<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 MDP15505

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMATAAANLPDAPAAATGAAALVPKPGPELVSTPPRRPAKGRLSRAANTILPIRRVAYLKWKHFLVHMMREGASESTFENISRFLWKDYYIAPDPLAVLILTPRLDHYALNPRMQMYLYLALKEGYVDVPSILAALLRFTTLSEIGQSPDTDIGSCWKSSYATDEAIFWQLAKCMSQPLDSPTGPTRRPEFAIDTLLHIVKRLAAWANLFIRVYGVLTNDVLGQVVDVNTRMEIDATHNAFVTLLLRTCEHPGIVRALAKPYAIKCRKIITHSLQLFISSCVQNPHITDRLNNFRLKISELDPCGAITEAEAEQEDSAASDLALEAVASKHIPLTNSRAALYIYLNACLVGRPVIDDAILCNLIRNRYQHDIQNGVVDLILASFDVLANAAFQNEHKSTAQLLRSYLTNKLPLLIVTLSPGLYPTTTPEFVIQMALNQVDPNTFPTLAAMFDDTRNNNNDFTENMRDEFCFACCLHGLIAESSIPALLGETYSTLPPGGKYSKAMLVQEAINDPERAIRLLDELDKTNGNVGAVCQALVEVFGQLCANRDTSLLKTLCSQLARQPRALDVIQLFEKPVTLLQPLCNLLDGWKYDEDQGEYQPVYEEFGSILLLVMAFAYRYNLSPPDMGIRSPDSFVAKLIREGHLSKTLAELTPTEESRLSVWTHSLFGGDTGGLTDELMASCPPQDFYLLVATLFKNMVVANSEGTLSDEALKGGIEYLVDTFLMPSLVPAVLFLADQLSVDLEQEQLAMVKILHLILQPKAIHNDTAPMLVAVMNLTAKPLERALRRYQRRYPTSQAVEPLLAAIKDCIPLSRRTGGADHNELEAWCATPSGGLAIAVRSTIHGFVQWSLNPMIGVSPTLYTHRQILAAIRRMTAQHVIRLIIDEIKAFTAHGSPAQNIAYDVALALIVSPEVTNYPEPVPHLVDDLGNIPIPTQRRLTLREVLGMKATNFREIHRIDPEKAEIVIRLHRHVEEQMAPAPAPPIIDVDIALPLAANAEVDATAQAAAAAGADGTVQQGSADGTASATSAQPTAGDALSDGMDLGMDMGMGDMSVIGSAGGAMDLNGDGDLFGGLGGADDFTWDSIDVIGL
Length1092
PositionTail
OrganismCeratocystis fimbriata CBS 114723
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Microascales> Ceratocystidaceae> Ceratocystis.
Aromaticity0.07
Grand average of hydropathy0.041
Instability index41.52
Isoelectric point5.18
Molecular weight119310.77
Publications
PubMed=23931120
PubMed=24563841

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

>MDP15505
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     161.06|      54|     222|     281|     374|       1
---------------------------------------------------------------------------
   91-  147 (85.53/36.97)	APDPLAVLILTPRldHYAL.NPRMQMYLYL.A.LKEGYV.DvPSILAALLRFTTLSEIGQS
  317-  374 (75.53/101.62)	AASDLALEAVASK..HIPLtNSRAALYIYLnAcLVGRPViD.DAILCNLIRNRYQHDIQNG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.53|      28|      29|    1004|    1031|       2
---------------------------------------------------------------------------
 1004- 1031 (45.86/29.82)	TAQAAAAAGADGTVQQGSADGT..ASATSA
 1034- 1063 (46.67/30.49)	TAGDALSDGMDLGMDMGMGDMSviGSAGGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.04|      22|      31|     649|     678|       3
---------------------------------------------------------------------------
  643-  664 (37.70/16.93)	GHLSKTLAELTPTEESRLSVWT
  673-  694 (40.34/35.59)	GGLTDELMASCPPQDFYLLVAT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.44|      20|      31|     236|     257|       4
---------------------------------------------------------------------------
  236-  257 (30.92/22.13)	THNafVTLLLRTC.EHPGIVRAL
  270-  290 (32.52/17.07)	THS..LQLFISSCvQNPHITDRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.50|      14|      31|     770|     785|       5
---------------------------------------------------------------------------
  770-  785 (19.41/17.87)	PMLVAVMNltAKPLER
  802-  815 (24.09/14.82)	PLLAAIKD..CIPLSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.03|      30|      32|     907|     938|       6
---------------------------------------------------------------------------
  907-  938 (49.78/39.87)	LAL..IVSPEVTNYPEpvPHLVD.DLGNIPIPTQR
  940-  972 (40.25/25.23)	LTLreVLGMKATNFRE..IHRIDpEKAEIVIRLHR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.82|      16|      31|     148|     163|       7
---------------------------------------------------------------------------
  148-  163 (31.42/17.49)	P.DTDIGSCWKSSYATD
  177-  193 (26.41/13.59)	PlDSPTGPTRRPEFAID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.92|      29|      31|     493|     523|       8
---------------------------------------------------------------------------
  493-  523 (44.11/37.05)	TLPPGGKYSKAMLvqEAIND..PERAIRLLDEL
  526-  556 (42.81/28.93)	TNGNVGAVCQALV..EVFGQlcANRDTSLLKTL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.58|      11|      20|     419|     429|       9
---------------------------------------------------------------------------
  419-  429 (22.31/13.00)	PGLYPTTTPEF
  440-  450 (21.27/12.03)	PNTFPTLAAMF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.61|      15|      30|     590|     606|      10
---------------------------------------------------------------------------
  590-  606 (25.76/27.79)	WKYD...EDQGEYQPvyEEF
  618-  635 (24.86/17.48)	YRYNlspPDMGIRSP..DSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.61|      14|      20|     828|     845|      11
---------------------------------------------------------------------------
  828-  845 (22.05/17.14)	WCATPsgglAIAVRSTI..H
  850-  865 (23.56/ 9.55)	WSLNP....MIGVSPTLytH
---------------------------------------------------------------------------




































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 MDP15505 with Med5 domain of Kingdom Fungi
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