<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 MDP02238

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSGMNAMNANDNRDTIPRETVDKLWKEWLQFFALPNTEKSKDEIMMENVGYMEANDKEQVVSSNDMPKMVLVDVDGVRMWYPSSLIVIQASDDLLLRSEEGQSSEEELENITTSIRVASPSGASGMRAPTPILLRKRQRKHRETELDGPNGERRNMMYSTMVNGARAAQRFFEEACILPSNARRRESMESPAPSGLGLLISGGSTDDDTRWNLTDGMRRKEREYEHCSCRQCQSISSCRAQANSMASTSGMSSQGATPQHGTPQSTRVPTPCGSGLFNSGGDETRPGTPKEAFVLFHRRSPSCARSPSPPRSPVWEKRLASLNTEMIDSERSTPDWIHESITHGSSLGSSRPRSPVTGLLPANSGGTLSRFLSNGCLSTQCFSPLSAPSESGRAHEDSISKKLIKLEAGDPLSTRMVSEEQKPPPKDREFLKPRRRKERLSNRKLKWSCIDTLDVSYVAREIGEDDRSGDFQIEDLRNELKANNPLEAGESETVEATVVAGTSGAQSSGVSGEGTTAVQQQAHMLGNPAAPCTTLPMYSQALPVPSTSSGITMPVASSGLGSGVYGIDSDAQSAFLDDCSPSTVAMMDTSSPVEPVTDSVHLSPPASNERVEPQTICSSLGGAVTNNLLARVGGPPSVGDYMIYPTPPSVDATQSQPFSPQNILVQSNGASTMYPPNAAPFMMQPFATAAANLCHTLPPQLLPATVVQDMECSENLITVKKEVDDEEERIEKKPQEKLERLLSEKPVYGNVKKVEIALSGKFAGDIFKGEPLPLEVKNNRMPQAVYADQVKLVKAALAAREKRKRVGRPPDYFVLRERMAQVVQNNLTPRLSHYRLNYNISQMCSSNNLPSIQATTSMAAPMCAGQPPAGAVSGANGFMGAGPGPTGLVNSGSGSNIMGMVMSGASTGMVHGGAGPMHSLIGGPPPSMGMQQMNAQMNMAPMRTPARPQSLSYAPTPGGPGQHHGGGGFMGQPQYGGPPTMMATPGQMGQMHAGGPMGPSPMGGPHAPQGLGLMQPGQTPPMMVGGPNAGGGATVMHHAQLQSQQQPFQQLSQFVNNTNFSGQQMQTAINPQQQMFQQQMLYRGGMAGNLTPQQSINSSPGGYMIDSQASTPIEPPPPFSQAISGGQYSNSASGSATPSMYAQSPQMMRSGGLMSQANAQGGGMMLGPRTPQSTMLNSPMNNQIYPTRPLGMQAMMEISSTTTIRVHPEGKSLVLAVLLQDTVLDLHYDSVFDACPICSCNGNIRAKELGVYITPPEVLRQPPAQQQMIVSKPTSGFYNNTSNPCNCGFSAVRHRYLSMKAGLFPEDAKEATDISENQTQPVIPHTIWFDSMSGRDMNFIALLREQSLVRDLGGIVQQVTMLSMQCERASQFERIGSDSSEPTEYLISEVDQRELPLVFQAACELACMEMNCRRPPHDNRSVVMHDWGVQIANEMREPREAECLAVLHEVGPVLEETLRIARSAPLVGSNNIVEGPLTWRFFDRKSLKTGSGMEDDSGPEPVPNILVASERDLITASPQILRMWEKMTLEPYDQPKDVLYIAVVPDNLVCIEKSKKYFDDLSRIYEQCRFGRHIPFAREPFKDGILRVPARFPSTNPGECDNFLNQVERHMGDNKPLIARLKAYMQCFENEVSRVLLNSDCIFNRDTYRTLIVEHQAQSGLSSSHNACFQLGGAPSGSGSSDQMPPPAAPGSVSSSAQLVDTPQGPNSVGPGSVGGPTSTGVIGEPLTPDNVTGPEANVQVGTTSASLITEQIVEGMIPDDEPGTLPQVVVLYLVNPFLLGAEENPLVARVVTVALMRAFNALLYRLNVRRRPQLQLEIVGLQSIFDYTAACADFLKDDRGRLNAFDQGRMEKALNERLSSTDSLKTVALSVYSQSRIVLADVVRGILPKSMTRFGPASAMGDLLNDLDKKEPTFYKVPCKPFILAPPPPVMQRSSGEIMQFNTDETVLFVSYCLIGNDWLAATVTDHQGHLLDNCLINLRLKPDHKRVNMRYKQSTQIRDSLYRLWSYILGTLATGTKNWRLVIGRVGRIGHGEFKFWTQLLSKSYLKQVGSRMKHACRSCHMMPGTAETPGVLSACLVSLEPEAHVRIFPSSLQHDERFAKNARYRTLTTPDDCSCTHILVFPTSPELNLDHQGGSGAAELEEDDFSNLLTEEIGEEFSDLIGNGEDLISNASGPPPPSASFRVGGNTGIPSDYADVSIENQPLATGYYVSTAPASELPDWFWSACPSAKRRNPVHLKSSLHLNTPNVQQGDDISSFGAKSSETSHHQLDSQATVDVLRYVLETYNALSWLNMDFVTGERRSCLPVHIQALMRLCNTANRLIN
Length2325
PositionMiddle
OrganismToxocara canis (Canine roundworm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Spirurina> Ascaridomorpha> Ascaridoidea> Toxocaridae> Toxocara.
Aromaticity0.06
Grand average of hydropathy-0.399
Instability index57.33
Isoelectric point5.79
Molecular weight252823.51
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

>MDP02238
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             9|     378.62|      39|      39|     944|     982|       1
---------------------------------------------------------------------------
  639-  683 (39.48/10.81)	GdymiyPTPPSV......DATQSQPFS...P.Q..NilvqSNGASTM..........YPPnaAPFMM
  866-  888 (30.90/ 6.89)	......................QPPA.....GA..V....SGANGFM.....G...A.GP..GPTGL
  891-  928 (57.47/19.01)	S.....GSGSNI......MGMVMSGAS...TGM..V....HGGAGPM.....HSL.IGGP..PPS.M
  929-  982 (74.55/26.80)	T.....PARPQS......LSYAPTPGG...PGQ..H....HGGGGFM.....GQP.QYGG..PPTMM
  984- 1002 (28.97/ 6.01)	.......................TPGQ...MGQ..M....HAGGP.M.....G..........PSPM
 1004- 1036 (54.66/17.73)	G.....PHAPQG......LGLMQ.......PGQ........TPPMMV.....GGP.NAGG..GATVM
 1067- 1118 (33.35/ 8.01)	T.....AINPQQqmfqqqMLYRGGMAGnltPQQsiN....SSPGGYMidsqaSTP.IEPP..PP...
 1119- 1148 (30.04/ 6.50)	..................FSQAIS.GG...QYS..N....SASGS.......ATPsMYAQ..SPQMM
 1684- 1709 (29.21/ 6.12)	.....................MPPPAA...PGS..V....SSSAQLV.....DTP.Q..G..PNSV.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     216.38|      43|      43|     332|     374|       2
---------------------------------------------------------------------------
  256-  285 (41.14/16.72)	ATPQ.......HGTP.QSTR....VPTPC........gSGLF..NSGGDET.R....
  287-  330 (40.86/16.55)	GTPKEAF.VLFHRRSPSCARspspPRSPVwekrlaslnTEMID............SE
  332-  374 (76.62/37.86)	STPDWIHESITHGSSLGSSR....PRSPV.........TGLLPANSGGTLS.RFLSN
  378-  419 (57.76/26.62)	ST..QCFSPLSAPSESGRAH....EDSIS.........KKLIKLEAGDPLStRMVSE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     105.18|      30|     761|     526|     555|       6
---------------------------------------------------------------------------
  484-  514 (26.40/10.82)	.NPleA........GESETV....EATVV.AGTsgaqSSGVSGEG
  526-  555 (56.91/33.05)	GNP..A........APCTTLPMYSQALPV.PST....SSGITMPV
  568-  599 (21.87/ 7.51)	DSD..AqsaflddcSP.STVAMMDTSSPVePVT....DS......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.17|      32|     168|     608|     643|       7
---------------------------------------------------------------------------
  608-  643 (50.63/39.91)	NERVePQTICSSLGGAVTNNLLA.....RVGGPPsvgDYMI
  778-  814 (52.54/33.43)	NNRM.PQAVYADQVKLVKAALAArekrkRVGRPP...DYFV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.38|      25|      45|    1350|    1374|       8
---------------------------------------------------------------------------
 1350- 1374 (43.71/30.88)	RDLGGIVQ...QVTMLSMQCERASQFER
 1393- 1420 (42.67/29.92)	RELPLVFQaacELACMEMNCRRPPHDNR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     129.53|      28|      49|     163|     190|       9
---------------------------------------------------------------------------
  125-  159 (37.91/21.88)	.GMRAPtpillrkrQRKHRETELDGPNGERRNMMYS
  163-  190 (49.42/31.14)	NGARAA........QRFFEEACILPSNARRRESMES
  215-  237 (42.20/25.33)	DGMRRK........EREYEH.C....SCRQCQSISS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.23|      22|     894|     699|     732|      10
---------------------------------------------------------------------------
  699-  731 (25.29/38.47)	PQllpatvvqdmECSENLITvKKEVDDEEERIE
  734-  755 (36.94/17.95)	PQ..........EKLERLLS.EKPVYGNVKKVE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.53|      11|      45|       1|      11|      12
---------------------------------------------------------------------------
    1-   11 (21.31/12.47)	MSGMNAMNAND
   46-   56 (21.22/12.39)	MENVGYMEAND
---------------------------------------------------------------------------




































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 MDP02238 with Med13 domain of Kingdom Metazoa
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