<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 MDP28081

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDSQPAAAARSPLQEAVQYWSDFVARCIAQRLGSERFHDFVRLVHAQHPLPPILVADLFLRPQPSNRVSLDPRVPPYVRVLTQLGYMDAPSILRVMYKYSALHALAKPSPEVKTEEAGDKTVRWQESSWAEEVMFYHVIKTMFEGTAFTDAKTGLELVGITCKWMDLFVQTFAAEALVGTHDRQAREEMVTVRAALAPLLLRLVDNEALLRIISLRKHLSDSLGHFIQTFQPAPLYLERLEIFRTQTLAQLDPVDEKKQAANAAMDELLDSTVGLESFVVADIPIANSRAALYIYLNAALVGRPVLDDSMLYAFLNNKYQENQQASAVDLIVASFDVLANAVFRNEGPKDAHLLRSFVVNKLPLLLCQLCHPEFSATSAEFCITEALSRVDTGIFPTASLMFDESRNNNPYMDSVREEFCAACALHGLIERDHVDRILGETSMSYDPSLERVNRDRLVGDCLSDSAKIQSIISQLDRVDGNVGAVAHAVVEDTMSLKLLCTQLAQKPQSLDIILLFDKVTSILEPVCSLLDNWRYEEDQGEYQPVYEEYGAILLLVFAFSYRYNLSPLDIGIHSADSHVARIITKSHILRPLDELSEQESEHVTGWINGLFDNEAGGLGDDLMSSCPPHEFYLLVAPIFQSIITAYTYGYINDESLKGGVEYLVDTFLLPSLVPAIRFLSDYIWIDQKEQKSIVKALQLLLTPSSISGEASTVLSAVKNLVAQPLEHALRTYQRQDPRNQDIEPLLRSLKENLPLSRRSGGAAHHEMELWANSSSSGLSGAIRHTIQGLVQWSAQPGVNVMPASYTHRQLIAGLRIIGPSRLLRLVMEEIRQQSELGNASVVYDVAAALIAATDSTNEAPASTQHLLDTAGTMQVRRRGLRDALKTAAEGYKRLQKHDPFLAEATVRLHRRVEGLLLVVVVVPQAQAILPALDLGDADADAAAAAAMAAVGADPMSVDGLDMGLGADLDLSGGAGDADLFGGLDTSLDMFDGWDSMDMGVN
Length1001
PositionTail
OrganismCordyceps militaris (strain CM01) (Caterpillar fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Cordycipitaceae> Cordyceps.
Aromaticity0.07
Grand average of hydropathy-0.014
Instability index45.45
Isoelectric point4.95
Molecular weight110374.53
Publications
PubMed=22112802

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

>MDP28081
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.83|      28|      35|     929|     963|       1
---------------------------------------------------------------------------
  929-  963 (46.59/42.54)	LPA.LDL..GDADADAAAaaamaavGAD.PMSV.DG...LDMG
  964-  999 (31.24/16.29)	LGAdLDLsgGAGDADLFG.......GLDtSLDMfDGwdsMDMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.55|      14|      18|     749|     765|       3
---------------------------------------------------------------------------
  761-  777 (21.66/ 9.66)	GAAHHemeLWAN....SSSSG
  780-  797 (18.89/13.45)	GAIRH...TIQGlvqwSAQPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.23|      12|      15|     726|     737|       4
---------------------------------------------------------------------------
  726-  737 (22.08/13.43)	EHALRTYQRQDP
  743-  754 (20.15/11.62)	EPLLRSLKENLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.54|      18|      20|     314|     331|       8
---------------------------------------------------------------------------
  314-  331 (29.79/17.57)	F..LNNKYQENQQASAVDLI
  335-  354 (25.74/14.31)	FdvLANAVFRNEGPKDAHLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.26|      16|      37|     372|     387|      12
---------------------------------------------------------------------------
  372-  387 (28.42/18.69)	PEFSATSAEFCITEAL
  410-  425 (30.84/20.88)	PYMDSVREEFCAACAL
---------------------------------------------------------------------------




































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 MDP28081 with Med5 domain of Kingdom Fungi
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