<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 MDP10860

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLIQEPVQVAIWTNLNFYAYEDATFLAERLCSEIETDESLFLLATCYYRSGRTNEAYWLLSTKGAQTQKSKFLLAKCAYELKHYSEAESVLCQNKSPKTISDLDEICKEFGELSGFVMQLLSKICKQTERAAMANECCRASLKQNPFLWNSFVDLCNRGERPNPKEIFQIRNDELLSQLERQLWSNPSPEFHLYDKNVSIHEQQQQPPPTCVITPNNANIEKFEVDVEDTPLMENLNQTSLTSQPRIHEQTPYRKQFKYLQSNMIPITPSFGVLPLNSPFDSLKQTTLFLTPSPPLTTQQQTQQQQQQIIDCEKNNSNKKIRGNLNSLVTRKEIATPLQQTKPVVLNQSSNITPNRTQFMQQQQQDQRYPSVRRSSRIFSNYSVKENNKSPNLNKFVQPRSPPSKKANKRVSKSSKTTLNELNEKNNMLSEKERSETITSAQLINDMSYLQQSNHIASLKRQSADGLLQLLQELGQAYMHIQHYEMNEAVNVLESNIPTRHFNSSWVQSMIALIHHENREYEEAVKIFTVIHKREPFRLQFMEIYSTDLWHLQKDALLSMLTQDMIQHNKTSAITWCVAGNCYSALKEHDTAIKFFNRAIQVDPDFPYSYTLLGHELVVTEELEKALGCYRKAILKDPRHYNAWFGIGTIYSKQERFQLAEIHYRHALKINRKNSVILVHIGVMQFYLHKPEHAIQTLTEGIKLEPNNPLCKFHRASMNFSIGKLQEALSELEELKQIVPKESVVYYLIGKIHKQLGNIDLALMHFSWATDLDPKGANNQIKDKFDSVIRSHQQPEQSEGIPLREDFVEDDDVSDDEAAPGNDNDNNNSSGTIEESDITMTHQNHQTNGASLEDCHTNFFALADLCGIKWKKLVLNERPLSTGDPLDDPVLRSYTKCLAKDILCVWRRVSQHKNDLDQTGGLGMFDISQIGCTSVIHPPLSLTAAKELWIFWYGEEPDLTDLVSPELLKSPDSLEQGSWESGLSYECRSLLFKALHNLIERCLLSRDILRLGKWFVQPSLEKNAGKSSAHLSFSFAFFVHGESTVCASMDIREHPPVRPLTEEYLNEVIKNSQQTESCSLNDDNDKEDFNDINHNVSVQSVILAPFGLSAVLTGNKSENYEQYTEKIVNDWNNFYPMKKLDGDNSSSNMPQLVEVISGGIKMLYPSKYVLVTDILSRNKKDNCISENNKKIINSSETKSSYRCSEIDKDCIESSVLNFCDGIQKTASGVLPERAWQDSIMNPAYTNASVKSEQEKIEMQSENNIENSINAANGIEKSDPTTWNFVEPNHKSNCLCTRCKNVENHGSFSSLKTPGNSSSISGKSNFRNNSNRNRTPFHKRSSSDSSLSKSKERFSNQPSTSSKFNIRSSVKQSSGGSGSNGGNASQTQNSNNTNEVQQMSIGSDGSIQSPMHHNLSSVHSQPSSVPVNEQNILSPIPPSDVSPPSMTPSLENNIDQKPDIQSLNNFDKTTDNSQTNHQANNNDGGSIDNGNNTKIDFKSNNNSKQKLTDTNNKENICLKRPALKVQDCEDISEEDHSISQSLYDYSTWDAWMNHPIKRFKPDDLDRNRSNNKSSTKYDLYAGQTCSESSSVLPNLVQQIQNLNESGKIDDAKNNLNNNCGKDNRNVNGGNCVGGGSGGVDNDPDKNSNSENLFTSEGLQPSYADLNKIFDNSDDNSNDDHLVDNTPPGSNKSIGCHPADMEVPGGVCGNISDSLMESIDMMPSTKSDSYHNLGSPHEEPIDDWSFVFKPPKKSTIVGASKYAPLDNLLSQTLPPINLPSNCNYKPSWIKQKEQDEVRKKQQQLQADNNGSLMIKKEIINPPPLPEPPSIEIKKEVMSPMNVKMMASSPYGGVKNIKTENVGSTIINKLLTQGPTPPPNVFKSSIHSSMGSPSPANLQTNNYISPYPPMSHQDSIFRKTMVGIGMPMSSSHHSQPPPPYDVAIHSPSLNSNLNSISSNNDENKQKILSNNNNIKGNHPHHPQHHFMTQQQQQHQLQQHQQQSLNGQKTPEANSLLVNVLLYDTSLNIFRDHNFDSCTICVCNAGPKCVGNIRGLDSGLYLSLAASCHFNENLTTIVERYEHEITGMAKDPSNFKKRSLLSLLLKQRQQNKFNQHQNDDDSKQQQQNDSTMKEMKEISIANLSPIFDLLRNQCTLFHNSSNSVQRAIKHLNQEKYSPIIANKHVNILEYIDAFDIVTLALEQGRYVFERFDGYNNRQLYIPNQQQQQKNNNNQVVEKQSTSLLSQQQQQQAISVHKWPYLNAAGPKSNQDIIRVMKSMQVLLQKAFNQNGTTGLWDAPYAVRGPLTWREFHRLAGRGIGQCEPQPVPSVVVGHDKEWLCVSPYALQFWDKLLLEPYSHPRDIAYIVVSPDNHFITSRVKMFFKELSTTYEMCRLGRHQPVKEWEGILRVGKSVVKQENNNFDDDWLQSSLDSNKLNELLRLYGIAFQQSLVGFLSKIPYDKTLLNPPENCYNNHNSYKDHHHHHSHQRPSSLSSPMLPPHTPDSSMSANGSNNNNNNMSSMSHHDKGPNTPKSDQDDTKENLNNSTSTSEIMSQQLDQLANPPHIVLYIVEPFTSGTDSTSLERVACLSLLKYYSNVLSSIPESVKTNISVQIIAQESILELGRNRDINRWSDHMRNLALNVFTQSHRYLSHSNSVKSLTGFGTAANAEAFMKTKDEKNKAPVKLYTPPYILSTRNAKSENVENFGQSGIEQQCSSIMYCCYCLSEDQSMLLAVLTDERGEFLENCTINIDVPNRKRRKKTSARRIALQKLMDFILGVMSQTVKPWRLVIGRIGRIGHGELKGWSWLLSKPNLVKASKYLKDICKQCSVMYPQSVPSIWSACLVTLEPDSNFRVMPDQFTPDERFSQRSTQSPLSTPQDVSCTHILVFPTSAILQSSQATFHEQHLENALDFGEDFIIDDTDDVDEDINGIQHLFDEWNESAVGIPQASPTRDSHRGSPLTLDENKSRQSPGMTDNQTGQSRNIYSMPEAEEVGQLLQQPLALGYLVSTAPTGRMPSWFWACCPHLESVCPVFLKTALHIHSPSIHKENDDIYYKEQSSKIEHPLDSNTTADVLRYVLEGYNVLSWLAMDSNTHDRLSCLPIHVQMLMQLYHLHTALA
Length3115
PositionMiddle
OrganismClunio marinus
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Nematocera> Chironomoidea> Chironomidae> Clunio.
Aromaticity0.07
Grand average of hydropathy-0.663
Instability index56.20
Isoelectric point6.12
Molecular weight351920.38
Publications









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

>MDP10860
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     146.21|      31|      32|     603|     634|       1
---------------------------------------------------------------------------
  604-  634 (49.09/27.15)	PDFPYSYTLLGHELVVTEELEKALGCYRKAI
  638-  668 (52.18/28.04)	PRHYNAWFGIGTIYSKQERFQLAEIHYRHAL
  740-  769 (44.93/25.63)	PKESVVYYLIGKIHKQLGNIDLALMHFSWA.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     512.95|     113|     115|    1885|    1999|       2
---------------------------------------------------------------------------
  269-  308 (33.39/ 8.72)	...................PSF..GVL...PLNSPFDS...LKQTTLF.....LTP..SPP..........LTTQQQTQQQQQQ....................................................
 1398- 1480 (94.90/39.47)	MSIGSDGSIQSPM.........HHNLS...SVHSQPSSvpvNEQNILS....PIPP..SDVSPPS.......MTPSLENNIDQKPDIQSLNNfdkttDNSQ.TN.HQANN..........................
 1826- 1922 (154.76/72.40)	PSIEIKKEVMSPMNVKMMASSPYGGVK...NIKT...E...NVGSTIIN.KLLTQG....PTPPPNV....F...........KSSIHSSMG.....SPSP.AN.LQTNNYISPYPPMSHQDSIFRKTMVGI...G
 1925- 2042 (186.98/83.50)	MSSSHHSQPPPPYDVAIHSPSLNSNLN...SISSNNDE...NKQKILSN.NNNIKG..NHPHHPQHH....FMTQQQQQHQLQQHQQQSLNG.....QKTPeANsLLVNVLLYDTSLNIFRDHNFDSCTICVcnaG
 2043- 2115 (42.91/13.48)	...........PKCVG.NIRGLDSGLYlslAASCHFNE...NLTTIVERyEHEITGmaKDPSNFKKRsllsLLLKQRQQNKFNQHQND................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      93.48|      27|      27|    1112|    1138|       3
---------------------------------------------------------------------------
 1112- 1130 (25.74/11.31)	...............LTG.NKSEN.YEQYTEKIVND
 1131- 1159 (41.45/23.54)	WNNFYPMK......kLDGdNSSSN.MPQLVEVISGG
 1160- 1193 (26.29/11.74)	IKMLYPSKyvlvtdiLSR.NKKDNcISENNKKIIN.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.47|      30|      33|      35|      67|       4
---------------------------------------------------------------------------
   38-   67 (54.60/39.13)	ESLFLLATCYYRSGRTNEAYWLL.STKGAQT
   69-   99 (47.86/25.56)	KSKFLLAKCAYELKHYSEAESVLcQNKSPKT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.05|      28|      33|     949|     979|       5
---------------------------------------------------------------------------
  951-  979 (48.70/36.03)	FWYGEEP....DLTDLVSPELLkSPDSLEQGSW
  983- 1014 (45.35/21.78)	LSYECRSllfkALHNLIERCLL.SRDILRLGKW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     105.19|      23|      58|    1308|    1330|       6
---------------------------------------------------------------------------
 1308- 1330 (40.41/24.04)	SSLK.TPGNSSSISGKSNFR.NNSN
 1335- 1357 (31.34/16.43)	PFHK.RSSSDSSLS.KSKERfSNQP
 1367- 1390 (33.44/18.19)	SSVKqSSGGSGSNGGNASQT.QNSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     230.71|      74|     587|    1020|    1105|       7
---------------------------------------------------------------------------
 1020- 1105 (107.88/82.94)	LEKNAGKSSAHlsfsfaffVHGESTVCASMDIREHPPVRPLTEEylNEVIKNSQQTESCSLN..dDNDKEDFNDiNHNV......SVQSVILAP
 1614- 1696 (122.83/65.41)	LNNNCGKDNRN........VNGGNCVGGGSGGVDNDPDKNSNSE..NLFTSEGLQPSYADLNkifDNSDDNSND.DHLVdntppgSNKSIGCHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.42|      21|     586|     195|     240|       8
---------------------------------------------------------------------------
  162-  182 (36.07/40.28)	PNPKEI..FQ..IRNDELLSQL.ERQ
  215-  240 (22.35/15.64)	PNNANIekFEvdVEDTPLMENLnQTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     109.55|      32|      33|     669|     700|       9
---------------------------------------------------------------------------
  669-  700 (54.66/35.18)	KINRKNSVILVHIGVMQFYLHKPEHAIQTLTE
  703-  734 (54.89/35.36)	KLEPNNPLCKFHRASMNFSIGKLQEALSELEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.62|      11|     100|     244|     257|      10
---------------------------------------------------------------------------
  247-  257 (22.56/23.68)	IHEQTPYRKQF
  531-  541 (22.06/ 9.54)	IHKREPFRLQF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.05|      27|      34|     104|     130|      11
---------------------------------------------------------------------------
  104-  130 (46.36/27.67)	DEICKEFGELSGFVMQLLSKICKQTER
  135-  161 (50.69/30.98)	NECCRASLKQNPFLWNSFVDLCNRGER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.62|      28|      34|     347|     374|      12
---------------------------------------------------------------------------
  331-  355 (36.29/16.15)	RKEIATPLQQTK..PVV.......lNQS...SNITPN
  356-  392 (39.62/18.35)	RTQFMQQQQQDQRYPSVRRssrifsNYSvkeNNKSPN
  393-  420 (30.70/12.46)	LNKFVQ.....PRSPPSKK.ankrvSKS...SKTTLN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.73|      17|      33|     477|     493|      13
---------------------------------------------------------------------------
  477-  493 (31.17/21.58)	AYMHIQHYEMNEAVNVL
  512-  528 (29.56/20.02)	ALIHHENREYEEAVKIF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.94|      19|      33|    1730|    1748|      14
---------------------------------------------------------------------------
 1730- 1748 (38.37/20.90)	NLGSPHEEPIDDWS.FVFKP
 1765- 1784 (32.57/16.47)	NLLSQTLPPINLPSnCNYKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     809.39|     243|     380|    2291|    2540|      15
---------------------------------------------------------------------------
 2291- 2454 (233.36/142.83)	.....................................................................................................................................................................................................................................LWDAPYAvrGPLTWREFHRLAGRGIGQCE.PQPVPSVV...VGHDKEWLCVsPYALQFWDKLLLEPYSHPRD..IAYIV.VSPDNHFITSRVKMFFKELSTTYE.M.CRLG.RHQPVKEWEGIL.RVGKSVVKQENNNF....DDDWLQSSLD....SNKLNELLR....LYGI....AFQQSLVGFLSKI
 2458- 2540 (78.84/47.12)	KTLLNPPENCYNNHNSYKDHHHHHSHQRPSSLSSPMLPPHT.....PDSSMsANGSNNNNNNMSSMSHHDKGPNTPKSDQDDTKENLN............................................................................................................................................................................................................................................................................................................................................
 2682- 2839 (179.34/100.53)	........................................................................................nststseimsqqldqlanpphivlyivepftsgtdstslervaclsllkyysnvlssipesvktnisvqiiaqesilelgrnrdinrwsdhmrnlalnvftqshrylshsnsvksltgfgtaanaeafmktkdeknkapvkLYTPPYI....LSTRNAKSENVENFGQSGiEQQCSSIM.........YCC...YCLSEDQSMLLAVLTDERGefLENCT.INIDVPNRKRRKKTSARRIALQKL.MdFILGvMSQTVKPWRLVIgRIGR.IGHGELKGW......SWLLSKPNlvkaSKYLKDICK....QCSV....MYPQSVPSIWSAC
 2840- 3097 (317.86/184.16)	LVTLEPDSNFRVMPDQFTPDERFSQRSTQSPLSTPQDVSCThilvfPTSAI.LQSSQATFHEQHLENALDFGEDFIIDDTDDVDEDIN................................................................................................................................giqhlfdewnesaV.GIPQA..SPT..RDSHRGSPLTLDENK.SRQSPGMTdnqTGQSRNIYSM.PEAEEV.GQLLQQPLA......LGYLVsTAP.....TGRMPSWFWACCPHLEsV.C.......PV.FLKTAL.HIHSPSIHKENDDIyykeQSSKIEHPLD....SNTTADVLRyvleGYNVlswlAMDSNTHDRLSCL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.41|      22|     100|    2119|    2140|      16
---------------------------------------------------------------------------
 2119- 2140 (36.57/21.39)	KQQQQNDSTMKEMKEISIANLS
 2220- 2241 (36.84/21.61)	QQQQQKNNNNQVVEKQSTSLLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.51|      11|      23|    1487|    1497|      17
---------------------------------------------------------------------------
 1487- 1497 (19.75/11.96)	DNGNNTKIDFK
 1508- 1518 (19.76/11.97)	DTNNKENICLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.47|      19|      23|     795|     813|      18
---------------------------------------------------------------------------
  795-  813 (32.26/19.25)	PEQSEGIPLREDFVEDDDV
  820-  838 (31.21/18.32)	PGNDNDNNNSSGTIEESDI
---------------------------------------------------------------------------




































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 MDP10860 with Med13 domain of Kingdom Metazoa
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