<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 MDP27509

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDTGDYDTNTLLIVCWPAFSSDRPPSLLTRLSLQNNLSAIAFRVYEPVAANTASYTFQPQVVEDALRRDGHLVHVDTTRRCIWVFYLTTKDGSSLGPEERGLTAKMEVCGYSLGLSGEGSFEPSSLFRSRQLGTNSLNTPNSSSSAGSAVDPTFRNPQASAFPTAAGGAMAGAPAVDNKAASHIMLDSDRFAHVPIKEKYDFFITATLASLSSSLCHTIGAIPLDHRSILLPNQAYYLDEFIIGPKPHNSALGTFRVYLTSTGTLVISLSVSLLEGLASFAELARSNMLPSNPVVLAAPLGAFGSMMNPVDGDLYGLDSGYGQSPDTQISRLRPDPTDRLSQWKATCCKVLQMRGISPSLINGCSWFNVHFLQRKPYEHRQDAKRAPLMHPPQIAPWPSVLCFRKPRIDVGADKRSSKALAASTSDSLDPVDDARQWCQGFPEREETIAKRKKEKDEREVLAAVSRSIADADSNNNQINAASPMALRRPSNGGAITASSAMYPTPPDGIQPLGMASSVETGFAASPANQPQLNSMGGIDIVLQNNAPHVQNFGNGWESGEIKREQQAGNLLEGDNMFGDLGEDMFEGNELTDADFNFFDEQLNEQPEGVEMNLATIPEMGTAMDLSADTGQPTNSAPQTSDRVEQYKTIPQPAPPEFTKPELKHARSTLAEGSRQQANQESFNRNSTIGIKRQSSPFNRETVYKRIKASLRPPPKPRSPSTASSQRRRSIFEKVDFDPSLSLVNKKYTENGPFNYMVPAVQEMQKTRLELRNPLVTRVEKPPKEPPSNFGALLARIAHGIGGGSTGREEIASETDDSSWASDRDDSSDESDYAPSLAKSGISRRRLDDDVLSTAASFKDLENVVADTPAYGSIDLARLSHPEVPEFSIAKYFADPEPARLHVSCSDMDFITIAQILTEQVATGSLQVAPKILNRKPQEVRKTLAKAVRYSMQGLRKALPRSLADAVECSLKPFADVQDVPLIALAQPQRIQAKPMGQEMTTRNIYPITTPHIEIRRYETPFSMLPTAISFWESLGLSPAKGTKDIVSVCVFPNIDGIRDSASAFLQRIRSVYESLKLGTFDILPAVMELEDGLLAYMSTPQPAVRDEWSISPFDGPMSCLADALMSVQMTDKNYVVFFVYPDDRPSSVVETCAAFHDLYERYKRCMADNRKPITNELVLQLVPLGSIASETTVTVMSPFDYIKLCLETYDRCTLFGGPMPAPAIVLEPQVLRAIDFKLNTNPSPNLLQENSCMHVAYAQSVDERWITAAWTDYRGTRQMTTSYCLGRRDRPLTRSIIEIIQQIWETTMDHIHFARVHWRVVVTKCSPMEQQEIEFWANLQQSESYANVSLTLLTVDTNPSLQLIPPAQRIQIPSAALSSNSPASTPQASVLSPDQGGLGPPTPIGTGPSSSTNAANDNTTNNNTTDSDADSTLVDQLDMTWAVIAAHRLNNSTSLTELNHALASGYLVKRGGLKLEDVPVTMEVNVIHCEGTNIPQPHQYPRVYEILLKEMLSHFRGLGTLARARGVVDRETDVRPWHIAAAEKAVRALYLLM
Length1553
PositionKinase
OrganismSordaria macrospora (strain ATCC MYA-333 / DSM 997 / K(L3346) / K-hell)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Sordariaceae> Sordaria.
Aromaticity0.07
Grand average of hydropathy-0.341
Instability index50.72
Isoelectric point5.51
Molecular weight170609.75
Publications
PubMed=20386741

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

>MDP27509
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.41|      26|      53|     321|     348|       1
---------------------------------------------------------------------------
  321-  348 (44.85/25.59)	YGQSPDTQISRLRPDPtdRLSQWKATCC
  377-  402 (50.56/23.88)	YEHRQDAKRAPLMHPP..QIAPWPSVLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     119.43|      35|     482|    1007|    1044|       2
---------------------------------------------------------------------------
 1007- 1044 (59.30/48.60)	ITTPHIEIRRYETpfsMLPTAISFWESLG.LSPAKGTKD
 1494- 1529 (60.12/39.84)	IPQPHQYPRVYEI...LLKEMLSHFRGLGtLARARGVVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     505.62|     134|     210|     848|     985|       3
---------------------------------------------------------------------------
  646-  742 (108.48/72.81)	.............................................YKTIPQPA.PPEFTKPELKhaRSTLAE.GSRQQANQESFNRNSTIGIKRQSSPfnRETVYKRIKASLRPPPK..PRSPSTASSQRRRSiFEK...VDFDPSLSL.
  848-  985 (210.00/162.24)	DDVLSTAASFKDLENVVADTPAYGSIDLArlshPEVPEF..SIAKYFADPEPA.RLHVSCSDMD..FITIAQ.ILTEQVATGSLQVAPKILNRKPQEV..RKTLAKAVRYSMQGLRKALPRSLADAVECSLKP.FAD...VQDVPLIALA
 1055- 1188 (187.14/134.56)	DGIRDSASAFLQRIRSVYESLKLGTFDIL....PAVMELedGLLAYMSTPQPAvRDEWSISPFDgpMSCLADaLMSVQMTDKNYVVFFVYPDDRPSSV..VETCA.....AFHDLYERYKRCMAD....NRKP.ITNelvLQLVPLGSIA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.77|      21|     210|     284|     305|       4
---------------------------------------------------------------------------
  284-  305 (34.15/21.88)	ARSNMLPSNPVVLaAPLGAFGS
  497-  517 (40.62/22.31)	ASSAMYPTPPDGI.QPLGMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.50|      14|     482|     147|     160|       6
---------------------------------------------------------------------------
  147-  160 (27.56/13.22)	GSAVD.......PTFRNPQAS
  620-  640 (20.94/ 8.37)	GTAMDlsadtgqPTNSAPQTS
---------------------------------------------------------------------------




































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 MDP27509 with Med13 domain of Kingdom Fungi
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