<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 MDP10204

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMASEASTVSLNGLVTFCVNKHASPVVFHSLLKQLVHKQEVKVEEVVALLESKEEIDPTVVMFIAGACLGEQVGNFKLATVLSNLESALGANQEIILTALITQLRHTPKIPFNSQELSDSVNALVDYLRYLLNHKSSNDLLMGAAGRFIVLFGGSVPHDLTLAPLSEEQSNTLKSFVMAIQDKIPEVTDDLTEFTEKFMRKNSVNIRQSVSLTSPHSSTSHISFMKTNKLPKVLWLNYALEHWKTHLPTFLVSFDHFVRVKTNQNVLNELLTTAFEGYAIEQQDKKGSQYFAKNWELFLLKRVPVLIRELKLKSTESSLVSALSVILAKASQAIKLQANGNASGEDMFASFPSTVTDVRHEFVKSCIALQLLPRSAFNTILKQDAAAYSGTIPTTDDILDSMGEPVDIKAKFNHTVVEVNPEFTSLEDSGLLEFLQSVEGMEGTKQIQIADLILSSIQEFIKAEDSAHLYRLCLGLSLSVNSLHAIVFHLSPYAILRPIMACLDKWQMSTEETNFQENHSEFGGILLFFMLIVQKFSVSVVDLVSLKTNVESESFCINYLTTLGSSSRRNPSLELNQHKSEVITAWISALFDSGGISDDLMRLSNVQECFELFPIIFQQALIAVKQNLTDVETVKGGLEYFLQPSLLATVVGIVSWCEDYLWRAEDVDLIVSLLKVLVCPTELSGESVHIHRIILSIFGPRLHKCLSTIDSSPTIPSKIDPVFLSSLHTSIKDSDRLEFFEVGTSRTLDALFSESQTNSHASLMHVFGTRFHALLSWGQSPVLPLYDHMFLPNMITFFGIGTVIDYLLSQVQAAQVSASKNSDLVIEVAVFILVAPYVGFSSHDKNVVLATLKSQSLVPYTYKTTPQLHELLQELLRRKEHYEEGTLQYETFDCFLKKILETTESIHPLE
Length909
PositionTail
OrganismCyberlindnera jadinii (strain ATCC 18201 / CBS 1600 / CCRC 20928 / JCM 3617 / NBRC 0987 / NRRL Y-1542) (Torula yeast) (Candida utilis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Phaffomycetaceae> Cyberlindnera.
Aromaticity0.08
Grand average of hydropathy0.111
Instability index46.63
Isoelectric point5.43
Molecular weight101382.27
Publications
PubMed=27535936

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

>MDP10204
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     153.96|      45|      70|     682|     728|       1
---------------------------------------------------------------------------
  682-  728 (72.93/53.10)	LSGES.VHIHRIILSIFGPRLHKCLStIDSSPTIPsKIDPVFLSSLHT
  750-  795 (81.02/50.24)	LFSESqTNSHASLMHVFGTRFHALLS.WGQSPVLP.LYDHMFLPNMIT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.92|      35|      70|     325|     364|       3
---------------------------------------------------------------------------
  325-  361 (56.41/51.52)	IL....AKASQAIK.....LQANGNASgeDMFASFPSTVTDVRHEF
  379-  422 (51.51/31.62)	ILkqdaAAYSGTIPttddiLDSMGEPV..DIKAKFNHTVVEVNPEF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     212.21|      66|      71|     108|     175|       6
---------------------------------------------------------------------------
   65-  125 (41.18/24.76)	.................GAClgeqvGNFKL.....ATVLSNLESA.LGANQEIILTALitqlrhtpKIPFNsqELSDSVNALVD
  126-  195 (98.95/56.50)	YLR.YLLNHKSSNDLLMGAA.....GRFIVLF..GGSVPHDLTLAPLSEEQSNTLKSF..vmaiqdKIP....EVTDDLTEFTE
  197-  254 (72.08/38.77)	FMRkNSVNIRQSVSLTSPHS.....STSHISFmkTNKLPKVLWLNYALEHWKTHLPTF........LVSFD.............
---------------------------------------------------------------------------




































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 MDP10204 with Med5 domain of Kingdom Fungi
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