLvqwsLH
  829-  842 (15.86/ 6.16)	LAA...HRIlgaRRL....LH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.95|      13|      37|     234|     246|      12
---------------------------------------------------------------------------
  234-  246 (22.12/15.27)	IPSI....LQSSSQIAS
  269-  285 (17.83/10.71)	IPNMemddLESSMALDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      65.64|      16|     388|     214|     229|      13
---------------------------------------------------------------------------
  214-  229 (27.14/15.54)	LSRPTAKDVRRVLSDS
  590-  603 (17.97/ 8.01)	..RSTDSFVAKLLNQG
  605-  615 (20.54/10.12)	LSRPLDE.....LNDS
---------------------------------------------------------------------------




































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 MDP13427 with Med5 domain of Kingdom Fungi
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