<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 MDP06795

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMETDRDGRPILTPQQILDSIIDLPIIRTRAGLYVWLNACLCGRPQMDDLAMLGYLQARYSGDIQTAIIDLLTAAFDVLTNALLCKERTDTVWIIRSFISNKIPTLLALLASYLAPPMTVENCIQMAFMTEITIDVLPPISEGDKDVCETLRRTRAEFLRACVLHGLMSESLIEHILQEPSNSQPAGTKFTKEGLLAQCVNNVGRLEPLLRELQSMRGNAGAVAECIVQLINNLYLAKDTMSLKTVCNLLLKRIPDLDILMQYTQPANLLLPLCTVLNDWTHDQDQAEFTPSYEEFASILLFTLAFIHRYNLTKADAEILPSGNFVFDLMQNISTSIPLSDLSEDQNVQLSKWIEGLFATDEHGETSGISDDVMRQCPPKDFYKLVPTLFEQSVLACRSNCLPMNTFKGGLELLLEPFLLPSLIGGLNWLIMHSWADHGDVDVLLHVLDKLLKPSSSSQDTQTMHKAILGMVATRLSYSLHELLRKQPDKRAATGLINLLKPYTDQISRRTYQSGRKELREWAAVEGGGLLQCIRSAVRELSVWIPTNPPPRYNHGQFLAACELCGADAVLSAISTELKEQTTSGNGAQTLDVCVALICSPTIATAKSDSVRHALRLVISDTQTMLQKPNAEAEAMIRLARRVEAQLAVPQLPLPISADDQVATDQLMHDLGFPDAVAGSTASALPIDTGSNIVQGSSMLSDFSAANLDSGIDTSMDITGSSAPVISGVPSDNALQMGNSNFFDFPVNLGSGQHSGPGQNADTGVQTQEEDIFAGLDMGGDLGDEDFNFT
Length789
PositionTail
OrganismAcidomyces richmondensis BFW
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Dothideomycetidae> Mycosphaerellales> Teratosphaeriaceae> Acidomyces> unclassified Acidomyces.
Aromaticity0.06
Grand average of hydropathy-0.007
Instability index42.35
Isoelectric point4.69
Molecular weight86339.80
Publications
PubMed=26973616

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

>MDP06795
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.63|      22|      46|      16|      41|       1
---------------------------------------------------------------------------
   16-   41 (36.54/29.74)	ILDSIIDLpiirTRAGLYVWLNACLC
   63-   84 (38.09/21.15)	IQTAIIDL....LTAAFDVLTNALLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.36|      31|      42|     676|     710|       2
---------------------------------------------------------------------------
  676-  710 (46.79/38.98)	VAGSTAsalPIDTG...SNIVQ.GSSMLSDFsAANLDSG
  717-  751 (48.57/28.60)	ITGSSA...PVISGvpsDNALQmGNSNFFDF.PVNLGSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.15|      25|      42|     104|     134|       3
---------------------------------------------------------------------------
  104-  134 (35.91/37.24)	TLLALLASYLappmtvENCIQMAFMTEITID
  149-  173 (42.24/27.20)	TLRRTRAEFL......RACVLHGLMSESLIE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     126.42|      42|      47|     225|     271|       4
---------------------------------------------------------------------------
  225-  271 (62.69/55.89)	CIVqlINNLYLAKD....TMSLKTVCNLLLkriPDLDILMQY..TQPANLLLP
  273-  320 (63.72/42.28)	CTV..LNDWTHDQDqaefTPSYEEFASILL...FTLAFIHRYnlTKADAEILP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.93|      32|      42|     501|     539|       6
---------------------------------------------------------------------------
  501-  539 (43.83/44.15)	PyTDQISRrtYQSGrkelREWAAVEGGG...LLQCIRSAVRE
  545-  579 (55.10/32.55)	P.TNPPPR..YNHG....QFLAACELCGadaVLSAISTELKE
---------------------------------------------------------------------------




































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 MDP06795 with Med5 domain of Kingdom Fungi
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