<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 MDP29048

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWGANGASLEDCHSNIFSLAELTGIKWRCYCFRSGGEYGPVISAPAQDDPVLRSFMRCVQANLLCVWRRKVKPEAKELWIFWWGEEPNLADVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERSLMNKGFLRIGKWFFKPQELKDNERLSCSFSFFLHGESNVCTSVEIAQHQPAYHTTGNHICLAQTSITPVQVILSPYGLSGTLTGQSYKMSDPATRKLMEEWSYFYPIVLQQRDGSAEKEAEDKNQTYDSSCHVAVEVIVGGVRMTYPAALVLIAQGDLPVEQPPPVPAAQGLSREPNHCSVPLTPPTSPQQPSSGKKRGFRSSASDSGFVTISPKHSGKTLTCQVVHQAWRECYLNQSNKPTDAAAKKEVPNGLTTWDFNELGERVSCTCSRYHQKLALTSTPSTNPQLSANQTLYPTPLPKHKTSEKAEKADKQSKRPATIPFHHRLSVTQEAPLEQDSSGGPQLGGLVALDPPQEPLAALPSCKYPKPLSNGRKVPESLLQSPVSPLPPTLSPHPQVREPEVLDVPMDMPACPEGPSGLGVSPSETAVYTALLRKKESGAGWWRGFRTPRTDKADFRAPDLPTDILEDLKTDKCTDAPLKRLYTQTQKRYKISDVRVREHVQTLGLYQQPGVEALREPGDDPYDFKEGDIEYTFSTSKRLKSQGREPTKKLKGDEITSNGALPDGKDAMSIFNSAPKSDDGAAKPNPSLTREKDLVVNISDLDNIFDEDDEELGVSPRPSADDRPVGKEGRVAVSYPSTIADLQRMFPTPPSLEQPPAFSPITTYRDTPSQEPPVSGGASDHLLPLTSSHLPEYKMDTEEGYLSMLIIFSPNYMMFFQLPIGSSMFAPLFCLPSQSLPPLKIPDQCYYRPSWSLLPKMEHFPLVMQQNTFNRDGYTATTASVSTTVGILPSPATPRFSVPTPRTPRTPRGINAASSGQGSVKQDGTELSSPASTPSTSLPLSSVEPLARRGPSLPEAHSLYTVLLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTCEDQYRCMCGFSAIVNRLLSHGTGLFLEDELDIFGRTSEVGRAAERRLALCRRDPTMGNPKAKKAQDVSLASPSFMVLLQEQCSQPMSSLASLHLPLRCSCHGRKGALLQSWMSEKQWADGNDACVDCYNALEQGLLYVDNPTGGKVDSTVVRSTAFHSWPQTNVVEMSTLSSQDMVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTVLLGYDRERDFMALSPLALPFWEKLLLEPYGGQRDVAYLVLCPNSPSLLAATQAFFQELSAVYETCRLGKHRPLAKVSKDGLILVGEQVEPEKLEEVDVDQLCTGPWTGQQHTDNLNKLKLYAYACKQQLGPQLSALHLDSSLLVPPKVTPPTPSTTSAQSASSSQPQPPGADGEQVPGATSSGNAQTPIGATSNQTGETPQGAASESKGPSSTTTPASTPLTFCSLFSTSEQSRIGIPTLGDTIDGHANPPAIVIYIVDAFLTGSGRNEVEEEGDEVEAGSIWLLGLLRCYTEMLQTLPEGIRPALVLQVVSCQHLLQPASGGSHLYLQRLRSLAFSCYSQCRRLLPQQTYIKSLTGFGPASTVSSVLSSPTHPHPLQLYSPPFILGPTRPKQPEQGEIWAELPSKYNVLFVGYCLSHDQRWLLVSCTDQQGELLETSIINIDVPNRARRPKVSARKMGLQKLWEWCIGLIQMTSLPWRIVIGRLGRLGHGELKDWSSLLGEHSLHSVGRQLREACRMCEISSAESPTIVSACLVAMEPQGSLVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAPSSYPTEDNNDDLPFDLPFPDELENDIGHDMMLITGNLHSSPNTSPVPSPGSPSMMGMGSHFQHTKVQGERLLSRDSPPEELKQQPLALGYYVSTAPANGLPHWFWASCPQAESQCPLFLKASLHHHISIAQSDELVSEKTKRTPHPLDSKTTSDVLRFVLEQYNALSWLTCTPATQDRQSCLPVHLAVLVQMYNAILNML
Length2070
PositionMiddle
OrganismTakifugu rubripes (Japanese pufferfish) (Fugu rubripes)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Takifugu.
Aromaticity0.07
Grand average of hydropathy-0.362
Instability index57.40
Isoelectric point5.86
Molecular weight227190.15
Publications
PubMed=21551351

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

>MDP29048
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     182.76|      44|     100|     857|     900|       1
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  849-  892 (80.29/41.74)	MMFFQLPI................GSSMFA.PLFCLPSQSLPPL..KIPDQCYYRPSWSL.LPK
  893-  938 (54.13/25.34)	MEHFPLVM................QQNTFNrDGYTATTASVSTTvgILPSPA..TPRFSVpTPR
  939-  991 (48.34/21.72)	TPRTP...rginaassgqgsvkqdGTELSS.PA.STPSTSLPLS..SVEPLARRGPS....LPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     865.02|     236|     376|    1249|    1527|       2
---------------------------------------------------------------------------
  183-  414 (271.78/146.79)	PAYHTTGNhiclAQTSI..TPVQVILSPYGLSGTL..TGQSyKMSD...PATRK.......L.....................................meeWSYFYPIVLQQRD............GSAEKEAEDKNQTydsschvaveV.IVGGVR....M......TY.P.A.ALVLIA.QgdLPVEQ.PPP.....VPAAQGLSREP...NHCSVPLTPPTSPQQPSS.......GKKRGFrSSASDSGFVTIspkhsGKtltcQVVHQAWRECYLNQ.SNKPTDAAAKKEVPNGLTTWDF...NELGERVSCtcsrYHQKLALTS
 1249- 1421 (230.05/141.75)	.................................................................................................LT...WQQFHKMAGRGSY............GSEESPEPLPIPT..........V.LLGYDRERDFM......ALSP.L.ALPFWE.K..LLLEP.YGG.....QRDVAYLVLCP...NSPSLLAATQAFFQELSAvyetcrLGKHRPL.AKVSKDGLILV.....GE....QVEPEKLEEVDVDQLCTGPWTGQQHTDNLNKLKLYAYackQQLGPQLSA....LHLDSSLLV
 1454- 1670 (264.52/191.77)	PGATSSGN....AQTPIgaTSNQTGETPQGAASES..KGPS.STTT...PASTP.......LTFCSLFSTSEQSRIGIPTLGDTIDGHANPpaiviyIV....DAF..LTGSGRN............EVEEEGDEVEAGS..........IwLLGLLRCYTEMlqtlpeGIRPaL.VLQVVScQ..HLLQPaSGGshlylQRLRSLAFSCY...SQCRRLLPQQTYIKSLTG......FG...PA.STVSS....VL.....SS....PTHPHPL.QLYSPPFILGPTRPKQ......................................
 1848- 1985 (98.67/39.90)	..........................TPQDASCTHilVFPT.SATTqlaPSSYPtednnddLPFDLPFPDELENDIGHDMMLITGNLHSSP..ntspVP...SPGSPSMMGMGSHfqhtkvqgerllSRDSPPEELKQQP..........L.ALGY.....YV......STAP.AnGLPHW........................FWASCPqaeSQC.................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     310.07|      78|     100|     646|     723|       3
---------------------------------------------------------------------------
  581-  645 (74.01/35.81)	....FRTPRTD.KADFRAPDLPTDI.LEDLKTDKCTDAPLKRLytqtqKRYKI.SDVRVREHVQTLGLYQQ.P...............
  646-  723 (131.12/69.45)	GVEALREPGDD.PYDFKEGDIEYTF.STSKRLKSQGREPTKKL.....KGDEITSNGALPDGKDAMSIFNSAPKSDDGAAK...PNPS
  749-  823 (104.93/54.03)	GVSP.RPSADDrPVG.KEGRVAVSYpSTIADLQRMFPTPP.SL.....EQPPAFS..PITTYRDTPS...QEPPVSGGASDhllPLTS
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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 MDP29048 with Med13 domain of Kingdom Metazoa
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