<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 MDP01899

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDIGDYGTNVVCTYELNSIAYSFFECPSDATSVSTELYKLVAQLQQLGLLAAKDNKKAGLWIFETGDNAEPASSPSGAAQLPSLASNLGIDLALKHSGSYDSNSLLESWKSLSKPPTNTISSPSTDSGEPLSQKESFEKHFRAAQAAIMNKEATVNNSLIGLNNDAGTINPTLKDRARQFQLLAQSRLRLHIHDYFLTAVFLSLGYALCLDHGYIPLSSRTLVVPKSNLATTGPQITAQSNNGKGEDRLQLVTLSSDYTGSKVLVIKATLTTSMSYIGCDLPRLVKHEDVPIPANATLILGPGGSTGNFKGLANNGFQSTVSKFATDSDEAQHSGNEGQPSSHRLRSRCLEWLVGKGINKERLENSAWFMVEIYLNQLTSNARQGLSEERVLIPWPSFLCFRQTDNTLSSNDAFGTLSTYDPLEFAQTWYAGQQDREATIIRRKKERDAAEAAAKSQADSEAQDLHSLYSPLALRRSSVAGLVYPTPPDGVQHTVGATPTFDEAVSTPGQQGLPLSTDASSSLVTKTEADANGPLDIASHADFDFQDTSNGNLFGDAGDDLFGEENDITDADFSFFDEPDIFQGNQDVEMPGQDNAPEVVENELTLGPKDDLNMGDVPDMADVHMGNTDESPVEESLPPDLPSDTDPARQIEIKTEASMEGPETSMDEPSPPLKPEYVFGRLSTFDVFSKPLLTKPQEDISSVVLNPAGAFGGVDFKALFASLHQKYGSHGRFIYPPPKVSPNTLRAKFPTTDYFNRRRRRKLAGKSSIVRGVHTGSDHHFLVPGQTINFEQPTQRGSRSPSPSSDQDDSSDEMDGSYSHNSSSLKRRQQLEDTSESNDDEEITSSFQELQVGQVDETNNAALDTVYPFALDSDFARWSAAMFLAWPNPWANEYTLTDAEYIAAAQILGDQAISYTLRYPNDGNRHTSSLEENIKATYTPDLIRQDVVQAAKKYFKGASPQTLSNFLDIQGVPRQLTGNNRLPPRPMPSSQGSQGSQGSNPTKPNPIFPLPSPHLQLRRSDSRLSVLPSALPFWDVLGLAPRGNGKHVTSLCVFPKAVGMAESADLFLENIRSAYETRRLGSHERLNTEGSVNGLLPIELGGQATRFASDQGLSVIREALFQVANLLASSAADSTNFVVYFVYDPESPDILVPICSAFHSMFEVYKLAMAGKTVSNELVLQLVPLNFVSARTHLVVLPPTDYTRLAMEVYDRCFDFQAGVASPSVAIEPPLPRTIDFKLTATPSASLLQENSCLQIAYAQSIDDRWITAAWSDNTGSEQMTASYCLGRQDAPLTRQFSDIAHEIWETTLDIIASKKVHWRIIIAKCGVMEAQDVRFWKGLSETERNAQISLTLLSVDTQPALQLLPPGLSIPASTLTSQSTFYTTPVSTPQPSSILSPDQSGGTPTATPTDGTGELKIEPDATLIDLTNQSYGAVLAHRVNNSNSPLEVRPTAISGYLIKRTGASSSDVPAVMEVNIVWTDINPRLAENPLREILAWYSGLATLARARGIVDPVKDTRPWHIAAAEKAVRLLYLLM
Length1536
PositionKinase
OrganismPseudogymnoascus sp. VKM F-103
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Leotiomycetes incertae sedis> Pseudeurotiaceae> Pseudogymnoascus> unclassified Pseudogymnoascus.
Aromaticity0.08
Grand average of hydropathy-0.353
Instability index45.45
Isoelectric point4.90
Molecular weight167439.91
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

>MDP01899
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     358.06|      59|     182|     485|     543|       1
---------------------------------------------------------------------------
  485-  543 (103.36/49.96)	PTPPDGVQHTVGATPTFDEAV..STPGQQGLPLSTDASSSLVTKTEADANGP...LDI...........ASHADF
  576-  622 (65.04/28.64)	FDEPDIFQ...G.....NQDV..EMPGQDNAPEVVENELTLGPKDDLNMG......DV...........PDMAD.
  624-  667 (38.22/13.73)	.........HMGNTD..ESPVeeSLP..PDLPSDTDPARQIEIKTEASMEGPetsMD..................
  669-  733 (76.62/35.09)	PSPPLKPEYVFGRLSTFD.VF..SKP.LLTKP.QEDISS..VVLNPAGAFGG...VDFkalfaslhqkyGSHGRF
 1372- 1422 (74.82/34.09)	PASTLTSQSTFYTTP.....V..STP.QPSSILSPDQSGGTPTATPTDGTGE...LKI...........EPDA..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     475.40|     151|     541|     314|     477|       4
---------------------------------------------------------------------------
  314-  477 (232.42/215.49)	NNGFQSTVSKFATDSDEAQHSGNE....GQPSSHRLRSRCLEWLVGKGInkerLENSAWFMVEIYLNQltSNARQGLSEERVLIPW.PSFLcfRQtDNTLSSNDAF.G....TLSTYDPLEFAQTWYAGqQDReatIIRRKKERDAAEAAAKSQADSEAQDLHSLYSP.LALRRS
  859- 1020 (242.97/181.67)	NNAALDTVYPFALDSDFARWSAAMflawPNPWANEYTLTDAEYIAAAQI....LGDQAISYTLRYPND..GNRHTSSLEENIKATYtPDLI..RQ.DVVQAAKKYFkGaspqTLSNFLDIQGVPRQLTG.NNR...LPPRPMPSSQGSQGSQGSNPTKPNPIFPLPSPhLQLRRS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     339.74|     110|     446|     736|     858|       5
---------------------------------------------------------------------------
  736-  858 (166.38/111.09)	PPPKVSPNTLRAKFPTTDYfnRRRRRKLAGKS.SIVRGVHTGSDHhfLVP..GQTINFeqptqRGSRSPSPSSDQDDSS.........DE..MDGSYSHNSSSlkrRQQLEDTSESNDDEEITSSFQELqVGQVDET
 1184- 1307 (173.36/87.30)	PLNFVSARTHLVVLPPTDY..TRLAMEVYDRCfDFQAGVASPSVA..IEPplPRTIDF.....KLTATPSASLLQENSClqiayaqsiDDrwITAAWSDNTGS...EQMTASYCLGRQDAPLTRQFSDI.AHEIWET
---------------------------------------------------------------------------




































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 MDP01899 with Med13 domain of Kingdom Fungi
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