<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 MDP17708

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMTSLQTWQTFFSRSLATRLETSSFESFVQLLSTKHPLSASRISELFLRPTENNAVSLDPRVVRYVQVLLGLELVTVPSVLRALWKVSSFRDQAGHDDGLEKNAVGEENGAIVPTKAKEEGKRWSNSYTAEETLFLRLTKYISAGTAPHNTQEAVELVMVCVQWMRTVISVISVQHAAQEMLGLAQTHAAEMASQNMALATLVSAVVENGRVLHALGKGSVPKPVRKELKDALANFVPLIIQSSPQAARALEIFRTQTILAIEPFDKKERAADKEIEEILEDNMVVENMVVADMPTMNTRAGLYVYLNSLLVGRPLIDDHAIFSYLNNRYQGDIQSTIIDLILAAFDILANATFRNERAAFITILRSFLINKIPLLLATLSASLFPPLTSEYCITEALSHVDTNAFPTLSGMFDELSTNNMLSDSVRQDFCFACCLHGLIAESSIETLLGDVPMQSLPAGGRYMKDELVQQCLSDPERTEGLIDELEHMDGNVGAVSQAITEVITRLCANKETMSLKSLCSQLARKPLALDVMLLFDKPTSILQPLVELLDNWRYDEDQGEYQPVYEEFGLILLLVLSFTHRYGLTVVDLGIRAQDSFVAKLLNQGHLSRAMEELTEQEQSHLDGWIRGLFEVGTLGDELMSSCPPQDFYLLVPTLFHHIVLACSTKNLTDEGLKSGLEYLVEPFLIPSLIPGITWLSSHLWESRGDASACIAILTALITNSSSNTEASQMLTAILNIVAKNLEHSLRWLQRAEPTRQDVEPLSKALRPSLGWERRGASDHTELETWTSSPSGGFVVAIKQTMANLVQWGLNPGININPANYTHRQILVGVKMLGAKRILNTIIEEVKSQTETGNGSIILDVASALICAPDPQSWDNGAPGIDVLGTEPRPLQRRMNLREALKNEAAAAPKLHKTDTLHAETVVRLYRKVEAQLLMPQQTLMSHDALDIHQALDSAALDGAMAGVGSLDGMGGNDMGMGDGMGDADLMHGLMGSGGGDLLDFGAGDLGAMGDGMGF
Length1015
PositionTail
OrganismHyaloscypha variabilis F
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Hyaloscyphaceae> Hyaloscypha> Hyaloscypha variabilis.
Aromaticity0.06
Grand average of hydropathy-0.002
Instability index45.25
Isoelectric point4.97
Molecular weight111244.11
Publications









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

>MDP17708
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.61|      21|      21|     740|     760|       1
---------------------------------------------------------------------------
  740-  760 (37.41/23.40)	KNLEHSLRWLQRAEPTRQDVE
  764-  784 (37.20/23.23)	KALRPSLGWERRGASDHTELE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.40|      28|      29|     955|     982|       2
---------------------------------------------------------------------------
  955-  982 (56.79/36.68)	AAL.DGAM.AGVGSLDGMGGNDMG.MGDGMG
  984- 1014 (43.61/26.28)	ADLmHGLMgSGGGDLLDFGAGDLGaMGDGMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.98|      18|      21|     297|     317|       3
---------------------------------------------------------------------------
  299-  317 (26.97/27.77)	RAgLYVYLNSLLVG...RPLID
  319-  339 (28.01/14.40)	HA.IFSYLNNRYQGdiqSTIID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     186.17|      58|      86|      45|     106|       4
---------------------------------------------------------------------------
   45-  106 (87.79/84.38)	LFLRPTENNAVSLDPrvvRYVQVLLGLELVTVPSvLRALWKVSSFRDQAGHDDGLEKNAVGE
  133-  190 (98.38/79.52)	LFLRLTKYISAGTAP...HNTQEAVELVMVCVQW.MRTVISVISVQHAAQEMLGLAQTHAAE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.56|      15|      22|     854|     871|       5
---------------------------------------------------------------------------
  854-  871 (23.39/24.80)	NGSIILDVasaLICAPDP
  876-  890 (29.17/20.74)	NGAPGIDV...LGTEPRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      61.98|      15|      22|     535|     549|       6
---------------------------------------------------------------------------
  509-  522 (16.89/ 6.59)	.NKETMSLKSLCS.....QL
  535-  549 (25.54/13.20)	FDKPTSILQPLVE.....LL
  554-  573 (19.56/ 8.63)	YDEDQGEYQPVYEefgliLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.37|      13|      22|     686|     698|       7
---------------------------------------------------------------------------
  686-  698 (24.74/17.75)	IPSLIPGITWLSS
  711-  723 (20.63/13.46)	IAILTALITNSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.54|      13|      86|     252|     271|       8
---------------------------------------------------------------------------
  238-  250 (20.43/19.49)	LIIQSSPQAARAL
  259-  271 (21.11/ 6.02)	LAIEPFDKKERAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.28|      13|      27|     595|     607|      10
---------------------------------------------------------------------------
  595-  607 (22.17/14.65)	DSFVAKLLNQGHL
  623-  635 (24.11/16.64)	DGWIRGLFEVGTL
---------------------------------------------------------------------------




































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 MDP17708 with Med5 domain of Kingdom Fungi
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