<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 MDP05336

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAYFSPSSTNGASLEDCHTNVFVLTELNGLKWCRWCSSNSSMIFNDVADDPVLCAYGRCVTQGYLCVWRRSPPVHTSNKIDLRLAAEKELWVFWYGDEPDWGLLCTSLTKIEESSWEKGVEYETRTMLFKALHNQIDRILLNSGYLRFGKWYVHPLEYPRIKAKLARSKYIIAFSFAFFVHGENNVCVTVTAQRHVPVYRLCHRVFENSPKQSVILAPWSISAEVNIDPECSSSELDSQAQECLQEWSKFYALSDGISQRGGADILDREADAKSGIAGLPRVVDVVVRGVKLKYPTRFVGLLVDEVGTADEATHNGLRTSGDLEEEAKEEAPLHSANLRYLICEKVMEGLVANQRCSTEPSQSSLPTKELPRDNDSDGCTQSAAGSSPDESVGAWEFLDISQNDPCRCRDKVGIFCHLKCFPKKGQSKGRGALGKHGVFHRRRESFNPPLTSEPPDEDASDGSYFNCSVGTASDGDTFRAQCRTAFADAAPSSCSAPSPAAMCNEFDAVGASSSHSKVDRISYSNNNDPSAHQQAQLYSRVEHVEGNLVAPRFSGAEMAKINCRVLARSQHYIRHEAEKRTQTDEEDTEEEREEREEEVGGTETPLDVVSDEFYRQLSSCHWYESSSASVPLERTQKKIKLAVHLSDVASGCIDPRPFCADRGDLLVTFDKDGQACPADEPHPSAQSSSSVAKLTFQEAQNNEDGNLSGLKKESVTTGHLGISDFDPCALMSYGDPILGTNCSDNEDDPLNAFLSPPPSHSQEEENALKATPKAKQQECNSLDMQVNSRGGSGGGGTQSSSKQAAGSATLDHLGVIYPTPPSQETVHQMSPEMATQGVSLQCSSGQEVDQCCKEETSSWTGRGDPLAGDSRRKGSERDALAEATIVSKFLLASSFASLDSSSLRKGLRHSSVQRMYRPSKLLPSFHGSSNVGSLLPAQPYTMSATSQGCGGSFTMASVGQPQYTSQLGSLRGGGGGSFLHSNSAVNFESTNKSIISAPASVRSFSEQSPNTLLNPPSVSSPHFVKTPRTPGADLQSPMSNASSAYARNLSSIEPVSCDFGHICEGHGLVLALLISDTFVDLHRDSIFDSCPLCVCNMNIRGLEMGFYVNPVKKNDQGCMAASSHWTNKCTCGFSAVRHRYLSYTSGVFYEDEDDATGSVWQRLPPFQCNAAEFCRDIVELVRHQSLIPDLTCSLMTFRPSLYASIRSTSADARKMSFTYNAVEVQDIADLCKQALEQSVAAVDSVGSARQEAISFPQALINKWGYSISKDVSDSLETMAVLRSLLPLLQESLQKSRGLWQAKHSVEGPLTWRQLHRKCSHGPGSNGREDLSGPEPIPELLVGCDREWISVSPFSVRLWDHLCLEPFAQPKDVVFIAVVPDSHYVVRKARNFFRELSRTYEAMRLGRHCPITRVLKDGIMRVGKTHAKQLNQKPVDSWFDRFENSADLSRTIGSKLKLYAQVCRHYLAPHIFSPIWNAFDRSVFSESAKDCQTPATGAANSDCSMLPPPAPFGCSTGTEGTNPDHIGCDGRSADPGDLFSGEGNVFPHVVVIYLVNPFNFESEEKCKDLNRLVTTGLFRCYLEILQDVPAALRGCMQLQIIPLQSLLDMSLLDEWEGTHLGEGATHRRLSSTSHLRALALSVFMQIRNIGFSCLQPCMPKVLTGFGPLAGRAELFRRKQDFQSFRLFSAPVILMPRIDRASIMSSISPGELKDDLDQVLFLTYCLSYQQQWLLSTVTDHLGSMLDSCVINMILNDRKNVVQREVIWTALRRLWDFVVGVLATSSRPWRIVIGRFGRLGHEELKAWAHLLSKSQLRSTSRLLREQCSVCQPMPSIFETPAILSACLISTELDPSLRIFPDSFVHDDRFGQNAKQCPLSTPDDVTCTHIMVFPTSALIQINQCCIMTGGLPGAEESEGDFESLWKDLMIGSDGDGLESGLNDLFGSITDTSLMNDNSVNFDSTAGHGRGLALSESSDESIQLQPLALGFLISTAPTGPVPDWFWTVRPSASKALPVHLRSALHIHTSGVQQSDDQLLPGSQDGAVTSSGM
Length2047
PositionMiddle
OrganismTrichuris muris (Mouse whipworm)
KingdomMetazoa
Lineage
Aromaticity0.08
Grand average of hydropathy-0.319
Instability index52.20
Isoelectric point5.57
Molecular weight224775.35
Publications









Function






Annotated function


GO - Cellular Component
GO - Biological Function
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP05336
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     600.60|     166|     179|    1125|    1303|       1
---------------------------------------------------------------------------
  375-  435 (42.06/13.07)	...........................................................................................................................................................DSDG..CTQSAAGSSPDE....SVGAW......EFlDISQnDPCR..CRDKVG.IFCHLK.CFPKKGQSKGRGA.LGK
 1124- 1302 (257.36/165.69)	H.......WtnkctcgFSAVR..HRYLSYTSGVFYEDEDD....ATGS............VW...QRLPPFQcnAAEF.CRDIVELVRHQSLIP.....D.LTCSLMTFRP.SLYASIRSTSADARKMSFTYNAVEVQDIADLCKqALEQSVAavDSVG..SARQEAISFPQA....LINKW......GY.SISK.DVSD..SLETMA.VLRSLL.PLLQESLQKSRGLwQAK
 1303- 1468 (167.35/85.08)	HsvegpltW...........RqlHRKCSHGPG..SNGRED....LSGPepipellvgcdrEW...ISVSPFS...........VRLWDHLCLEPfaqpkD.VV..FIAVVP.DSHYVVRKARNFFRELSRTYEAMRLGRHCPITR.VLKDGIM...RVGktHAKQ....LNQK....PVDSWfdrfenSA.DLSR.TIGS..KLKLYAqVCRHYLaP................
 1471- 1593 (133.84/64.92)	................FSPI.....WNAFDRSVFSESAKDcqtpATGA............ANsdcSMLPP....PAPFgCSTGTE.....GTNP.....DhIGCDGRSADPgDLFSG................................................EGNVFPHVvviyLVNPF......NF.ESEE.KCKDlnRLVTTG.LFRCYL.EILQDVPAALRG.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.62|      19|      41|     785|     803|       2
---------------------------------------------------------------------------
  785-  803 (33.09/18.04)	QVNSRGGSGGGGTQSSSKQ
  828-  846 (34.53/19.19)	QMSPEMATQGVSLQCSSGQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     209.27|      65|     392|     470|     539|       3
---------------------------------------------------------------------------
  470-  539 (109.25/67.91)	GTASDGDTFR.AQCRTAFADAapsscSAPSPAAMCNEFDAVGASS.....SHSKVDRISYSNNNDPSAHQQAQLYS
  863-  933 (100.01/52.37)	GDPLAGDSRRkGSERDALAEA.....TIVSKFLLASSFASLDSSSlrkglRHSSVQRMYRPSKLLPSFHGSSNVGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.29|      11|      36|      56|      66|       4
---------------------------------------------------------------------------
   56-   66 (23.78/12.08)	YGRCVTQGYLC
   95-  105 (24.51/12.68)	YGDEPDWGLLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.95|      12|      35|    1056|    1068|       5
---------------------------------------------------------------------------
 1056- 1068 (21.56/16.86)	SCDFgHICEGH..GL
 1089- 1102 (21.39/10.74)	SCPL.CVCNMNirGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.59|      17|     474|     150|     166|       7
---------------------------------------------------------------------------
  150-  166 (33.78/21.23)	KWYVH.....PLEYPRIKAKLA
  621-  642 (26.81/15.32)	HWYESssasvPLERTQKKIKLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     199.91|      65|     344|    1604|    1673|      10
---------------------------------------------------------------------------
 1604- 1673 (104.57/66.74)	SLLDMSLLDEwEGTHLGEGATHRR...LSSTS....HLRALALSVFMQIRNIG.....FSCLQPCMPKVLtgfgPLAGRAEL
 1943- 2019 (95.35/48.67)	SITDTSLMND.NSVNFDSTAGHGRglaLSESSdesiQLQPLALGFLISTAPTGpvpdwFWTVRPSASKAL....PVHLRSAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.34|      17|      17|     720|     736|      11
---------------------------------------------------------------------------
  720-  736 (33.32/22.15)	LGI..SDFDPCALMSYGDP
  738-  756 (26.02/15.28)	LGTncSDNEDDPLNAFLSP
---------------------------------------------------------------------------




































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 MDP05336 with Med13 domain of Kingdom Metazoa
Unable to open file!