<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 MDP08642

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMYKYSVCVHRSGGVVGACSPGSCGGASPAPAVSAPSSAGAPPPSPHLTALPAHQTGGAVPTTLHTPAPTPDPHAPPTPAPPSAPPHKPYTQGDSPGFAGCGSGGGGGGGGVSGSGAIPGGGAAGAAPELVRRPALPPAEQRLDPLEDEHSLHMLYDYTTVHAWLEHPVKRFKTETREWSEELALGARGGDLYAGHAHTPPPAPHPARSLRPQRPHHAHLAPLAADVKQERLDEDSKEYKNLFTSDGLCPTLKDLDQIFDNSDDAASGDETALAGGAGEAGRCDEARCGGRCVRAEELSKMFPTPPSMEAHAQPSPGFSLPEDATPQPHRHLLPSSPPPDPIEDWSYVFKPPTVCKYVGSSKYAPLVALPSQLLPGVALPPHAVYRPRWQQDAKRDPDTDTETDTKRNGTKNSTNNTNSSSSGGVKRSASPGAEQSGAGAKSGAAAGALARAGAEAGAGRGVAAGSPRRSPLAPATAPAAPPAAAACPLLLNVLLADTVLNVFRDHNFDSCTLCVCDIDDTSPGTPGEPGEAGEVPPGGSASAPVWEEDEAGPPALVLYLVEPPAAHAHRALALHALLRLAAQAHHHLQHHNPYIKIISLEGVYECWAGRGAWGAGRGGGAELRTLAFSVFCGARRLLQHQPNGKSLTGFGTAANANLFLNNKDEKNRAAYRLFTPAWVLAPPRALREVAETWGTACGEQCSVLFVAYCLSHDQRWLLAAATDARGELLDTAAINIHVPARSRRRRSAPARRLGLTKLMDFTLGVMSQAAQPWRLVVGRVGRIGHGELKGWSYLLSRKNLVRASSVLREICGSCATLYPGGAPCVLSACLVSTEPDPCLRLMADRFTPDERFSQASIQSHLHTPRDVTATHILVFPTSAKTQSNQMPFEQPMANGEDNDIFMGVDMGDEDIGEDNMADLIINDMFTNMWAQSSPRASPRRHDDDAAGSREGSPARRAALGPGSYRQADDHQPEQVGTILQQPLALGYLVSTAPLGAMPAWWWAGCAHLRDSCPAFLKNALHLHSGSAQTSDDFTSLMQRRDNNSHPLDSQTTTDVLRYVLEGYNALSWLTLDGSTHDRLSCLPLHVQALMQLYHTAAALG
Length1099
PositionMiddle
OrganismPapilio xuthus (Asian swallowtail butterfly)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Lepidoptera> Glossata> Ditrysia> Papilionoidea> Papilionidae> Papilioninae> Papilio.
Aromaticity0.06
Grand average of hydropathy-0.365
Instability index56.80
Isoelectric point6.24
Molecular weight116169.96
Publications
PubMed=26354079

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. 
ECO:0000256	RuleBase:RU364134
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

>MDP08642
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     677.63|      84|      85|     113|     196|       1
---------------------------------------------------------------------------
   20-   70 (63.39/15.96)	PGSCGGA.S........P.APAVSAPS...SAGA......PPPSPH..L.TAL.......P..AH...QTGGA...VP............T.T.LHTPAPTP...............................
   72-  104 (36.71/ 6.39)	.........................................PHAPP..T.PAPP......S.........................................APPH.KPYTQG.....DS..PGFAgCGS.GG
  105-  188 (141.22/43.91)	GGGGGGV.S........G.SGAIPGGG...AAGA......APELVR..R.PALP......P..AE...QRLDP...LEDEHSLH.MLYDYT.T.VHAWLEHPVKRF.KTETRE.....WS..EELA.LGA.RG
  189-  274 (76.24/20.58)	GDLYAGH.A........H.T...PPP..............APHPARslR.PQRPhhahlaPlaADvkqERLD.....EDSKEYK.NLFTSD.G.LCPTLKDLDQIFdNSDDAA.....SG..DETA.LA...G
  275-  352 (93.08/26.62)	G...AGE.A........GrCDEARCGG...RCVR......AEELSK..MfPTPP......S..ME...AHAQP......SPGFS.LPEDAT.PqPHRHL.LPSSPP.PDPIED.....WS....YV.FKP.PT
  353-  441 (84.68/23.61)	VCKYVGS.SkyaplvalP.SQLLPG......VAL......PPHAVY..R.PRWQ......Q..DA...KR.DPdtdTETDTKRN.GTKNSTnN.TNSSSSGGVKRS.ASPGAE.....QS..GA....GA.KS
  442-  526 (84.38/23.50)	GAA.AGAlA........R.AGAEAGAGrgvAAGSprrsplAPA..T..A.PAAP......P..AA...AAC.P...L....LLN.VLLADT.V.LNVFRDH...NF.DSCTLC.....VCdiDDTS.PGT.PG
  532-  617 (97.93/28.36)	GEVPPGG.S........A.SAPVWEED...EAG.......PPALVL..Y.LVEP......P..AA...HAHRA...L....ALHaLLRLAA.Q.AHHHLQHHNPYI.KIISLEgvyecWA..GRGA.WGAgRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.94|      11|      16|     894|     905|       2
---------------------------------------------------------------------------
  894-  905 (18.90/18.32)	GEDN..DIFMGvDM
  911-  923 (17.04/10.38)	GEDNmaDLIIN.DM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     133.20|      44|      77|     627|     672|       3
---------------------------------------------------------------------------
  627-  672 (67.68/45.52)	FSVFC...GARRLLQHQPNGKSLTgFGTAAnANLFLNNKDEKNRA..AYRL
  704-  752 (65.52/35.67)	FVAYClshDQRWLLAAATDARGEL.LDTAA.INIHVPARSRRRRSapARRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.57|      28|      68|     999|    1026|       4
---------------------------------------------------------------------------
  999- 1026 (57.51/30.29)	WW.WAGCAHLRDSC.PAFLKNALHL.HSGSA
 1067- 1097 (39.07/18.27)	WLtLDGSTHDRLSClPLHVQALMQLyHTAAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.80|      12|     249|     673|     684|       5
---------------------------------------------------------------------------
  673-  684 (24.93/12.87)	FTPAWVLAPPRA
  924-  935 (24.87/12.82)	FTNMWAQSSPRA
---------------------------------------------------------------------------




































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 MDP08642 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GGASPAPAVSAPSSAGAPPPSPHLTALPAHQTGGAVPTTLHTPAPTPDPHAPPTPAPPSAPPHKPYTQGDSPGFAGCGSGGGGGGGGVSGSGAIPGGGAAGAAPELVRRPALPPAEQRLDPLEDEHSL
2) LALGARGGDLYAGHAHTPPPAPHPARSLRPQRPHHAHLAPLAADVKQERLDEDSKEYK
3) LSKMFPTPPSMEAHAQPSPGFSLPEDATPQPHRHLLPSSPPPDPIEDW
4) PGVALPPHAVYRPRWQQDAKRDPDTDTETDTKRNGTKNSTNNTNSSSSGGVKRSASPGAEQSGAGAKSGAAAGALARAGAEAGAGRGVAAGSPRRSPLAPATAPAAP
5) QSSPRASPRRHDDDAAGSREGSPARRAALGPGSYRQADDHQPEQVG
24
182
297
374
930
151
239
344
480
975










Molecular Recognition Features






MoRF SequenceStartStop




1) AGALAR
445
450