<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 MDP31443

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMARTASGATRPSDLISWSRNGFIAYACPVQHSKDNLLLTYLENVNGNSWKLAEPQSISVKLENNFLSELALVEWSYLSTDLAISDVYGNFYILLAGIGLLEPGSEKSTVNSDSSGAASTAAASQNSPSYELTSYNHMEMIYRDIINQDPALPVNPGAAIVSFSWLNIEKVQIINKPAALVTLENQNSSNSPFVYTYGVNQFQPHGVTHPISTKQACVALRQNGQFTLYFQGEHKVEYHKTSVALSDDIVIITKASIGFTNDKQIVVTAYDSVTRNISTYSVTVDWGFLVESAKRQKVDPHYHTPKEEHKTPKLNVTRISASIPVPTFLAAAEEEGMDMDKMDVDADSEDGNQPSYQIGSLASIDIISAGAEKDSSLDILISYTFEDGSGIASSTIYRYSLSEESELISSAFGELGVRKNVTAPANSPTVQTVTLQDKLIRSGTIQSITTALSDYFILLYYLDGHVDVVDRNSMKIVNNSDDTNLPPKTISSIFDVGFNFPKIDNSSNLIMAVSPNLTSVAYADFKGGSTRLNLKVFEKEKYLGISPKELFATSVGFAFRHAYACYTNTCSDDLVALIQTEIVRLQISLQKTITDKPHNIEMIIKKFVESIVSESHKAINFQLDAFNKESVDKLLSNPPLQKLLSLQLVLGELQDKNSIVSDIAWIVLNLRSTSFGIMFSLSSIYRQISKKKPTEDSLQDSITRGECIMSLVGNVKWLIDLMVYINQELLQLSYSKQDSSNSKLTIKNSIALPIILSKVPRLFLMYALSSIGRTHEILKKLHKDLSEASKLFTPMKESLNRYFTICNNSPLTLSLFENFLRECDALITKEQSIRLAGKEKGYSLKVEQKLVCQGELTEDMEQIGKILIDRHAVNINRDMKVSDLYFYDVDWLDIGVNKRSARTSKGLSETVIYPSSQLKPKMIPRLQYSDKECIDSLRKIIISVDMNQITGKTDTSRNGTTNHKAAIANDKIAKLRKCTRCRSVSLVADPLVFDAPSTIGLWTMVFQRTCICGNAWVNCVS
Length1020
PositionTail
OrganismScheffersomyces stipitis (strain ATCC 58785 / CBS 6054 / NBRC 10063 / NRRL Y-11545) (Yeast) (Pichia stipitis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Scheffersomyces.
Aromaticity0.08
Grand average of hydropathy-0.147
Instability index39.23
Isoelectric point6.09
Molecular weight113301.85
Publications
PubMed=17334359

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 (By similarity). 
GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP31443
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.64|      55|     266|      94|     155|       1
---------------------------------------------------------------------------
   94-  155 (91.07/81.26)	LAGIGLLEPGSEK.STVN.......SDSSGAAStaaasqnSPSYELTSYNHMEMI...YRDI.INQDPALPVN.P
  360-  427 (66.57/46.06)	LASIDIISAGAEKdSSLDilisytfEDGSGIAS.......STIYRYSLSEESELIssaFGELgVRKNVTAPANsP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     151.64|      42|     146|     682|     728|       2
---------------------------------------------------------------------------
  587-  611 (24.93/12.14)	...............SLQKTITDKPHNIEMI..IKKFVESIV....
  682-  726 (65.83/64.04)	SIYRQiSKKKPTE.DSLQDSITRGECIMSLVgnVKWLIDLMVYINQ
  910-  947 (60.88/40.25)	VIYPS.SQLKPKMiPRLQYS..DKECIDSL....RKII.ISVDMNQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.60|      25|     534|      11|      36|       3
---------------------------------------------------------------------------
   11-   36 (44.98/42.77)	PSDLISWSrNGFI...AYACPVQHSKDNL
  546-  573 (42.62/34.11)	PKELFATS.VGFAfrhAYACYTNTCSDDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     188.41|      67|     604|     216|     296|       4
---------------------------------------------------------------------------
  216-  296 (89.60/105.97)	CVALRQNGQfTLYFQGEHKvEYhktSV..........ALSDDIVIITKASIgftnDKQIVvtaydSVTRNIST...YSVTVDW...GFLVESAKRQK
  822-  904 (98.80/71.10)	CDALITKEQ.SIRLAGKEK.GY...SLkveqklvcqgELTEDMEQIGKILI....DRHAV.....NINRDMKVsdlYFYDVDWldiGVNKRSARTSK
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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 MDP31443 with Med16 domain of Kingdom Fungi
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