<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 MDP14388

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHDSELIPQPDKSVKDAATQLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSYADPAQAAVSKLRVVASGLWMSPGDSEEVATALSQALRNRIERALSGLAYMRFGDVFSKFHASQSEELLRRGQPTVEFIFAATEEGIFVHALVSAKHIRALSSDDLERVQKHSSQNSCYGLPVIVSPHGICGRLTGCCPGDLVKQVYFSSSKLKTSNFIGLPNHVSQGSGSQLTWQNCYVEVTLGCPRPRSDRALQSNSNSFRNVVKHHPVESPSLGRGDQKGSLDNISVYEKTFVYPAEAVLVPSLQVAGSSLKRFWLQNWIGPSMPGSSFFMLCSDSIEPMEECNETNGIRTQRGYNSSSNSNSSSISSISSSSSDSDDKMATGASELEADADSLTCRQSGLSFNNRLGNDISKLGFKRPRDGMAESFAEVGTATSASLQDTYNSDFGSMEVNNSAITVVTNDQIGSLWDWDGDDRYGTDIHALINEFGDFGDLFESDVLPFGEPPGTTESQALMFSAPDFGDVVDNPVGVMDVSDQLLLSEGFASFESFIPPPPAAMEETLIKNQEAINSALSSGPVNCSSASNISEFDHIIKAEALMTFAPEYGAVETPTSEVSSSIFRSPYLPKSRKAESSNSSPSIYTYGPTPPSSCFDGFDEKTGIPSNSKPFAGKKDASNIFRSKNYYTHVESGKEQQDRRLLTSSNGIVVAHDGVAQSPFPVLNSTNAVKAAQRKMTEGTFESENSFLSMRTIPATEIECILFQASMCRIRHTLLSSSSLSSIGFSRLPGDQTVMPENISGKYEARRKESIPVRIAGDIDGGMIDGHLNAPVGVWRSVGAPRVPKPTSSSSMEISSSLPHTSFNDESMLSYGRQPLQELLDGLSLLVQQATSFVDLALDSDCSDGPYGWLALQEQWRKGFSCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSADSITFVPQVHASSVISLLQSDIKTALKSAFGILDGPLPVTDWCRGRNQSGESTVDGYSAESTISECKDSSSIVAPSIIEPLSPSPSCSAGSTCLKVSSAMDGAKVDETSQRRSNQENCTSESDLQMSSRLRPTLFVIPLPAILVGYQDDWLKTSASSLQLWEKAPLEPYALQKPITYYVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHLPQSFGSQMEVDSGRRPSSGFVLLDCPQAMKIESRNASLVGSLSDYFLSISNGWDLTSYLKSLSKALKALKLGHCLSTNAKEGSSGPSTVIYVVCPFPEPIAILQTVIESSVAIGSVIFQSDRERRSILYSQVSKALSYSATVDEASISNILVLSGFGIPKLVLQIVTVDAIFKVTSPSLNELVILKETAFTVYNKARRISRGASSDAVQSSLSSRSHTVLSQMSSPTPGTWKDCGGPRITGHSLPREGEMDASLRTGSWDSSWQTTRTGAANCDPNRIGDFFSQDETRYMFEPLFILAEPGSLERAFSPLAFGNLPSEPSKALSDDISGGFMQSTSLGGSADSGSGSQADGSELDKIPPSLHCCYGWTEDWRWLICIWTDSRGELLDSHIFPFGGISSRQDTKGLECLFVQVLQQGCQILQACSSDTGVAKPRDFVIARIGSFYELEYQEWQKAINSVGGSEVKKWHLQLRRSVSDGVSASSNGPSLQQQEMSLIQERTLPSSPGPLYGSSHSKISGFMKGGLGQPSVRKQLMGTQLIDSSRSLLQWVQSISFITIAIDHSLHLVFPADTQSPGAQGGVGVGSSGYLEGFTPVKSLGSTPAAYILIPSPSMRFLPPTPLQLPTCLTAESPPLAHLLHSKGSAIPLSTCFVVSKAVPTMRRDYRSNLKEEWPSTLLVSLIDHYGGNNFSQEKLMRGNTKQVGRSPSSEARELEIETHVILESLAAELHALSWMTVSPAYLERRTALPFHCDMVLRLRRLLHFADKDLSRHQEKP
Length1968
PositionKinase
OrganismPrunus persica (Peach) (Amygdalus persica)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Rosales> Rosaceae> Amygdaloideae> Amygdaleae> Prunus.
Aromaticity0.08
Grand average of hydropathy-0.229
Instability index56.95
Isoelectric point5.41
Molecular weight213325.35
Publications
PubMed=23525075

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

>MDP14388
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     410.10|     154|     173|     967|    1127|       1
---------------------------------------------------------------------------
  967- 1034 (61.28/29.20)	.......................................................................................................................SCHSLDIAGVELVDPLSADS.ITF...VPQVH..ASSVISLLQsDIKTALKSAfgILDGPLPVTDWCRGRNQSG
 1035- 1208 (236.45/113.92)	ESTVDGYSAEST.ISECKDSSSIVA..PSIIE....PLSPS.PSCSAG...STCLK.VSSAMDGAKVDETSQRRsnqeNCTSESDLQMSSRLRPTLFVI.PLP...AILvgyqddwlktSASSLQLWEKAPLEPYALQKpITYyvvCPDIDplTSAAADFFQ.QLGTVYETC..KLGTHLPQSFGSQMEVDSG
 1209- 1298 (71.63/26.94)	RRPSSGF....V.LLDCPQAMKIESrnASLVG....SLSDYfLSISNGwdlTSYLKsLSKALKALKLG..........HCLSTNAKEGSSGPSTVIYVVcPFPepiAIL....................................................................................
 1667- 1725 (40.74/11.17)	RSVSDGVSASSNgPSLQQQEM.......SLIQertlPSSPG.P..LYG...SSHSK.ISGFMKGG.LGQPSVRK.......................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.49|      25|      28|     499|     526|       2
---------------------------------------------------------------------------
  502-  526 (50.83/34.01)	WDWD....GDDRYGTDIHALINEFGDFGD
  528-  556 (41.67/19.21)	FESDvlpfGEPPGTTESQALMFSAPDFGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.85|      27|      28|      86|     112|       3
---------------------------------------------------------------------------
   82-  110 (42.46/27.93)	WLflPGRHSSYADP.AQAAVSKLRVVASGL
  111-  139 (38.39/24.42)	WM.sPGDSEEVATAlSQALRNRIERALSGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.17|      11|     172|     275|     285|       4
---------------------------------------------------------------------------
  275-  285 (23.03/10.98)	LGCPRPRSDRA
  448-  458 (22.14/10.29)	LGFKRPRDGMA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.59|      25|      27|     595|     620|       5
---------------------------------------------------------------------------
  595-  620 (35.29/25.12)	LIKNQEAINSALSSGPVNcSSASNIS
  625-  649 (41.30/23.91)	IIKAEALMTFAPEYGAVE.TPTSEVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.50|      21|    1157|     653|     685|       6
---------------------------------------------------------------------------
  662-  685 (31.04/36.63)	RKAESSNSSPsiYTyGPTPPSSCF
  691-  711 (37.46/12.60)	KTGIPSNSKP..FA.GKKDASNIF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     254.49|      85|    1157|     322|     430|       8
---------------------------------------------------------------------------
  322-  430 (130.74/104.47)	YE..KTFVYPAE.AVLVPSlqvagsSLKRFWLQNWIGPSM.........PGSSFFMLCSDSIEPME.ECN..ETNGIRTQRGYNSssnsnSSSISSIsssssdsddkmatGASELEADADSLTC
  769-  827 (71.82/32.12)	....................................GTFE.........SENSF..LSMRTIPATEiECIlfQASMCRIRHTLLS.....SSSLSSI.............GFSRLPGDQTVMPE
  833-  895 (51.93/17.70)	YEarRKESIPVRiAGDIDG......GMIDGHLNAPVGVWRsvgaprvpkPTSSSSMEISSSL.PHT.SFN..D...................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.28|      27|    1157|     240|     269|       9
---------------------------------------------------------------------------
  240-  269 (45.60/28.51)	SS....SKLKTSNFIGLPNHVSQGSGsqlTWQNC
 1399- 1429 (44.67/21.31)	SSdavqSSLSSRSHTVLSQMSSPTPG...TWKDC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.50|      40|     607|     904|     947|      10
---------------------------------------------------------------------------
  904-  947 (68.29/40.98)	QPLQELLDGLSLLVQQATSFVDLAlDSDC...SDG......P......YGWlalQEQWR
 1513- 1567 (60.21/27.40)	EPSKALSDDISGGFMQSTSLGGSA.DSGSgsqADGseldkiPpslhccYGW...TEDWR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.20|      16|      23|     723|     738|      11
---------------------------------------------------------------------------
  723-  738 (26.85/19.40)	GKEQQDRRLLTSSNGI
  744-  759 (27.36/19.95)	GVAQSPFPVLNSTNAV
---------------------------------------------------------------------------




































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 MDP14388 with Med13 domain of Kingdom Viridiplantae
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