<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 MDP05104

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMKNRKGIQFIKGICFVFFLQTELNGLKWKCLTTPLSQRTWTSLEQDPVLSAYARCLQAGILCAWRRQPPQPTGTLAAMQLPDYRIDVVKELWVFWYSHEEPDCLTEYTSHLACSEDGQGNWSVPGIQYETRTLFFKALHNLIERNMLKNGYIRIGKYFTRPYEVPSSDRIHCSPSYVNGISFNFFVHGENIVCATVSVQRQPTLFRLSRRHLDLGKKQPVILGPWSMRAVLLPEQPRIVDSTTPSLQQQSSAPQYGNFTSLSSVAHQVNPVPSSSIDSDTISNSYDGAGTISKAAVDKLWSEWLQFFCLIVNVERNLGSADTVGYIGYTENTSPAKNSLPKMVLVDVDGVHMWYPSSLIVVQASDDLLLRQNEKTINDEDSDFFNSGSNSSSFTARTPPATGGHARLRSTPSFRKRKKRLSECDTGSNAERHNAMYGTMVNGARAAQRFFEESFIAPASSRRKESTESPSSSGLGLLMSAATNDDDCRWNFTDGMRRKDREEGCGCHHCRLQQSSSATALPSLPSQCITLQQGIIYYNHLSYPFVYFFISFLQYDTCIDQESNQSCCTPVNFSNSSLETKKEGSAIFHRRSSSCTRSPSPPRSPPWEKKILATSSETGDSEHNLDWIRESYFRNSRSSSRSGRADLLHEDRHICPKTPDASTIMESPERRRVQRNSVQMFGKIGSCKPIYQNLSPTSRPRSPACDTSQAESLGRMQSKDCLSNDFASSAGKHTPTITDQQPNLINSLRLKKGKKLKGRKRKADEKLEWSGIESLDVSFLTAKVGEDNEDDDNINFTCPSNFKLRECKSVINGEVVESSNAVPHTRSSLNVSTSQSQDVLRSLPVFSQIGSAMPSNAGVNLTPSIFTSDCDTQPLFLDDCNPSAITMVERKSPVDTVVTDSVHLSPPASNERVEPTQILGGTVANVMARVGGPPSVGDYMIYPTPPSVDATQSQQFSPQNTLIQANPTSILYPPTVSYMAAAAAAAVNLCHNIPPVQLPPTVVSETDATTEATPTIKRELENDDERHLGKLHYSIGEKPVYGKFMQLEMALSRKFAGNILAKEFLSLEAKECRMLEGVYADQLKLIKAAVAAREKRKKVGRAPDYLFMRERLRNLAPHSSFTTVRHYRIPYNNGHMFSSHCLPTLQMLPHGMSMNGVPNFVTNGPPFGAASYNGNNSVMSMMMSSGCLPPGGTTIMQPVPSSSRMGVVHMNQQMSMAHLRPLARIPSMPPYASSQTGPLQHPPFMGQSAQFCSPPGVMNAPNPISSFPGGPMCSMSTGPVQSSHMLSGMHGTTPSQPLGANNMHAAGPPNGQFSMQQPQQPFQQLSHFVNNANFNGQVGMTAVNPSQQSIYQQQIMFRCNMNGNLPAQHPIHSSDSYGIDSQGQAPVEPPPPFSQSINQQYAAVHNVQGGSMIYPQSAHMMRQNTLMSQAQNQNMMCGPRTSQNPMMTVPSSIGSPNNGGLFGNRLMNMPHVMDTAAVPPNNIRTHPEGKSLVLAVLLQDTVLDLHYDSVFDACPICSCNGSIRAKELGVYITPPEVLRQPPAQQQLIVSKPTSGFYNSTSNSCNCGFSAVRHRYLSMKAGLFAEDAKEATDINETQSQPAIPHTIWFDSMSGRDMNFIALLREQTLVRDLGGLLDQVTLLSLQCERASQTERIGSDSSKHCEYIISEVDQRELPLVFQAACEVACMEMNCRRPPHDVRSVLLHDWGVQISNEMREPRESECMALLQEIGPILEESLRIARSSPLFGSNNIVEGPLTWRFFDRKALKAAGGTEDDSGPEAVPNIVVASEKDAVITSPQIIRLWEKMSLEPYDQPKDVLYIGVVPDNLICIEKTKKYLMDLSRMYEQCRFGRHIPFSREVLRDGLLRVPTRYPATNPGECDNFLNQVERHIGDNKSLITRLKVYMQYFENEMARILINNDDIFSRDKYRAALAESQIHSVQHISIAAYQCGVSSSDHMPPPSAPGSIIISGQSGDASHGPNSTSGPSSSGVTIGESLTPDGSIGDGSAQNMTNFSSFMTEQLVADGIIAEDEPGTLPHVIVIYLVNPFLLGAEENPLVARVVTVALMRAFNALLYRLNNKRRPQLQLEMIALQNIFDYCGASADFLKDERGRLNGYDQGRLEKSQNERLSSSDSLKTIAFSVYTHSRVVLPDIVRGILPKSMTRFGPASAMVDLLNELERKEPIYYKVPSKPFILAPPSPVMQRPNCDLMQINTDEAVLFVSYCLIGNDWLAATVTDHQGHSLDNCLINLRLKPDHKRVNMRYKQSTQIRDSLYRLWSYILGTLANGTRNWRLVIGRVGRIGHGEFKFWTQILSKSYLKQVGTRMKHVCRACHVMPGTSEVPGVLSACLVSLEPEAHLRVFPSSFQHDDRFLKNSRHRALTTPDDTSCTHILVFPTSPELNLDHQGGNGVAELEEDDFSNLLTEEIGEEFSELIGNGEDLMTNGTGPPPQSASFRLGGNTGIPSEYADVSIENQPLATGYYISTAPASDLPEWFWSACPSAKRRNPVHLKSSLHLNTPNVQQGDDISSFGKGTEACHHQLDSQATADVLRYVLEMYNALSWLNMDLVSGERRSCLPIHIQALMWLCNAVNRFIN
Length2592
PositionMiddle
OrganismBrugia pahangi (Filarial nematode worm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Spirurina> Spiruromorpha> Filarioidea> Onchocercidae> Brugia.
Aromaticity0.07
Grand average of hydropathy-0.384
Instability index57.45
Isoelectric point6.61
Molecular weight287109.01
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

>MDP05104
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.49|      17|      50|    1543|    1560|       1
---------------------------------------------------------------------------
  958-  974 (32.11/18.41)	QNTLIQANPTSILYPPT
 1543- 1559 (31.38/23.80)	QQQLIVSKPTSGFYNST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     137.76|      35|      39|    1220|    1254|       2
---------------------------------------------------------------------------
 1220- 1252 (57.37/24.96)	.........................PLARIPSMPPYA..SSQTG.....PLQHPPFM.GQSAQFCS
 1253- 1294 (47.66/19.40)	PP................gvmnapnPISSFPG.GPMC..SMSTG.....PVQSSHMLsGMHGTTPS
 1295- 1359 (32.73/10.85)	QPlgannmhaagppngqfsmqqpqqPFQQLSHFVNNAnfNGQVGmtavnPSQQSIYQ.QQIMFRCN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     376.11|     119|     169|       9|     146|       3
---------------------------------------------------------------------------
    9-  146 (193.64/161.16)	FIKGICFVFFLQTElNGLkwkCLTTP.........LSQRTWTSLEQDPVlsayarclqagILCAWRRQ....PPQP...TGTLAAMQ....LPDYriDVVKEL.WVFWYSHEEPDCLTEyTSHLACSEDGQGNWSVPGIQ..YETRTLFFKALHNlIERNM
  176-  317 (182.46/109.50)	YVNGISFNFFVHGE.NIV...CATVSvqrqptlfrLSRRHLDLGKKQPV...........ILGPWSMRavllPEQPrivDSTTPSLQqqssAPQY..GNFTSLsSVAHQVNPVPSSSID.SDTISNSYDGAGTISKAAVDklWSEWLQFFCLIVN.VERNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     370.84|     123|     534|     810|     947|       4
---------------------------------------------------------------------------
  649-  787 (174.48/118.90)	EDRHICPKTPdASTIMESPERRRVQRnSVQMFGKIGSCKPIYQ..NLSPTsrPRSPACDTsQAESLgrmqsKDClsNDFA.SSAGKHTP...TITDQ...QPNLINSlRLKKGKKLKGrkRKADEKLEWSGIESLDvSFLTAKVGEDN
  816-  947 (196.36/158.97)	ESSNAVPHTR.SSLNVSTSQSQDVLR.SLPVFSQIGSAMPSNAgvNLTPS..IFTSDCDT.QPLFL.....DDC..NPSAiTMVERKSPvdtVVTDSvhlSPPASNE.RVEPTQILGG..TVANVMARVGGPPSVG.DYMIYPTPPSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     131.57|      29|    1389|     594|     622|       5
---------------------------------------------------------------------------
  594-  622 (53.57/27.73)	CTRSPSPPRSPPWEKKILATSSETGDSEH
 1948- 1976 (51.06/26.03)	CGVSSSDHMPPPSAPGSIIISGQSGDASH
 1981- 2003 (26.93/ 9.61)	.TSGPSSSGVTIGES..LTPDGSIGD...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.37|      18|    1389|    1018|    1037|       6
---------------------------------------------------------------------------
 1018- 1037 (28.77/24.68)	ELENDDERHLgkLHYSIGEK
 2410- 2427 (31.59/19.66)	ELEEDDFSNL..LTEEIGEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.82|      39|     166|    1393|    1440|       7
---------------------------------------------------------------------------
 1380- 1426 (54.83/51.96)	SQGQAP.VEPPPPFSQsiNQQYAAVHNVqgGSmiyPQSAHMMrQNTLM
 1427- 1466 (69.98/42.92)	SQAQNQnMMCGPRTSQ..NPMMTVPSSI..GS...PNNGGLF.GNRLM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.04|      15|     534|    1062|    1170|      10
---------------------------------------------------------------------------
 1135- 1154 (28.41/115.04)	MFSSHCLPtlqmlPHGMS.MN
 1181- 1196 (28.63/30.34)	MMSSGCLP.....PGGTTiMQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.05|      29|     813|    1103|    1131|      17
---------------------------------------------------------------------------
 1103- 1131 (53.73/37.03)	DYLFMRERLRNLAPHSSFTTVRHYRI.PYN
 1918- 1947 (45.32/29.95)	DDIFSRDKYRAALAESQIHSVQHISIaAYQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.55|      23|    1645|     535|     557|      20
---------------------------------------------------------------------------
  535-  557 (46.83/36.38)	IYYNHLSYPFVYFFIS.FLQYDTC
 2182- 2205 (41.72/31.29)	IYYKVPSKPFILAPPSpVMQRPNC
---------------------------------------------------------------------------




































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 MDP05104 with Med13 domain of Kingdom Metazoa
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