<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 MDP28002

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTLEVNASNILTHYYKIAHLGSINYTIFTSVTDNHQQLLELELQIRHENPKILITYYNKCLHYFTFGHNKTTGDIDPVELVRQYPNIQLKYSNSITMDQLQNPHKPPATNTGSSEEYIPFENLSFLKAAKKMVLYTLSLNGIVKLFGNYCVTSQDEKTYTILYIDPILFPNGDLMISCVQRAQTKLFNYPSTDVLDEISEYVIYIVPSGIRCHLYDPSEFKNNIVEAGDVENSKLLQLLTLSTGVDFTKDEETITWVKLIPNLKHLNNQTSPISKFIHSVENKKFILWPWKLCLLQLGKFQELPEAPEPTTSSFKNPINLISDYLDFNISNNLKELQLQEEKLQKEQQKQPLTNAAYPSSVPSSNGDVGSAVNIEAVKDIGSIDMSMTTPMGEDLFNLPPSDAFFTKTENGDTVKEEEKSQEEEKPTDDMELDDLFGEDVSSDDDNNNNIQSETIEPETNNKHSSEEDKLDELLDVEVNDMIDKQEQERKPEELEPAYLDIPKDQMITKLTSPDYNDPGAPLPLIPTPFMQSTAPLSSTNPPSTGPNIESGYYPEEVPGNTNTSTVTQSAPSSQMPPQKSIFSPILFNPIIKSNIDTKYGKGGKFYVDRESSIDPDFEKHKRSIRATSVSGFHFNSGKEELKKRRPSLDKVQDSVSSSEESDEDEDMSDDMAISPPLKLNTEDEGSQYFPPVTNTMSGNGTNIRANSVSELHSTNVVLDKPGFNPSGLNTGGFGSPFASSIAKFSTFKAESPLSNHELQPTMSPMDFETAQLQQTPRLLPQTNPIENASKEAITESASPSKILGESSNYLPLILRSINVSTIPNLYLMNNLTTNKFLPNFSINDDDDMENDLEITKSNEMIIKLENLQEFLSFLSPNLVYDLGFSGFQSKLDYYLTRERKHQKPADFIKYQLPPDHFTGRFTSIFPYSYKVNLIEFLRDYRELESEIPLDNQLSFLDDITNDDDFADPRSQYKRLKSLEWDSLTLNDINKTTFDSFKELSYQMQDNVNVSEESYFKLPVVKTRIMKNDNIVNLNSVGLEYWKYLNFSPVQEPKNFQILLFSETFGTRDPTCANEFLDLLSNNYTECNFGNISRVNLSTVETRSDLESISNGVLLVNKDPSMGYNDFYIQANKKLISLVELIKLDLINKTNNFEFDRPLLLLFVNFNDSLNSMLQICKIFRNFKVALAHHQLPLVQIFTKIIPGNLIVKRMHEQTYLKVFSNTKLTKISMNLYNQCPNNLVHSDTSPNTIYTSIVKEPPTKIQFKFMSSGFKDNNFNDDIFLHVAYERSIDKNWFSAAWSDPHGTVTHTKSWYCSSSSQNGNSHYRGQASDIISITDDIWNVSTDFFKHLNDVMNNKVTTSGGKKFLVLTRINSVIPDDELVQWKRLSVKNKEISLIVLSVSQSPKLLFSSDVFGAKDVNGNEPMPFALNSHISQDQTPGSSSEKESIFRQFSASANSSPTTSSGALVTSPSGLSFHSPQQFLNAANFLSPQDHTSGMATSSAMAGGVGPDTVLHEPESDIIGIVPKVPLPSFNSPTRLGMKIGYLIKDWNDLKSSENPQYMVFEVNLLSCSNYWDLDVLMKLILNQYKKLIVLNDILGMRLINGKMMTSQKDNPQVINYKLNGMVPWHIAAVGKSLDYLVHVYVEE
Length1646
PositionKinase
OrganismSpathaspora passalidarum (strain NRRL Y-27907 / 11-Y1)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Spathaspora.
Aromaticity0.09
Grand average of hydropathy-0.458
Instability index46.00
Isoelectric point4.94
Molecular weight185973.04
Publications
PubMed=21788494

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

>MDP28002
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      29.01|      12|      44|     392|     435|       1
---------------------------------------------------------------------------
  392-  411 (12.54/10.08)	GEDLfnlpPSDafftKTEN....G
  437-  452 (16.47/29.50)	GEDV....SSD....DDNNnniqS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.02|      19|      44|     412|     435|       2
---------------------------------------------------------------------------
  412-  430 (33.42/13.85)	DTVKEEEKSQEEEK.....PTDDM
  483-  506 (25.11/15.83)	DKQEQERKPEELEPayldiPKDQM
  653-  671 (29.50/10.69)	DSVSSSEESDEDED.....MSDDM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.40|      27|      40|     144|     172|       4
---------------------------------------------------------------------------
  144-  171 (48.34/30.56)	KLFgNYCVTS.QDEKTYTILYI..........DPILFPN
  185-  222 (39.05/15.84)	KLF.NYPSTDvLDEISEYVIYIvpsgirchlyDPSEFKN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     135.12|      31|      33|     511|     542|       5
---------------------------------------------------------------------------
  511-  542 (59.38/36.62)	TSPD.....YND..PGAPlPLIPT..PFMQSTAPLSSTNP...P
  544-  577 (39.34/18.88)	TGPNiesgyYPEevPGNT....NT..STVTQSAP.SSQMP...P
  750-  780 (36.40/16.85)	ESPL.....SNH.......ELQPTmsPMDFETAQLQQT.PrllP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.65|      36|     232|      48|     122|       6
---------------------------------------------------------------------------
   76-  117 (56.26/67.19)	DPVELVRQYpnIQLKYSNSITMDQLQNP......HKPPATNtgssEEY
  316-  357 (56.40/15.54)	NPINLISDY..LDFNISNNLKELQLQEEklqkeqQKQPLTN....AAY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.51|      10|      44|      10|      19|       8
---------------------------------------------------------------------------
   10-   19 (20.23/12.85)	ILTHYY.KIAH
   52-   62 (16.28/ 8.91)	ILITYYnKCLH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.05|      10|      77|     624|     633|      10
---------------------------------------------------------------------------
  624-  633 (19.43/12.29)	IRATSVSGFH
  703-  712 (18.61/11.46)	IRANSVSELH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.04|      12|      46|     675|     686|      11
---------------------------------------------------------------------------
  675-  686 (23.38/14.59)	P...PLKLNTEDEGS
  721-  735 (19.65/10.89)	PgfnPSGLNTGGFGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.38|      23|      48|     987|    1011|      14
---------------------------------------------------------------------------
 1002- 1044 (26.18/16.49)	QMQDNVNV...SEesyfklpvvktrimkndnivNLNSVGLEYWKYL
 1050- 1078 (28.20/11.03)	QEPKNFQIllfSE.................tfgTRDPTCANEFLDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.09|      28|     347|     970|     999|      15
---------------------------------------------------------------------------
  970-  999 (41.12/36.82)	SQYkRLKSLEWDSLTlNDINKTTFDSFKEL
 1322- 1349 (51.98/35.93)	SHY.RGQASDIISIT.DDIWNVSTDFFKHL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.72|      47|     717|     784|     831|      17
---------------------------------------------------------------------------
  784-  831 (76.86/49.78)	PIENASKEAiTESA.....SPSKILGES.SNYLPLI....LRSINVSTIPNL...YLM...NNL
 1490- 1552 (59.87/33.77)	PQDHTSGMA.TSSAmaggvGPDTVLHEPeSDIIGIVpkvpLPSFNSPTRLGMkigYLIkdwNDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.34|      18|      33|    1126|    1143|      18
---------------------------------------------------------------------------
 1126- 1143 (27.64/21.01)	FYIQANKKLISLVELIKL
 1161- 1178 (30.70/24.41)	LFVNFNDSLNSMLQICKI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.32|      20|      35|     256|     276|      20
---------------------------------------------------------------------------
  256-  276 (32.94/22.64)	WvKL....IPNLKHLNNQTSP.ISKF
  290-  314 (27.38/13.60)	W.KLcllqLGKFQELPEAPEPtTSSF
---------------------------------------------------------------------------




































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 MDP28002 with Med13 domain of Kingdom Fungi
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