<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. 
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
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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
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