<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 MDP04306

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTKNHKDTFDDYSNLFHKDSIANDVTLEDCHTNVLPLADISKLKWKCFRTNNRNTTKCKEAIKADLVLKAYSLCISENYICLWRRIPSEDEENDYPKCEFTLRSAKELWVFWFDKREPRNLASYTCDLVVRDEYDADHQNQNDVVRYDIRCLLFRAIHNLIERSLFTMGQKRFGKWFVATGTKEELKQSMPQRNYSLAYGFSFFVHGDIMVCATINIQRQPLMCRLDLLDYFSKKSVPLILGPHGIRATLVIDQIEYVKKEVVYISNKYKRDVLVAKQYKEIETIAEEQYNDWRGFYPLPVYDSEDIKYRIPTVSEILPRMTLVEIDNLKMLWPTEYIGIIMDEYVCNGDRKCFYEKLVDEDQEVATIMANSKDNLETKVDNTNNRIMYDIERVDLECFCRHHNEDIDQNGRIFEETIISSEYAVLSENTIKKPLVNIPPSPVKNVEKDEKFENAMSFLMEIDNELKKEEAKQMEIDDDDDIEKFLNFDNSIKSSVPKSPDKNLIEKNNEKIENIDKKDGENKNNKNKNDGIEEEKEVNKVIVPKNVEPAIGSKWRYSNYCGKVGCICPLCFKLGKMSLVTQNKKAKKGEKYSVLQEELMMIDEGKENEPICSNNYDGKLNLSTSYERLIKQRYEAKTTIPKHPLRLSQAERKSLETKPFYGTSNFALRDCISNFQAMKFGDPKIFEEMKSLPGYNTNKGIKSKECFPKFTPLIRTKFEYFRKKKYLLAKISHKKGRKRNYHTNHTMARLCLTPPMSQRNRLINRAKKRYTFPKEDTLMARDVTFYDKTVLRNTNDMLNSFINCIYDINNTTKYDYKLQIYNNYEIIKLQFNKESNIDELVKHFEGKEGEINVDKLYKRIIDNIKNKFTIDEEGSIDLDCLDPFKWHFEGKETLEYLTFTNDSEITLNHVPEYLIMNNFLYVVVNEKLENVKSKSNSKSNKKRIFPFASDDEPLNIINFEVDENNIVVDESEYKVLKKIYDEYLVKPKEDIIPLSRKINSFDIRCEDKLPKTTFTKELVKGFYNENVISELLESDEEEQESEKEAEVEVESMETGSNFDIDEFLRDADDCNSMDDDSLLSNSNKIIRQIESKENEQNSKKLDCIVTENLSFAPKDNIIEKMLINYKTKYDPNFDQYRMLYKNFISDKSDEILNLNNVKSIKETNGINFLMSLENTNNDIDNKFTSTTYDNEILNINQSNKFTTSEEDKYPEYIEDFGEWNDFFTEIDYDKIVPENLRAKKYDLFELHTSNKSSCCNVFKQILDEEKNIYEMPDQYNKNKISIEPLHGITKKILENIEEEYQFYENYTIRKNKNIWKNVLLTRNFDSIYIPPEEHSDNRKISKILNQENTPTNINNKNKLTINEIIKCINTYRNEKACRLNKWFEKEQTDQKAKKNMLRLKYDRMFRAFEYSKRFFPVRTTDDSELVHMMFDYEKHPSMFGMHNIPQQHNFDFFTHQQSYNSMDDFHGMSNNFNIHNMPQNQSFFNDQNNFQNRHTNQFYNNQNTYQGMYNNSSHFDSFMGDDFDPMLSHNNLGSWNQMQHPNYHSKNSYQTNYHQNQSNIFGGNTNYNRNVPPAIESEEEQSYSMKENELILKSKYFKASDENNLFYHSLLDKFVGFNGLSKYNYREFVSSETSNILYQNQYYTLNYNNRIETSFNYDHHHDMNSLDIILKERKYFSKKFENQICLHKKVSHVFIDEKGSFKALQYILNNHIYHNLYSDQCYYNCNIKKYTKRHYISDPVTISEELSNSNDNAFFSSNYNHSDNFAKRRKIDVSLVNQTNLNNMEVDNIPFHLEERNNVIRKQVNAFQSGSIFKSFPCTVGYSQIDCINDTSNDIDTWTENMYNKINESELIPSANVDKQNIRHLQYKTSHYSESYNNLLIKYNNAKTIDENYFIYNYNTETLENYKTDEFIKARYSSINILFDNQNDKDKINHFNNDNFIDSNDQEYVKSNENIGKDFYSLMTEIAFRMIEKKDDDEFKNEVMHLCNVDRSLSTLSIPSISGSDDSESTSPIKYNINFAQDSFTYHSSNPMQNQSEFYEIEEIYDTNEIHSSFEDDSYDSNSDESNDSMDYNNSPKNNFEEMEIDINNEIKSTEFDTSSDGSTEELLDSESDSESEILNNTTNDDHFKIEFYEKYLKENYEPLVLCRELQNNWSGFNLIVQSIIPRYKNINDIYQLCIVAESQELFDNLRDSILRKIKKLKKDKLARVAPDYYKIMKKLKEYGYTLPYETYILYREGPVVSYSHYLLHNDIDNFIHLSNCECCECLQLPPIPKYIDLDDPTSKNPYLYNYRNPKFIKKGITVYNISSSKKRFIPPMMPHHNLKNSFNVNNKSPSNWKFMNVIRSLNDKIDRTVKNKQYYNSEHNALMLNEDRQCANSAVIIEVGETAKIKVLDNSKPPDFLRLNNEGHPVTRDAYERLVSKKEYLRMKNKRLSTLNFKAPKIYFFKGYDSRSNECDGLYNSIVSSTERPFQLPDIIMEESEEEDEHDDLYELPGIHPFTEDCPILENNADTSNTSLDSGCNNQGLNSINPLTPGNPMTPLTPQMGNPLTPSSSMMDPGSISSSGPPSNYMNPGSNSYSNPGSNSYPNPGSNSYSNPASNTYPNPGSNNSVLQSIISQPNSQVNQQHFIPGSMSSPSSFHAGSQMPQSMMPSPIMNSENQFMANPGNYHYNRQMNQNCYNPMRENYNAGMFQNINNQNVFLGNDKHNVNYPNDGTNALYEHNQYNSNMNQIPNTETMNNIRSDINPNVNPMMNSHYNNQMQQFGSSNNISDRNIQQQQHPLEMINHQTGGNMNQGFINSGPHHMMGGNQHGNFNNQMHDNQFYNKIPNLNYENNGSNYINNRNPYGDENNPNEIPYDSSSYNNNNMGGQMNVNQSNEMYNSTKNVSFNQSPGNNYSMNCDNNARMYNNDDHDGSNTDGMYDDMHQQNIRNNQHNINNSPMPLLHNESNITIEPTIIDSNTEYNCLYYQMEPESIPPASSLLPVETEKLAIDSNHILPMEINSKIEISKKNIIARSEIKKDSVGISLLLHDSVFELYYDIIFDGCPICSCNSNIMSDDYGMYLRPPAILNKKGVQKSEWSGFYLAGEKNICKCGFSALRHKLFSYNSGLFKEDAEEGSGLGAIYEQHQTRYYTLYNNLTEYDLSFINLLRIQSLNREMGAQIYSIQSMLTKCLPPLTNAISNKYLNKCSNYMFSQVDINEKEHAIYNSLKASIEDDNESHLCMPNRNRKLIDYPSFLHPWSIQFPNNAKDASDADCYIILNNVSNFFKTLVLSTQCFGQEKREVFKTYTWSELVKSAIKSTKIPDEYSYAPEPIPAVILAAEKDLISSAPQIVCSWEKLALSPIDQPKDVLYFVITPDNDFIIEKTKLYFHELSKIYENYKLGRHIKLSKDIVEDGIFKVPIMAPDNCKIETESEKDYYNLFDEIISDKDYLDKMKSYAAFIEKQVYQFFEFNDILFDRRAFWECVKHEVSGLSNISLDTSSSNPLHNNHDYISGTELDQQRTDSPIKDEDMAEMPHIIVIYIINPFSFGLKISQPEQPKFALISLMRAFNVFLMKLNSTKRFRIQLEIVNLQSIIDYAGYLCDKKRNERWYAPDPVYTRNKNFKFTSYEQLRNLSFAVYTHSRIYNTEDVRYVLAKSVTKFGYTSTVLDHVSEDIESGDKIFKLPCNLYRLSSPKKNPIQVNGKSLKRHIEDTVLFVSYCLVEDKWLVVTVSDHLGYLLDNCLINLQVNHKDNEIVKYKKGNRILDAISRLWVYIMGVLASETRNWRIVIGRFGRVGHTELKAWMHILSKTNIKRYNTKIKEACNLCAESLNSQSCPIIVSACFVSMEAENNLRLFNNAVAKFKVMAAASSNIRSSKQKVIHSPDDVSVTHILVFPTTVDLSIDLAQGKDGQEKDDFESLVLDEGNDEIMEFINNGFINDDDGDELKTAEPDKNTEENFFNIDSSDVEASNQPMAIGYYISTAPTGKLPNWFWSQCPKAKDRCPVHLRNSLHIVTSNILQSDELMLNFKNTESTHPLDSTATDDVLRYVLKTYNALSWLNVDCVTSERRSCLPIHIQALARLCNAVETFMF
Length4072
PositionMiddle
OrganismStrongyloides stercoralis (Threadworm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Tylenchina> Panagrolaimomorpha> Strongyloidoidea> Strongyloididae> Strongyloides.
Aromaticity0.11
Grand average of hydropathy-0.740
Instability index48.39
Isoelectric point5.40
Molecular weight474455.25
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

>MDP04306
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     309.46|      45|      74|    1450|    1494|       1
---------------------------------------------------------------------------
 1450- 1492 (72.92/29.99)	....................NFD.FFTH....QQ..SYNSMD..DFH.........GMSNNFNIHNMPQNQS.F...FNDQNNFQ
 1523- 1568 (38.21/11.80)	....................DFDpMLSH....NNlgSWNQMQhpNYH.........S.KNSYQT.NYHQNQSnI...FGGNTNY.
 1569- 1625 (36.32/10.82)	NRnvppaieseeeqsysmkeN.E.LILK....SK..YFKASD..E..............NNLFYHSLLDKFV.G...FNGLSKYN
 1626- 1684 (28.40/ 6.67)	YR....efvssetsnilyqnQYY.TLNYnnriET..SFN.YD..HHH.........DM.NSLDI.ILKERKY.FskkFENQ....
 2782- 2815 (53.68/19.91)	.....................LE.MINH....QT..GGN.MN....Q.........GFINSGPHHMMGGNQ.........HGNFN
 2841- 2874 (50.67/18.34)	N.........................NR....NP..YGDENN..P..............NEIPYDSSSYNNN.N...MGGQMNVN
 2909- 2937 (29.25/ 7.11)	N..............................................ddhdgsntdGMY....DDMHQQN...I...RNNQHNIN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.92|      15|      15|    2577|    2591|       2
---------------------------------------------------------------------------
 2577- 2591 (35.26/14.71)	NSYSNPGSNSYPNPG
 2593- 2607 (32.66/13.06)	NSYSNPASNTYPNPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     436.85|     148|     350|    2971|    3137|       3
---------------------------------------------------------------------------
 2971- 3137 (229.14/167.96)	EPESIPPASSLLpVETEKLA...IDS.NHILPMEINSKIE.ISKKNIIARSEIKKDSVGISLLLHdsvFELYYDIIFDG...CPIC...SCNSNIMSD.DYgMYLRPPAILNKKGVQK.SEWSGFylagEKNIckcgfsalrHKLFSYNSGLFKEDA......EEGSGLGAIyEQHQTRYYTLYNN
 3322- 3489 (207.71/113.86)	EKDLISSAPQIV.CSWEKLAlspIDQpKDVLYFVITPDNDfIIEKTKLYFHELSKIYENYKLGRH...IKLSKDIVEDGifkVPIMapdNCKIETESEkDY.YNLFDEIISDKDYLDKmKSYAAF...iEKQV.........YQFFEFNDILFDRRAfwecvkHEVSGLSNI.SLDTSSSNPLHNN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      65.22|      11|      15|    2531|    2541|       4
---------------------------------------------------------------------------
 2531- 2541 (25.08/13.76)	NPLTPGNPM.TP
 2548- 2559 (19.14/ 8.31)	NPLTPSSSMmDP
 2566- 2574 (21.00/10.01)	GP..PSNYM.NP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     121.41|      30|      38|    1858|    1895|       5
---------------------------------------------------------------------------
 1858- 1887 (50.66/21.95)	VDKQNIRHLQ.YKTSHY.SESYNNLLIKYNNA
 1896- 1927 (38.22/29.33)	IYNYNTETLEnYKTDEFiKARYSSINILFDNQ
 1929- 1954 (32.54/11.72)	.DKDKINH...FNNDNF.IDSNDQEYVKSNE.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     682.04|     195|     350|     729|    1072|       6
---------------------------------------------------------------------------
  266-  393 (133.94/31.57)	....................................................................................ISNKYKRdVLVAKQYKEIETIAEEQYNDWRGF......YPLPV........................................YDsediKYRIPTVS..EILP...RMTL....VEIDNLKMLWPTEYigiiMDEYVcngdrKCFY.EKL..VDEDQEVATIMANSKDNL.ETKVDNTNNRIMYDIE...........
  855- 1072 (292.95/294.88)	DKLYKRIIDNI..KNKFTIDEEGSIDlDCLDPF.KWhfegketleyltftND..SEITLNH.VPEYL.................IMNNFLY.VVVNEKLENVKSKSNSKSNKKRIFpfasDDEPLNIINFEVDENnivVDEsEYK.................VLKKIYD....EYLVKPKE..DIIPLSRKINS....FDIRCEDKLPKTTF....TKELV.....KGFYNENV..ISELLESDEEEQESEKEA.EVEVESMETGSNFDIDEF.LRDADDCN
 1186- 1425 (255.15/95.94)	STTYDNEILNInqSNKFTTSEEDKYP.EYIEDFgEW..............NDffTEIDYDKiVPENLrakkydlfelhtsnkssCCNVFKQ.ILDEEK..NIYEMPD.QYNKNKI.....SIEPLHGITKKILEN...IEE.EYQfyenytirknkniwknvLLTRNFD....SIYIPPEEhsDNRKISKILNQentpTNINNKNKLTINEI....IK.CI.....NTYRNEKAcrLNKWFEKEQTDQKAKKNMlRLKYDRMFRAFEYSKRFFpVRTTDDSE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     160.77|      41|      42|    2039|    2080|       7
---------------------------------------------------------------------------
 1710- 1729 (25.03/ 6.37)	......................NNHIYHN..........LYS..D.QCYYNCNIK
 1744- 1766 (31.59/10.08)	SEELSNSND....NAFFS.SNYNHS..DN..........F...............
 2053- 2093 (72.37/34.86)	SSFEDDSYDSNSDESNDS.MDYNNSPKNN..........FEE..M.EIDINNEIK
 2094- 2143 (31.78/13.87)	STEFDTSSDGSTEELLDSeSDSESEILNNttnddhfkieFYEkyLkENYE.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     175.06|      48|     350|    2307|    2368|       8
---------------------------------------------------------------------------
 2250- 2297 (91.16/58.29)	HNDIDNFIHLSNCECCECLQLPPIPKYIDLDDPTSKNPYLYNYRNPKF
 2321- 2368 (83.90/36.06)	HHNLKNSFNVNNKSPSNWKFMNVIRSLNDKIDRTVKNKQYYNSEHNAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     201.45|      68|     349|      43|     118|       9
---------------------------------------------------------------------------
   43-  118 (104.95/91.55)	KLKWKCF.RTNNRNTTKCKEAIKADLVLKAYSLcISENYIC..LWRRIPS..EDEENDyPKCE....FTLRSAKELwvfwfdKRE
  394-  470 (96.49/59.40)	RVDLECFcRHHNEDIDQNGRIFEETIISSEYAV.LSENTIKkpLVNIPPSpvKNVEKD.EKFEnamsFLMEIDNEL......KKE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.36|      16|     350|    2825|    2840|      10
---------------------------------------------------------------------------
 2730- 2745 (28.21/13.89)	NQIPNTETMNNIRSDI
 2825- 2840 (30.14/15.50)	NKIPNLNYENNGSNYI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.55|      41|     313|     809|     853|      11
---------------------------------------------------------------------------
  809-  853 (63.19/46.23)	INNTTKYDYKlqiYNNYEIIKLQF..NKESNIDEL..VKHFEGKEGeIN
 1124- 1168 (61.36/33.89)	INYKTKYDPN...FDQYRMLYKNFisDKSDEILNLnnVKSIKETNG.IN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.05|      17|      17|    2665|    2681|      12
---------------------------------------------------------------------------
 2665- 2680 (31.07/14.50)	NPGNYHYNRQMNQNCY.
 2682- 2697 (22.68/ 8.11)	.PMRENYNAGMFQNINN
 2705- 2721 (23.30/ 8.59)	DKHNVNYPNDGTNALYE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.94|      15|     349|    1497|    1511|      13
---------------------------------------------------------------------------
 1497- 1511 (31.01/22.93)	NQFYNNQNTYQGMYN
 2754- 2768 (29.93/21.74)	NSHYNNQMQQFGSSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.00|      16|      17|    2618|    2634|      14
---------------------------------------------------------------------------
 2617- 2633 (25.66/17.27)	ISQPnSQVNQQHFIPGS
 2634- 2649 (30.34/15.70)	MSSP.SSFHAGSQMPQS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.44|      15|      17|    2006|    2020|      15
---------------------------------------------------------------------------
 2006- 2020 (26.54/12.83)	DDS...ESTSPIKYNINF
 2022- 2039 (20.90/ 8.25)	QDSftyHSSNPMQNQSEF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.46|      15|      17|     740|     756|      19
---------------------------------------------------------------------------
  740-  756 (25.05/21.51)	RNYHTNHTMARlcLTPP
  760-  774 (27.41/15.42)	RNRLINRAKKR..YTFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.78|      16|      18|     615|     630|      22
---------------------------------------------------------------------------
  615-  630 (26.93/17.76)	NNYDGKLNLSTSYERL
  633-  648 (27.85/18.70)	QRYEAKTTIPKHPLRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.53|      18|      18|    3220|    3237|      23
---------------------------------------------------------------------------
 3220- 3237 (33.89/21.28)	H...LCMPNRNRKLIDYPSFL
 3238- 3258 (27.64/15.59)	HpwsIQFPNNAKDASDADCYI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.55|      32|     539|     540|     578|      28
---------------------------------------------------------------------------
  540-  578 (48.70/52.07)	NKVIvpKNVEpaigSKWRYSNyCGKVGCICP..LCFK.....LGKM
 1084- 1122 (44.86/26.10)	NKII..RQIE....SKENEQN.SKKLDCIVTenLSFApkdniIEKM
---------------------------------------------------------------------------




































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 MDP04306 with Med13 domain of Kingdom Metazoa
Unable to open file!