<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 MDP07649

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDSMLTEWEHFLDRCLESRVQPDLFATAVTQLHAKSPLPGPKLATLLLKPRAAAATSIDPRVIVYLERLLALKKVNASDVLAATFEFSKDRLPKTGEDESAKDPQWNNPPELEEIVFHRLHRAFVTEERPMNIGEGIRTLLVLSRWMQAMVTSHTSDTIIQAMAGIQQGPQQQSINVREGLGMLVVGIIENSKMLDILSNPKGKDIRKAFAQSLSSFIPFLSHNSVGSQTSLQLANRLEISQKQHDFYNKLPTVNGETNGNPGLEVAVLQLEAVMDLPILNTRAGLYVWLNSLLVARPLTDEYTIINYLHSRYKLDSQNMATDLITAAFDILANAMYRSEPTQTMFCSKSFLVNEVPVILSQISAAIFPMTPELCITQALSHVDPNAFPAFSQGFDDIMGNSSSLSEVRQDFLNSCALHGLIQIGTVERLLGETPLQGPPETKYDRKQLMEQCRNNFDKVSMYIEDLDNLDGNAGAIVGAVTDFISHLCETQMTMYLKQVSCLIFKKPQAMDVLLQFTSPASILRPLCQFLDGWHYDSDQGEYQPVYDEFGAILVLVMAFVYRYDLTYHDLGIAPGTFIARLMEHGHRSISPDEMTEAQGKSLGTWLKGLYDSDKEGLSNDVFASCSPQDFYLIVPTFFKQTVLACSHGVLAFESVKSGLEYLGETFLLPSLIGGLTWMSSYAIEQTHNDLDSIMRIFKEIIISTPSSGDAQAMHSSIIAMVSSRLEKCFRTLQRRDPSRTTIEPLLQAIKVHANYERSIYPSMKELEQWTNAPNSTLHTALRHTIQQLSQWASTASIQPNPPSYTHRQIYVSSRILGTFKTLRAIVDEIKAQTDAGNGAAALDIGVSIICAPTIEDSPIPVEWMGSTIPAAPPPRTSMNLREMLKHEFDNAASLVATDPGCAETIVRLHRRVEAQLASIGETSLHAPAINLPSVNIVDMQSQSITDDINKAIDDAAAASIVEDISNMDNKALQRSMEELTGSEGLDLASMGMGPDGTSTLGTDLGNLPDLDLDMGLDMDMSMDMGGGGDDDWGLDFENM
Length1040
PositionTail
OrganismPyrenochaeta sp. DS3sAY3a
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Pleosporomycetidae> Pleosporales> Pleosporineae> Cucurbitariaceae> Pyrenochaeta> unclassified Pyrenochaeta.
Aromaticity0.07
Grand average of hydropathy-0.122
Instability index44.76
Isoelectric point4.86
Molecular weight114878.62
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

>MDP07649
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     211.56|      82|     432|     360|     478|       1
---------------------------------------------------------------------------
  298-  347 (49.96/40.62)	PLTDEYTIINYLHsryKLDSQnmATDLITAAF.DILANAMYRSEPTQTMF..C...............................................................
  369-  478 (121.00/115.00)	PMTPELCITQALS...HVDPN..AFPAFSQGFdDIMGNSSSLSEVRQDFLnsCalhgliqigtverllgetPLQGPPETKYDRKQLMeqcRNNFDK.VSMYIEDldnlDGNAGAIV
  870-  907 (40.59/ 8.36)	.......................................................................PAAPPPRTSMNLREML...KHEFDNaASLVATD....PGCAETIV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.85|      14|      25|     760|     779|       2
---------------------------------------------------------------------------
  760-  773 (25.24/ 7.55)	IYPSMKELEQWTNA
  782-  795 (23.61/16.89)	LRHTIQQLSQWAST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.87|      22|      25|     572|     593|       3
---------------------------------------------------------------------------
  572-  593 (40.06/22.05)	GIAPGTFIARLMEHGHRSISPD
  600-  621 (38.81/21.16)	GKSLGTWLKGLYDSDKEGLSND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.33|      19|      25|     244|     266|       4
---------------------------------------------------------------------------
  244-  266 (29.24/25.45)	QHDFYNKLPTVNGETngnpGLEV
  270-  288 (32.08/17.00)	QLEAVMDLPILNTRA....GLYV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.09|      13|      15|     937|     949|       7
---------------------------------------------------------------------------
  937-  949 (23.03/15.07)	IVDMQSQSITDDI
  953-  965 (21.06/13.16)	IDDAAAASIVEDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      52.13|      11|      17|     981|     991|       8
---------------------------------------------------------------------------
  981-  991 (19.07/ 9.61)	TGSE....GLDLASM
  998- 1008 (17.67/ 8.36)	TSTL....GTDLGNL
 1026- 1040 (15.39/ 6.32)	GGGGdddwGLDFENM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.20|      17|     432|      65|      81|      10
---------------------------------------------------------------------------
   65-   81 (28.21/17.76)	YLERL..LALKKVNASDVL
  496-  514 (25.98/15.84)	YLKQVscLIFKKPQAMDVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.64|      14|     788|     119|     135|      13
---------------------------------------------------------------------------
  119-  135 (22.23/13.51)	RLHRafvTEERPMNIGE
  908-  922 (20.41/11.82)	RLHR..rVEAQLASIGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.42|      18|      89|     715|     734|      14
---------------------------------------------------------------------------
  715-  734 (28.62/23.61)	HSSIiaMVSSRLEKCFRTLQ
  807-  824 (32.80/20.50)	HRQI..YVSSRILGTFKTLR
---------------------------------------------------------------------------




































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 MDP07649 with Med5 domain of Kingdom Fungi
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