<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 MDP10223

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMFEASPSNISTHYYKLAHINSINYSIYTSNGNDQSLLELELLIRHNHPKIFITYYNKCLYHFTFGNQTASADLPELVKGVEANFDSNVFDSSKEYPTLQLKHTNLVNVDVLSNPPKPSPGAPASLDENLSLANLSFLKAVKKMVLYNLSLHGLIQLFGNYCVLINGKSSDGMHSILYLDSILLSNGDLLVSVVVKQQLSLFSSSVLAIENEIDSQIPAQTDLHFVIYLIPSGIRCHLFDTVNFHKNFIKKTIDNENLLTLIKLSTGVDYFEMKQEIIWVKLIPNLKHLNNQTSSICKFIHSVDNKKFILWPWNLCLLQFGKYESTDEDFEDSTDSSNTNPLSLISDFIDFNITNHQNNLNNNNNLQQAGPAPFSIFSVNSSGNGGGSTGPTGPGHVEQSKDLNSIEHNDITTPANSDIFGLQQTPNEFFGKDDQSFQAFPAETDPSKKIDNEPQGNQDDMEIDDLFGDDGSDIEVLEPEEAQKANLPNKEQEKSKDDPVEDGRIDNLFGDDIGYEEHNEPSSVNEAKGDFDNSSVKTQLPKCFEKPTFIDIPKDQMIKKLLTPDYNDPGAPLPIMPTPVIPQSTNFGSQSAGPGSGPAFNSGPAFSSAPTFNSGYPELQDEKPTQKSVFSPIIFNPIIKSNIDTKYGKGGKFYVDKESSADPDMEKKRRNMRATSVSGFEPPFSREAFIEGERLQNKAYNPLNNPTFDDDEDEESGASETSEESDADDEMVDKIGISPPLKLNTTEDVFHPNGAGIGVAGVSNGTAIHENHLNSNNYGLNDKSMISNQVTASFGSPSSNLFMKIPPLKPDSPFYTGDLPNSMSPIDHSPQHPNQTPSQNQSTPSNQAQNTPTPSHTPNQWGGKAEDIKIGEASNYLPLILRNINVSTIPNTFLLNNLISDRLIPLFTINVDDDPDNDLELTQNNEMIITVTHLDIFLECIGPNLIYDLGLNSKGPQMGYYNDKLKKLNDACHEPIDYKLPPASFNESFKAIFPNSYQVKLAEFLADPKAQEGNLDIDSQLNFLDDITNDEDILNPNSLPIKLKTLEWNSIDTQELNTENANKYMSIMSQIKDTQKINEEDHYFKLPVIKSRVMKNENIVNLNTIGFNFWKYLNFSPLKSPKNFQILLISEDNGRGSSFNGEFLDLLCNSYNENNLGNISKINLASVESRPDLESIIDGQLLMSHNEDDAYNDTYKYINNRLNSLVELIKLDLINKTNNFEFDRPLCILFANFNEKFNSLLQISKIFRNFRIFLTHHQLPLVRIFTKIIPGNYIVKQRPYQRNQMRIISNYKLSKLSLNLYNQCPTCSSNNRGPANVSDTSLYTQLVQEPPTKIHFKFLNTNLKDNNFKDDIFLHLAYERSIDKNWISAAWSDPLGVVTHSKSWYCGQNAKRSIHDLGAISDDIWSISCECFKKLNDEMGRSSGGGMGTGGNPSGKKFLVLTRVNNVIPDDELIHWKRLSIKHKDVSLIVLSVNDSTKLLFCDDLPNSDISNSRNLSSSISGLGSFAASSNLQASVNSFEKDSNNVGFNSSPLMTSPSLGLNFHSPQQFLNVPSNFLSPGDFGPGSTNNSGAGAEGNSNEGASLPQSILHDLDSDMMGIIPKVPLPSFNSPARLGMKNGYLFKRLTNSVVDSADKSRSSYLIFEVNLLSCSNYWDLEVLMKLILGHYNKLIVLNDILGLRDYDGNINMYDLKEDLKREVELGKLKFEVEGMIPWHIAAVRKSLGYLTHILVEDS
Length1733
PositionKinase
OrganismSuhomyces tanzawaensis NRRL Y-17324
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Suhomyces.
Aromaticity0.09
Grand average of hydropathy-0.459
Instability index39.25
Isoelectric point4.95
Molecular weight193383.27
Publications









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

>MDP10223
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.43|      14|      16|     811|     824|       1
---------------------------------------------------------------------------
  811-  824 (27.79/13.40)	SPFYTGDLP..NSMSP
  828-  843 (23.64/10.26)	SPQHPNQTPsqNQSTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.76|      17|      18|     974|     990|       2
---------------------------------------------------------------------------
  974-  990 (30.54/15.71)	PIDYKLPPASFNESFKA
  993- 1009 (28.22/13.99)	PNSYQVKLAEFLADPKA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      74.85|      17|      45|    1054|    1071|       3
---------------------------------------------------------------------------
 1054- 1071 (25.57/18.25)	ELNTENAN..KYMSiMSQIK
 1075- 1089 (24.53/12.40)	KINEE..D..HYFK.LPVIK
 1100- 1118 (24.74/12.58)	NLNTIGFNfwKYLN.FSPLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.90|      22|     107|     297|     336|       4
---------------------------------------------------------------------------
  319-  349 (32.90/45.61)	FGKYESTDEDFEDSTDSSntnplslisDFID
  429-  450 (41.00/14.83)	FGKDDQSFQAFPAETDPS.........KKID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     128.38|      29|     202|     376|     419|       5
---------------------------------------------------------------------------
  376-  404 (50.57/18.01)	FSVNSSGNGGGSTGPTGPGHVEQSKDLNS
  586-  613 (47.94/16.33)	FGSQSAGPGSGPAFNSGPA.FSSAPTFNS
  634-  656 (29.86/23.25)	FNPIIKSNIDTKYGKGGKFYVDK......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     228.48|      59|     447|      64|     122|       6
---------------------------------------------------------------------------
   64-  122 (99.87/65.99)	FGNQTASADLPELVKGVEANFD.SNV...FDSSKEYPT.LQLKHTNLVNVDV.LSNPPKPSPGAP
  466-  521 (78.06/49.54)	FGDDGSDIEVLEPEEAQKANLP.NKE...QEKSKDDPV.EDGRIDNLFGDDIgYEEHNEPS....
  523-  571 (50.55/28.78)	.............VNEAKGDFDnSSVktqLPKCFEKPTfIDIPKDQMIK..K.LLTPDYNDPGAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     425.27|     114|     704|     853|     969|       7
---------------------------------------------------------------------------
  261-  304 (36.18/13.28)	..............IKLSTGVDYFEM.KQEIIW...VKLIPNLKHLNN..........QTSS..ICKFIHSVDN...............................................................
  853-  969 (185.63/117.40)	PSHTPNQwGGKAEDIKIGEASNYLPL.ILRNIN...VSTIPNTFLLNN..........LISDRLIPLFTINVDDDPDNDLELTQ..NNEMIITVTH....LDIFLECIGPNLIYDLGLNSKgPQMGYYNdKLKKLND
 1206- 1273 (60.39/27.95)	.............................ELIK...LDLINKT...NN..........FEFDRPLCILFANFNEKFNSLLQISKifRNFRIFLTHHqlplVRIFTKIIPGNYI........................
 1563- 1674 (143.07/78.77)	PGSTNNS.GAGAEG.NSNEGAS.LPQsILHDLDsdmMGIIPKVPL...psfnsparlgMKNGYLFKRLTNSVVDSADK....SR..SSYLIFEVN........LLSC..SN.YWDLEVLMK.LILGHYN.KLIVLND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     121.80|      37|     155|    1120|    1192|       8
---------------------------------------------------------------------------
   16-   56 (59.08/19.55)	LAHINSINYSIYTSNGNDQSLLELELLIRHNHPKIfityYN
 1155- 1191 (62.72/24.64)	LGNISKINLASVESRPDLESIIDGQLLMSHNEDDA....YN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.84|      11|      17|     708|     718|      10
---------------------------------------------------------------------------
  708-  718 (18.81/11.21)	DDDEDEESGAS
  727-  737 (19.02/11.43)	DDEMVDKIGIS
---------------------------------------------------------------------------




































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 MDP10223 with Med13 domain of Kingdom Fungi
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