<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 MDP07284

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSAADVTRAAFATGVSPSTWAKLVRTATGGAPYHGALYGPEICETLLDLLSQYTASPSLLAYLALSLGLPATAPLDLTQSYQRTTDAPLVPLYVYVRTLTHALGTFPSRLPLPLAEPLCKLALLANQAYHNPMLGPAPSAPNPMLAPAASPLPLIPPFVILLSALAAHPQPNTPTPTAVPELFLYTLSLLQVDHQISSLTPGEKHSILQAIEASYAFANVFLIAHKGLVRVQELIRMQEAGEGGIWGGLGGLGMGMGVGVGELVGAQEGGAQGQAQWAGTERDKLAPSLPLMSLLLSSMVEHRSTPFGAGSTPASLSLLQLLHPTDPTPPEQLLASYSSLLQSSISLITLHPYPPASASPASTSPSEPAPPGYGEAVLWRAFVLGRLPFLLAELGVGSGEEGRQAMEGAVKGVFDEWRRELDMCNPPGPAGAAAGAGFGSSDPVDEEARPPSFRIDLLRSLVGSDLLSEEAATRVCPSFTRQDSPLSIEAAENMSTPEEYVEDRLGGASAEDALAFLTRMEGDWRAHRLLAQWFLDRFGASAKSGEADLEQLSGACRLLYSHRLALELISLWTPVDGFVRTASEFLGQFDFDAVNDPQSALGLYGEVVLFCQFALSKFNFPEHADSSDPAPWSALLTPSRPHPLRTLTEDERSLLARWLKALFSPNEGIDDPMLRATDPAMLLRLTTTFFHQAILARSLDVIDSETLHNGVGYFLSGLLSWTLVGIVQYLAAEAERQGPYSSLHFEILQMILVSESCPKPVLAVTGASVLRVLTNARLANAMQAGGVNVQAMRDVVNKALGTTEDPFTDVNCNYRHTLPSWSDNCQSAVREAFTQAQMNKVTTLEVDRWLDVLRPREFIEILWDSCVAGASMGAMDGCRIVTAFSLSGLRSPTSPPLLPYFLLVFVPGLLLDLDWIPRPQMTANMDTLVSIIVSACHLSFQLERAFLKTADGAPLSIELRSRLQPRVWLNALAERLEASSATSSHLLSKRLHVVLND
Length997
PositionTail
OrganismCalocera cornea HHB12733
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Dacrymycetes> Dacrymycetales> Dacrymycetaceae> Calocera.
Aromaticity0.07
Grand average of hydropathy0.096
Instability index47.40
Isoelectric point5.06
Molecular weight107292.51
Publications
PubMed=26659563

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

>MDP07284
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.89|      20|      30|     229|     254|       1
---------------------------------------------------------------------------
  229-  248 (38.60/33.48)	VRVQELIRMQEAGEGG..IWGG
  258-  279 (33.29/14.07)	VGVGELVGAQEGGAQGqaQWAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      91.13|      26|      30|     503|     530|       2
---------------------------------------------------------------------------
  503-  524 (26.82/19.49)	..........DRLgGASAEDALAFLTRMEGDW
  526-  554 (29.81/18.58)	AHRLLaqwflDRF.GASAKSGEADLEQLSG..
  555-  579 (34.50/16.98)	ACRLL...ysHRL....ALELISLWTPVDGFV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     103.95|      26|      26|     311|     336|       3
---------------------------------------------------------------------------
   71-   96 (30.73/10.29)	AT......APLDLTQSY..Q..RTTDAP.lvP.LYVYV
  149-  186 (24.59/ 6.80)	ASplpliPPFVILLSALaaHpqPNTPTPtavPELFLYT
  311-  336 (48.63/20.48)	ST.....PASLSLLQLL..H..PTDPTP...PEQLLAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      91.22|      22|     230|     361|     389|       4
---------------------------------------------------------------------------
  361-  382 (40.52/13.97)	ASTSP..SEPAPPGYGEAVL..WRAF
  397-  418 (22.57/11.37)	GSGEE..GRQAMEGAVKGVFdeWR..
  439-  461 (28.13/ 6.06)	GSSDPvdEEARPPSF.RIDL..LRSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.40|      26|      49|     849|     887|       5
---------------------------------------------------------------------------
  849-  877 (43.29/25.43)	WLDVLRPREFIEILWdscVAGASMGA.MDG
  901-  927 (42.11/28.04)	FLLVFVPGLLLDLDW...IPRPQMTAnMDT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     138.66|      47|     490|      97|     154|       6
---------------------------------------------------------------------------
   97-  154 (70.25/47.50)	RTLTHALGTFPSRlplPLAEP............LCKLAL.laNQAYHNPMLGPAP.SApnpMLAPaasPLPL
  580-  644 (68.40/29.10)	RTASEFLGQFDFD...AVNDPqsalglygevvlFCQFALskfNFPEHADSSDPAPwSA...LLTP.srPHPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.03|      10|     467|     480|     489|       7
---------------------------------------------------------------------------
  480-  489 (18.73/10.89)	TRQDSPLSIE
  949-  958 (18.29/10.45)	TADGAPLSIE
---------------------------------------------------------------------------




































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 MDP07284 with Med5 domain of Kingdom Fungi
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