<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 MDP05418

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMETGEYETNTLLINNVASIVFRVYEPSSDQSQSFHLAALEIEGALRDQGHIVSYDANRRGIWAFQINSKDEATDAVTRLPDATLEACGHNLAMGEEGSFEPITLQKSRAAGNGTLNTPKGSSSAMESSQRSSFSSPSQIPVTTSQDGATTSSTNDPKSGQAALKAIYEHFIAAVLSTVSFAFCTESMAIPLNYRTVLIPPPSSNQDSDEYSAKNDPILGTFRTYLTTTGSLIISLYFSHCKSLSSLEDVVAANMMPPNRPILAAPFGVFAAKQAPPNGENVTASDTGLAQTPNTQALSFRGVPDSQDSLWKQKCLKALQFSGLDSSSFRTLSWVNLMVSRRTPQDTDNEVKRPQATVPWPGSLCFRKKPVEISTTCRVGDNMLSGHEECHDPLGNARGWFNAAPERDEKLAKRKAERMPTAPRDNNGNELKIQKPSGQSPLALQRPSAAAAGVMYPTPPDAIQQHLGVTPSLDGTISSPSNLPPTAAIVDIDTIMPVANQMGDIFNDGWEVTTEPKRDRSDGNLLGENDNMFGEMGGDMFVEHNVTEDDFDFFDEQQPGDVDMDLSMGDLDADLPPPAPQIAPMITHTFPEPQRIDDEPTQKPKMDLDDAVFAKPELKHARSSLNDELSQRGRTERSSSTKRESSPFDPDTVFKRVRASLMGTTDDQEAPALRPRRNSIFQKVDFDPKLPMINKKYEQGGTYDFMTDRETSKPKRDPAVPPEQEYLERHGKLNKKLKEVPLPAGSLMKTFAGIEPPTSHPTPTRLDSNALEVDDSDVESDGDDSSSISEGPASPIKSSVKRAILDDDAISQTTSLKDVDTSDEAPEEQLAIELPRLSKPEPPEISLNRFFSDPEPLTLDLGLPDEDLIQVAQLITEQAATGSLEIGIDQQSESKASLATIKSHELSITRNSLQVLQNIIPARLGGATPIRLKGYLDVPDVPLLGQPNRLQPRPIPGRDPNAEQMRANNLYQIPGPHLEVRRSDTKLSVLPSAVTFWASLGLAPSPGGKHVNALCVFPGWKGMVDHVGTFLSRLKSVYESLKLGTFSNMALSGELDDGVLPYEVDRISTSPDATITGHGSALIESIEALRSSLSEWTAKEKNLVIYFVYSPDNPGSIIEACTAFQRCFDMYRKTLVSRRESPQNELVLQLVPLDILSSTTSLVVPPPADLVKLCMETYDRCTLFLGPEFGGPTPAPAIMLEQPLPRIIDFKLTNSPSASLMHENSCIHVGYAQSIDQRWITAAWTDNRGQQQASASYCLGRKGKPPSTSMNEVAHEIWESTLDLISTWKVHWRIIITKCGPMDQAEMEFWVDLARTESKASVTMILMTVDTNPSLQLVPPVVKVAHTATSAFYSTPVSTPQPNILSPEQTNTPATPMRDANAAAATPGADSVGEADSDTFLIDATDQTWGAVAGHRLSNSTTLLEIRPALVSGYLIKRTGNKIEDPPVVMEVNLVHTEATPRAYEPLLREMLSYFRGLGTLARARGIVDKESDVRPWHIAAAEKGVRALYLLL
Length1512
PositionKinase
OrganismNeonectria ditissima
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Nectriaceae> Neonectria.
Aromaticity0.06
Grand average of hydropathy-0.406
Instability index48.80
Isoelectric point4.96
Molecular weight165128.90
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.



ECO:0000256	RuleBase:RU364134

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

>MDP05418
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.32|      17|      17|     251|     267|       1
---------------------------------------------------------------------------
  251-  267 (33.34/17.40)	AANMMPPN.RPILAAPFG
  270-  287 (25.98/11.95)	AAKQAPPNgENVTASDTG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.37|      12|      17|     954|     969|       2
---------------------------------------------------------------------------
  954-  967 (18.87/20.70)	IPGrdPNAEQMRAN
  972-  983 (23.50/ 9.10)	IPG..PHLEVRRSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.96|      14|      17|     878|     891|       3
---------------------------------------------------------------------------
  878-  891 (23.00/13.90)	AATGSLEIGIDQQS
  898-  911 (22.96/13.86)	ATIKSHELSITRNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.30|      11|      18|     295|     305|       4
---------------------------------------------------------------------------
  295-  305 (20.22/11.65)	QALSFRGVPDS
  316-  326 (19.08/10.56)	KALQFSGLDSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     340.40|      70|      97|     567|     636|       5
---------------------------------------------------------------------------
  456-  519 (64.65/30.01)	......PTP....PDA..IQqhlgVTPSLDGT.I.SSPSNL...PPTAAIVD.IDTIM...PVANQMGDIFNDgwEVTTEPKRDR
  567-  636 (118.74/62.07)	MGDLDADLP....PPA..PQ....IAPMITHT.F.PEPQRIDDEPTQKPKMD.LDDAVFAKPELKHARSSLND..ELSQRGRTER
  661-  734 (80.02/39.12)	MGTTD.DQE....APAlrPR....RNSIFQKVdFdPKLPMINKKYEQGGTYDfMTDRETSKPKRDPAVPPEQE..YLERHGKLNK
  774-  823 (50.44/21.59)	....DSDVE....SDG..DD.....SSSISEG.P.ASPIK...SSVKRAILD..DDAISQTTSLKDVDTS..D..E.........
  827-  867 (26.55/ 7.44)	.EQLAIELPrlskPEP..PE....ISLNRFFS.D.PEPLTLD...LGLPDED.L...............................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     126.07|      43|     956|      90|     134|       6
---------------------------------------------------------------------------
   90-  134 (65.93/40.72)	NLAM.GE.EGSFEPITLQKSRAAGNGTLnTPKGsSSAMES..SQRSSFS
 1047- 1093 (60.14/29.66)	NMALsGElDDGVLPYEVDRISTSPDATI.TGHG.SALIESieALRSSLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.27|      24|     421|     739|     762|       8
---------------------------------------------------------------------------
  739-  762 (46.95/26.35)	VPLPAGSL...MKTFAG....IEPPTSHPTP
 1163- 1193 (37.31/19.24)	VPPPADLVklcMETYDRctlfLGPEFGGPTP
---------------------------------------------------------------------------




































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 MDP05418 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGSLMKTFAGIEPPTSHPTPTRLDSNALEVDDSDVESDGDDSSSISEGPASPIKSSVKRAIL
2) DDAISQTTSLKDVDTSDEAPEEQLAIELPRLSK
3) DPKLPMINKKYEQGGTYDFMTDRETSKPKRDPAVPPEQEYLERHGKLNKKLKEVPL
4) GDIFNDGWEVTTEPKRDRSDGNLLGENDNMFGEMGGDMF
5) HNVTEDDFDFFDEQQPGDVDMDLSMGDLDADLPPPAPQIAPMITHTFPEPQRIDDEPTQKPKMDLDDAVFAKPELKHARSSLNDELSQRGRTERSSSTKRESSPFDPDTVFKRVRASLMGTTDDQEAPALRPRRNSIFQKVD
6) ITLQKSRAAGNGTLNTPKGSSSAMESSQRSSFSSPSQIPVTTSQDGATTSSTNDPKS
7) LGNARGWFNAAPERDEKLAKRKAERMPTAPRDNNGNELKIQKPSGQSPLALQRPSAAAAGVMYPTPPDAIQQHLGVTPSLDGTISSPSNLPPTAAIVDIDT
8) PVSTPQPNILSPEQTNTPATPMRDANAAAATPGAD
743
806
686
502
543
102
393
1355
804
838
741
540
684
158
493
1389










Molecular Recognition Features






MoRF SequenceStartStop




1) EHNVTEDDFDFFDEQ
542
556