<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 MDP25857

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTDSLTYRLDDLLSSFYRIERLEKVNFHQYVPKKQEDQWSIQMELLLRKQDPRNLVALLSRELWCFSINDQEVPTPPKLGGDESNSEELIPDKKGHFTADYSKPNLPPHYALFLKALRRMIYINITAKSFNKLIPYGNACFSLDGVKACQVLHIEPHLFDNGELVTTITTKSPGLAPLSIDRIEDSFLKNHALYLAPSGIRMYLPSSNKQKCLTRPPKNAEVLLMTLYVSHGIRLIEKRDLQWVKLIPHLGHLNGLTPNIASYMDPPTDARTIIWPLDLCFAQVVSDNQFDSKESPCYHDLNDAFDVIDDFVQLKQTSAYRTPKSSSGTTGAVLSGNALSSGGAYTDQFQPYYRSQIGSAPSTSYLLSKENSDLKPISRDTSPAYSSFEKPLTGSGEHFGPSAFSTTPSLNESEIFNDKKSLMNEGDVSPLKSDVGTSLKQMLRETEPPMAPMAMVSPSRDVSPSQKHEAVTDSPRDEELFGDEDDEDLFGESNNLSSGENKSHGGTPARKGKSDEITDDMFGMSDDEEQDHNEKDKESPYFFRDGRPPPLEQPLKKANLKRKYLDIPIEEMTLTHTPLYTDPGAPLPIETPREKRKSVFAPLNFNPIIESNVDNKYKNGGKFSIGPSHNDEALIFDISTADSSSSEDDSDSSDEFEGLNIRPDIRSTELTTQDPQYGSYLQGVQDSVPQELLRNELMSTSVPPGSEMLKEGSNTIWRMSNPDISQPESLLTTLNDNLATDGTLTKMSTTPDQLTGISKITRGGQLPPFSENEVSLPETTDTSLMPESSSSLPFLLRHMPLSSIPDVFYSSNISATITRKNQDILGLLAEQIVFDSDMFDGVGGPDIAYSALKECNDLGLISNTMRDLFSDFSRIRGDNIISKIYPIKVPSIHVRRHHEVIKMNADSQLFSQYLNVRPAKGIKNFRFLMLTASFFEDCSSFVSTLSQTYINYEFGFCELLKLTGEDTQGLNFLQNFEESKLLLLAAQIVSYCSTNKNAGKDVPLMIILPIETNSLEEIVTKTSKFETIRNEVLSKIPNAQLFLKLISMEFVRNPLISVDSYGNLCLSIYNILPPKALKFTSIACTLPKEITFRTMQQTNASSAIHYDAFIHLAYARSVDKEWVFAALSDSTGNENMIKTLYVGRSRSKFDEACNEIWASALRLASTKCGKLCLILTRLNGVLPDDELMNWRRLSGRSIHLAVVCVDDNTKISFLDQDDSYPTFKPLLQNGERTKKLDTSTFDDYEVRNIYDDVHGVIFRNSFPLTNSQHRCAIKSGALIRYKDCDGDKILDKFEVNLLNCPHSDSTKLLETILEEFRSLSALNSWFGISSGKITHVPWHVLSVKKMMKVLVHTRVKVLE
Length1360
PositionKinase
OrganismZygosaccharomyces rouxii (strain ATCC 2623 / CBS 732 / NBRC 1130 / NCYC 568 / NRRL Y-229) (Candida mogii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Zygosaccharomyces.
Aromaticity0.08
Grand average of hydropathy-0.404
Instability index47.72
Isoelectric point5.29
Molecular weight152514.78
Publications
PubMed=19525356

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

>MDP25857
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.05|      31|      32|     484|     514|       1
---------------------------------------------------------------------------
  484-  514 (54.69/32.54)	DEDDEDLFGESNNLSSGENKSHGGTPA..RKGK
  516-  548 (52.36/30.83)	DEITDDMFGMSDDEEQDHNEKDKESPYffRDGR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.15|      30|      32|     807|     838|       2
---------------------------------------------------------------------------
  807-  838 (41.06/32.18)	DVFYSSNISATITRKNQDiLGLLAEQI..VFdSD
  841-  872 (48.09/28.22)	DGVGGPDIAYSALKECND.LGLISNTMrdLF.SD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.00|      16|      32|     321|     336|       3
---------------------------------------------------------------------------
  321-  336 (27.72/13.06)	YRTPKSSSGTTGAVLS
  354-  369 (26.28/12.02)	YRSQIGSAPSTSYLLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     118.82|      29|      32|     402|     431|       4
---------------------------------------------------------------------------
  377-  398 (32.40/13.51)	PISRDTSPAYSSFE.....KPLTGSGE..
  402-  430 (47.67/25.52)	PSAFSTTPSLNESEIFNDKKSLMNEGDVS
  442-  464 (38.74/18.00)	QMLRETEPPMAPMAMVSPSR......DVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.88|      22|      32|    1247|    1270|       5
---------------------------------------------------------------------------
 1247- 1270 (36.32/26.93)	VRniYDDVHGVIFRNSFP..LTNSQH
 1280- 1303 (37.57/21.49)	IR..YKDCDGDKILDKFEvnLLNCPH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.21|      32|      33|    1177|    1208|       8
---------------------------------------------------------------------------
 1177- 1208 (55.76/32.23)	TRLNGVLPDDELMNWRRL..SG.RSIHLAVVCVDD
 1210- 1244 (43.45/23.53)	TKISFLDQDDSYPTFKPLlqNGeRTKKLDTSTFDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.81|      15|      34|     581|     601|      12
---------------------------------------------------------------------------
  549-  565 (23.46/12.97)	PPPLEQPLKKAnlKRKY
  587-  601 (27.36/ 8.92)	PLPIETPREKR..KSVF
---------------------------------------------------------------------------




































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 MDP25857 with Med13 domain of Kingdom Fungi
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