<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 MDP28352

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDNPSKAEIVTRKSFENSIPSSDWLAILRVCFQELSSTEINESISAVLNLLLNLLASWPANEAIVDYLATLVRGHLLPLHTYFTGFLRFTRTTEIVDPRTVDMLCQLGVRLSAEMPFEPVISITETTQIASVTLMDAFTLVRGALNIPYSPLHDLHTSASEVLLLMIQYSRPLFGQFLVHDTLQFLTISHDVMQHPGLRPDLVSSLEGLIRLLGDILAVSNALPSTHTELLALTAQPTQEINSEESDIITFSLFIKNIVDYAAHPYGCGNLETTVSTLVGLHKWSNLAISQFCAELIRAAFAHYSEAYQSRRSYPNNTSIWSSFLYARLPALLQALLARIGAQPYPIMESAMGVAFEKLPQQPNYSLPFTGMEIDDASPELSPDSFRVEFLNSLFQMNLITASAAKSLCEAWKEEVETESQLLREMNDMKSLESFVDFFIDPSTSERVQEILNLFVKDYRQQEAFAIYFFEKVTTECDQLNLEAVSPICKLLSSRPLVMDTLALHISITQLVKRILYLVDHLDWEGMDDPQSSMTSLGPIILFLQATIGRLNFSSHSLRKDDEGLSADYLMRAGSTDTHSDLTSEEKVAYTDWHKALFDANSDGIEDSLVRSRNPKILLKLLPVLVSDAIAACGRPGAGSNELAALNNGINYLQESILSWTLVGVIKCVALQMERAPSSVHAEVLSQLLKSAPANLTKMLYRTLGRLTLSAMDPEAPKFLVDFATILNGMIKPTTEQSSISSYSPVLTPAQLIRTTFLSLRSTKAVALDVPLCLRMSNPLDLVANLHRELYPGSQFGDPESCRRVTVHALCCTSQKGPDQPWLLPVFFFSYIPSILHHSPSQDTLHIEALSGVITASLRLQPCLGKGRWITLPRAITPSFSTVCRPTQEIRWKG
Length894
PositionTail
OrganismSerendipita indica (strain DSM 11827) (Root endophyte fungus) (Piriformospora indica)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Sebacinales> Serendipitaceae> Serendipita.
Aromaticity0.08
Grand average of hydropathy0.075
Instability index48.96
Isoelectric point5.30
Molecular weight99396.11
Publications
PubMed=22022265

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

>MDP28352
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     147.61|      40|     327|     170|     209|       1
---------------------------------------------------------------------------
  170-  209 (73.70/52.27)	SRPLFGQFLVHDTLQF.LTISH.........DVMQ.HPGLRPDLVSSLEGL
  494-  537 (48.74/31.83)	SRP.....LVMDTLALhISITQlvkrilylvDHLD.WEGM.DDPQSSMTSL
  542-  568 (25.17/12.53)	...LFLQATI.GRLNF...SSH.........SLRKdDEGLSAD........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     201.69|      63|      84|     654|     718|       2
---------------------------------------------------------------------------
  654-  718 (97.49/68.69)	QESILSWTLV....GVIKCVALQMeRAPSSVHAEVLSQLLKSAPANLTKMLYRTLGRLTLSAmDPEAPK
  737-  803 (104.20/64.57)	QSSISSYSPVltpaQLIRTTFLSL.RSTKAVALDVPLCLRMSNPLDLVANLHRELYPGSQFG.DPESCR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.67|      16|     193|      64|      82|       3
---------------------------------------------------------------------------
   64-   80 (26.66/20.37)	IVDYLaTLVRGHL....LPLH
  134-  153 (25.01/ 8.30)	LMDAF.TLVRGALnipySPLH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.51|      19|     646|     223|     241|       4
---------------------------------------------------------------------------
  223-  241 (33.00/19.80)	LPSTHTELLALTAQPTQEI
  872-  890 (35.52/21.88)	LPRAITPSFSTVCRPTQEI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.83|      19|     356|     457|     488|       5
---------------------------------------------------------------------------
  428-  446 (33.27/14.88)	DMKSLESFVDFFIDPSTSE
  458-  476 (33.55/35.56)	DYRQQEAFAIYFFEKVTTE
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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 MDP28352 with Med5 domain of Kingdom Fungi
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