<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 MDP13834

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMEHTLFEAGSAPTGTFLIAGTTAARVKWRRFRFGGVCGGSADQVCPSQLCLWRLKTSGGCESGGGGGGGGGSWTAPQLAATATSSMLQPQALSLMSQNTSPVNYPQNSPDSVAKVLDAIAAVPGLFASLRRGASTSTWMDLCIFDVRDTPMFPDINLDFINGLSFINEGSFLLEAFQSSNQSSIPNDPEFSLFIDAIMSGMERLFVKTGVVRLKQEFLITPSFYGSKEALGGYAEATLSNTPLVSIIPRINFVGSSILCQFRVACDAYRSLTCSDLCRAKEYPLQVILLPFGVPATVIMSSNSNHCNSSSKSNTSSLWTSLLGFPSDFVSSYGTATPDIPDFVTVEFTKDDGEIIQLLFPSCLVVVPLSKSSNGDDLYNAELYLDNFRDWRWSDEVATMFDGQTQTAAPQEDRVIDFWRYMNPYQRLLESGLGDGGAVEQAIRNKEATEAARNAQPKPIPPPAPQHPSTTVNNARPIVTIPTVLAPPQAQPSPTRASTDLDLTLHFSKGNGSDDFKGLELDDVGENDWDFFQEEKPTVVPVPVKQAAPATPAPIPLPSTSTSTPAATFTSIVGAAASPAISLPACSPAAAVTPGITTILSPMPFTPNYPNHPSSLHMSTAVQPTPDPTTPGVFAIAEDSTIEHSHAMQHHHPPPTSASTLPIEQPSSETSLSSSKHPFDVSSLVRHIQTRAEIEAESRRIVPEAWRTVNLDFGVVWKPGDAASTSTTSKYGEGGKYVYQCVAAMRKRAGTDTDRGGGKHRRVEVQSDSGSSSSGDDDSSDDDSSGEDEEGEVVESGRGGGGDDMMEEDEVLEDGEVMHLQQQQQQQGRPNDVGAIRSGVAGVAGTVSGSSLGRVVPKSEAESQLALQIMVESMTVGRGSVWTTAAYNNSGALMHEAFVNSLKPAFENRLFQFFGSVLSDLFAGMGLSGTSGGVGSGGVGEPSTVRGPLTIEQIYDYTELDRGASKYGKFQVKKKKRPEPILDLLRIPNIIVQHNNIPITVNPSALRLWDKLSLAPICGTKNVEYLFICPGGNKILTSNLRRWVAEVSNIWDFHNFGTLKPLSDYRNTDEESFCQVRVTVPRDDARLKAYSDTIEHLATDLSRILQHRISTSQTPFQISVFLINPFPHGRHQTTFDLYLMASRLLQSISRISELPLKYLVQVIIPVILPIQFALPRLSDTPVLLDIKEFVFGLFSRCRVSSKPIPMKSNNRIQPPSQHSLFRRGFHLHPYVLGRQPGSGAAGSGFILQRALDQPLMMCLSDPDRILHVVYQASACGRWVGVCWSDSFGELVDCCVLRIGPSGFLGALAELWERSIDLVVASAAASRGPGIAWRIVVGVVVGGKSGVSGREIQGFEQFLDYLSTTQNPDHKHTSINSVSFVSLGMNPPVTTVDPGAVLGQSGGGTSQYFLSSCELLTTQEKRKDKEKESNSLLSSLASTDVFSVPSPSGGGATVGGAPMNEERLVPDGDATYIFLSKNHRMPIGNMLQISMNGDDLMAQPHLTPIIPPNSQAEDGLGAILPLAGGYLLTVPRRETAPPNSSGIGSSPASTNQLPQLVGQSPAASTNVAGGVLKAPLLPPEGSKSISIAEVSLLYHCNLNVQTSATCYKGWTPETQLPHGRSSGLGGNGGASNGTSLGGGGNAGLDGVSYSSPTSSSSSTPSSFNVLSNGNTPILMPANIKANLSPSLPASIALQQQQQQQQQQQYLQFQSQQQPTTPQPSTPFNLSGQGGSNTAAGTGTCSNNAPAPQGFHTVILRDIMKEYHGLRYVHRGAGFCNSSKGGTEPWIFAMAEIAASCATKSEL
Length1800
PositionKinase
OrganismRhizoclosmatium globosum
KingdomFungi
LineageEukaryota> Fungi> Fungi incertae sedis> Chytridiomycota> Chytridiomycota incertae sedis> Chytridiomycetes> Chytridiales> Chytriomycetaceae> Rhizoclosmatium.
Aromaticity0.07
Grand average of hydropathy-0.206
Instability index50.45
Isoelectric point5.52
Molecular weight192319.09
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

>MDP13834
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     429.04|     139|     871|     748|     910|       1
---------------------------------------------------------------------------
  748-  910 (208.03/115.84)	AGTDTDRGGGKHRRVE.VQSDSGSSSSGDDDSSDDD.SSGEDE...EGEVVESGRGGGGDDMmeedevledgevmHLQQQQQQQGR..............PNDVGAIRsgVAGVAGTVSGSSLGRVVPKSEAESQLALQIMVESMTVGRGsvwttAAYNNSGAlmheAFVNSLKPAFENRLF
 1628- 1785 (221.00/90.78)	ASNGTSLGGGGNAGLDgVSYSSPTSSSSSTPSSFNVlSNGNTPilmPANIKANLSPSLPASI.............ALQQQQQQQQQqqylqfqsqqqpttPQPSTPFN..LSGQGGSNTAAGTGTCSNNAPAPQGFHTVILRDIMKEYHG.....LRYVHRGA....GFCNSSKGGTEPWIF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     265.63|      87|     502|     915|    1029|       2
---------------------------------------------------------------------------
  919- 1029 (118.44/126.80)	DLFAGMGLSGTSGGVGSGGVGEPSTVRGpltieqiydyteldrGASKYgKFqVKKKKRpEPILDLLRI....PNIIVQHNNIPItVNPSAlRLWDKL.SLAPICGTknveYLFICP
 1438- 1529 (147.19/83.68)	DVFSVPSPSGGGATVGGAPMNEERLVPD...............GDATY.IF.LSKNHR.MPIGNMLQIsmngDDLMAQPHLTPI.IPPNS.QAEDGLgAILPLAGG....YLLTVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     282.82|      65|     502|      69|     137|       3
---------------------------------------------------------------------------
   69-  137 (102.41/50.67)	GGGSWTAP.QLAATATSSMLQPQALSLMSQNTSPVNYPQNSPDSVAKVLDAI.....AAVPGLFASlrrgASTST
  435-  485 (74.43/29.45)	GGAVEQAIrNKEATEAARNAQPK........PIPPPAPQ.HPSTTVNNARPI.....VTIPTVLA..........
  573-  640 (105.98/45.93)	GAAASPAI.SLPACSPAAAVTPGITTILSPMPFTPNYP.NHPSSL.HMSTAVqptpdPTTPGVFAI....AEDST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     193.28|      55|     871|     239|     294|       4
---------------------------------------------------------------------------
  239-  294 (93.89/67.00)	SNTPL.VSIIpRIN.FVGSSILCQFRVAC..DAYRSLTCSDLCRAKEYPLQV...ILLPFGVP
 1072- 1104 (25.11/10.34)	.....................FCQVRVTVprDDARLKAYSDTIEHLATDLSR...IL......
 1111- 1168 (74.28/47.19)	SQTPFqISVF.LINpFPHGRHQTTFDLYL..MASRLL..QSISRISELPLKYlvqVIIPVILP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.02|      35|     158|    1204|    1243|       5
---------------------------------------------------------------------------
 1204- 1243 (57.00/45.97)	PMKSNNRIQPPSQHSLfrrGfhLHPYVLGRQPGS..GAAGSG
 1366- 1402 (61.02/34.14)	PDHKHTSINSVSFVSL...G..MNPPVTTVDPGAvlGQSGGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.21|      11|     521|     526|     536|       7
---------------------------------------------------------------------------
  526-  536 (24.71/16.61)	NDWDF..FQEEKP
 1048- 1060 (19.51/11.38)	NIWDFhnFGTLKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.04|      25|     110|     548|     572|       8
---------------------------------------------------------------------------
  548-  572 (47.28/25.85)	PATPA...PIPLPS..TSTSTPAATF..TSIV
  653-  684 (32.77/15.35)	PPTSAstlPIEQPSseTSLSSSKHPFdvSSLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.37|      21|      47|    1262|    1282|      14
---------------------------------------------------------------------------
 1262- 1282 (41.74/25.27)	DRILHVVYQASACGRWVGVCW
 1311- 1331 (35.63/20.46)	ERSIDLVVASAAASRGPGIAW
---------------------------------------------------------------------------




































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 MDP13834 with Med13 domain of Kingdom Fungi
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