<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 MDP33257

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSEGEAQQLIQKLLLQVLSRRLPQSKWLSLLHQLVRRIDASRQDAGGDDEDGMSLAGSQAAGCLVKQILSQSSIDPLLTEYLQALIYGSANRSGVEPDQGPVTDVITVTLHLLANVQIAAANVPAIETISSVTGQGLLMTFQGPAPFRISSPAFLHLLQSLFAGPSNAVAQLASSEALSKDGTIAPAALAFVVSNLRLLALAADPTIASPQNLLAPRVAITVLINVAQGLLAYTIQKLSVAQTSKDYKLKPHDDALRHTRSMSRSCVTEIEAVLQSMNPAWKDEIALLRSLTSQIGVVEQVSEALSEAATTSRTSTQARKRKAETWQDAQQRATWDHFLNVSSIAATEKPPVEPEMALLMHVLVDQHVAWERKLDAVKTLFLARRNAAAPSLTLEKSLTAYYFELLVAAIDACASIVEMPPAFKGAEVYAAIWRNALCGMVPEIVLQLEQWLDVQQDLPLRGQRLEAPHVRLEAALRAALLVMADRLNTCESATGQSHAQSSGAEEAAAMTDVLGLDTPPSQPIKAWLLRASIEHALARPEAIADEFPDGHKLASEVQSLTQSLRMDAQLEGLALSTLFETRVPSDDPHELLHRVASDPGTHFSFARQLVFQMQSWLEQHDLESIARWCKALSEDACEGGAVLDTVMLYIDPLEMLEPLASVLDHPELGQTSDEPSTLSNILLFAQLLCYRYAIHPSRISRYIPPNNDLDESQTSQDTAPPFLATHLATTSFCSPLATLSEDERALVGRWIHALFGNEGISDDLISLSPPTTLLRLSPLLFSQSISACQHGVIDLETLRGGLSYFLQDLLSFALPSALVWLLGEIVRTPQQPVLDFLAECGLQSTVVDVPSVDGALANGLKRNATSRTVGLEVLALLLDTEACPGVVREVIARDFHTFVQAVEGDAGLANGCETFELGALRARMEGKGVTAGLLSGAGRTWVRGKASGVGPLLATSGSSNVDRAVRTMGKTDAAEQKALAGWLCLVAPALKSVDTPLPAVLSFIQRLDFAKADEGAIESLVRVLGLVLGLIRAGEAQRSTPNNVASDLLAPSANEKAAEVVAAGGEGADLFDDEPTTPPLPSTGVPLNGATQAGTATAASTAATSISAALLIASPDFSITSRQLLDLIVLKLVRFKSAVQKGARGCTRAKWEVLESALMDHLSELSPVDEADGVAESRHSGLSAWLALLQ
Length1190
PositionTail
OrganismKalmanozyma brasiliensis (strain GHG001) (Yeast) (Pseudozyma brasiliensis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Ustilaginaceae> Kalmanozyma.
Aromaticity0.05
Grand average of hydropathy0.093
Instability index47.70
Isoelectric point5.00
Molecular weight127274.76
Publications
PubMed=24356824

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

>MDP33257
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.97|      17|      19|     918|     934|       1
---------------------------------------------------------------------------
  918-  934 (29.79/15.39)	GALRARMEGKGVTAG.LL
  936-  953 (27.18/13.49)	GAGRTWVRGKASGVGpLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.90|      15|      19|     129|     144|       2
---------------------------------------------------------------------------
  129-  143 (27.21/10.79)	ISSVTGQGLLMT.FQG
  149-  164 (20.68/ 7.21)	ISSPAFLHLLQSlFAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     137.77|      43|     209|     535|     617|       3
---------------------------------------------------------------------------
  550-  597 (60.09/84.56)	GHKLASeVQSLTQSLRMDAqLEGLAlstLFETRVPSDDPHELLHRVAS
  619-  661 (77.68/26.66)	QHDLES.IARWCKALSEDA.CEGGA...VLDTVMLYIDPLEMLEPLAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     313.43|      74|      75|     378|     452|       4
---------------------------------------------------------------------------
  318-  374 (88.89/48.73)	.....ARKRKAETWQDAQQRATWDHF.LNVSS..IAA....TEKPPV.....EPEMALLMHVL...VDQHV.AWERKL
  378-  452 (120.58/73.55)	KTLFLARRNAAAPSLTLEKSLTAYYFELLVAA..IDACASIVEMPPA.FKGAEVYAAIWRNALcGMVPEIVLQLEQWL
  456-  528 (103.96/58.26)	QDLPLRGQRLEAPHVRLEAALRA...ALLVMAdrLNTCESATGQSHAqSSGAE.EAAAMTDVL.GLDTPPSQPIKAWL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.08|      13|      19|      14|      26|       5
---------------------------------------------------------------------------
   14-   26 (21.94/12.38)	LLQVLSRRLPQSK
   30-   42 (22.14/12.55)	LLHQLVRRIDASR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.36|      16|      20|     997|    1014|       7
---------------------------------------------------------------------------
  997- 1014 (21.88/20.22)	LPAVLSFIqrLDFAKADE
 1020- 1035 (25.48/15.67)	LVRVLGLV..LGLIRAGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.37|      40|     869|     244|     306|      10
---------------------------------------------------------------------------
  264-  306 (59.42/71.29)	RSCVTEIEAVLQSmnpAWKDEIALLRSLTSQIGVVEQVSEALS
 1144- 1183 (68.95/33.41)	RGCTRAKWEVLES...ALMDHLSELSPVDEADGVAESRHSGLS
---------------------------------------------------------------------------




































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 MDP33257 with Med5 domain of Kingdom Fungi
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