<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 MDP00510

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMERSWVEFSGIHTQHCYNSSSNSNNSSISSISSSSSDSVTTGARDLEADADSSCRQSGLSSNDQMEIDCLKMGSKRPRIGITESYGQAITVTNASSQDAYKSNIGSMEVNHSAITAVGNDQIGSNWDWDDDDRGIVMDIQSLLSEFGDFGDFFENDVLPFGEPPGTAESSAIMFAAPDCGDAGSSPAGVMDVSDQMLLPVCLPSFDSFTPHPPVAIEECLSKSQEVTSSAVTSGPLNHTLASSTGEFDHLMKAEALMTFATEYGAVETPASDSSSIFKKPYLPKSHKAESSNSSPNNYIYGATPPSSPCFDGLDEKTGMPMNLKAYPGGHDLSATYQLKKYYTPVETRKERYDGKLLTHNDSSVTNEVSGTSQFANFNSMNAVKSADRKMTQGICGKEHILLSMKTVLATDVECAMFQASMLRMRHILLSPMSLATISLSRPAGRSVLNHLPGDPSSMTDNVSSRYEVKKKESIPVRIAGDIDGGMLDGHLNAPVGVWRTVGVPKVSKPAASPSIEASPSLTHNSFNEDSILSYGQRQPLQELLDGIVLLVQQATSFVDLVLDADCGDGPYSWLALQEHWRRGFCCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSANIHASSVISLLHSDIKSALKSAFGNLDGPLSVTDWCKGRGQSGDVGASADGSSAESNTNECRDSSTTVTHSVGEAMSPSQTSVGGSSVLKVTGALDGGKVEETSQRRLNQEISGSESEQQQCTRLRPTLFVLPSPAILVGYQDDWLKTSANSLQLWEKAPLEPYALPKPIIYSVICPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQSLGNQMEMDSGKWSSSGFVLLDCPQSMKIESSNASLLGSISDYFLSLSNGWDLACYLKSLSKALKALKLSQFLSTNQKEGISGPCMVIYVVCPFPEPTAVLKTVVESSIAIGSIILPSDRERRSVLYSQVGKALSSSAAADEASISNIPVVSGFSVPKLVLQIVTVDAIFRVTSPPFNELVILKETAFTIYNKARRISRGSTNDVSLSSSLSSRPHSVLTPMTSIPGMWKDCVGSRIPGSSLPREGEIDSSLRGGAWDNSWQTSRAGGLSCDPNRNGDFFYQDEVCYMFEPLFILAESGSVEHGISPTAFGNSTSETSKTVSDESSGAFMQTANSAGSIDPGSGSQLDGSESDGVSSGNNKTPSLHCCYGWTEDWRWLVCIWTDARGELLDCDIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQTCASPDTGVVKPRDFVITRIGNFYELEYLEWQKAIYLVGGSEVKKWPLQLRRSVPDGMPTSTNGTSLQQQEMSLIQDRTLPSSPSPLYSPHTKAGFMKGGLGQPAARKQLMGGHTLVDSCRGLLQWVQSISFVSVSVDHSLQLVFQADSLSPGTQGVSGMGQSGYTEGFTPVKSLGSTSASYMLIPSPSMRFLPPTPLQLPICLTAESPPLAHLLHSKGSAIPLSTGFVVSKAVPSVRKDCRNYTKDEWPSVLSVSLIDYCGGNNVSQDKVIRGIAKPAGRTLISEARDFEIDNHLILKSVAAELHALSWMTVSPGYLERRTALPFHCDMVLRLRRLLHFAEKELSRPPDKTQV
Length1605
PositionKinase
OrganismTheobroma cacao (Cacao) (Cocoa)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Malvales> Malvaceae> Byttnerioideae> Theobroma.
Aromaticity0.07
Grand average of hydropathy-0.209
Instability index49.97
Isoelectric point5.25
Molecular weight172498.21
Publications
PubMed=23731509

Function

Annotated function Component of the Mediator complex, a coactivator involved in regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. 
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

>MDP00510
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     304.78|      85|     112|    1003|    1088|       1
---------------------------------------------------------------------------
   24-   68 (40.66/13.54)	...........................NNSSISSISSSSSDSVTTGAR..DL.EA...DADSScRQSGLSSNDQMEID...............
 1003- 1088 (146.31/72.32)	FNELVILKETAfTIYNKARRISRG.STNDVSLSSSLSSRPHSVLTPMT..SI.PGMWKDCVGS.RIPGSSLPREGEIDS.SLR.GGAWDNSWQ
 1115- 1202 (117.81/53.95)	FEPLFILAESG.SVEHGISPTAFGnSTSETSKTVSDESSGAFMQTANSagSIdPGSGSQLDGS.ESDGVS...SGNNKTpSLHcCYGWTEDWR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.56|      24|     112|     583|     611|       2
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  585-  610 (39.60/41.01)	CCGPSMVHAGCgGTLASCHSLDiAGV
 1237- 1260 (45.96/22.55)	CLFVQVLQQGC.QILQTCASPD.TGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      24.85|       6|     112|     184|     212|       3
---------------------------------------------------------------------------
  196-  201 (13.14/10.18)	MLLPVC
 1449- 1454 (11.71/ 6.82)	LQLPIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.76|      23|     107|     162|     186|       4
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  162-  186 (36.14/32.15)	EPPGTaESSAImFAAP......DCGDAGSSP
  267-  295 (34.63/20.21)	ETPAS.DSSSI.FKKPylpkshKAESSNSSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     319.81|     105|     638|     644|     764|       5
---------------------------------------------------------------------------
  644-  764 (162.37/106.70)	LDGPLSVTDWC.KGRGQSGD.VGASADGSS.AESNTNECRDssTTVTHSVGEAMSPSQTSvggssvlkvtGALDGGkVEETSQRRlnqEISGSESEQQQCTRL....RPTLFVLPS..PAILVGYQDDWL
 1288- 1401 (157.44/77.33)	LVGGSEVKKWPlQLRRSVPDgMPTSTNGTSlQQQEMSLIQD..RTLPSSPSPLYSPHTKA..........GFMKGG.LGQPAARK...QLMGGHTLVDSCRGLlqwvQSISFVSVSvdHSLQLVFQADSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.38|      15|     505|     972|     986|       8
---------------------------------------------------------------------------
  972-  986 (27.35/15.66)	SNIPVVSGFSVPKLV
 1471- 1485 (26.03/14.53)	SAIPLSTGFVVSKAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.45|      23|      25|     379|     403|      10
---------------------------------------------------------------------------
  379-  401 (41.16/24.79)	SMNAVKSADRK..MTQ.GICGKEHIL
  403-  428 (31.29/23.08)	SMKTVLATDVEcaMFQaSMLRMRHIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.58|      20|     646|     135|     154|      11
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  135-  154 (37.21/22.97)	IVMDIQSLLSEFGDF....GDFFE
  793-  816 (32.37/18.94)	ICPDIDPLTSAAADFfqqlGTVYE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.79|      24|     647|     219|     246|      15
---------------------------------------------------------------------------
   96-  119 (40.58/20.03)	SQDAYKSNIGSMEVNHSAITAVGN
  223-  246 (39.21/18.94)	SQEVTSSAVTSGPLNHTLASSTGE
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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 MDP00510 with Med13 domain of Kingdom Viridiplantae
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