<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 MDP00040

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAGNGGSLEDCFSNVYALTELNGLKWRCFLTPSNSPRGIPVQSDPILKAYGNCLRDGLICTWRRKPLELKPNEPLPLPSFTNEISKELWLFWYSNEPPEKLSINTSHLDADNNGVGTAANGINYEVRVLFFQALHTMIERSMALDGFVRFGRWFTRPLRQPLPGRQHLLPHYIMATNVQFFIHGGNTVCMTVNAQRQPPLLRLSKRHLECGKRVQVVVGPWSLRAVLLPPDTEVGRNQPNAEKQWEEWKEFVAALAQDLEDTDDDNRDDGVPRMVPVEIDGIRMLYPSCYVCVTMEDDAASCSKDEPVAPSMTPDELITPDNGRRNQLLVSNANGHSFMQGVLQNAYLTPARPQPAPLPPPQVGPFQAPFPPQSDDDTRWNFIDPSKNDSCSCDNCTHQPSPEYWASLEREPVVDCPLAAPIKVAQRPGMVKTNPLYTVMKRQSKRRTKHSYHRRFPLKSDPAEDSASPSESVGSEQDTSDDETSGAPAWADTDKQSLVTGIYCSADDASYHFGVATPCNSSDDENFACSPFTPIKALSPCTNCMWPSAPAGQIPEDVFNQIFQPSSTSRVPPTASQEERQRDYNCYYNPTLREDPYYMSYHSRRFGEKRRCSYPPSIKIPASPEQPGSQETIPATTSPPPELEEHRRRIPESDPTVTMTRTTSELDLKDKPDVQVPTKKRSRKSKENIEWPDLDSLDMGLLSTTMGEEMEARVSPYAGRITPAYDSDSELEVDEQVTSSDGDETRAIGEGPSGINQIPGPYDSHGVQGSSLEPMEVDESVVGVPTDNINLLSPPASNERPEGYAAMSMNYGGWPRIGGPPSCGDPSMNHIYPTPPSVQSEAQQFSPAPMLPPHQQYTMQHQHQSAAQTQQTNSMDPSLFPTTTSHQQNTNQPPAPSLSTTEAKPDAGVVKEVTTDDSDDSKDKVIDLVPPDSKMSKLWKRIELLPVNGHDRKKMVPASTRFSPAADVRVLCATLTTRRTSLHMPPDYQKLVRLMEKRVPKHVDTLFTSQFSSSISSSTPAQIPPVAVTSFGNPNNYKPTFGPISGGMTPNPPHMQMPSMQPPQSHHIQQFPASQIRTPPMMGGRMGTPVGPGPGPMGPPYAPPNSGPYGQMMAPPNSVQQLNNFVHGPMFNTANGQMNPHHPMGGMGPMGQPMGQPMYPAGPGQMPMMQPCTTSGYGAPPMMGGYGPSAPNMMGPPHPNAPPAYPGAPGPPPAYGSMNQMQPMQPPHMRQMPMNPMQQMMPSQSPMPMMNTYGTNGPGPTSGMPMATQPSREVMVPYAEGSSVVLAIILQDTILDLHFDSVFDACPICSCNTSIRARELGLYLTPPDPLRMPSHVQQAQIGSWSGFALAEGNPCTCGFSAVRHRYLSLCSGLFPEDSREATAIEHSVAPVNGLGAEVGLQTSSQMWFDSTSSTDVNMLDLLRILCQQHYMGFMVHQIAQFVEQAEKAIKPQEVGFDVSSNAEYVLSQVDATELMLIGNSAAEMSRISGNRSRNTNQPILQFFHPWGLQVANEVRDPREAEWRGLLSEIGPILERAMRVVRCMHGAPGSIVEGPLTWRALTSKSQHKSHSPNHDDDISLPEPIPYINVAAEKDAIRAAPHVIRHWEHLSLGPIDQPKDVLYLTVVPDNPDVCAMATKYMEQLSQMYERMRLGRHIAWPTGADGRDGCVKVGSRTQSGKYPTETTTLDFLNLVGRYVDNKAFMTKLRLFTQQMEEYLLQVMSERDDLFERAAFRETLALDWRAKRAAAAAVALAVEQRMAESSAEPGTTVPPPEPPPAEPPLEPEDIPVDDPGTLPHVIVIYVFNAFTWGTEFRSGLFTRVATLAVMRAFNTVCLRLPLRRRPQLQLEIVPMEQVTDLLGCLPDYTNDSGTSQYLFENSGGTEREQVDCVAVESLRATVLSVYTQPRVLGADCIKSVQARCMTKFGPGSSLLDSLDEWERNGPNVFYKVPSNAYHLAPPPLLYQKHENGRIIQSSPDEQVLYVTYCVIGSDWLCVTVTDSLGRLNDNCLINLRTRHDHHIYKYRQQTQILDAMSRLWTYILGVLCMETRNWRLVIGRLGRIGHGEFRAWTYLLNKTSLKRHSARLKEVCTSCAQMPGCSGTPSILSACLVSTEPEPYLRIFPGFASTDAYNKKTRSAAPDDTTVTHIMVFPTSADIQLGATDQHAAGDDDWDMDLVDMDIPQDGNDLGDDFLSSLCMDTGPPQPSASFRTAGNSFFSENTADVSMENQPLATGYYLSTAPAADVPDWFWSSCPGAKNRTPVHLKSSLHINVPLVHQGDEFLQGKAAVGDKQEKESGHPLDSTRTDEVLRHVLETYNSLSWLNIDVVSGERRSCLPIHMQALIRLYHSVARLIM
Length2352
PositionMiddle
OrganismAncylostoma ceylanicum
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Strongylida> Ancylostomatoidea> Ancylostomatidae> Ancylostomatinae> Ancylostoma.
Aromaticity0.07
Grand average of hydropathy-0.483
Instability index54.46
Isoelectric point5.47
Molecular weight259978.07
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

>MDP00040
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     337.20|      45|      50|    1060|    1104|       1
---------------------------------------------------------------------------
  307-  343 (32.90/ 7.16)	....PVA..PSMTP.....................delitP.DNGRRNQLLV........SNANGH.SFM...QGV.......L
  808-  845 (34.86/ 8.11)	SM..NYG..GWPRIG..GPPSCGD......psMNH...iyP.TPPSVQS.EA........QQF.....................
 1032- 1058 (31.75/ 6.59)	GN..PNNykPTFG......PISGG........MTP.......NPPHMQ.MP.................................
 1060- 1086 (43.00/12.08)	................................MQP.....P.QSHHIQQFPA........SQIRTP.PMM...GGR.......M
 1087- 1138 (72.32/26.38)	GT..PVG..PGPGPM..GPPYAPPnsgpygqmMAP.....P.NS..VQQL..........NNFVHG.PMFntaNGQ.......M
 1139- 1194 (64.53/22.58)	NPhhPMG...GMGPM..GQPMGQP........MYP...agPgQMPMMQPCTT........SGYGAP.PMM...GGYgpsapnmM
 1195- 1253 (57.84/19.32)	GP..P.H..PNAPPAypGAPGPPP.aygsmnqMQP.....M.QPPHMRQMPMnpmqqmmpSQ..SPmPMM....NT.......Y
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     598.09|     119|     493|     355|     473|       2
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  355-  473 (214.71/89.85)	PAPL...PPPQVGPFQAPFPPQSDDDTR.WNF....IDPSK.NDSCSCDNCTHQPS...PEYWASLEREPVVDCPLA...APIKV....AQRPGMVKTNPLYTVMKRQSKRRT..KHSYH.RRFPLK...SDP..AEDSASPSESV
  513-  626 (124.14/48.81)	..............FGVATPCNSSDDE...NFacspFTPIK.ALS.PCTNCMWPSA...PAGQIPEDVFNQIFQPSStsrVPPTA....SQEERQRDYNCYYNPTLREDPYY....MSYHsRRFGEKrrcSYPpsIKIPASP.EQ.
  635-  732 (109.46/42.15)	...AttsPPPELEEHRRRI.PESDPTV............TM.TRTTSELDLKDKPDvqvPTKKRSRKSKENIEWPDL...DSLDM........GL.....LSTTMGEEMEARV..S.PYA.GRI.......TP..AYDSDSELE..
  847-  968 (149.78/60.42)	PAPM...LPPH.QQYTMQHQHQSAAQTQqTNS....MDPSLfPTTTSHQQNTNQPP...APSLSTTEAKP..DAGVV...KEVTTddsdDSKDKVIDLVPPDSKMSKLWKRIEllPVNGH.DR..KK...MVP..ASTRFSPAADV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     364.91|     112|     761|    1303|    1426|       3
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 1310- 1426 (192.40/126.93)	SCNTSIRARELGLYLTPPDPLRMPSHVQQAQIGSWSGFALAEGNP...CTCGFsAVRHRYLSLCSGLFPEDsreaTAIEH.SVAPVNG...LGAEVGLQTSSQMW....FDSTSSTDVNML..DLLRILC
 1488- 1531 (47.57/14.64)	SGNRSRNTNQPILQFFHPWGLQVANEVRDPREAEWRGL.LSEIGP.....................................................................................
 2093- 2195 (124.94/64.33)	.....................QMPGCSGTPSILS.ACLVSTEPEPylrIFPGF.ASTDAYNKKTRSAAPDD....TTVTHiMVFPTSAdiqLGATDQHAAGDDDWdmdlVDMDIPQDGNDLgdDFLSSLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.90|      28|      31|    2011|    2040|       4
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 2011- 2040 (45.75/40.54)	LRTRHDHHIYKyrQQTQILDAMSRLWTYIL
 2045- 2072 (50.15/36.18)	METRNWRLVIG..RLGRIGHGEFRAWTYLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.05|      35|    1700|      21|      91|       5
---------------------------------------------------------------------------
   53-   91 (61.97/65.15)	CLRDGLictwRRKP...LELKPNEPLP.....LPSFTNEISKELWLF
 1833- 1875 (56.09/13.26)	CLRLPL....RRRPqlqLEIVPMEQVTdllgcLPDYTNDSGTSQYLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     310.95|      98|    1700|     189|     297|       6
---------------------------------------------------------------------------
  189-  297 (159.08/125.29)	CMTVNAQRQPPL.LRLSKRHL..ECGKRVQ....VVVGPWSlraVLLPPDTEVGRNQPNAEKQWEEwKEFVAALAQDLEDTDDDNRddgVPRMVPVEidgiRMLYPS.C.....YVCVTMED
 1888- 1998 (151.86/92.09)	CVAVESLRATVLsVYTQPRVLgaDCIKSVQarcmTKFGPGS...SLLDSLDEWERNGPNVFYKVPS.NAYHLAPPPLLYQKHENGR...IIQSSPDE....QVLYVTyCvigsdWLCVTVTD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.04|      18|     583|    1000|    1028|       7
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 1000- 1028 (25.28/31.25)	PKHVDTLftsqfsssissSTPAQIPPVAV
 1571- 1588 (35.77/18.18)	PNHDDDI...........SLPEPIPYINV
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      98.75|      22|      46|     733|     754|      10
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  733-  754 (35.10/14.99)	VDEQVTSSDGDETR.....AIGEGPSG
  755-  776 (34.43/14.58)	INQIPGPYDSHGVQ.....GSSLEPME
  777-  803 (29.22/11.30)	VDESVVGVPTDNINllsppASNERPEG
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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 MDP00040 with Med13 domain of Kingdom Metazoa
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