<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 MDP05240

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMREYKIVILGCGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGHGFVLVYSITAQSTFNDLVDLREQILRVKDSEDVPMIIVGNKCDLEDERVVGKEQGHNLARNFNCSFLETSSKAKVNVNEVFYDLIRQINRHYPEPGKKKKDDSNSCCCIIMTENESWVFWFDKKESKQLSSYTCDLLPKKENCGTYQNDGINYDIRCLLFRGLHNLIERSLFVLGQKRFGKWFVAMKSKEELRKDMSQSNYSLAYTFSFFVHGDNMICATINTQRQPVVRSINLLDYFSKKTIPLILGPHGIRATLVMEQIECVKERVIRIDNNCRRNILIGKQYEEIGTIAEEQYNDWRGFYPLPVYDSEDIKYKGVTEILPRMTLVEIDNLKMLWPTECIGIILDEELSDGDRRCFYESDSTNINNMNVEKVSTENYCRHRVEDIDVNNKIFENIVIPSDFALYKKDGINVPLSSIEDGKTQTVTSTLLNCDILVDKQKDSDETMKPLDENIINTDEDNSVVPILNLVEPKASKEWKFSNCCSTIDCGCKMCQNIQRMFLRSISHSTDIQNDDKKVVSKPIIDQAYSKRMTYKGKIQKYKCFKPRNCKFNFDASKIPESSVTCKESFPKFLPSIRTKIKYNNKNKAISTKISSKKVPKKPYHLSNIVSKVYNNKSISKRKSLIENTKERYLFPKEDTLMARDVTFYDDSVQRKPNGMLNSFISCLRDIKDGKEVTFDCKLYDNYETVRRNNLFGDKLNFEKCMSDVPEYFDMNKILYVVEKKEEGTIIRDAKQMFLETYYDEYLVNSENEKFLKNSDINTVNSTFKIEDTDMLLNESSDCGEFDVNDIRFRIDPELAIQKDTEEEIKMLFNNLDEHDGKKNLFSKDIFNYCGIFKKEEVPNNKIIEIEEEKKLDEEVDVEELFNNIDNMFCNNESRSKFIVDLGEHNDFFSDADYSKIIKIKPVENGIDLKKTSYCKQFKKQLGYKEDIYNLPESFIRRNCQDSSFIQILKRIIENMNSKYNRRHTISDPIVEDFSQILYPSSETSINKRKVKYTNMISNDTYESEEIPYKVRKNEDKIQYIPCSVGYSRYLEENDIWSEDIFGSSHNSSLEENQSTNMEVHDDTDNYEIDTFSSEIFKFFGVSDNDYNSSSTGVCQKEESDEILRARFKDYNVNKDESNLGSGLSSEKVEGDEYFNAMNEIVFRMANKNKCEIKNVPILYEEGSKESTSIFDLAMNYSSDEEDISNDHYNVSFNESEFNSSIGNVSYGDYSNCETYESSNNEYFSESEDSFDYMLSDKTEAKIIEEVDEKLYESISTTDSSQEVEVYDSYGKDKLKSEQCEKYFRSRIFPVVLCREVNNGWTGMNLITKSLLPRYSKATSIQSLFASARSQEQYDSLRDSIIKKIKTKNISSLSPDYSKIIEKIKNYGFTLPYETYIYYREGPQLSFNHYLIHNNVDDIAHLPDCECVECIPLPKVPTYVDLDDATSMNPYIYNYKNPKFIDNGSNLYDIKSTDKSFVPPVMPHHNSLKNSDNRKNKYYNIIKSIQKKSKKIFKNGRSYENSIVAQNEIKNADITLEVSKDNKVNILGKSLSKLMIDAPVTRNRYERLVSKPVYIKMRNKRMSTLNLIPQKRFWYKGYNTKITDLEPLYNEVNSTMNPPHSEDFVEESEEEEDSYELNSGTSCDEESSAIEQASNNVSMESSCSNNSETDSYQSCKERNTYTPSSNQVVSYEMENNYMELEDNTYQNMEYKNYNYQEDYNGQVYQNRNVNNIQSQNSDNNHDNNVQNYMQNPNQYYNNEVLYNSSFNNLPSQVPEVNYQMSYEPKVEQAYNTQSFVNCNINENYFDSQKDLLTVSENSPNIDESSIIDNNIEYNCLYYNMEVDSVPGTSTLSPIDNDKLVIDESYILPMNQEVSVEEVRKNTILRKDIKKDSIGISLLLQDSVFELYYDIIFDGCSICSCNSNIMSDDYGMYLRPPVNRNSNVVNKSEWHGFYLNGDKLKCNCGFSALRNKLFSYNSGLFKEDAEEGSGLVAFYKQHTNEYHKMFLQPTEAELSFIDLIRIQSLNRDIGAHISLYQNMLTKCPVPGTNAISNKYLDKCSNYMFSHVDINEKEHTIYNSFKANIDDNEESHISIPKRNSKLVDYPSFLHPWSIQFLNNGKETSDQDNLIILDNVSNFFKNIFNTQSFDNNKKKSYKTLTWSELVKNAYKHIKNNDECPFAPEPIPSIVVATEGDVIGGAPQIICNWEKLFLSPINLPKDVLYFVVSPDNDFIVERTKEYFSEVSVMYETLKLGRHIKMSKGNVIDGIFRVPIVEMNNAGDKYYQMLDNIISDKEYLEKIKSYTTFIENQVCQFFSNNGIIFDRKAYWECVKRGMNVLLPNTSHEYYDDSYLEMDQSKSDMLLKDEDMGNMPHIIVLYIINPFNFGTDIKESEQSKYSLISIMRAFNTSLAKIELTKRIRIQLEIINIQTILDYFGCISDKRRDERWYKGGEIFTRNKSYKFTAYEQMKSLSFAIYTHSRVYNSEDIKYSLSKSVTKFGHSSEVIEQIKRKAGNGDTIYKLSCNLYRLASPKKNPITPNNDVEEVVMFVSYCLIEDKWLGVTVTDNLGVLLDNCLINLQVPNKENKIVKFKKGHRILDAISRLWIYIMGMLSSDTRNWRLVIGRFGRVGHLEFKAWMHILSKSNIKRYNSKIKESCSFCSESLNSHSCPVIISACFVSMEAENNLKVFHNAVSKEKVVAATNPNVKVAKQKIIHSPDDVSVTHILVFPTTVDLSPDIGQGKDDQKDDFDTLELDDGNEDIMDLITDDLINDDEKDRSKLKNEMENDFFDIDSPDIYASNQPMAIGYYISTAPTGKLPNWFWSQSPKSRDNCPVHLRNSLHIVTSNILHTDEQMLNFKNTDLTHPLDSTATDDVLRYVLKTYNALSWLNVDCVTSERRSCLPIHIQALARLCDAVETFMF
Length2976
PositionMiddle
OrganismParastrongyloides trichosuri (Possum-specific nematode worm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Tylenchina> Panagrolaimomorpha> Strongyloidoidea> Strongyloididae> Parastrongyloides.
Aromaticity0.10
Grand average of hydropathy-0.613
Instability index48.56
Isoelectric point5.17
Molecular weight344732.09
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
membrane	GO:0016020	IEA:InterPro

GO - Biological Function
GTP binding	GO:0005525	IEA:UniProtKB-KW
GTPase activity	GO:0003924	IEA:InterPro
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
Rap protein signal transduction	GO:0032486	IEA:InterPro
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP05240
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|    1098.46|     339|     378|     516|     892|       1
---------------------------------------------------------------------------
  530-  892 (533.84/371.93)	IIN......TDE..DNSVVPILNlvEPKASKEWKFSNCCSTIDcgCKMCQNIQR.MFLRSISHSTDIQND.D.KKVVS.KPIIDQAYSKRMTYKGKI.QKYKCFKPRNCKFNFDASKIPESSV..TCKE.SFPKFLPSIRTKI..KYNNKNKAISTKISSkkvpkkpyHLSNIVSKvYNNKSISKRKSliENTKERYL.FPKEDTLMARDVTF....YDD...SVQRKPNGM.LNSFISCLRDI..KDGKEVTFDCKLYDNYETVRRNNL..FGDKLNFE..KCMSDVPEYF.....DMNKILYVVEKKEEGTIIRDAkqmfLETYYDEYLVNSENEKFLKNSDINTVNSTFKIE..DT...DMLLNESSDCGEFdvndIRFRIDPeLAIQKDTEE....................EIKMLF...NNLD
  905- 1215 (373.53/203.96)	IFNycgifkKEEvpNNKIIEIEE..EKKLDEEVDVEELFNNID..NMFCNNESRsKFIVDLGEHNDFFSDaDySKIIKiKPVENGIDLKKTSY.......CKQFK.KQLGYKEDIYNLPESFIrrNCQDsSFIQILKRIIENMnsKYNRRH.TISDPIVE........DFSQILYP.SSETSINKRKV.......KYTnMISNDTYESEEIPYkvrkNED...KIQYIPCSV.GYSRYLEENDIwsEDIFGSSHNSSLEENQST....NMevHDDTDNYEidTFSSEIFKFFgvsdnDYNSSSTGVCQKEESDEI.......LRARFKDYNVNKDE......SNLGSGLSSEKVE..G....DEYFN..............................................................
 1258- 1411 (86.35/34.55)	..............................................................................................................................................................................................................................................SDEEDI.sNDHYNVSFNESEFNS..SI.GNVS..YGDYSNCE..TYESSNNEYF...seSEDSFDYMLSDKTEAKIIEEV.................DEKLYES..ISTTDSSQEVEvyDSygkDKL..KSEQCEKY....FRSRIFP.VVLCREVNNgwtgmnlitksllpryskatSIQSLFasaRSQE
 1626- 1745 (104.74/45.87)	..........................................................................RLVS.KPVYIKMRNKRMSTLNLIpQKRFWYKGYNTKIT.DLEPL............................YNEVNSTMNPPHSE........DF...V................EESEE......EEDSYELNSGTS....CDEessAIEQASNNVsMES..SCSNN.............SETDSYQSCKERNT..YTPSSN.......................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|    1158.38|     375|     482|    1843|    2323|       2
---------------------------------------------------------------------------
 1843- 2251 (587.75/436.97)	PKVEQAYNTQSFVNC..NI..NENYFDSQKDLLTVSENS..PNIDESSII.DNNIEYNCLYYNMEVdSVPGTStlspidndKLVIDESYiLPMNQEvsveevRKNTILRKDIKKDSIGISLLLQDSVFELYYDIIFDGCSICSCNSNIMSDDYGM...YLRPPVNRNSNVVN.KSEWHGFYLNGDKLKCNCGFSAlrNKLFSYNSGlFKEDAEEGSGLVAF.YKQHTNEYH....KMFLQPTEAELSFIDLIrIQSLNRDIGAHISLYQ..NMLTKCPVPGTNAIS.NKYLDKCsnYMF.SHVDINEKEH..TIYNSFKAnIDDNEESHISIPKRNSKLVDYPS...FLHPWS.IQFLNNGKETSDQDNLIIldnVSNFFKNIFNTQsFdnnkKKSYKTLTWSElVKNAYKHIKnnDECPFAPEPI.....PSIV....VATEG
 2329- 2738 (570.63/445.95)	PIVEMNNAGDKYYQMldNIisDKEYLEKIKSYTTFIENQvcQFFSNNGIIfDRKAYWECVKRGMNV.LLPNTS........HEYYDDSY.LEMDQS......KSDMLLKDEDMGNMPHIIVLYIINPFNFGTDIKESEQSKYSLISIMRAFNTSLakiELTKRIRIQLEIINiQTILDYFGCISDKRRDERWYKG..GEIFTRNKS.YKFTAYEQMKSLSFaIYTHSRVYNsediKYSLSKSVTKFGHSSEV.IEQIKRKAGNGDTIYKlsCNLYRLASPKKNPITpNNDVEEV..VMFvSYCLIEDKWLgvTVTDNLGV.LLDNCLINLQVPNKENKIVKFKKghrILDAISrLWIYIMGMLSSDTRNWRL...VIGRFGRVGHLE.F....KAWMHILSKSN.IKRYNSKIK..ESCSFCSESLnshscPVIIsacfVSMEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.52|      21|      62|    1759|    1779|       3
---------------------------------------------------------------------------
 1759- 1779 (39.43/24.09)	LEDNTYQNM..EYKNY..NYQEDYN
 1795- 1816 (32.67/18.24)	NSDNNHDN...NVQNYmqNPNQYYN
 1820- 1842 (30.42/16.29)	LYNSSFNNLpsQVPEV..NYQMSYE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.01|      51|      64|      48|     102|       4
---------------------------------------------------------------------------
   48-  102 (79.69/70.89)	GQQCMLEILDTAGTEQftaMRDLyMKNGHGFVLVYSITAQSTFND.LVDLREQILR
  115-  166 (85.32/60.96)	GNKCDLEDERVVGKEQ...GHNL.ARNFNCSFLETSSKAKVNVNEvFYDLIRQINR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     144.88|      43|      54|     362|     407|       5
---------------------------------------------------------------------------
  362-  407 (74.65/48.79)	EEIGTIAEEQYN..DWRGFYPlpvYDSEDIKYKGV....TEILPRMTLVEID
  416-  464 (70.23/38.69)	ECIGIILDEELSdgDRRCFYE...SDSTNINNMNVekvsTENYCRHRVEDID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.33|      14|      67|    1514|    1529|      10
---------------------------------------------------------------------------
 1505- 1521 (13.49/10.65)	TSMNpyIYnYKNPKFID
 1566- 1579 (18.84/ 7.13)	KKSK..KI.FKNGRSYE
---------------------------------------------------------------------------




































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 MDP05240 with Med13 domain of Kingdom Metazoa
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