<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 MDP10968

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMNAHGTDALRLWRQFLSQALVKRLDPAKFAVLVPLQQSRSPLSPTLIADLLLRPDAKNSYAPDPLVPGYVDVLLKQHLVTSAAVLFALAKYSSSRQQAGQNEENNTDGGDGKKTIEKRSTRWTNSYTIEQVIFLRLAKAVKQENAVRSMRDAVDMVKVLIRWMSLFSDMSAAFAADVMGAIHRNNIKLELECSRSAFVLLLSNICENPTVLTALSGTSAKGGRKQLSDSLAKFIATLQPAEIPAQLDMFRTQTLASFEPVDKQKEAAEAQVYEVFDQTVGLDNFQVRELPIDNTRAGLYIYLNAALVGRPLIDDTALFTYLHNRYQGDLQTTAIHLILASFDVLANAVFRNEGLKSGQLLRSYLINKVPLVLASFANSSSIYPFNSEFCITQALSQVDINVFPNLSNMFDNSNTHNTFTENVRQDFFFACLLHGLVSESSREKVLGDITFQELPSGGRYAKDVLVQQCLQNPERIKQLIGEIDAMEGNAGAVCQALAEVLVQLCHNKETMSLKQWCGQLARKPQSLDILLLFNKPELIFQPLCELLDNWRYDEDREDQGEYQLVYEEFSSILLIFQALTYRYGLSAADLKIYSPESFVGKLLSKTHHARHMDDLSDQEKAQLGGWVHGLFDSDVSGLGDELMSSCSPQDFYLLIPTLFQQIVLAFSAGILTEEMLKGGLEYLVEPFLLPSLIPALLYLCTHLWADQRDQQKAVIRILQLIILPNSISNEEASRMLSTVLTIVAVPLEGALRSYLKQDPSNQDIEPLLRALRENIPLSRRTGEAENNDLETWCNSAGGSLTAMVRHVMQSLIQWCQHSTLNGIPPSYTHRQMIVATKMVGAKCLLSTILEELKQQTEAGNGSIAYDVATALICAPDVTNEASLLQSQPMTMLDESGQVPAQLQRRIPLRTALKHAAENWNKSDPSMAEIVVRLYRRVEAQMALPEPQSMLQSNLAMEVGNASLNDAIAAAAAAAAADNGGDPLTLDTSVDLGLGGGGDLGLTSGANSAGGLGLSEEDIFGDLGDPGDFNLSWGANMDLP
Length1038
PositionTail
OrganismConiochaeta ligniaria NRRL 30616
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Coniochaetales> Coniochaetaceae> Coniochaeta.
Aromaticity0.07
Grand average of hydropathy-0.073
Instability index49.46
Isoelectric point4.99
Molecular weight114311.09
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

>MDP10968
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.07|      33|      33|     334|     366|       1
---------------------------------------------------------------------------
  299-  341 (49.53/30.19)	YIYLNAALVGRPLIDDTALFTYLHNryqgdlqttaIHLILASF
  342-  375 (50.54/30.95)	DVLANAVFRNEGLKSGQLLRSYLIN.........kVPLVLASF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.20|      28|      28|     978|    1005|       2
---------------------------------------------------------------------------
  977- 1004 (49.20/31.33)	NGGDPLTLDTSVDLG.LGGGGDLGLTSGA
 1005- 1033 (49.99/31.96)	NSAGGLGLSEEDIFGdLGDPGDFNLSWGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.79|      27|      33|     441|     473|       3
---------------------------------------------------------------------------
  431-  457 (42.21/21.49)	LLHGLVSESSR.EKVLGDITFQELPSGG
  464-  491 (42.58/34.68)	LVQQCLQNPERiKQLIGEIDAMEGNAGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.61|      20|      24|      41|      61|       4
---------------------------------------------------------------------------
   41-   61 (30.88/25.39)	PLSPTLIaDLLLRPDAKNSYA
   64-   83 (34.74/23.56)	PLVPGYV.DVLLKQHLVTSAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.52|      23|      28|     494|     519|       5
---------------------------------------------------------------------------
  494-  519 (33.57/31.56)	QALaEVLvqLCHNKETMSLKQWCGQL
  524-  546 (39.95/25.30)	QSL.DIL..LLFNKPELIFQPLCELL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.17|      29|     125|     770|     803|       6
---------------------------------------------------------------------------
  770-  803 (40.09/38.94)	LRENIPLSrrtgEAENNDLETWcNSAGGSLTAMV
  901-  929 (51.08/31.49)	LQRRIPLR....TALKHAAENW.NKSDPSMAEIV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.13|      15|      27|     651|     665|       7
---------------------------------------------------------------------------
  651-  665 (25.86/12.75)	YLLIPTLFQQIVLAF
  681-  695 (26.27/13.05)	YLVEPFLLPSLIPAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      63.54|      14|      56|     550|     563|       9
---------------------------------------------------------------------------
  550-  563 (25.46/17.36)	RYDEDREDQGEYQL
  581-  593 (14.96/ 6.90)	RYGLSAADLKIYS.
  609-  622 (23.13/15.04)	RHMDDLSDQEKAQL
---------------------------------------------------------------------------




































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 MDP10968 with Med5 domain of Kingdom Fungi
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