<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 MDP02501

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLPFPSKMLRRTLISRCFSQSNPPFTSSLLPEPKIRHAYSHFLDAVRTRLISDIVETSLNKPRTGHLRQQVKRFKNGFVLTQNPVMSDWDTGWEHKAISRPLILCHLQIQYSYSVLGSPSFLIVHPILQATPFLDLTPSIPLPSGAPIILLPYGTPAYFLANYNGPVSGIVKQFRESLRGLGIGDWEGHCVSSKDSHRPAHGLSVNNFGQAPTFIIGWIKVENKQGEDKGITIIYPSSLCLSYVPSSCPRPLDYIPELPTPLQPSPQVPPAAPSIFSSLSPSDTGESSSFYSARLPIPVSPTCDSLRSFRTLTLSKSKDIRQVATEIGGYVDAVARDRERERERLRREREVGTSSSPKISRTVTSTSTSVSMPVEMDITHPAAPTVLQANASEHSAYPPAQNFYPSPPQTNPTIVPSSDSRTSPVAKTKALLPTEISTSVQPPFIEPVPTSAVSGTYDPFGNIDGAWSKPGASYLDADIDMDFGMDLDMGFNMNMNSMSGGGRSGAYNDRDGMDFEDAFTDDDFSFFDRPSRPSAAAPPSAPSSTNLSRSHHSPENIGPSLPVPASQMLLGNSTFSPIHGDVSKPPQYTPAPHSSVWTPGVSIEELTHPQHDHPDSKLPELLPSSLAQTPESHSAPPTPNVVLDFDPVIRRPTTSTGYSSPFEPIPFAQHHRAADHKYAQGKFALSSSNEDDRAESLFHYLPSSPNGFNGWRLRYDAVTDPRIGVVRKLIGVKRKTPFGHTGRRSGKLPPWIRSHEDWELPNDEEGVDDQSELESEDEDFGDNESPLVSRPATPPPAYLPLGPSLLHTQFHHSGLLPLSMPLRPPGAAVAPTNLTASALLPSVPTPVSPAATMGAASEKSKSLEAAAFAIAAEVVENPLWAETWRANTGPKDASDVWAADVRAVAELLEDVPDLEGLTDVASLFGLELFSTPPHTFQPLEAPMITVGKGEAVIHILPPALRFWEKLGLGPKGGPKDILGYVLFEDGGEQRERQVESWLAKTVAAYRGKHFGTLSPGPDCFVNGLVTLRYDSTFRKSLASFIGNLDSSETPIVVFIVLPATIMTLVSPTLRQILSASKKTLENCSDKNILFQFIPEQYVLGGMERSCTTEFHVDALCSSIYNRVSIPIDRVMSRSIHGEGPHIRRYFQEPTFTLARPLYSKVTFVRSANASLDVVDRYTMLHIAYHVTACGKWILAACTDERGEAYDLNVWLTQSPSEQEGETEISDEVYMIRKVWDFFMQFARRADTEWRLVISKLGAMKESELHAWIEHLAAVLELSMPPLHASIISVEPDAPWSFVTSRVNPSSPSRRAAQHRPSSSTKHQVILTDVSTTTYAIFPTSQMPMSLPSSYKNLGLSSFVPEPPSPANPTSPAAASLFVNSIPDSTSQYHNFNADCAATLRTDQEPHRLAFIPRSTSTLIRIPNTPSLTSISMLHIYLLHTLQSPHSSSLSLPDESKLHFAITQNFHDLAVLSKIRWNLDANPLLPFHLAAVDAMRISLDRDWDRLDGVVDS
Length1511
PositionKinase
OrganismLaccaria amethystina LaAM-08-1
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Agaricomycetidae> Agaricales> Tricholomataceae> Laccaria.
Aromaticity0.08
Grand average of hydropathy-0.285
Instability index59.16
Isoelectric point5.88
Molecular weight165859.37
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

>MDP02501
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     315.68|      55|     121|     416|     470|       1
---------------------------------------------------------------------------
  416-  454 (53.06/21.02)	.......................................P...................SSDSRTS....PVAKT.....K.ALL...PTEISTS......VQPPFIEPVPTSAVS
  455-  499 (55.30/22.29)	GTYDPFGNIDGAWSKP...........................................................gasylD.ADI...DMDFGMD......LDMGF..NMNMNSMS
  500-  569 (51.29/20.02)	G.....GGRSGAYN..........................drdgmdfedaftdddfsffDRPSRPS....AAAPP.....S.APS...STNLSRShhspenIGPSL..PVPASQML
  570-  642 (64.46/27.47)	LGNSTFSPIHGDVSKPpqytpaphssvwtpgvsieelthP...................QHD...H....PDSKL.....P.ELL...PSSLAQT......PESHSAPPTPN..VV
  643-  666 (27.08/ 6.34)	LDFDPV...............................................................................irrPT.TSTG......YSSPF.EPIP.....
 1304- 1343 (34.86/10.74)	.......................................P...................SSPSRRAaqhrPSSST.....KhQVI...LTDVSTT......TYAIF....PTSQMP
 1353- 1387 (29.63/ 7.79)	LGLSSF......VPEP..................pspanP...................TSP...A....AASLF.....V.NSI...PDSTSQ......................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.95|      37|     116|     119|     159|       2
---------------------------------------------------------------------------
  119-  155 (69.96/35.61)	PSFLIVHPILQATPF.LD........LTPSIPLPSGAPII...LLPYGT
  236-  284 (54.98/19.29)	PSSLCLSYVPSSCPRpLDyipelptpLQPSPQVPPAAPSIfssLSPSDT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.01|      20|      31|     859|     878|       3
---------------------------------------------------------------------------
  859-  878 (31.88/22.82)	KSKS.LEAAAFAIAAEVVEN.P
  891-  912 (25.13/16.34)	KDASdVWAADVRAVAELLEDvP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.58|      16|     116|     921|     990|       4
---------------------------------------------------------------------------
  921-  936 (29.43/23.48)	ASLFGLEL..FSTPPHTF
 1003- 1020 (27.16/40.08)	AAYRGKHFgtLSPGPDCF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.10|      21|     594|     184|     204|       6
---------------------------------------------------------------------------
  184-  204 (42.82/20.39)	GDWEGHCVSSKDSHRPAH...GLS
  781-  804 (36.28/16.09)	GDNESPLVSRPATPPPAYlplGPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.65|      31|     120|    1065|    1105|       7
---------------------------------------------------------------------------
  299-  329 (53.53/33.97)	VSPTCDSLRSFRTLTLSKSKD...IRQVATE...IGG
 1065- 1101 (44.12/56.14)	VSPTLRQILSASKKTLENCSDkniLFQFIPEqyvLGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.85|      16|     119|     817|     839|       8
---------------------------------------------------------------------------
  817-  838 (16.69/23.30)	PlSMPlrPPgaaVAPTNLTASA
  841-  856 (30.16/10.70)	P.SVP..TP...VSPAATMGAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     200.57|      66|     528|     674|     755|       9
---------------------------------------------------------------------------
  674-  755 (94.18/86.93)	ADHKYAQGKFALSSSNeDDRAES..LFHYLPSSPNGFNG....................WRLRYDavTDPRIgVVRKLiGVKRKtpfghtgrrsGKLPPWIRsH
 1183- 1270 (106.39/57.26)	AYHVTACGKWILAACT.DERGEAydLNVWLTQSPSEQEGeteisdevymirkvwdffmqFARRAD..TEWRL.VISKL.GAMKE..........SELHAWIE.H
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.26|      31|     778|     357|     392|      10
---------------------------------------------------------------------------
  357-  392 (46.16/31.36)	PKISRTVTSTSTSVSMPVEMDITHpaaptVLQANAS
 1140- 1170 (55.10/27.04)	PHIRRYFQEPTFTLARPLYSKVTF.....VRSANAS
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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 MDP02501 with Med13 domain of Kingdom Fungi
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