<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 MDP28310

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceIAVSSSGNVSSLELVKNLSTETQNAPGAAGSQRPNAITPFATIYASFISAVSGAVSLQLIRQRNAIPLGSRTLFTVVEKDGCDNSHVTENDVVLAPSLTTLQVQLTSAGKLTVALQTVSQAGLTRLLIPEDDPAGIHDTPPGTDLWLSPSGSIARLVAANPSRLNAASPYPSNVGGPGNEKSSPATRKQWKVNVLWWLSNFGLPVDGIDDEAWVEVEVWEPFYSRLAGEVWRPNDEGASVLPLKRILWPAIYCFRRTKSASSEFYGEMEGVSSIAGDPLDFAEKWRVTEKLSFAEASPKPPSVHQEPPTRDQDASSPDLLNLPEGIESLSRASQYPDLQTASLVYPTPPDGATATGLNPMVTSDTFAEEIEQNSNFMQQDRQNHHRQLSKERIGTDVISFGPSAGLVVGSGLYDTNDDDDLFGEINEKDFGAKGITDADFSFFDDPDFDRGGVGEQAEPVQELSGFMDTDEPEIQPTVDSQASPEQTPAMNIASAQLSPVVETADLQHEKTPQEAKAPVFTPQEDKPRTISPPLSPVEVKKILFPESVPESPRLAKKGQGPGYYSAVAFKQNMSLWDQKYGADGKFGFNIRGIERKKGPDTVTSDIPTVGLPRHSGKVKSGTSKDPDSYGSPYSEEMQDSSSDSDMSSSASADSDESASESGLSPATFSTRKRKRTRSNSGTSLALSQDKTIIRTDQETSAQRPEDSVFLGNFLSTFSDWSMAGYFSVAQNQVSPLLIRKDIQVQIAQLLVDQVTQSSLHHRIDGTLGLLDYADQVCSPETFRGDAAFMSGMERLDLNSFVSLQDSNALSPSSSNGSNSRQSAQRRETGKGTIVKIPPPHLRVRRGKDFLETLPPAISFWETFGLEPAHGQKDILAYCIHPHFAAGAADTFLERLGLVYSGCNLGEHCRGESSNVFDRGLGSWNTSPSADSRYSEAIQSLKSICGVLGSAFLSTPPSKDSNIVVYIVNPFTHAAALVDICAAFWSLFQQYVAEADKQQTRQLNELVLQIIPLDFVTSAESLVVPPQAEYLNLALEVYSRCPPKSSEVGPVNCAPPVLLAEPIPRSIGFKLSSEGSSPLQEGKHLHIACSRSLDQRWLSVAWSDNFGALQRNMSYCLRYRNSVAARPLPEVRGEIWKATRDIMDTIQTRWKIIIVSTDPVDQDEVDTWTNFADQYGKARSTTLDLAILGANIPSDLHLEPPYLPIPLSMFNQQPSSTPVATPNLGGGVSSPDQFGTAPTPPGGWGGPASASTPTDALPEVESESLLTDIYDETWGVVLSHRLNSSPHQTEYRPALASGYLLRRKGSTDGDGLYTMSVNILFARRSPSSYDALLREILGMYRDLATLARARGTRTVQQGTLPWHVATAINAQSLLSYAL
Length1377
PositionKinase
OrganismAspergillus niger (strain ATCC 1015 / CBS 113.46 / FGSC A1144 / LSHB Ac4 / NCTC 3858a / NRRL 328 / USDA 3528.7)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Aspergillaceae> Aspergillus> Aspergillus subgen. Circumdati.
Aromaticity0.08
Grand average of hydropathy-0.365
Instability index51.36
Isoelectric point4.92
Molecular weight149391.82
Publications
PubMed=21543515

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

>MDP28310
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     737.13|     165|     165|     266|     430|       1
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  133-  217 (84.81/27.67)	...........................................................................................PAGIHDTPP............GTDLWLSPSGsIARLVAAN....PSrLNAAS.PYPSNVGG..PGNEKSSPATRKQ.WKV...NVLWWLSNFgLPVDGIDDEAWVEVE
  225-  391 (256.68/96.64)	RLAGEVwrpndegASVLP.LKRILWPAIYCFR.RTKSASSEF....YGEMEGVS....SIAGDPLDF.....AEKWRVTEKLS.FAEASPKPPSVHQEPPTRD.QDAS....SPDLLNLPEG.IESLSRASQ..YPD.LQTASLVYPTPPDG..ATATGLNPMVTSD.TFA...EEIEQNSNF.MQQDRQNHHRQLSKE
  392-  557 (200.82/74.23)	RIGTDV.......ISFGPSAGLVVGSGLYDTN.DDDDLFGEINEKDFG.AKGITdadfSFFDDP.DFdrggvGEQAEPVQELSgFMDTD..EPEIQ...PTVD.SQA.....S......PEQ.TPAMNIASAqlSPV.VETADLQHEKTPQE..AKAPVFTPQEDKPrTISpplSPVEVKKIL.FPESVPESPR.LAKK
  558-  680 (162.82/58.98)	GQGPGY.......YS...AVAFKQNMSLWDQKyGADGKFG.FNIRGIERKKGPD....TVTSDIPTV.....GLP.RHSGKVK...SGTSKDPDSYGSPYSEEmQDSS....SDSDMSSSAS.ADSDESASE.........................SGLSPATFST.RKR...KRTRSNS..................
 1192- 1252 (32.00/ 6.48)	...........................................................................................PSDLHLEPPYLP.IPLSmfnqQPS..STPVA.TPNLGGGVS..SPD..QFGT..APTPPGGwgGPASASTP.....................................
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     143.48|      44|     666|      56|     123|       5
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   75-  119 (67.12/72.61)	TVVEKDGCDNSHVTENDVVLAPSLTTLQvQLTSAGKLTVALQTVS
  691-  734 (76.36/33.99)	TIIRTDQETSAQRPEDSVFLGNFLSTFS.DWSMAGYFSVAQNQVS
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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 MDP28310 with Med13 domain of Kingdom Fungi
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