<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 MDP27625

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMTDRPFILQVPPTQQRGPQNIAEFVARINPDAFRVLNEAELRRKVEEEKNGVGQDEDVDMESSPSDNEGEPADAKDIITAKHEMLRVIDQTRQTTLYALDFVSLLLSKENPGQAVTTFSPGLRELVGIGTLGATMLDAPTPLTQSRIPDNKLVTIGKRLMDLNKAADTALAASKRLQKEIAAETKYWSEVLAVRNDGWQTSRMPREPQTMGVKFGFNNAAPEFKAVSIAPMRRADNGSVLLDRSSIGHKSQRIQVRILEDGRIVGRSSLPSPVSADAPLQDRVKEMRDTIFAQELWHEINREARTLLNQGVHLEPSSITYTMDASTTVSIRLATLGEEEEGLDEQQEGPQDVMAESLNIALSLLLSHAHRMNELRRSEPGINKGPPRTYPILLPLISYHKYNQSIQTCLQTLSAHISVLRSASVDSSMTVKEPLLSSPPGAPAATSLYTILTRPPAVQFDITITPDSRIRILLKPTQLTGAAFSICCLPALHPGAQNPLATTCPPSTDDYDSLTQVVSYLQAAIPRALAAHYEAVLVVEATVNGGMLGDLPPSPSRWMPLIDGKGIVDPETMRFGIRFSFGRNPAKGGQLELGAQTDYVDGSRKRVRRNWIWPGAQSSLDSVAKHVLARGPPEE
Length634
PositionHead
OrganismChaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Chaetomiaceae> Chaetomium.
Aromaticity0.05
Grand average of hydropathy-0.336
Instability index55.64
Isoelectric point5.89
Molecular weight69537.27
Publications
PubMed=21784248

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

>MDP27625
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.80|      28|     330|      14|      43|       1
---------------------------------------------------------------------------
   14-   43 (45.46/37.39)	QQRGPQNIaeFVARINPDAFRVLNEA....ELRR
  345-  376 (42.34/28.16)	QQEGPQDV..MAESLNIALSLLLSHAhrmnELRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     199.30|      61|     410|     125|     186|       2
---------------------------------------------------------------------------
  125-  186 (94.45/68.08)	LVGIGTLGATMLDAPTPLTQSRIP..DNKLVtIGKRLMDLNKAADTALAASKRLQKEIAAETKY
  536-  598 (104.85/71.35)	LVVEATVNGGMLGDLPPSPSRWMPliDGKGI.VDPETMRFGIRFSFGRNPAKGGQLELGAQTDY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.94|      31|     118|     379|     415|       3
---------------------------------------------------------------------------
  379-  415 (52.56/38.05)	PGINKGPPRT..YPILLPLISYhkynqsIQTCL.QTLSAH
  498-  531 (46.38/22.78)	PLATTCPPSTddYDSLTQVVSY......LQAAIpRALAAH
---------------------------------------------------------------------------




































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 MDP27625 with Med17 domain of Kingdom Fungi
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