<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 MDP34003

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTTLDLPNNYSTNVFTLNDFAEIAYIVCTVATPPTQDAVASSSTPENILARLRKTEQQFREASILAALDVETRQLFTFYKKVDIANAKDQKTLLSKFGYVLRSNTCTIAYKTAARLPDLIKPEQARLYRLFTTAVVSSIKLLPDGDSAVQPVGPNLYLVERTASEGMNSFESISKWSLYRIDLQVIPSGLLVLTIAKDGNLTFLRMLEVTQDSNRLQRLMRDSTAVYLAPVGRIARLAYRGIESRIALAADHPGQVLVGDQTLDVWKQLWKELLPPWLKENMTTATGTEDPGWIEAEIPVQEVDAESRRSPNSPSSPQSSDEKVIWKPISWPASLCFVLDSHCTDPVSPTSSDEDPMQFVQDWLTGTGKQPASTMMAGRSHRDTGEDDDELLFADEDAFEDSEHFQPFAPPAFPGSQSIYPTPPDVLMAHPTPGLSSMDGVSMTPANLARGPSDAVQQYDSEMQDLEDVSGPGGLSGFYDEDLFEELPDDHFGQEGNGDEPNWDFFDRPGGDNKATPMATLARGEIFSARTELPDGAKSAEDRLANDDIRMRWEHQSDSNKVTAPASTTSWPEGNMEKQDSTSNTEKRSFPRQLDLENRSQTSQRSGHPKSRYNVVATHPKGAGPSRRSSMYDGIRPMSTTSDRDNRYMADGDYWFDPNPEAPQSSHPSKFATIFQRPSSSSSGSGSSVGSLYPSSALEASGRKSPDFPRQWTEYQQPPDVVNSLSEVDRKSAEHEIQHLLTLLKPGFLEVPSITDFGSHDGLHTIPEVGSNELMQIAHVLVEQISQTSLNTTEMRLSESPEMPGDLLGVNVDLSGINTSTNASSVQQLVHLKVDSNNSKGQGKIVKLLPSQICVRRADQPLLASASILDFWDTLNLQPESGVKNVTAFCIHPDARNVADGCSNLLHRMADTYSSCALGSHSTGRLPGVTDDGLVIWDQKGPSRSGLHETCQRLGSALATASSTNDTVIVYMISQDKSAAAYLQACQAFYTLFESFRRGLGDRQDFFDIALQVIPPDFIASPETLVIHPQSTYIKLAIEVYNRLPPSDLSGPPAAAGSAIVLAKADSSVHFRLSPTFTSPLFKNGPCLHLAYSISVNGRWITAAWTDELGRVALIMSYCIRLYDPARQRPRQEIFQEMWEVSHDIMGRVHSSWHLAVVKQGHYEPAEVLEWQQIIDGSSTSRTGCLTLLVSVQLEPVLRVFPPHAQSKSGQPSLQNTYGTPASTPQASMTSPDQIVAATPTPGGSSNLNAPTPSDPGFDPNIDGDLTLLDPTEESWGLILPYGVNQSTNMVDLHPALATGLLIKRRGPKIEDGCIAIEVSLIRSSAPATATSTESSNDELLEELIAQYRGLVTLAVTRGCIDPLIECVPWHIAASSRGSRILGEVL
Length1387
PositionKinase
OrganismCapronia epimyces CBS 606.96
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Chaetothyriomycetidae> Chaetothyriales> Herpotrichiellaceae> Capronia.
Aromaticity0.07
Grand average of hydropathy-0.366
Instability index51.57
Isoelectric point4.91
Molecular weight151771.08
Publications









Function






Annotated function

Component of the SRB8-11 complex. The SRB8-11 complex is a
regulatory module of the Mediator complex which is itself involved in
regulation of basal and activated RNA polymerase II-dependent
transcription. The SRB8-11 complex may be involved in the
transcriptional repression of a subset of genes regulated by Mediator.
It may inhibit the association of the Mediator complex with RNA
polymerase II to form the holoenzyme complex.



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

>MDP34003
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     504.62|     119|     125|     440|     560|       1
---------------------------------------------------------------------------
  249-  323 (75.28/35.02)	............................................................................LAADHPG.....QVLVGDQtldvwkQLWKELL..PPW.lKENMTTATGTEDPGWI....EAEIP.....VQEVDAESRRSPNSPSS..PQSSDE
  342-  443 (93.90/46.71)	SHCTD.PVSPTSSDEDPMQ..............FVQDWLTGTGkqPAStmMAGrshrdtgedddellFADEDAFED..SEHFQ.....P.................FA..PPAfpGSQSIYPTPP....DV.LMAH.PTPglssmDGVS.....................
  444-  559 (190.63/105.11)	...MT.PANLARGPSDAVQQYDS..........EMQDLEDVSG..PGG..LSG..............FYDEDLFEELPDDHFG.....QEGNGDE......PNWDFFD..RPG..GDNKATPMATLARGEI.FSARTELP.....DGAKSAEDRLANDDIRMrWEHQSD.
  560-  682 (144.81/72.78)	SNKVTaPASTTSWPEGNMEKQDStsntekrsfpRQLDLENRSQ..TSQ..RSG.......................HPKSRYNvvathPKGAGPS......RRSSMYDgiRPM..STTSDRDNRYMADGDYwFDPNPEAP.....Q..SSHPSKFAT..I...FQRPSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     365.60|     117|     120|     804|     922|       2
---------------------------------------------------------------------------
  722-  799 (57.18/29.85)	.............................................VVNSL.S........EVDRKSAEheiQHLL................TL.LKP..GfleVPSITDFGSHDGLHTIPEvGSNELMqiaHVLVEQISQTSLNTtemrlS
  804-  922 (194.00/130.85)	MPG...DLLgVNVDLSGINTSTNASSVQQLVHlKVDSNNSKGQGKIVKLLPS........QICVRRAD...QPLLAS.....ASILDFWD.TLNLQPESG...VKNVTAFCIHPDARNVAD.GCSNLL...HRMADTYSSCALGS.....H
  927- 1031 (114.42/68.89)	LPGvtdDGL.VIWDQKGPSRSGLHETCQRLGS.ALATASSTNDTVIVYMISQdksaaaylQAC..QAF...YTLFESfrrglGDRQDFFDiALQVIPPDF...IASPETLVIHPQ....................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.70|      17|     215|    1154|    1170|       6
---------------------------------------------------------------------------
 1154- 1170 (32.24/20.75)	WHLAVVKQGHYEPAEVL
 1371- 1387 (30.46/19.18)	WHIAASSRGSRILGEVL
---------------------------------------------------------------------------




































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 MDP34003 with Med13 domain of Kingdom Fungi
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