<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 MDP29903

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDEIHIPYRLEMLVSNLYKVDTISKVNYAQYLPPNNDDQWSIQMELTLRRRDRSVLVALLSRELWCFSVNDDPLPKLTATEKITDLSAEANNDTSPVTANKSGEFTSDYSKPNLPPHYALFLKALRKVIYINLATNSNNQLIQYGNACVSLLQDPSGRSNPLLQLEPHLFANGDLTVSISTKDIGLIKLTEDDLREEFLKEHALYLAPSGIRMYLPSNTNKQQILCKAPPNAATLLETLSVSHGITLVDNGDMKWVKVIPHLGHLNGYTPSIASYMKPPTNPRKIVWPLELCFAQPATVVSKGASDCSIHQDLNGMMDLVDDFIQVKQTSAYRTPGSSGALNTNPMSSGGGYTEQFQQSYRNLANTTNNAGSFPMSNPPATKHSPLASLPVSHESKDSAHIPDTVNSANGLTLANNLLLSPNLTTAMEKGGVNGRQDSFNLEFSHTPSTNGHANNQLFSIDKKQTNEPSTISPVKGDIGYGLIMDTVIPGTNGSQDQPHSETQEDVQEEPADDKELFGDDDDDDDDDNNTAMTDTMDVDQPKLKREPNGEAGDDDDLFGDINDNDNSSPSAEKTFHGVKTSDEITEDMFGMSDDEENGNSKAGTSRNSNEAPQSRDQASSEYFDYQKPPIRRFMKPGTKRKYTDIPFEEITLSNSPLYMDPGAPLPVDTPRDRRRSVFAPLNFNPIIENNVDNKYKNGGKFSISPAQKEDAFKFDVSTGDFSTSDEEDSDSSLESFDYNNAKQDLKSFEGSVHDSQFLNYQNVATGHDSVATGLLSNNDNIGTEPYMKDGSEGIWKISHNEIPQTDSPLKPVDASLQPIYNNLTENLSPESMAGSILQNKEKPLKKEEEKQLDILGAERGTDLTRCHINAENSEEKLPFNSLPFLLRHIPLSSIPDVFLDNNPKIRLSRKNQDILDLLAEQIIFDHGLLGSFNIPEIRYDDILVDKDGFIANTMEQIFPNFQNILGSDIISKIYPMKQPFVYAKKQHEIIKIKTDAQPFAQFLNIRSAMGIKNFKLLLLTTSYKDDCALFNSTLSQTYINHEFGFCELLTLTSEVVNGLIYLKDFDKNKLMLLAAQIVSYCTTNKKTEKDVMLMILLPLKDNTLNEILTNINVFQIIRNEVRAKIPNMDLFLKVIPLDFIKNPLTSVDDYYSVCASIYNVLLPKKTKFTAIAHKLPDKVEFRTLPQGNAPSFINYDSYIHLSYSRSVDKQWMFGVLTDSEGKNTSVRTWYIGGSKRLFDEVCNKLWTLALSLATTKYGKICLILTRLSGILPDDELMNWRRLSGRNIHLAVVCVDDNTKISFYDQDAVYPSFKPIFKDAKLARPYDESALDDYEIRDVDDDVHGVIFQNPFPLANSQHRCAIRSGALIKFKRTHGDAMWDKLEVNLLNCPHSDSTNLLEKILEEFRNLAALNVWFGVSNGEDSHIPWHVLAVKKMMKSMVYTQVEVISE
Length1449
PositionKinase
OrganismKazachstania naganishii (strain ATCC MYA-139 / BCRC 22969 / CBS 8797 / CCRC 22969 / KCTC 17520 / NBRC 10181 / NCYC 3082) (Yeast) (Saccharomyces naganishii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Kazachstania.
Aromaticity0.08
Grand average of hydropathy-0.473
Instability index41.34
Isoelectric point5.03
Molecular weight162410.84
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

>MDP29903
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      94.58|      28|      33|     510|     542|       1
---------------------------------------------------------------------------
  496-  533 (40.05/16.28)	DQPhsEtqedvqeeP....ADDKELFGDDDDDDDDDNNTAMT
  539-  567 (21.65/14.39)	DQP..K....lkrePngeaGDDDDLFGDINDNDNS.......
  569-  592 (32.88/14.00)	..............P....SAEKTFHGVKTSDEITEDMFGMS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.87|      28|      33|     601|     628|       2
---------------------------------------------------------------------------
  601-  628 (49.91/28.56)	KAGTSRNSNEAP..QSRDQASSEYFDYQKP
  635-  664 (46.96/26.45)	KPGTKRKYTDIPfeEITLSNSPLYMDPGAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     224.79|      72|      80|      66|     142|       3
---------------------------------------------------------------------------
   66-  142 (114.42/89.42)	CFSVNDDPLPKltaTEKITDLSAE..ANND.TSPVTANKSG..EFTSDYSKPNLPPHYALFLKAlrKVIYINLATNSNNQLI
  148-  224 (110.37/73.03)	CVSLLQDPSGR...SNPLLQLEPHlfANGDlTVSISTKDIGliKLTEDDLREEFLKEHALYLAP..SGIRMYLPSNTNKQQI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.63|      12|      38|     407|     420|       4
---------------------------------------------------------------------------
  407-  420 (16.67/14.74)	SANGltLANNLLLS
  448-  459 (23.96/14.08)	STNG..HANNQLFS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     162.94|      53|      61|     728|     788|       5
---------------------------------------------------------------------------
  711-  744 (44.81/21.67)	...................AF..KFD.VSTGDFSTSDE.......EDSDSSLESFDYNNAKQ.D
  745-  806 (75.86/63.75)	LKSFEGSVHDsqFlnYQNVAT..GHDSVATGLLSNNDNigtePYMKDGSEGIWKISHNEIPQtD
  809-  846 (42.27/21.04)	LKPVDASLQP..I..YNNLTEnlSPESMAGSILQNKEK....PLKK..................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     181.47|      57|     187|     949|    1007|       7
---------------------------------------------------------------------------
  949- 1007 (90.89/70.37)	FIANTMEQIfPNFQNILGSdIISKIYPMKQPF.VYAKKQHEIIKIKTDAQPFA.QFLNIRS
 1139- 1197 (90.59/60.20)	FIKNPLTSV.DDYYSVCAS.IYNVLLPKKTKFtAIAHKLPDKVEFRTLPQGNApSFINYDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     149.59|      44|      63|     225|     270|       8
---------------------------------------------------------------------------
  225-  270 (75.22/46.59)	LCKAPPnaATLLETLSVSHGITLVDNGDMKWVKVIPHLGHLNGY.TP
  291-  335 (74.37/40.81)	LCFAQP..ATVVSKGASDCSIHQDLNGMMDLVDDFIQVKQTSAYrTP
---------------------------------------------------------------------------




































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 MDP29903 with Med13 domain of Kingdom Fungi
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