<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 MDP23179

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHESDVNSLVDKRVKPDKKDVATWLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLYNPDEKIKLWLFFPGQHSSVVEKAQSAISKLRVLASGLWVAPGDSEEVAAALSQALRNCMERTLRGLSYVRYGDVFTKYRPFSQNEELFRKGQPVVEFVFAATEEAIFVHVIISAKHIRALSSGDIDKISENTSNVSVEGLPVIVSPHGMRGRLTGCCPADLVKQVYLSSGKFSASNGIVGLPCNVSQSSYQLKGHNCYVEVNLGSTAPGNNNIQESLNIQNNSSRPTMTEASAVANFVQSKIPDNCGRVLIYPPEAVLVPVVQTACARSSLKRFWLQNWIGPSLSFTSSFMHCFDFHCDAKVNSVDGSWLDANVIRSNRRYNSSSNSNSSSVSSISTSSSDSDYKTSGTGDLEADADSLMCRQSGLSSLDRSQNDNLKTGFKRSRAGISESFSQGGAVINPSTSDYASMDANNSAITEGSDQIGLQWGWDDDDRNAGMDIQALLSEFGDFGDFFENDALPFGELPILKPPGTAEAQALMFPAADSVDVSSSPCPSMMDVQDQILLPVGFSSFDSFNQPPPPAILDDSLSKHQEVIKSAAVTNQVNSASASIADEFNHLIKAEALMSFAPEYGAVETPTGESSHSIFRNPYVPKSREVETANSSSNSYFYSATPPLSPCFDACEEKSSVTVNLKTGTGRHDTSSIVQSKKYYTHIESGKEKNDDKVSVYVRSCATRETQVAESPFSGFNSTNSVKYIHNKTDKASEGLLKAGSSGQSIKPVLATEVECLMCQAFMCKIRHTLLSSSGCLPVGMSRMSGSTNRNQSQGEAVVTVDNMSSKSEMKKEIIPVRIAGDIDGGLLDGTLNAPVGVWRTVGVSKGTKQPTTGLESCHSVQHNSFIEDSMLAYGLRQPLQELLDGMALLVQQATSFVDVALDADNNDGSYGWLALQEQWRRGFSCRPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVQASFTLTLLQNDIKAALKSAFSTMEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTISLSVGEPISPSQSSAGGSSSLRDGIRVDEASERRLSQDTCLSESEQLPGSRLRATLAAVPYPAILVGYQDDWLKTSPSSLQFWEKAPFEPYAMPKHMTYHVVCPDINALTTAATDFFQQLGTVNVETCKLGTHSPQFMGNEMEIDSGKNASSGFVLIDCPQSMKIDSSSASMLGSISDYFLSLSNGWDLESYLKSLSKVLRNLKLSSCMTMNPKEGSTGPCTVVYVVCPFPEPLAVLQTVIESSIAVGSGVLSSDKERRSTLHNQVGKALSYSAAVDEALSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPALSELVILKEIAFTVYNKARRISRGSPSDMVQSSSMPGRSHPVLMQMNSPVPGMWKDCVGPRGIGTSLQREADLDANLRPGSWDNWQASRGGGLGCEPNRIGDFSFQDEIRYLFEPLYILAEPGSLDRGLSFPMSGNPMTESSKLLLDDGTSGSFMQSSASSGGGDTGLNTQSETSVPDGFGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELLDNHIYPFGGISSRQDTKGLQSLFVQILQQGCQILQSCPPEAAIAKPRDFVIARIGCFLELECQEWQKALYSIGGSEVKKWSLQLRRSVPDGMTASSNGTSLQQQEIGGLGQPSTRKQLIGGQGVVDNSRGLLQLVQSISFVSLSIDHSLQLMIQADSTSHGTSQSSGIMSQPGYLEGYTPVKSLGSTSTSYILIPSPSMRFLPPVSLQLPTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPTMRRDVRSISKEEWPSVLSVSLVDYYGGSNVIHEKFLKGVGKVGGRGTGSETRDVEIAAHLILENIAAELHALSWMTVSPAYLERRSALPLHCDMVLRLRRLLHFADKEVSRQPVKSQV
Length1966
PositionKinase
OrganismSolanum lycopersicum (Tomato) (Lycopersicon esculentum)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Solanoideae> Solaneae> Solanum> Solanum subgen. Lycopersicon.
Aromaticity0.07
Grand average of hydropathy-0.203
Instability index53.45
Isoelectric point5.50
Molecular weight212508.00
Publications
PubMed=22660326

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	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP23179
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     290.26|      78|     538|    1209|    1303|       1
---------------------------------------------------------------------------
 1209- 1289 (129.32/77.81)	HSPQFMGNEMEIDSGKNASSGFVLIDCPQSMKIDSSS......ASMLG.SISDYFLSLSNGWDlESYLKSLSKVlrNLKLSSCMTM.NP
 1750- 1821 (115.15/59.57)	HSLQLMIQADSTSHGTSQSSG..IMSQPGYLE.GYTP......VKSLG.STSTSYILIPS.....PSMRFLPPV..SLQLPTCLTAeSP
 1837- 1890 (45.79/33.55)	..................STGFVVSKAVPTMRRDVRSiskeewPSVLSvSLVDYY.GGSNVIH.EKFLKGVGKV...............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     511.76|     147|    1007|     391|     539|       2
---------------------------------------------------------------------------
  391-  539 (245.89/143.97)	VIRSNRRYNSSSNSNSSSVSSISTSSSDS.DYKTSGTG.DLEADADSLMCRQSGlSSLDRSQNDNLKTGFKRSRAGISESFsQGGAVINPSTS.......................................................................................................................................................................................................................................DYASMDANNSAITEGS.DQIGLQWGWDDDDRNAGMDIQALLSEFGDFGDFFEN..DALPFG
  678-  715 (25.38/ 6.05)	........NSSSNS.................YFYSATP.PLSPCFDA..CEEK..SSV....TVNLKTGTGR.........................................................................................................................................................................................................................................................................................................................
  947-  996 (41.81/15.55)	.............................................................................................hdtssivqskkyythiesgkeknddkvsvyvrscatretqvaespfsgfnstnsvkyihnktdkasegllkagssgqsikpvlateveclmcqafmckirhtllsssgclpvgmsrmsgstnrnqsqgeavvtvdnmssksemkkeiipvriagdidgglldgtlnapvgvwrtvgvskgtkqpttgleschsvqhnsfiedsmlayglrqplqelldgmallvqqatsfvDVA.LDADNN...DGSyGWLALQEQW....RR.GFSCRPSMVHAGCGGVLASC..HSLDIA
 1020- 1158 (198.67/108.92)	DIKAALKSAFSTMEGPLSVVDWCKGRSQSnDGGISGDGfSAESTASASECRDSS.STISLSVGEPISP..SQSSAGGSSSL.RDGIRVDEASE.......................................................................................................................................................................................................................................RRLSQD...TCLSE.S.EQLP...GSRLRATLAAVPYPAILVGYQD..DWLKTspSSLQF.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.06|      23|      39|     210|     233|       3
---------------------------------------------------------------------------
  210-  233 (38.34/23.22)	SNvSVEGLPVIVSPHGMRGRLTGC
  252-  274 (43.72/22.86)	SN.GIVGLPCNVSQSSYQLKGHNC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     119.40|      36|     539|     783|     826|       4
---------------------------------------------------------------------------
  107-  144 (55.72/25.07)	LRVLASGLWVAPGDSEEVAAALSQALRNCMERTLrgLS
  785-  820 (63.68/52.31)	LKAGSSGQSIKPVLATEVECLMCQAFMCKIRHTL..LS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     133.06|      33|     125|    1539|    1575|       5
---------------------------------------------------------------------------
 1418- 1457 (38.71/12.61)	QSSSMPGRSH.PVL.MQMNSPVPgmwkDcvgprGI.GTSLQRE.
 1543- 1575 (58.69/33.42)	QSSASSGGGD.TGLNTQSETSVP....D.....GF.GSAHQKSL
 1674- 1704 (35.66/13.19)	....SIGGSEvKKWSLQLRRSVP....D.....GMtASSNGTSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     210.81|      64|    1309|     287|     356|       7
---------------------------------------------------------------------------
  287-  356 (98.65/86.79)	NNNIQESLNIqnnSSRPTMTEASAVanFVQsKIPDNCGRVLIYPPEAVLVPVVQTACAR.SSLKRFWLQNW
 1604- 1668 (112.16/77.81)	DNHIYPFGGI...SSRQDTKGLQSL..FVQ.ILQQGCQILQSCPPEAAIAKPRDFVIARiGCFLELECQEW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.38|      28|    1008|     541|     568|       8
---------------------------------------------------------------------------
  541-  568 (47.41/27.70)	L..PILKPPGTAEAQALMFPAADSV.DVSSS
  576-  606 (40.98/22.82)	VqdQILLPVGFSSFDSFNQPPPPAIlDDSLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     139.45|      40|     830|      57|      98|       9
---------------------------------------------------------------------------
   57-   98 (71.71/48.94)	GFLSTWTNSFVGPWDP...SQGLYNPDEKIKlwLFFPGQHSSVVE
  874-  916 (67.74/39.17)	GLLDGTLNAPVGVWRTvgvSKGTKQPTTGLE..SCHSVQHNSFIE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.73|      15|     122|    1165|    1180|      10
---------------------------------------------------------------------------
 1165- 1180 (28.03/25.21)	EPYAMPKHMTYhVVCP
 1291- 1305 (30.70/21.15)	EGSTGPCTVVY.VVCP
---------------------------------------------------------------------------




































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 MDP23179 with Med13 domain of Kingdom Viridiplantae
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