<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 MDP28017

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMETIRVDSKSLNHEMKCYDTISWSKNGFIAYSIPSSNSKDNLLLTYLENVDGKKWQLAKPQKLCVKPTLDGFHSPELSLVSWSNLSTDLAVADVYGNFYILLAGVGLVREDSKTTPPGDSGSPSYELTTYNHLEMIYRDIITNQSNQRPNVAVQFVAFAWLPIEKNQIINTEAKLLNSANSSGMSFSYGYGVEQYRPMNLCHPISTKQACIALRTNGELVLHYQGEHKVEYHKLLVNLNEGYSYNLHIEKVAFGFPNEKKIIVVTYDSLSNKIRTYSVTINWGFLVEAASKQKIDPHFNTPKDLQKSPTLSCCLINEMSPNFKSETEESKPSEYKPKQKIGKLAFIEIISPVYDEKDTIDILIGYEFYDENLKVSTTFNRYKILESSRLISDTFGEIGRKKGAVSDGSNIQKEFNLVYQDKLVLPKRVLKSTNQTSDFLVLCEDGSIESIVKKESKATAWSKNGNSSIPESIRSVMDTGFSMGNLHISGKNPLIIAFSPNGIGAIYTEINEPTTNLKLEFVEKTSSTGISAEELYITAVGFAFQHAFACYCSICSDDILILIQLEVERISRLIKKMIPGSQKQLEATDRFIESILCESHKAINFQLDIFNKESVDKLLSNPPLQKLLSLQLILGGLDYRVNDISENIAWIILNLRSTSFGIMFSLSSIYRQISKKKPTEDTMEDSITRAESIISLIGNVRWLVELIICLNEELLQIYISRKHPESSVIDLNNSIVLPVLLSKVPRLFLMYALSSIGKTHEVLKKLNKDLSDSNKLFTPMKDALNRYFTACANSPLNLNLYESFLRECDTYITTETLNLTKTRPKGHILKMEQQLVCDGKVHEDMVKMGQWIVAKFASNIPRDLKVAEMFYYNVDWLDISYKTSIPRHTYTKHGRIDALRKVLIDAKDTSVILRKCTRCRSISLVNDPLVFSNGTLGLWTMVFQRTCICGSAWVNI
Length955
PositionTail
OrganismCandida tenuis (strain ATCC 10573 / BCRC 21748 / CBS 615 / JCM 9827 / NBRC 10315 / NRRL Y-1498 / VKM Y-70) (Yeast) (Yamadazyma tenuis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Yamadazyma.
Aromaticity0.09
Grand average of hydropathy-0.186
Instability index39.59
Isoelectric point7.72
Molecular weight108013.98
Publications
PubMed=21788494

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
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28017
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     186.19|      62|     176|     294|     367|       2
---------------------------------------------------------------------------
  294-  367 (92.60/73.85)	IDPHFNTpKDLQ...KSPtlsccLINEMSPNFKSE..TEESKPSEYKpkqkigKLAFIEIISPVYDEKDTIDIL.IGYEF
  476-  543 (93.59/49.31)	MDTGFSM.GNLHisgKNP.....LIIAFSPNGIGAiyTEINEPTTNL......KLEFVEKTSSTGISAEELYITaVGFAF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.04|      12|     434|      23|      36|       3
---------------------------------------------------------------------------
   23-   36 (21.21/15.01)	WSKNGfiAYSIPSS
  460-  471 (25.83/12.08)	WSKNG..NSSIPES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     150.86|      46|      84|     640|     685|       4
---------------------------------------------------------------------------
  640-  685 (77.31/58.03)	VNDISENIAWIILNLRSTSFGIMFSLSSIYRQISKKKPTEDTMEDS
  727-  772 (73.54/54.80)	VIDLNNSIVLPVLLSKVPRLFLMYALSSIGKTHEVLKKLNKDLSDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.01|      22|      22|     840|     861|       7
---------------------------------------------------------------------------
  840-  861 (39.84/32.39)	VHEDMVKMGQWIVAKFASNIPR
  865-  886 (40.17/32.73)	VAEMFYYNVDWLDISYKTSIPR
---------------------------------------------------------------------------




































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 MDP28017 with Med16 domain of Kingdom Fungi
Unable to open file!