<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 MDP00039

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAGNGGSLEDCFSNVYALTELNGLKWRCFLTPSNSPRGIPVQSDPILKAYGNCLRDGLICTWRRKPLELKPNEPLPLPSFTNEISKELWLFWYSNEPPEKLSINTSHLDADNNGVGTAANGINYEVRVLFFQALHTMIERSMALDGFVRFGRWFTRPLRQPLPGRQHLLPHYIMATNVQFFIHGGNTVCMTVNAQRQPPLLRLSKRHLECGKRVQVVVGPWSLRAVLLPPDTEVGRNQPNAEKQWEEWKEFVAALAQDLEDTDDDNRDDGVPRMVPVEIDGIRMLYPSCYVCVTMEDDAASCSKDEPVAPSMTPDELITPDNGRRNQLLVSNANGHSFMQGVLQNAYLTPARPQPAPLPPPQVGPFQAPFPPQSDDDTRWNFIDPSKNDSCSCDNCTHQPSPEYWASLEREPVVDCPLAAPIKVAQRPGMVKTNPLYTVMKRQSKRRTKHSYHRRFPLKSDPAEDSASPSESVGSEQDTSDDETSGAPAWADTDKQSLVTGIYCSADDASYHFGVATPCNSSDDENFACSPFTPIKALSPCTNCMWPSAPAGQIPEDVFNQIFQPSSTSRVPPTASQEERQRDYNCYYNPTLREDPYYMSYHSRRFGEKRRCSYPPSIKIPASPEQPGSQETIPATTSPPPELEEHRRRIPESDPTVTMTRTTSELDLKDKPDVQVPTKKRSRKSKENIEWPDLDSLDMGLLSTTMGEEMEARVSPYAGRITPAYDSDSELEVDEQVTSSDGDETRAIGEGPSGINQIPGPYDSHGVQGSSLEPMEVDESVVGVPTDNINLLSPPASNERPEGYAAMSMNYGGWPRIGGPPSCGDPSMNHIYPTPPSVQSEAQQFSPAPMLPPHQQYTMQHQHQSAAQTQQTNSMDPSLFPTTTSHQQNTNQPPAPSLSTTEAKPDAGVVKEVTTDDSDDSKDKVIDLVPPDSKMSKLWKRIELLPVNGHDRKKMVPASTRFSPAADVRVLCATLTTRRTSLHMPPDYQKLVRLMEKRVPKHVDTLFTSQFSSSISSSTPAQIPPVAVTSFGNPNNYKPTFGPISGGMTPNPPHMQMPSMQPPQSHHIQQFPASQIRTPPMMGGRMGTPVGPGPGPMGPPYAPPNSGPYGQMMAPPNSVQQLNNFVHGPMFNTANGQMNPHHPMGGMGPMGQPMGQPMYPAGPGQMPMMQPCTTSGYGAPPMMGGYGPSAPNMMGPPHPNAPPAYPGAPGPPPAYGSMNQMQPMQPPHMRQMPMNPMQQMMPSQSPMPMMNTYGTNGPGPTSGMPMATQPSREVMVPYAEGSSVVLAIILQDTILDLHFDSVFDACPICSCNTSIRARELGLYLTPPDPLRMPSHVQQAQIGSWSGFALAEGNPCTCGFSAVRHRYLSLCSGLFPEDSREATAIEHSVAPVNGLGAEVGLQTSSQMWFDSTSSTDVNMLDLLRILCQQHYMGFMVHQIAQFVEQAEKAIKPQEVGFDVSSNAEYVLSQVDATELMLIGNSAAEMSRISGNRSRNTNQPILQFFHPWGLQVANEVRDPREAEWRGLLSEIGPILERAMRVVRCMHGAPGSIVEGPLTWRALTSKSQHKSHSPNHDDDISLPEPIPYINVAAEKDAIRAAPHVIRHWEHLSLGPIDQPKDVLYLTVVPDNPDVCAMATKYMEQLSQMYERMRLGRHIAWPTGADGRDGCVKVGSRTQSGKYPTETTTLDFLNLVGRYVDNKAFMTKLRLFTQQMEEYLLQVMSERDDLFERAAFRETLALDWRAKRAAAAAVALAVEQRMAESSAEPGTTVPPPEPPPAEPPLEPEDIPVDDPGTLPHVIVIYVFNAFTWGTEFRSGLFTRVATLAVMRAFNTVCLRLPLRRRPQLQLEIVPMEQVTDLLGCLPDYTNDSGTSQYLFENSGGTEREQVDCVAVESLRATVLSVYTQPRVLGADCIKSVQARCMTKFGPGSSLLDSLDEWERNGPNVFYKVPSNAYHLAPPPLLYQKHENGRIIQSSPDEQVLYVTYCVIGSDWLCVTVTDSLGRLNDNCLINLRTRHDHHIYKYRQQTQILDAMSRLWTYILGVLCMETRNWRLVIGRLGRIGHGEFRAWTYLLNKTSLKRHSARLKEVCTSCAQMPGCSGTPSILSACLVSTEPEPYLRIFPGFASTDAYNKKTRSAAPDDTTVTHIMVFPTSADIQLGATDQHAAGDDDWDMDLVDMDIPQDGNDLGDDFLSSLCMDTGPPQPSASFRTAGNSFFSENTAGIF
Length2223
PositionMiddle
OrganismAncylostoma ceylanicum
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Strongylida> Ancylostomatoidea> Ancylostomatidae> Ancylostomatinae> Ancylostoma.
Aromaticity0.07
Grand average of hydropathy-0.489
Instability index54.48
Isoelectric point5.41
Molecular weight245551.91
Publications
PubMed=25730766

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

>MDP00039
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             9|     415.18|      52|      52|    1062|    1113|       1
---------------------------------------------------------------------------
  307-  343 (45.08/13.30)	........PVAP.SMTP...........................DE......L..I...............TPDNG......RRNQLLV........S............NANGH.SFM....QGVL
  344-  374 (30.44/ 6.13)	QnaylT..PARP.QPA....PL...........P.PP..QVGPFQA......P..F...............PPQS....................................................
  808-  888 (46.07/13.79)	S....M..NYGG.WPRIGGPPScgdpsmnhiypT.PP..SVQSEAQqfspapM..L...............PP.........H.QQYTM........QhqhqsaaqtqqtNSMDP.SLFptttSHQQ
  889-  949 (32.38/ 7.08)	N....T..NQPP.AP.SLSTTE...........A.KP..DAGVVKE......V..TtddsddskdkvidlvPPDSKmsklwkRIELLPV........N............G................
 1022- 1058 (34.80/ 8.27)	Q....I..P..PvAVTSFGNPN...........NyKP..TFGPISG......G..M............tpnPP.........HM.QMP.......................................
 1062- 1086 (34.80/ 8.27)	.......................................................................PPQSH......HIQQFPA........S............QIRTP.PMM....GGRM
 1087- 1138 (90.50/35.56)	G....T..PVGP.GPGPMGPPY...........A.PP..NSGPYGQ......M..M..............aPPNS........VQQL..........N............NFVHG.PMF.ntaNGQM
 1139- 1186 (57.25/19.27)	N....PhhPMG..GMGPMGQPM...........G.QPmyPAGP.GQ......M.pM.............mqPC..............TT........S............GYGAP.PMM....GGY.
 1208- 1253 (43.85/12.70)	..........AP.GP....................PP..AYGSMNQ......MqpM..............qPP.........HMRQMPMnpmqqmmpS............Q..SPmPMM.....NTY
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     148.81|      36|      41|     727|     762|       2
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  524-  556 (27.22/ 9.46)	.......DENFACSPFTPIKALspctncmwPSAPAG..QIPE..
  727-  762 (62.67/32.56)	SDSELEVDEQVTSSDGDETRAI........GEGPSGINQIPGPY
  771-  804 (58.93/30.12)	SLEPMEVDESVVGVPTDNINLL..........SPPASNERPEGY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     132.03|      42|     583|       9|     128|       3
---------------------------------------------------------------------------
   63-  112 (60.94/111.49)	RRKPLELKPNEPLPLPSftNEISKElwlfwySNEPPEKLSINTSHLDADN
  454-  495 (71.08/16.16)	RRFPLKSDPAEDSASPS..ESVGSE......QDTSDDETSGAPAWADTDK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.28|      19|      29|    2034|    2052|       4
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 2034- 2052 (37.55/26.95)	RLWTYILGVLCMETRNWRL
 2066- 2084 (33.73/23.39)	RAWTYLLNKTSLKRHSARL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.20|      10|     395|     565|     575|       5
---------------------------------------------------------------------------
  565-  575 (13.90/ 8.34)	PSSTsRVPPTA
  615-  624 (19.30/ 8.08)	PPSI.KIPASP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.26|      15|      45|    1307|    1322|       7
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 1307- 1322 (25.07/19.58)	PiCSCN.TSIRARELGL
 1354- 1369 (26.19/15.20)	P.CTCGfSAVRHRYLSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     151.03|      48|     760|    1375|    1426|       8
---------------------------------------------------------------------------
 1375- 1426 (80.58/63.13)	PEDsreaTAIEH.SVAPVNG...LGAEVGLQTSSQMW....FDSTSSTDVNML..DLLRILC
 2138- 2195 (70.45/45.81)	PDD....TTVTHiMVFPTSAdiqLGATDQHAAGDDDWdmdlVDMDIPQDGNDLgdDFLSSLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.92|      40|     201|     176|     220|      10
---------------------------------------------------------------------------
  176-  220 (66.93/54.08)	TNVQFFIHGGNTVCMTVNAQRQPpllrlSKRHLECGKRVQVVVGP
  378-  417 (79.99/52.53)	TRWNFIDPSKNDSCSCDNCTHQP.....SPEYWASLEREPVVDCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.86|      33|    1273|     248|     283|      12
---------------------------------------------------------------------------
  248-  283 (54.54/34.33)	WKefvAALAQDLEDTDDDNRDDGV..PRMVP.....VEIDGIR
 1557- 1596 (50.32/24.73)	WR...ALTSKSQHKSHSPNHDDDIslPEPIPyinvaAEKDAIR
---------------------------------------------------------------------------




































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 MDP00039 with Med13 domain of Kingdom Metazoa
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