<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 MDP31743

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSTGEAQQLIQKLLLEALARRLAQPKWLSLLHQLVRRIEAAQDDDGTFDVIPSLEGSHAAECLVKYLLSQSFIDPLLIEYLQALIYGSANRSGVSPDQGPITDVMTVTLHLLANVQAAASNVPAIEIISSVIGQGLLMTFQAPVPFRVSSPSFLALLQRLFADPTYEQDQTPSFPVDHVDTGASDIKVAPASLGFVVANLRLLALAADPAIASPQNLLAPRVSITVLINVGQGLLAYVTQILSAAQTAKNDKLKPDGAILQQLRSMASTSLTEIEAVLRSMNPAWKDEIALLRSLTSQIGVIDQISESFAEANTSKLSTRPTKRKLETLQDAQQRATWDHFLDVSTIAASEKPAVEPETALLMHLLVDHHTSWDFKLDAIKTLFLARRSAAAPSLTLEKSLTAFYFELLVAAIDACAAVVEMPPAFKGAEVYATIWRNALCGMIPELVLQLEQWLDGNQELPLRGQRLEAPHVRLEAALRAALLVMSDRLNVCESATNQSHAHGNVAATNGEEAAGAHANMMSDVLGLGTPPSQPIRAWLLRACIEHSLARPEAIADEFANGHKLASEVQSLTQSLRMDAQLEGLALNTLFETRIPTDHPVELLQRVASDPGTHFIFARQLVLQVQGWLEQHDLESIARWCKALTENACEGGAMLDTIMIYIDPAQMLDPLASILDHQDLGQTSDEPSTLSDILLFVQLLCYRYSTPITRISRYTVSNHDMDTVDSSAPLHRSMPPFLATHLATSSVSYPLSVLSEEDRGLVSRWIHALFGNEGISDDLISASPPTTLLRLSPLLFSQSISACQHGIIDLETLRGGLSYFLQDLLSFALPGALVWLLSEISRTPLQPILDFLSESGLQASVVDVPSSDGTLANGLPRNATSKSVCLEVLALLVDTDACPSSVRQLIAKAFDAFVSTIEADVTAAPQLAVGCETFNLASLKARMEGAGVTARLLSETGASWLQSVAAGHQDSRSKLFSMLTTLQPSVHAMDRLIGALKSGQVGRNGRDQKGLAAWLCFIAPASEPTSALRFVQRLELGDIEESAIEGVVRIVGLVVGLIMAAEAQRATTDAVADDLLALARAADTNARGTKATVADTTAAARPAEADLFDDEPCSPQPPHAAANATSHTSNAAPTVTSAASLLASGELRTTSKQVLDMMALKLVRFRSHMLGEKNAKSTTISAKWATLQSAIADHLAGGEAWHGAQQCRERTQNDAPVNGGKDADSGSGLSAWLSAMS
Length1237
PositionTail
OrganismUstilago maydis (strain 521 / FGSC 9021) (Corn smut fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Ustilaginaceae> Ustilago.
Aromaticity0.05
Grand average of hydropathy0.083
Instability index46.03
Isoelectric point5.10
Molecular weight132754.86
Publications
PubMed=17080091

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	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP31743
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     246.89|      80|      85|    1051|    1133|       1
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 1051- 1132 (119.13/74.62)	VGLVVGLIMAAEaQRATTDAVADDL.LALARaADTNARGTKATVADTTAAARPAEADLFDDEPCSPQPPHAAANATSHTSNAA
 1135- 1215 (127.76/74.48)	VTSAASLLASGE.LRTTSKQVLDMMaLKLVR.FRSHMLGEKNAKSTTISAKWATLQSAIADHLAGGEAWHGAQQCRERTQNDA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     188.37|      63|      85|      67|     148|       3
---------------------------------------------------------------------------
   31-  106 (63.21/56.68)	..LHqLVRRIEAAQDDDGTFDVIPSLEGSHaaeCLVK...............yLLSQSFIDPlLIEYLQaliygsanrsgvSPDqGPITDVMT
  107-  181 (95.08/62.57)	VTLH.LLANVQAAASNVPAIEIISSVIGQG...LLMTfqAPvpfRVsspsflaLLQRLFADP.TYEQDQ............TPS.FPVDHVDT
  198-  222 (30.09/ 7.80)	ANLR.LLA...LAAD..PA...IAS..PQN...LL....AP...RV...............................................
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     285.52|      83|      86|     720|     803|       4
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  720-  782 (91.30/54.23)	.............................DMDTVDSSAP..LHRSMPPFLAT.........HLATSSVSYPLSVLSE..EDRGLVSRWIHALFGNEGISDDLISA
  783-  864 (108.90/70.75)	SPPTTLLRLSPlLFSQSISAC...qhgiiDL...ET.....LRGGLSYFLQD.........LLSFALPGALVWLLSE..ISRTPL.QPILDFLSESGLQASVVDV
  866-  959 (85.33/50.38)	SSDGTLANGLP.RNATSKSVClevlallvDTDACPSSVRqlIAKAFDAFVSTieadvtaapQLAVGCETFNLASLKArmEGAGVTAR....LLSETGAS......
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.80|      45|     273|     293|     342|       7
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  293-  342 (59.26/52.75)	RSLTSQIGVIDQIsESFAeANTsKLSTR.PTKRKLETLQD.AQQRATwdHFL
  570-  616 (71.53/41.60)	QSLTQSLRMDAQL.EGLA.LNT.LFETRiPTDHPVELLQRvASDPGT..HFI
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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 MDP31743 with Med5 domain of Kingdom Fungi
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