<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 MDP28621

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSTEEVSYRLEDVLTNFYKIEKIEKINYAQYTCKNRDDQWALKTEMILRKNDPKCLIASLSRELWCFSMNDDPLPIIHSTASDTLNNTKQKNNSGNSNDTDNLTLDLTNTKVPSTTDDTIVHPDKSDVFDANYSKPNLPPSYAIFLKALRRMIYLNLTSKSNRNLLPIGNGCIISYFDYNKENKYMPKSLINIDDENLRSKTYLHNKSDRTVKTYILQIEPHLFENGDLTLSLSLKHSDLLPLNIGSIPPANDQNGFIHKSFVKENAIYILPSGTRAYLPSLQLKDCLTTQPENSEVLLKTLAISHGVDLLERKKEIEWIKIIPNLTNFNGQLPTIASFNKPSDDTRTISWPLDLIYIQPASNNKSASPLHETYSNSQSAKLEGNKTKSQQCNNTSSGSNNNSSNIFPSDLDDAFNIIDNYIQLRQSSAYRTPGIFGALSTNNPSSSGGAYTDQFQIFNRSTASNSNSVSIATANAHSTSEMNPRSAQPFSTTNSYSNIDMKFTPTLDQTLVNKTAPVTSQPGKIIRSLSENPIAAKSTSSIDMLTNEGTDNKIRDVIEQPPFSSKESSNFESVSIDSVEDKELFGEDYEDFENEENNNSFNETRTVSDKPNKTRNASDEITEDMFEMSDDEEGENTNSRNRMFTNSLESDNKRFFKENIEKIQRDPTKRSTLKRQYLDIPLEEITLSNSPLYMDPGAPLPVETPRERRKSVFAPLNFNPIIESNVDNKYKSGGKFSFEPSQSEEALNFDISKNSISESGDDSDGSDDLEDLEYKGEDKNEFNTIDLNFPITNGTMHDLQGQLSSGLVKNDQISSTFPNTNEDTKYAINSIWRSPPSDGLNVNSPVRMNEPQASYIYPESKMAIDIFPKFSLQQNRTKDRKPLDKNSNDEVFPESLKNTSPSRVINESKNSNYEFATSSIASLPFLFRHMPISSIPEEYTTSNPIVKLNSPKQDILNLIAEQIIFDWDKLDNLHYPDKSYIGVTSCSDGLIKSTVSDLFTSFERVNGNILIEKMYKTQSPSIYLKRRNEIIKIRADCQPFSKYLNLKPVNAIKNFKLLLLTTSNKLDCPAFVSSLCQTYISHEFGFCERLKLNNEDTEGMVYLDDYQDSRLLLLATQLVAYCLTTQNSSRAIPILLIFPLKSNSLSDLVLMTSKFQIIYDEVKAKIPNAELYFKTVLMDFIKDPLTLIDDYHDLSVSIYNNLPKKSVKFTSIVPKHPDKIKFRTSQSNNIPSAIHYDTYIHLAYSRSIDKEWIFAAFSDSFGKDTSTRVWYVGRSKTKFDQACTEIWANALKLASTKYGKICLILTRLNSILPDDELMNWRRLSGRNIHLAVVCVNDTSKISFVDEDQLYPTFKPSFKDDSFSTPINPHKLGDYELRDISQELYSIIFEYPFPLSNSQHRCAIKSGALVKFNQRRGSLLPKFEINLLNCPHSDSTQLLQTILSDFTNLAALNPWFGISKGEYSHIPWHVLAVKKMMKMMVHINVETE
Length1487
PositionKinase
OrganismTetrapisispora phaffii (strain ATCC 24235 / CBS 4417 / NBRC 1672 / NRRL Y-8282 / UCD 70-5) (Yeast) (Fabospora phaffii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Tetrapisispora.
Aromaticity0.09
Grand average of hydropathy-0.556
Instability index46.22
Isoelectric point5.52
Molecular weight168695.51
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

>MDP28621
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     154.45|      42|      42|     489|     530|       1
---------------------------------------------------------------------------
  489-  530 (72.52/50.23)	PFSTTNSYSNIDMKFTPTL.DQTL..VNKTAPVTSQPGKIIRSLS
  533-  575 (59.31/39.37)	PIAA.KSTSSIDMLTNEGT.DNKIrdVIEQPPFSSKESSNFESVS
  591-  614 (22.63/ 9.22)	DF..ENEENNNSFNETRTVsDKP....NKT...............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.10|      22|      22|     694|     715|       2
---------------------------------------------------------------------------
  694-  715 (39.28/22.18)	MDPGAPLPVETP.RERRKSVFAP
  718-  740 (33.82/18.09)	FNPIIESNVDNKyKSGGKFSFEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     349.66|     113|     348|     947|    1081|       3
---------------------------------------------------------------------------
   52-  172 (182.65/107.56)	DPKCLIASLSRELWCFSMndDPLPIIHSTASDTLNNTKQKNNSGNSNDTDNLT.LDLTN.....TKVPSTTDDTIVHPDKSDVF....DAN.YSKP.NLPPSYAIflKALRrmiyLNLTSKSNRNLLP..IGNGC
  950- 1076 (167.00/143.40)	SPKQDILNLIAEQIIFDW..DKLDNLHYPDKSYIGVTSCSDGLIKSTVSDLFTsFERVNgniliEKMYKTQSPSIYLKRRNEIIkiraDCQpFSKYlNLKPVNAI..KNFK....LLLLTTSNKLDCPafVSSLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.31|      34|     101|     331|     373|       4
---------------------------------------------------------------------------
  227-  260 (58.76/27.82)	GDLTLSLSL.KHSD.....LLPLNIGSIPPA..NDQNGFIHK
  331-  372 (47.55/43.95)	GQLPTIASFnKPSDdtrtiSWPLDLIYIQPAsnNKSASPLHE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.65|      24|      27|     768|     793|       5
---------------------------------------------------------------------------
  768-  793 (38.27/28.45)	DLEDLEYKGEDKNefNTIDLNFPITN
  798-  821 (42.38/24.84)	DLQGQLSSGLVKN..DQISSTFPNTN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.74|      14|      22|     858|     875|       6
---------------------------------------------------------------------------
  858-  872 (21.77/21.59)	PESKMAID.IFPKfSL
  882-  896 (21.97/ 6.34)	PLDKNSNDeVFPE.SL
---------------------------------------------------------------------------




































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 MDP28621 with Med13 domain of Kingdom Fungi
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