<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 MDP24794

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAQNTVLAAILHLQNSPGFVYRQYNAPDYDACELARRTVVDASTDILNSVHVAVHGSPSPCLYLFLITSAEAVHDAIARVNTYAFDYLQGTEPAFLPLDQLSRPTTTDASTTEIYSLFLDAVRSRAIADIVDTASTLPRHVHRFKDGFIIHRTPAVSDWAAGWEHKLLNRPVVYFHLQIHFACSAGADSPSHLLIHLTPISTPFSNIPINTALRPGSPIILLPYGTPAYFLASYNGPSNALTKLFDDSLRGLGAGRWSLDGQSASSPPFIIGWIRVENKQGEDKGTPFVWPTRLCLSYLPSHHVKPLDPLPELPAALQASPLLSSPTVPAFNDLPSPPSALSHLPSVKALHSFTVSKSKDIRQLAAEVSSYVDVVARDRERERERLKKEREAGSSPKLMRKSAPTPTQPTASSTPKPPQPPPAQQAVVDQIFYPSPPQTTSLPTAPEYIPPKPVQEATQPTFSQPPPPPPAPVQNGDSSQKSFDLFGNANSNWSQTSDSYFSDMDFGMDVDFNNMNSGSNQANNNYTSHESALDFDFTEDDFSFFDQPSKSSTLPKPTSSVLPTPGHDQSRFTPNTSPHKTSTTAPNVARGLEDIHLSGPGPPSAGFQTPWTPGDMFTPRSAGDATDSHHPPDLVPSSPGPSPEPPSGPGTPTVQINFEFTGGKGKSTNEHASGLFDPIPFAPYHSEVDSKYSSGKFALISPPLTDITTPSSSPLSEEGQSWRKRYESATDPRLGVVRQLIGVKRKLEAVANTHARPRASSTPSWLQQCEDWSSDPNAMDVDTNDDDDGQSDMDSDDDSLQPDSELESPALSRPATPPPSYLPPGPSLLHHKFDHTQLLPISTPSRPPGSSSSASHVRDREPSAGPIPSVPTPVSPAAMPGATSEKVKMLQEVAIAVAQESVENPLWAEAWDTVNRTSTLSKRNQAPMNIWPDDLRVGAELLGKMKAAEGPLDLTRLFNLRESESSSNEIVLNSQTEPSNKPLQPLEQPHISVGKGQAIIQVLPSALRFADKLGLGPKNGTKDLDVYTIFEEGDEHRRSRVDSWLSTVSSAYSTRSFGAFRRGKSASASNGLFPARLDSNFRKTLSSLLSNLPPSNHPTLVLLIIPVSLMTLSSPSLRHIISSTKKAAQSHPTRQLVFHLVPEPLLLFMEESHKSHDTLNLLCSSLYDRIPVTVSRRLNGHLYAPGPGHRSFPAYSFTLSRPPVNKVTYSRSTRPSLDVLDRYTFLHVGYKLSPCKKWLLASCLDQRGEYCRTAVWLVPPQDEEAEESVEAFVADKVVGFGMNIALQANVEWRIVISKLGRVSIPEMEAWDSSIAHVLDDWKHPTALHIYLVSSQPDAPWTLLDFKGLSSHPPTSNSSSLKHPRSSNISHKHNATNVIYTDSSWVVYAIYPRSRLTVPFPPPPSLFSGYQIPEPPSRLDSSVNSNPASNRNSHSLEDSNNPHSSNPSPSPSQNHTQASPQKERCDNANLPTLPQSSTTLIITTPSPSTDTPPHMVHIHLLKSFHSVSSNSPHPTDEETHRELTRNFFELGVLSCARRVGGSQSGFGGPVAGAEIGATNPNANPMLPYHLAAVDSMWRCLDVDWEQLEDPNSEV
Length1593
PositionKinase
OrganismCoprinopsis cinerea (strain Okayama-7 / 130 / ATCC MYA-4618 / FGSC 9003) (Inky cap fungus) (Hormographiella aspergillata)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Agaricomycetidae> Agaricales> Psathyrellaceae> Coprinopsis.
Aromaticity0.07
Grand average of hydropathy-0.468
Instability index59.20
Isoelectric point5.97
Molecular weight173792.04
Publications
PubMed=20547848

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

>MDP24794
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     123.66|      27|      28|     486|     512|       1
---------------------------------------------------------------------------
  486-  510 (42.00/24.16)	..FG.NANSNWSQTSDSYFSDMDFGMDV
  511-  535 (37.14/20.34)	DF..nNMNSGSNQANNNYTSH.ESALDF
  536-  551 (19.01/ 6.10)	DFTE.DDFSFFDQPSKS...........
  765-  781 (25.51/11.21)	..........WLQQCEDWSSDPN.AMDV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      82.15|      17|      44|     291|     307|       5
---------------------------------------------------------------------------
  291-  307 (33.99/20.57)	PTRLCLS.YLPSHHVKPL
  314-  331 (23.97/11.65)	PAALQASpLLSSPTVPAF
  338-  350 (24.19/11.85)	PS..ALS.HLPS..VKAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     184.76|      48|      62|    1329|    1376|       6
---------------------------------------------------------------------------
 1329- 1376 (81.57/31.34)	IYLVS..SQPDAPWTLLDFKGLS.SHPPTSNSSSL.KHPRSSNISHKHNATN
 1389- 1433 (56.51/18.86)	IYPRSrlTVPFPPPPSL.FSGYQiPEPPSRLDSSVnSNPASNRNSH......
 1435- 1468 (46.69/13.97)	...............LEDSNNPH.SSNP.SPSPSQ.NHTQASPQKERCDNAN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     364.73|      99|     638|     190|     290|       7
---------------------------------------------------------------------------
  197-  290 (152.92/82.75)	LTPISTPF..........................SNIPINTALR.P......GS...............PII.LLPygTPAYFLASYN.GPSNALTKLFD........DSLRGLGAGRW.SLDGQSASSPPFIIGWIRVENKQGEDK..GTPF.VW.............
  838-  944 (103.79/49.96)	LLPISTP...........................S........RpP......GSsssashvrdrepsagPIP.SVP..TPV........SPA.AMPGATS........EKVKMLQEVAI.AVAQESVENPLWAEAWDTVNRTSTLSKrnQAPMnIWpddlrvGAELLGK
  945- 1080 (108.01/52.31)	MKAAEGPLdltrlfnlresesssneivlnsqtepSNKPLQPLEQ.PhisvgkGQ...............AIIqVLP..SALRFADKLGlGPKNG.TKDLDvytifeegDEHRRSRVDSWlSTVSSAYSTRSF..GAFRRGKSASASN..G....LF......PARLDSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     143.56|      26|      62|     557|     582|       9
---------------------------------------------------------------------------
  404-  422 (28.61/ 6.53)	......PTPTQ...PTASSTPK.PPQPPP
  424-  441 (29.38/ 6.95)	QQAVV.........DQI.FYPSP.PQTTS
  557-  582 (46.53/16.26)	PTSSVLPTPGH...DQSRFTPNTSPHKTS
  619-  647 (39.05/12.20)	PRSAGDATDSHhppDLVPSSPGPSPEPPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     138.32|      41|      69|      15|      55|      12
---------------------------------------------------------------------------
   15-   55 (74.19/36.75)	NSPGFVYRQYNAPDY.DACELARRTVVDASTDILNSVHV.AVH
   81-  123 (64.13/30.88)	NTYAFDYLQGTEPAFlPLDQLSRPTTTDASTTEIYSLFLdAVR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.73|      14|      18|    1235|    1249|      14
---------------------------------------------------------------------------
 1235- 1249 (21.68/17.55)	CKK..WLLAScLDQRGE
 1251- 1266 (23.06/12.18)	CRTavWLVPP.QDEEAE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.18|      15|      18|    1199|    1215|      15
---------------------------------------------------------------------------
 1199- 1215 (23.00/20.27)	LSRPPVNKVTYSRStrP
 1220- 1234 (28.18/17.35)	LDRYTFLHVGYKLS..P
---------------------------------------------------------------------------




































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 MDP24794 with Med13 domain of Kingdom Fungi
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