<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 MDP15974

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHESDVNSLVDKRVKLDKKDAATFLVLSSHLQLQKERFLSTWTNSFVGPWDPSQGLYNPDEKIKLWLFLPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEELAAALSQALRNCMERTLRGHSYVRYGDVFTKYRPFSQSEELFRKGQPVVEFIFAATEEAIFVHVIISAKHIRALSSGDIDRISENASNVSGEGLPVIVSPHGMRGRLTGCCPGDLVKQVYLSSGKFSASNGIVGLPCNVSQSGYQLKGQNCYVEVSFGCTAPGNNNIQESSNVQNNSSRPIKTEASAMANVVQSKIPDNCARMLIYPPEAVLVPVVQTACARSSLKRFWLQNWIGPSLSFTSSFMHCFDYHSDAKVKSMDGSWLDANVIGSNRRYNSSSNSNCSSLSSTSTSSSDSDYKTSGTGDLEADADSLMCRQSGLSSLDRSQNDNLKTGFKRSRTGISESFSQGGAVVNPSTSDYASMEVNNSAITGGNDQLGLQWGWDDDDRDVGMDIQALLSEFGDFGDFFENDALPFGEPPGTAESQTLMIPASDSVDVGSSPCPSMMDVQDQLLLPVGFSSFESFNQPPPPAILDDSLSKHQEVIKSAAVANQVNSTTASIAGEFDHLIKAEALMSFAPEYGAVETPTGENSRLIFRNPYVPKSREVETANSSSNSYVYSATPPLSPCFDACEEKSGVTVNLKAGTARHDTGSIIQSKKYYTHIESGKEKNDDKLSGYVRSCASHETQVAQSPFSGFNSTNSFKGIHNKTDKANEGLLKAGSSSQSIKTVLATEVECLMCQAFMCKIRHTLLSSSGCLPVGMSRMSGSTSRNQSQGEAVVTGDNLSIKSEMKKKEIIPVRIAGDIDGGLLDGTLNAPVGVWRSVGVSKGMKQPTAGLESGHSVQHNSFIEDSMLAYGLRQPLQELLDGMALLVQQATSLVDVALDADSNDGSFGWLSLQEQWRRGFSCRPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVPASFTLTLLQNDIKAALKSAFGNMEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTISLSVGEPISPSQSSAGGSSSLRDGIRVDEASERRLSQDTCLSESENLLGSRLRPTLAAVPYPAILLGYQDDWLKTSPSSLQIWEKAPFEPYAMPKDMTYYVVCPDINALTTAATDFFQQLGTVYETCKLGTHSPQCMGNEMEIDSGKNASSGFVLIDCPQSMKIDSSNASMLGSISDYFLALSNGWDLESYLKSLSKVLRNLKLSSCLTMNPKEGSTAPCTVIYVVCPFPEPLAVLQTVIESSIAVGSVVLSSDKERRSTLHNQVGKALSYSAAVDEALSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPALSELVILKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPVMMQMTSQVPGMWKDCVGPRGIGTSLQRETDLDASLRPGSWDNWQTSRGGGLGCEPNRIRDFSFQDEIRYLFEPLYILAEPGSLDRGLSFPISGNPMTESSKLLSDDGTSGSFMQSSASSGGGDTGLNTQSETSEPDGFGSARQRSLPSLHCCYDWTEDWRWLVCIWTDSRGELLDNHIYPFGGISSRQDTKGLQSLFVQILQQGCQILQACSPEAANAKPRDFVIARVGSFLELECQEWQKALYSIGGSEVKKWSLQLRRSVPDGMTASSNGTSLPQQEIGLIQERALPPSPSPLYNPHSKASSFMKGGLSQPSTRKQLIGGQGIADNSRGLLQWVQSISFVSLSVDHSLQLMVQAESTSLGTSQSSGIMSQPGYLEGYTPVKSLGSTPTSYILIPSPNMRFLPPIGLQLPTCLTAESPPLAHLLHSKGCVIPLSTGFVVSKAVPTMRRDARSISKEEWPSILSVSLVDYYGGSNIIQEKFLKGVVKTGGRGTGSEARDVETATHLILENIAAELHALSWMTVSPAYLERRSALPFHCDTVLRLRRLLHFADKEVSRQPEKSQV
Length1988
PositionKinase
OrganismCapsicum chinense (Scotch bonnet) (Bonnet pepper)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Solanoideae> Capsiceae> Capsicum.
Aromaticity0.07
Grand average of hydropathy-0.234
Instability index53.56
Isoelectric point5.51
Molecular weight214896.56
Publications
PubMed=29089032

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

>MDP15974
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     501.93|     148|     433|     402|     566|       1
---------------------------------------------------------------------------
  402-  516 (174.98/75.52)	.................................................SNSNCSSLSSTSTSSSDSDYKTSG....TGDLEA.....DADSLMCRQ............SGLSSLD..RSQNDNLKTGFKRS....RTGISESFSQGGAVVNPSTSDYASMEVNNSAITGG........NDQLGLQWGWDDDD.RDV.GMD
  517-  549 ( 7.13/11.31)	IQALLSE.FGDFGDFF....ENDALPFGEP..PGTAESQT.................................................................................................................................................................
  633-  796 (170.98/76.91)	AEALMSF.APEYGAVEtptgENSRLIFRNPyvPKSREVET.....anssSNSYVYSATPPLSPCFDACEEKSG...vTVNLKAgtarhDTGSIIQSK............KYYTHIEsgKEKNDDKLSGYVRScashETQVAQSPFSG...FN.STNSFKG..IHNKT.DKA........NEGL.LKAGSSSQSiKTVlATE
  797-  947 (148.84/65.96)	VECLMCQaF...............................mckirhtllSSSGCLPVGMSRMSGSTSRNQSQGeavvTGD.NL.....SIKSEMKKKeiipvriagdidGGL..LD..GTL..NAPVGVWRS.....VGVSKGMKQPTAGLESGHSVQHNSFIEDSMLAYGlrqplqelLDGMALLVQQATSL.VDV.ALD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     315.55|     103|     122|    1442|    1562|       2
---------------------------------------------------------------------------
 1447- 1562 (159.32/119.55)	TSLQRET.......DLDASLRpgsW..DNWQTSRGGGLGcepNRIRDF...SFQDEIRYLfEPLYILAepgsLDRGLSFPISGNPMTESSKllSDD...GTSGSFM.......QSSASSGGGD..TGLNTQSETSEPDGF
 1564- 1690 (156.23/78.12)	SARQRSLpslhccyDWTEDWR...WlvCIWTDSRGELLD...NHIYPFggiSSRQDTKGL.QSLFVQI....LQQGCQILQACSPEAANAK..PRDfviARVGSFLelecqewQKALYSIGGSevKKWSLQLRRSVPDGM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     339.23|     110|     123|    1056|    1176|       3
---------------------------------------------------------------------------
 1056- 1176 (163.07/122.79)	AESTASASECRDSSS...TISLSVGEP..ISPSQSSAGGSSSLRDGIRVDEASERRLSqdtclSESENLLGSrLRPTLAAVPYPAILLGYQDDW......LKTSpSSLQIwekAPFEPYAMPKDMtYYVVCP
 1180- 1300 (176.16/101.17)	ALTTAATDFFQQLGTvyeTCKLGTHSPqcMGNEMEIDSGKNASSGFVLIDCPQSMKID.....SSNASMLGS.ISDYFLALSNGWDLESYLKSLskvlrnLKLS.SCLTM...NPKEGSTAPCTV.IYVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.65|      32|     814|     954|    1005|       4
---------------------------------------------------------------------------
  567-  603 (49.32/16.45)	SM..MDVQDQllLPVGFSSFESFNQPPPPAILddsLSKH
  954-  987 (57.33/54.40)	SFgwLSLQEQ..WRRGFSCRPSMVHAGCGGVL...ASCH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.25|      24|      39|     209|     233|       5
---------------------------------------------------------------------------
  209-  233 (41.28/30.24)	ASNvSGEGLPVIVSPHGMRGRLTGC
  251-  274 (45.97/29.23)	ASN.GIVGLPCNVSQSGYQLKGQNC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.26|      12|      33|     347|     358|       8
---------------------------------------------------------------------------
  347-  358 (25.51/15.59)	SLKRFWLQ.NWIG
  381-  393 (19.75/10.26)	SMDGSWLDaNVIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.06|      22|    1499|     319|     342|      11
---------------------------------------------------------------------------
  319-  342 (36.08/27.04)	IPDNCARMLiyPPEAVLVPVVQTA
 1819- 1840 (42.98/25.42)	IPSPNMRFL..PPIGLQLPTCLTA
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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 MDP15974 with Med13 domain of Kingdom Viridiplantae
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