<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 MDP03935

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMVESDEDPPYGAIPIPGLSSNILRIANVGEIKYRVYDSTSKLRLRKAEWMLRTEQGALCSVEREELWVFANTLGKTPTGEAVWPEIDVHEHELQETSSGAFIIRPQHLSPHTQTHIPPTTHTAFLNSLKGLLSHQLTQSHGFVPLGSSLLYPTAGLGVVNARRWILCGLEARVLGDGSVLVALNGEEKGRWLRCLCDDRRGYIHPVEAHERCWLAPTGRECKVLSHIPIADRYWPEVKVLVDGLEKVVPARHVFTDYEPRTPPKEDLTIWKKEDAIMDALRMCREFKLGMESGEKNGDVEEEMVGPKGRKEGAVGVVYPTPPDALLHLPGVHSIQQQQIQTQAQISPQPAPTPAASTASVEAPNPKDVKQTVSKSKKENSFDFWDAKFDEPDLDEDDLWGEDDDGVGGFGQGVTDADWDFFDKPANEPYAEPVQDQVMEGIEDTRDAEIGEAHVLPGPPGDKRGWDGDIEERMEVDQQPARVQQREAQYPAGILQYDSPAATPIHPKDVRVLTPQPKSLGILGAAAEVNSEPRGKENKVLVPKGFEAVKFSAKVEKNDKKYGVGGRYYAPPKSSSSSSSDTTSYDDDEDEPQPVQRKRPWEEAFEKVLVKPPPSEVAETPEEVDPETELVGMAWEWDSNHLFRDGFMGDPEPQRVISEDKAGIVQVFVEHVLFGYEVPPLPSPDDGFIPKGNTLCKALRSAVGEVEGTEVLTARGLSEIADPVPPESTVGGGGGKTGFKPKAVPRSARKNSVVDGDVTMEDAPLGEGSKDLFLIPPPKLTTMFKEKKIEYSVLAQRYWTTIGLAPLGGPRNVSAIIVYPGSEAMSYAADSFLNRMRGTWELNKLGKHRAFMGGSKVAVNLGGSEKEGEWEGAWRMMNAKILGVGRQLRSSAAQDSGAHFVVYIVNPFNNPAATAALCGSFAQMEKLYQSGGDKMPRTSVSLLPMRMLVGDEWGCRGKLNQREYLQMALALYERLGFTQQKALDVFSKSPVAKPWVLAHPVPTQINFRLSTHRSPSILHENMMLHVAYAVSEDGRWLCVAWCNEHGEYTFADAFRINLEDPGAKGWHEAYQKAWTKTMEIISVMKIHWRVVVAKHGFMTTDEMSFWLRLSTANEGASPYSLTLASVDVDSNLALSTFGDQPLRLDDLFDPEDFSEYKSVDQTLKEGLGYKDDETWGMILNYRVPWPCEGESEGAMKYPAMSAYLLRRAEGDVCEGVQVHLLYARDQLRPLMKDILGQYRNLAVLRRYSNSRQSVPWHIWAVQRLQEGFKKELGVGPKITPENPGAENSSSLSKAKVRPSKRESQK
Length1304
PositionKinase
OrganismSaitoella complicata (strain BCRC 22490 / CBS 7301 / JCM 7358 / NBRC 10748 / NRRL Y-17804)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Taphrinomycotina> Taphrinomycotina incertae sedis> Saitoella.
Aromaticity0.08
Grand average of hydropathy-0.493
Instability index42.61
Isoelectric point5.36
Molecular weight144810.03
Publications
PubMed=21914972
PubMed=24646756

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

>MDP03935
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.81|      35|     498|     672|     710|       1
---------------------------------------------------------------------------
  675-  709 (63.57/41.08)	YEVP.PLPSPDDGFIPKGNTLCKALRSAVGEV.EGTE
 1180- 1216 (53.24/24.94)	YRVPwPCEGESEGAMKYPAMSAYLLRRAEGDVcEGVQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     373.75|     122|     168|     234|     400|       3
---------------------------------------------------------------------------
  234-  303 (88.07/46.00)	............................................................................WPE.VKVLVDGLEK.VVPARHVFTD...YEPRTPPK......EDLTIW.KKEDAIMDALRMCREfklgMESGEK.............NGDVEEEM
  333-  473 (163.73/123.63)	SIQQQQIQTQAQI..SPQPAPTPAastasveapNPKDVKQTVSKSKkenSFDFWDA...KFDEPDLDEDDLWG......eDDDGVGGFGQgVTDADWDFFDkpaNEPYAEPV......Q.........DQVMEGIEDTRD....AEIGEAhvlpgppgdkrgwDGDIEERM
  481-  589 (121.95/57.65)	RVQQREAQYPAGIlqYDSPAATPI.........HPKDVRVLTPQPK...SLGILGAaaeVNSEPRGKENKVLVpkgFEA.VK.FSAKVEK.NDKKYGVGGR...Y..YAPPKssssssSDTTSYdDDED..........................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     201.47|      63|     704|     124|     189|       4
---------------------------------------------------------------------------
  124-  189 (98.20/65.62)	FLNSLKGLLS.HQLTQSHGFvpLGSSLLYPTAGlGVVNARRW..ILCGLEARVLGDGSVLVALNGEEKG
  831-  896 (103.26/59.30)	FLNRMRGTWElNKLGKHRAF..MGGSKVAVNLG.GSEKEGEWegAWRMMNAKILGVGRQLRSSAAQDSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.66|      26|     219|    1027|    1063|       5
---------------------------------------------------------------------------
  190-  218 (42.99/16.73)	RWLrCL..CDDRRGYIHPvEAHeRCWLAPTG
 1034- 1061 (47.66/29.28)	RWL.CVawCNEHGEYTFA.DAF.RINLEDPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.37|      24|      39|     758|     782|       8
---------------------------------------------------------------------------
  758-  782 (40.21/30.81)	TMEDAPLGeGSKDL.FLIPPPKLTTM
  800-  824 (39.16/24.79)	TIGLAPLG.GPRNVsAIIVYPGSEAM
---------------------------------------------------------------------------




































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 MDP03935 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ARGLSEIADPVPPESTVGGGGGKTGFKPKAVPR
2) LGVGPKITPENPGAENSSSLSKAKVRPSKRESQK
3) NSFDFWDAKFDEPDLDEDDLWGEDDDGVGGFGQGVTDADWDFFDKPANEPYAEPVQDQVMEGIEDTRDAEIGEAHVLPGPPGDKRGWDGDIEERMEVDQQPARVQQREAQYPAGILQYDSPAATPIHPKDVRVLTPQPKSLGILGAAAEVNSEPRGKENKVLV
4) QQQQIQTQAQISPQPAPTPAASTASVEAPNPKDVKQTVSKSK
5) YGVGGRYYAPPKSSSSSSSDTTSYDDDEDEPQPVQRKRPWEEAFE
713
1271
379
335
561
745
1304
541
376
605










Molecular Recognition Features






MoRF SequenceStartStop




1) DKKYGVGGRYYAPPKSS
2) FDFWDAKFDEPDLDEDDLWGE
3) SSSLSKAKVRPSKRESQK
558
381
1287
574
401
1304