<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 MDP29954

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMGSEIEASKILTNFVKLANTPEIKYTVFTPQSGQDQSILNAEIALRKNNPKILAVLFSKELWTFSITTQDPPSPDEKFGLNSSQTKTFLSSSIYGSSEKNPSSLLPLTYVTFLKALRKLLIVNLSYRGEIIPFGNAGILPDYKLLQLEPKLADCGDLLLSITSRNHNFIRLSEISDINSTTKKIDEEYATYLAPSGIRAYLANGNIKDSITTNPSNQDSILDTLFALHSIKLDPGSITWIKMIPNLGHLNAITSQISDYLKPVANSKYLVWPLELCFSQKSNQLSNHTKDRLSQLNQDPFSLIDDFANLRATSNVKTPSNIPTANNTPVNHTESPATTSDAFNLQRAQSDELKLQKSTSPPQAHQQQQQQSQSADINDSTNEGQQDNWSDLDDDLFGDGDGDGVTDADFNFFDNDGEEDPLADDKLEQELDQVLEETNNGLDIDSDEGELDKKDEHITSEDPEILENKFDIPIEEMTLPTSPLYTDPGAPEPVQSPKAARKRSIFSPLNFNPIIRSSVDNKYATGGKFFVSNVETPKGEDGTPPIIPSNAIDDDDDEDEDDDDDEDEDDDDVEEDEDEESEDDDKMEDDSSVTLKHSIDEDGNQLLDTGTNNTSSMVSPGDGIPLIKDSKLNSAEPEFKKLKLESTPVISLDDNDPSKDNRIPSPGVGGVNGSPNCIPFLLRAIPLHSIPSKFYSDSPKIRREEISKLIDTLLNQIVWDNNSLIESIPKIETNNEEFPQSIHRALAQTFPDIHEANLAELSGINEAQLKDYNHHHHESNLQAESPLSSFKNPEYVLSSTTPGNDSLDFPASPALTKDNETKLIDDKIFFQIPEPKLNVKRLNQIIKTNSSALFLWNSMSFSPPSIQKDFRTLILSPNTIMNESLTFINDIGEIYEKSQLGHVERINFGIFNNSVVSVDYNDDKFEENAISISKSLNEQWVKGSNYKNVVIFLIDFKQDLNSVINLCKIFQSMKEKMLSLPNNRSLPINVILKIIPSHYISEGGAFSILSINKLTKLSLLLYNSVGDQNETFTSISKQLPSKISFQLTKDQVSDKILSQDTFIHLAYGRSIDKEWCAAAWTDQVGGLRKTKAWHSPSTVKNSLETVTNEIWDITVKLSRKMAGKKYLVLTRIDGMIPDDELLQWKRLSSSFRELSLIVVSVNEDSQLLLSLYDPSYPFDKLFSQEPSFAQAGSVKLEAANTVGSSTGLTPSTIFTPQAVNSPDLFTLSSRPATQDSPSDFRINPDDSNTVVNIADKFHALILNNPNTLANSPTRLSIKTGFLIKPLPNSENKLASFEVNVLSCPGTLSISEFMEDLLTQYRNLATIGELFGVVGSEKSWIPWHIAAVEKSLGCLLHICVEKE
Length1361
PositionKinase
OrganismWickerhamomyces ciferrii (strain F-60-10 / ATCC 14091 / CBS 111 / JCM 3599 / NBRC 0793 / NRRL Y-1031) (Yeast) (Pichia ciferrii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Phaffomycetaceae> Wickerhamomyces.
Aromaticity0.07
Grand average of hydropathy-0.465
Instability index45.62
Isoelectric point4.59
Molecular weight151288.93
Publications
PubMed=23193139

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

>MDP29954
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      71.50|      15|      15|     392|     406|       1
---------------------------------------------------------------------------
  392-  406 (27.87/13.59)	DDDLFG.DGDGDGVTD
  408-  423 (22.06/ 9.16)	DFNFFDnDGEEDPLAD
  562-  574 (21.57/ 8.79)	DDD..E.DEDDDDVEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.10|      21|      21|     741|     761|       2
---------------------------------------------------------------------------
  723-  738 (20.37/ 8.95)	.....LIESIPKI.ETNN.EE..FP
  741-  761 (37.06/22.29)	IHRA.LAQTFPDIHEANL.AE..LS
  763-  787 (23.67/11.59)	INEAqLKDYNHHHHESNLqAEspLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.35|      12|      17|    1261|    1277|       3
---------------------------------------------------------------------------
 1261- 1274 (17.01/ 9.31)	LNNPntLANSPTRL
 1281- 1292 (21.33/ 9.63)	LIKP..LPNSENKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.94|      24|      26|     481|     505|       4
---------------------------------------------------------------------------
  481-  505 (38.59/30.54)	SPLYTDPGAPEPVQSpKAARKRSIF
  506-  529 (43.35/28.59)	SPLNFNPIIRSSVDN.KYATGGKFF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     245.41|      80|     166|     631|     715|       5
---------------------------------------------------------------------------
  631-  715 (119.25/70.53)	LNSAEPEFKKLKLESTPVISLDDNDPSKDNR....IPSPGVgGVNGSPNCIPFLLRAIPLHSipSKFYSdSPKIRReEISKLI...DTLLNQ
  796-  882 (126.16/59.37)	LSSTTPGNDSLDFPASPALTKDNETKLIDDKiffqIPEPKL.NVKRLNQIIKTNSSALFLWN..SMSFS.PPSIQK.DFRTLIlspNTIMNE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     247.66|      61|     181|      17|      78|       6
---------------------------------------------------------------------------
   17-   78 (103.28/60.44)	LANtPEIKYTVFTPQSGQDQSILNAEIALR..KNNP.KILAVLFSKELWTF.SITTQ..D..PPSPDEKF
  140-  188 (68.32/34.65)	....PDYKLLQLEPKLA.DCGDLLLSITSR..NHN.....FIRLS.EISDI.NSTTK.......KIDEEY
  201-  268 (76.05/39.71)	LAN.GNIKDSITTNPSNQD.SILDTLFALHsiKLDPgSITWIKMIPNLGHLnAITSQisDylKPVANSKY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      27.81|       8|      16|    1092|    1101|       7
---------------------------------------------------------------------------
 1092- 1101 (12.04/11.69)	WHSpsTVKNS
 1110- 1117 (15.77/ 6.94)	WDI..TVKLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      91.68|      22|      22|     341|     362|       9
---------------------------------------------------------------------------
  306-  324 (27.65/12.58)	FANLRATSN...VKTPSNIPTA
  342-  363 (36.11/18.69)	FNLQRAQSDELKLQKSTSPPQA
  364-  384 (27.91/12.77)	HQQQQQQSQSADINDSTNEGQ.
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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 MDP29954 with Med13 domain of Kingdom Fungi
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