<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 MDP29978

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMAASLRISLNNMENGDISSGVLSSKERDLKRQMEKLHRCYMKKKEWKDSMRVVQQSMSREKKMLMETDKEPGSLRSCLDRLQSCIKVVSQQTLLERLETTSRLVDLSFSPPTGTENSAIISSEMFRIEIIFDPGGLVKDVRISHQGEPTSCDEITEVLRQGNFDEFIVHLKGLQSIYNISGDRKQKSKAYLALQALETDLNSLAQLQSSIKGCPMKLVYFVSPYDLLNKRTRSPHPMTVEAITEHGLGQSVTVCIEPHSHRRLQTIPLMSVVPQDGKSLPSFQALSQVNSTSLPACFTLMLARPIPVAMSVIHAIQEVTDIDVITEGEPESLLKLILAQSSGGKLSPGSEFFVTLPDQQHAYYLRDIGESSLDQTAKMVSRIPFTHPTNVANILNLLRQQLLFNTVISSCIRPYAKQDLMSSVVFELVCTSLQQFTIMFEHPLQDTMVTAEVDLSDITGVKFKVSIGEDGEDLLSDDAASKIFQRCWSVPVTLRSIIHKVSEQLRKEPSPEPVAMEIEQPPFVMPQEVTFATPYLPAMDSKSISSPGNMVLPNAKIPQGYGGIPPNTTQGAMLPPPIVEDSKKLDDDVPSSNPLLVTLLDQDSPDPDPPSVPESPMLSRLLEDSPSNNNTNSSLNNNNNVANLASSVPAPLKPGRGRPPKRKSVTDPPKGKSPKHRLTDNEYQSQSLSFESLTSSFDSDFQNASMDSQRFPHFSLSSPIDLTDDSVNPLRGLENTLDSIQSKQSMHHSSDPLANLTSELDSIQDVSIFSQTNSVPKNMARSTSLEGILNRSGEVSRTKDLHKPHHLQDSMPTNQARKTLVRQNSVGKVAQYQHQISIDSNDSFKAGSNLSFSRSTSFTHGNTSDSDTSLYSTRSFDLSDSFNNLSPVSNSSISRHDIGGDLTTEFKPELKLGHKDLRSLLMSSPNENSLLQSEKLKIKNTKGKMRMKLSGIKNSDLLGINRKKSSAEAYDFNSDEEDSNDLSMITASPTGLQLFNKSKTAKHLLNKIGKGDKLKKKEAKSTEPGKRKRDKKEKEHKKKKRLDSNSRATSCEMYSATPVESEDKTSTKLKIIKSVGVSMENSPRSSPSGREKGDGTRKSSINSQKSLKNSHKSLSMTSVNVSKEDSKLMTKTPKIKLKPIAIPPSSAVSNAKTPTPTSSPGSATPTSTTIGRIGAVSILTSGNSKAGGTTPSPGKVSTPTSAKTQPTFGGSKSFPSNKSVASSSTSLKAASAERKLSQSGRLSSGISKSSNGKYSSDRKSGSPSVSGSKSGLNSSKSLNSSSKGQSSNSFSKNSNNPLNSVLSFLNPKDKGLSSLPRIPKISSASSSNNNTKPTVSVTSTSVSTTTSVSTSVAGMSKLTTVNSHSNTKVSVSNNPHQGGVRSSPNTPGTPKNFPANSKNSANLNSKSTLVNSPNIRGSQMGSRSPSVNSANNKSPSSSNGKSPLSHTSNKLGINGRPPSNSNPPKTPVGSNTAHPLKTPTPGSGHNNGSPNINKPIPISTPPPTTTINKSNPQTSSPSSYPPKATPTGDQSPSVSNLSRNSPLLSQGPPGKTPNLVTKVSESPKSILVTTASKVTSPIMVSTDTPPKTTTPGSMVSPTTSCPSSNAKMRPRKSSLSAVIDKLTNAKVPHGVGGETNRQNSLDEGGEQAKAKTENALDGLDKASNGLERQSVSEPKKADSSDKNLPSKDSPSGIDKNKDLKIVDNSRNLFASLLKSASENFTSKHDKDDKENVSKSETGGKPGDSSEDVDSKAKDLSMQSVCKKSPKVIPKVNGETNVTVDNSIRKGEGDVFKVPTPKSVVSVDENDCEDIENMSVRRKARISTTKPVLSPASSGGSPENLIIDCQSPRQHSKNNSLNSPKCIVDLNDENKKLSPVTVVNNRQKTHTPSPKPKHSPNPSPKSVQHSSPAGMLEIDDDLMNEAIMGFTS
Length1926
PositionMiddle
OrganismCrassostrea gigas (Pacific oyster) (Crassostrea angulata)
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Mollusca> Bivalvia> Autobranchia> Pteriomorphia> Ostreida> Ostreoidea> Ostreidae> Crassostrea.
Aromaticity0.03
Grand average of hydropathy-0.672
Instability index55.12
Isoelectric point9.44
Molecular weight207230.35
Publications
PubMed=22992520

Function

Annotated function 
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

>MDP29978
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|    1175.95|     168|     168|    1017|    1184|       1
---------------------------------------------------------------------------
  738-  899 (131.37/43.57)	....SIQSKQSMHHSSD...PLaNLTSELDSI.Q.....DVSIFSQ.TnsvPKnmarsT.S.......L...EGI..L...NR.SGEV..S..RTKDLH..KPH.HLQD.SMPTNQ......ARKTLVRQNS...................................................vgkVAQYQHQISIDSN.DsfKAGS................NLSFSRST.SFTH.....GNTSdsdT.SLYSTRSFDLsdS.FNNlSP..VSN..SSiSRHDIGG
  900- 1094 (181.80/63.71)	DLTTEFKPE..LKLGHKdlrSL.LMSSPN....E.....NSLLQSE.K...LK.....I.KntkgkmrM...KLSG.I...KN.SDLL..G.iNRK.......K.SSAE.AYDFNSDEEDSNDLSMITA..S....PtglqlfnksktakhllnkigkgdklkkkEAKSTEPGKRKRD...KK...EKEHKKKKRLDSN.S..RATS................CEMYSATP.VESE.....DKTS...T.KLKIIKSVGV..S.MEN.SP..RSS..PS.GREKGDG
 1095- 1266 (224.45/80.74)	TRKSSINSQKSLKNSHK...SL.SMTSVNVSK.E.....DSKLMTK.T...PK.....I.K.......L...KPIA.I...PP.SSAV..S..NAKTPT..PTS.SPGS.ATPTSTTIGRIGAVSILTSGNS....K...........................aGGTTPSPGKVSTPtsaKT...QPTFGGSKSFPSNkS..VASS................STSLKAAS...AE.....RKLS...Q.SGRL..SSGI..SkSSN.GK..YSSdrKS.GSPSVSG
 1267- 1454 (155.56/53.23)	S.KSGLNSSKSLNSSSK...GQ.SSNSF..SK.NsnnplNSVLSFL.N...PK.....D.K......gL...SSLPrI...PKiSSAS..SsnNNTKPTvsVTStSVST.TTSVSTSVA...GMSKLTTVNShsntK............................VSVSNNPHQGGVR...SS...PNTPGTPKNFPAN.S..KNSAnlnskstlvnspnirgSQMGSRSPsVNSA.....NN............KSPSS..S.NGK.SP..LSH..TS.NKLGING
 1455- 1555 (118.61/38.47)	RPPSNSNPPKTPVGSNT...A....HPLKTPT.P.....GSGHNNG.S...PN.....I.N...........KPIP.IstpPP.TTTInkS..NPQTSS..PSS.YPPK.ATPTG...DQSPSVSNL.SRNS.........................................................................................................................................PllSQG..PP.GKTPNLV
 1556- 1646 (106.70/33.72)	TKVS..ESPKSI..............................LVTT.A...SK.....V.........T...SPIM.V...............STDTPP..KTT.TPGSmVSPT.............TSCPS....S............................NAK.MRPRK............................................................SSlsaviDKL....T.NAKVPHGVG...G.ETN.RQ..NSL..DE.G...GEQ
 1647- 1772 (123.68/40.50)	AKAKTENALDGLDKASN...GL.ERQSVSEPK.K.adssDKNLPSKdS...PS....gIdK.......N...KDLK.I.........V..D..NSRN.L..FAS.LLKS.ASENFTS..........................................................KHD...KD...DKENVSKSETGGK...............................P.GDSS.....EDVD...S.KAK.....DL..S.MQS.VC..KKS..PK.VIPKVNG
 1777- 1908 (133.78/44.53)	TVDNSI..RKGEGDVFKvptPK.SVVSVDENDcE.....DIENMSV.R...RK.....A.R.......IsttKPVL.S...PA.SSGG..S..PENLII..DCQ.SP...................................................................RQHS...KN...NSLNSPKCIVDLN.D..E..N................KKLSPVTV.VNNR.....QKTH...TpSPKPKHSPNP..S.PKS.VQ..HSS..PA.G......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     119.20|      36|      42|     564|     604|       2
---------------------------------------------------------------------------
  513-  547 (38.40/12.42)	VAMEIEQPPfvmPQEVTfATPYLPA.M..DSK................SISS..PG...
  564-  593 (32.70/21.51)	............PPNTT.QGAMLPPpIVEDSK................KLDDDVPSsnP
  596-  650 (48.10/24.05)	VTLLDQDSPdpdPPSVP.ESPMLSR.LLEDSPsnnntnsslnnnnnvaNLASSVPA..P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.89|      20|     237|     136|     167|       3
---------------------------------------------------------------------------
  110-  130 (29.61/24.33)	PPTGTENSAIISSEMFRiEII
  148-  167 (35.29/11.59)	PTSCDEITEVLRQGNFD.EFI
---------------------------------------------------------------------------




































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 MDP29978 with Med1 domain of Kingdom Metazoa
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