<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 MDP27660

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSSTPATMYRLEELFSSFYRIEKIEKINYHQYIPKNQDDQWPIQMELLLRKKNPQTLVALLSRSLWCFSINDNPLPNLPNIGNPNNSDENVVPDKTGNFTCEYSKPNLPPHYALFLKALRRMIYINLGLASNNKLIQFGNACIGLKQKVPTELLQLEPHLFANGDLAITICKKDMGLIKMAEDKMDDKFLRSHALYLAPSGIRTYLAPNSKGVYFSPPPNNAEILLMTLAVSHGINLSDDGDLKWVTVIPHLGHLNGYTPTIASYMNSPTDVRKIIWPLGLLFAQPALDIEASNDASKSLCQNFQTTLDIIDDFIQLKQTSSYRTPGSSGAIGTNPLSSGSAYTDQLRHYYKNNSVGSHPNDTVSPSLDRLMTSSMGNAGSTELMQTPLVNKANVNELFNGNPNNKKQASDPEVSSYKDDLEQVKNSLLEKNEDSVFIPNDRLGNSISKVVPEGYDVSTVDKELFGDDEDDEDLFGESNDNSLDDENRVTDTRRNDPDEITEDMFGMSDDDDGTNKASYATNTNTNIDTFFDSANSLSTPIKKSNLKRKYLDIPIEEITLPNDPLYTDPGAPLPVETPRDRRKSVFAPLNFNPIIESNVDNKYRNGGKFSFSPIQKDESLKFDLSSGAISSSEDEESDSDDDDFAYLTLGQDLRSMDGEPHDQSHFLGYPPIPGAGEPLSMGYNGGNDFIVGTEAVKDGSNSIWRLPQSELPTTDSPLKTVESSIQPMDPKLKSAMHESNMTTRPKITEEQSPASAGNIIQSSLPEGHATLPEITPTGTNLIVESSNSLPFLLRHMPLSSIPDVFRLSNPSIPLSEMYPDMLDLLSEQIVFDYDALQNMGIPRLKYKGINECKKGLVYDTLSKIFTAFERIDGNQIIDKFYPIKQPFVFIRKNQELIKIKADFQPFCKYLNLRPPNGIKNFKCLILTDSFKDDCINFVSTLSQSYIGHEYGFCELLKLNAENYQGLIYLKDFGKNRLLLLAAQIVSYCATNKSSEKDVPLMMILPLNSNDLSELVRKVKIFQTIRNEVKAKISNKELFLKVIPMDFISNPLTSVDDCSNLCVSIYNILPLKLSKFTTIAKKLPETITFRTLQNSTGSAAIHYDEYIHLAYARSLDKAWVFAALTDSNGNENLIKSWYVGTSKTKFDDACNQIWSLALSLSNKKYGKICLILTRLDGILPDDELMNWRRLSGRNIHLAVVCVDDNTKITFLDKDRLYPTFKPILRDEKLARKFNPNNFDDYELRNTDEDIHGVIFQNPFLLSNSQHRCAIKSGALIKFRRCRDDTIWDKFEVNLLNCPHADSTELLETILEEFRNLASLNIWFGVSNGEHSHIPWHVLAVKKMMNTLVHARVDVLEEPIS
Length1360
PositionKinase
OrganismNaumovozyma castellii (strain ATCC 76901 / CBS 4309 / NBRC 1992 / NRRL Y-12630) (Yeast) (Saccharomyces castellii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Naumovozyma.
Aromaticity0.08
Grand average of hydropathy-0.406
Instability index39.76
Isoelectric point5.21
Molecular weight152987.53
Publications
PubMed=22123960

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:EnsemblFungi

GO - Biological Function
transcription coactivator activity	GO:0003713	IEA:EnsemblFungi

GO - Biological Process
negative regulation of transcription by RNA polymerase II	GO:0000122	IEA:EnsemblFungi
positive regulation of transcription from RNA polymerase II promoter by galactose	GO:0000435	IEA:EnsemblFungi









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27660
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.37|      27|      29|     462|     489|       1
---------------------------------------------------------------------------
  462-  483 (32.71/20.72)	.......DKEL..FGDDEDDE.DLFGESNDNS
  485-  512 (38.45/28.25)	DDENRvtDTRR..NDPDEITE.DMFGMSDDD.
  513-  537 (28.22/12.59)	DGTNK......asYATNTNTNiDTFFDSA.NS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.06|      21|      29|     721|     749|       2
---------------------------------------------------------------------------
  721-  749 (25.52/33.90)	TVESSIQpmdpklkSAMHESNMTTrPKIT
  756-  776 (36.54/21.08)	SAGNIIQ.......SSLPEGHATL.PEIT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.01|      31|      34|    1089|    1122|       3
---------------------------------------------------------------------------
 1092- 1122 (52.63/39.50)	LQNSTGSAAIHYDEYI...HLAYARSLDKAWVFA
 1124- 1157 (49.38/27.89)	LTDSNGNENLIKSWYVgtsKTKFDDACNQIWSLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.95|      25|      28|     787|     814|       4
---------------------------------------------------------------------------
  787-  814 (40.73/30.26)	SNSLPFLLrhmPLSSIPDVF...RLSNPSIP
  816-  843 (41.22/22.21)	SEMYPDML...DLLSEQIVFdydALQNMGIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      68.12|      20|      38|     993|    1012|       7
---------------------------------------------------------------------------
  993- 1008 (22.34/ 9.80)	.......................KSSEKDVPLMMILPLN
 1009- 1046 (20.70/ 8.54)	SNDLselvrkvkifqtirnevkaKISNKELFLKVI.PMD
 1049- 1071 (25.09/11.92)	SNPL...............tsvdDCSNLCVSIYNILPL.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     121.59|      29|      29|     880|     908|       8
---------------------------------------------------------------------------
  880-  908 (52.21/31.11)	KFYPIKQPFVFIRKNQELIKIKAD.FQPFC
  909-  935 (43.83/24.95)	KYLNLRPPNG.IKNFKCLI.LTDS.FKDDC
  944-  965 (25.55/11.53)	QSY.IGHEYGFC....ELLKLNAEnYQ...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     123.18|      31|      71|     342|     372|       9
---------------------------------------------------------------------------
  342-  372 (55.34/33.55)	SAYTDQLRHYYKNN.SVGSHPNDTVSPSLDRL
  393-  414 (21.20/ 8.06)	KANVNELFNGNPNNkKQASDPE..........
  416-  444 (46.64/27.06)	SSYKDDLEQV..KN.SLLEKNEDSVFIPNDRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     148.11|      34|      34|     579|     612|      10
---------------------------------------------------------------------------
  579-  612 (58.08/31.25)	PRDRRKSVFAPLNFNPIIESN..VDNKYRNGGKFSF
  614-  647 (50.99/26.53)	PIQKDESLKFDLSSGAISSSE..DEESDSDDDDFAY
  659-  687 (39.04/18.58)	GEPHDQSHF..LGYPPIPGAGepLSMGY.NGG....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.88|      56|     125|     151|     213|      11
---------------------------------------------------------------------------
  151-  213 (86.82/78.41)	PT..................ELLQLEPHL..FANGDLAITICKKdmglIKMAEDKMDDkF..LRSHALYLAP..SG.IRTylAPNSKG
  261-  341 (71.06/45.11)	PTiasymnsptdvrkiiwplGLLFAQPALdiEASNDASKSLCQN....FQTTLDIIDD.FiqLKQTSSYRTPgsSGaIGT..NPLSSG
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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 MDP27660 with Med13 domain of Kingdom Fungi
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