<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 MDP32606

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMPEAIDASSIATNYYKLAHLCSVTYLIYTTNGATNDSTLLELELLIRHSHPKCLVTYYNKYLYYFQFNHVDEHVDLTKEYPQLQLKYSNQVSADLLANPPKVASDKDNHSTGNEYLAYACLSFLKAVKKLVLFNLSRNEAVQLFGNYAVVKEQGLSNFILHIDPILLPNGDLLISISEKCHLQLFDSSIVDISEIEAVDLNFVLYIIPSGIRCHLYDNVNVASNFTTDPPKNSEVLMQLIKYSTGFDLNQLNSLVWVKLVPNLQHLNNQTSKISKFIHPVDNKKFILWPWRLCLLQFGLSEKDTATSPHVLTCDPISLISDFIDFNISHHQQANITGQLNPNHQHNQSFNYSIPSALSTGMSSTGANENKGDLNMVGDIPGSVSDIFGIQSSDTNDFFNGPNFQPAQNPSDVKLDSQEPVKKNSDDEDVEMDDLFGDASEDEKAKTEVSTNELNEEKNFEDLFNDGLNQENQVDESDKVAKSIDEEVLKEESVKSEDLKEDKDLKMQPSSGTIPNTFIDIPKDQMTIPSLKNLKQTPQIYNDPGAPMPVIPTPIFPQFGINSTLPGSAQSVNPPTSAAATDNEANEGARSIFSPILFNPIIKSNIDTKYGKGGKFYVDKEVSAGPDIDSKRKTLRATSVSGFELPSRREDSIGIESITDDNDRRQVFEFPEEQGNERMKDEGHENHAAENDNIIKKMEELEEEDDNDDDDDDDDDDDENEDEDEESDEDDDLNLENNDMNMKRSPPLKLNTLNDPYVAQSNQAVVNFNDSNYNAKQILPNSYNASSMNTGGFSSPASLGFSSSRTNVPPKNDSPFGLNNLAREDRNGTTSPTGDNSDQPTKRQEQSDSPMVVDMEVEKKSTSKEAENTPSGMTTPNSRGSISESSNCLPLILRGVNVASIPTSFILNNVIVSNKISTISTNFDMDVDDETEWSDYELCKNNEMTVKLNNLDEFLKCLGPNLIFDMGLNKLQNSLEMKLSNNERDDEEYDNIEGKAPSRQFENKLCDIFPFCYKVNLNEFTTEAYVNELKGETTTIQDELDNQLSFLDDITNEDILNPKTQLKKLNSIEWDAIYSDSSSNEDNSKKYQGMVHNVGQSSLVNTLEDGTIFPLANDKARVLKHNDTIINLNSIGIKFWKYLNFSPLNGPKNFQLLLISEHDHNMLHHNYNIEFLNSLVYNYKECCFGNISKINLQSSDSRPDMEGIDNGLLMVHKKDEDQVYGNMYKQVNRKLNALVEMIKSDLINKTNKFEFDRPLLLLFINFDKSVNSLLQISKLIRNFKLFLSHHQLPLVEVFAHIIPWSLIIKQSGSQRRLKYLSNFRLSKLSMNLYNQCPNERTIGKPVKDPTKHLFTQLVKEPPSNLNFKFMNNGSNGNGKTTFNDDIFLHLAYERSIDKNWFSAAWSDPLGVVVSTKSWNCSPNLQKTNNKNVHSLESISDEIWTISTALFKKLNDEIIKRTSGLGGKKFLVLTRINSIIPDDELIHWKRLSMKHKDVSLIVLSVNKSPKLLFSGPIGPSQQEDKSNYDPNTNRTSTNMDNSSSTNAANPTCGVGATSNAPDFFKTFGSNNPSPNNNAGSMSISPSNNVGINFHSPQQFLNAPGNFLLPQDFVSSTGGSTNINANPHSNASQYNPDEIIHDPTEELTAVIPKAPLPSFNSPTRLGMKIGYLIKETGVSTHEDTKQYLVYEINLLSCSNYWNLNAIMKILLNQYKKLITLNDILCVGEIDGSITDDRAEKDSNIIPEMTPPLNYTASGLIPWHIAAVTKSLDYLIHIDVEE
Length1774
PositionKinase
OrganismDebaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (Yeast) (Torulaspora hansenii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Debaryomyces.
Aromaticity0.08
Grand average of hydropathy-0.559
Instability index39.56
Isoelectric point4.79
Molecular weight199034.66
Publications
PubMed=15229592

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 (By similarity). 
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

>MDP32606
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.36|      14|      15|     701|     714|       1
---------------------------------------------------------------------------
  701-  714 (26.71/15.63)	EEEDDNDDDDDDDD
  718-  731 (25.65/14.67)	ENEDEDEESDEDDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.77|      11|      15|     779|     789|       2
---------------------------------------------------------------------------
  779-  789 (21.40/12.07)	PNSYNASSMNT
  795-  805 (19.37/10.12)	PASLGFSSSRT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     122.83|      39|      40|     823|     862|       3
---------------------------------------------------------------------------
  823-  848 (31.45/18.50)	.......................EDRNGTTSPTGD.NSDQPTkRQEQSDS
  849-  884 (53.13/29.66)	PMVV.DMEVEKKSTS.......kEAENTPSGMTTP.NS.....RGSISES
  889-  934 (38.25/19.08)	PLILrGVNVASIPTSfilnnvivSNKISTISTNFDmDVDDET...EWSD.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     140.93|      42|      45|    1100|    1144|       4
---------------------------------------------------------------------------
 1103- 1144 (72.44/46.77)	EDGTIFPLANDKARVLKHNDTIINLNSIGIKFWK..YLNFSPLN
 1147- 1190 (68.49/36.72)	KNFQLLLISEHDHNMLHHNYNIEFLNSLVYNYKEccFGNISKIN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.86|      51|      86|    1360|    1419|       5
---------------------------------------------------------------------------
 1360- 1419 (84.18/63.44)	LNFKFMNNGSNGNGKTtfnddiFLHLAYERSI...DK..NW..FSAAWSDPLGVVVSTkswNCSPNL
 1448- 1505 (73.68/38.32)	LNDEIIKRTSGLGGKK......FLVLTRINSIipdDEliHWkrLSMKHKDVSLIVLSV...NKSPKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     149.19|      33|      45|    1521|    1553|       7
---------------------------------------------------------------------------
 1521- 1553 (56.79/24.78)	NYDPNTNRTSTNM..DNSSSTN....AANPTCGVGATSN
 1565- 1599 (53.48/22.93)	NPSPNNNAGSMSIspSNNVGIN....FHSPQQFLNAPGN
 1609- 1642 (38.92/14.79)	STGGSTNINANPH..SNASQYNpdeiIHDPTEELTA...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     132.36|      36|      45|     421|     460|       8
---------------------------------------------------------------------------
  385-  410 (34.79/14.72)	............DIFGIQSSD..TNDF.FNGPNFQPAQNPS
  421-  460 (51.07/35.39)	KKNSDDEdvemDDLFGDASEDEKAKTE.VSTNELNEEKNFE
  469-  505 (46.49/23.62)	QENQVDE....SDKVAKSIDEEVLKEEsVKSEDLKEDKDLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.74|      12|      15|     323|     334|       9
---------------------------------------------------------------------------
  323-  334 (22.24/12.55)	IDFNISHHQQAN
  339-  350 (23.50/13.72)	LNPNHQHNQSFN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.47|      14|      15|    1034|    1047|      10
---------------------------------------------------------------------------
 1034- 1047 (23.97/14.72)	TIQDELD..NQLSFLD
 1050- 1065 (18.50/ 9.45)	TNEDILNpkTQLKKLN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.97|      14|      15|     737|     750|      11
---------------------------------------------------------------------------
  737-  750 (25.07/16.71)	NDMNMKRSPPLKLN
  753-  766 (22.89/14.45)	NDPYVAQSNQAVVN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     323.71|     108|    1048|     142|     262|      12
---------------------------------------------------------------------------
  142-  262 (153.66/131.71)	QLFGN.YAVVKEQgLSNFILHIDPILLPNGDLLiSIsEKCHLQL...FDSSIVDISEIEAVDLNFVLYiipsgIRCHLYDNVNVasnFTTDPPKnSEVLMQ.....LIKYSTGFDLNQLnSLVWVKLVPN
 1217- 1333 (170.05/104.58)	QVYGNmYKQVNRK.LNALVEMIKSDLINKTNKF.EF.DRPLLLLfinFDKSVNSLLQISKLIRNFKLF.....LSHHQLPLVEV...FAHIIPW.SLIIKQsgsqrRLKYLSNFRLSKL.SMNLYNQCPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.58|      18|      34|     977|     994|      14
---------------------------------------------------------------------------
  977-  994 (31.50/20.54)	KLSNNERDDEEYDN.IEGK
 1013- 1031 (26.08/15.53)	KVNLNEFTTEAYVNeLKGE
---------------------------------------------------------------------------




































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 MDP32606 with Med13 domain of Kingdom Fungi
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