<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 MDP26740

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSACFVPNGASLEDCHSNLFYLADLTGIKWKRYVWQGPISAPMLFPVTEEDPILCSFSRCLKSDVLSVWRRSQRQGRRELWLFWWGDDPNFADLIHHELTAEDDGVWESGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKREHLSCSFTFFLHGDSNVCTSVEINQHQPVYHLSEDHLTLAQQASSPFQVILSPFGLNGTLTGQSFKLSDPPTQKLIEEWNQFYPISPTSKESAEDKMEDIDWEDDSLAAVEVLVGGVRMVYPACLVLVPQSDIPTITQTGSSHCTAVYSNGHQVPASNRDPAISSVTLTPPTSPEEAQTVHSHSAQKWMRLPVAMDGFSVDNTSHHGGKIPRRMASQVVETVWQECNINRAQNKRKFSATASNGTSEEETLIKVGAWDFVDSTQRSNCNCSRHKTLKQRASSTPGQPPTAGQTQQPPIKHKAGEKPEKGDKQQKRPQTPFHHRNSVCEDVTMETDASAGQRLALRGQESGRFPGLRPTDVGTGSKPPQLHSGAGSTVGSSGPTEMVGSPQPPPLSPHPCERGEEPSDTIKNPSTPQHFYPPSTEPCLLPQKGPDDARLEPLTQPFPPAYPETLEPTPYISAAVNMDDDGSHAPWRFFNLPRRKDAEFPTPTLPGDKLREEASLGAEGIMSVTESMAASKRLLKVSDERIQMYLQRQNQHLAAAITDGDHEPEVDPYAFVDGDVKFTFSDKKDKAGLEREPGKKHKGEDGNAASDDAQRAAAHNRAASTSLIHDSDLAVSIKDLDNLFNSDEDEQTPGARRAVNGADEKFGSKETKPATLDPVSCISTADLHQMFPTPPSLEQHFMGYSPMNMGSKDGCMEPGSGLNALDGPTALGGPFKIEVEESFCSPKPSEIKDFSFVYKPELCQPFVGCSMFAPLKSLPSQCLPPIKLPDECVYRPSWTVGKLELLNSVPAMTIFSKDGENNAMEQDYIQTYTPQTHTPFLSNSAPPSNSGTSILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGIYINDPNMEAQYPCGCGFSAVVNRRYGNGSGLFLEDELDIIGRGSDVSQEAEKRFEALRCISLEKTGGGGKDRVPDELISLLQDQCTNPFSPILALDPEGLSSQGPGGTTVPPCVRVEERDFHNDCYLALEHGRQFMDNMSGGKVDEVLVKSTCLHHWAKRSAVDVSALCSQDVLRVLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDVGYLVLCPDSDSLLTGAKSFFRELTAVYESCKLGQHRPISKVHADGIVRVGGAAAKKLSEQPVNDWFLKAASGSSDAFAKLKLFAQVCRHDLAPYLATQPLDSSLLIQPTPVPSSTQSSSSQSSGSASSNSQTSMASGGSALNNNNNSAASNSGSGLPGSTNNTPSSSSSGPQGSSIQSAKPSSFPPFGSMGVQGNSSQSGALGQQAVTQNSSLSGDNSAINSQTQGPSEPPESTMEREKVGVPTDGDSHAITYPPAIMIYIVDPFSYEEAEPGTSQSSKWTLGLLRCYLEMLQALPTHIRNSVFVQIVPCQYLLQPVRSEERHLYAQHLKSLAFSVFTQCRRPLPTSTNVKSLTGFGPGLALDTSLRNPDRPECLRLYTPPFILAPTKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIISVDVPNRARRKKGSARKMGLQKLWEWCLGLVQMTSLPWRVVIGRLGRIGHGELRDWSILLSRRNLQSVSRRLKENCKLCGISASDTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAFVQVNSSNYTHENIDIAFNPGNDGSDPMGGIFDLLEQENDLVDPDIINILPASPTTSPVHSPGSQYPHGGDGSKGQSTDRMESHEEAPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMTML
Length2157
PositionMiddle
OrganismDanio rerio (Zebrafish) (Brachydanio rerio)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Cypriniformes> Danionidae> Danioninae> Danio.
Aromaticity0.07
Grand average of hydropathy-0.431
Instability index52.08
Isoelectric point5.59
Molecular weight236094.77
Publications
PubMed=23594743

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

>MDP26740
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     201.07|      47|      47|    1512|    1558|       1
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  969-  994 (28.51/ 6.77)	...................I..QTYTPQTHTPFLS............nSAPPSNSGTSI
 1478- 1522 (56.81/20.20)	PSSTQSS.SSQSSGSASSNS..QTSMASGGSA...........lnnnnNSAASNSGSGL
 1523- 1567 (76.31/29.46)	PGSTNNTPSSSSSGPQGSSI..QSAKPSSFPPFGSM.....GV...qgN...S.SQSGA
 1568- 1608 (39.44/11.96)	LGQQAVTQNSSLSG.DNSAInsQTQGPSE.PPESTMerekvGV................
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     188.09|      37|      47|     497|     533|       2
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  428-  469 (46.53/21.15)	SRHKTLKQRASST............pgQP.PTAGQ.TQQPPikhkaGEKPEKGDKQ
  470-  520 (52.42/25.03)	QKRPQTPFHHRNSvcedvtmetdasagQRLALRGQESGRFP.....GLRPTDVGTG
  521-  568 (54.50/26.39)	SKPPQLHSGAGST.vgssgptemvgspQPPPLSPHPCER.......GEEPSDTIKN
  569-  607 (34.64/13.35)	PSTPQ.HFYPPST..epcllpqkgpddARLEPLTQP...FP.....PAYP......
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.64|      31|      45|     775|     810|       3
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  775-  810 (46.33/29.52)	VSIKDLDNLFNSdedeqTPGARRAVNG.ADEKFGSKE
  822-  853 (54.31/25.32)	ISTADLHQMFPT.....PPSLEQHFMGySPMNMGSKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.91|      19|      48|     868|     889|       5
---------------------------------------------------------------------------
  868-  889 (31.18/21.08)	PTALGGPFKIEVEesfCSPKPS
  919-  937 (38.73/18.87)	PSQCLPPIKLPDE...CVYRPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.20|      21|     187|     995|    1035|       6
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  995- 1017 (35.60/44.82)	LPSPATPR.FSAPTPRTprTPRTP
 1038- 1059 (33.60/ 6.52)	ASTPSTCRpLNSVEPAT..VPSIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     410.66|     130|    1086|     211|     355|       7
---------------------------------------------------------------------------
  211-  355 (205.20/179.75)	FGLNGTLTGQSF.KLSDPPTQKlIEEWNQFYPIsPTSKESAEDKMEDID......WEDDSLAAvevlVGGVRMVypACLVLVPQSD.IPTITQTGSSHCTAVYSN...GHQVPASN.RDPAISSVtltpptSPEEAQTVHSHSAQKWMrLPVA...MDGF
 1299- 1443 (205.46/138.07)	WGVQGPLTWQQFhKMAGRGSYG.TDESPEPLPI.PTFLVGYEYDFVVLSpfglpyWEKLLLDP....FGSQRDV..GYLVLCPDSDsLLTGAKSFFRELTAVYEScklGQHRPISKvHADGIVRV......GGAAAKKLSEQPVNDWF.LKAAsgsSDAF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     442.17|     142|     522|    1102|    1259|       8
---------------------------------------------------------------------------
 1102- 1259 (220.68/166.62)	IYINDP.NMEAQYPcgcGFSAVVNRRYGNGSgLFLE..DELDIIGRGSDVSQEAEKRFeALRCISLEKtggggKDRVPDELISL...LQDQCTNPFsPiLALDPEGLSSQGPG...GTTV.....PPCVRVEERDFhndcYLALEHGRQFMDNMSGGKVDE...VLVKSTCLHH...W
 1625- 1786 (221.49/124.81)	IYIVDPfSYEEAEP...GTSQSSKWTLGLLR.CYLEmlQALPTHIRNSVFVQIVPCQY.LLQPVRSEE.....RHLYAQHLKSLafsVFTQCRRPL.P.TSTNVKSLTGFGPGlalDTSLrnpdrPECLRLYTPPF....ILAPTKDKQTELGETFGEASQkynVLFVGYCLSHdqrW
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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 MDP26740 with Med13 domain of Kingdom Metazoa
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