<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 MDP30939

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTATANWVANGASLEDCHSNIFSLAELTGIKWRRYSFCSGGEYGPVISAPAQDDPVLRSFMHCVQANLLCVWRRKIKPDARELWIFWWGEEPDFSDVIHHELKVADEGLWECGLSYECRTLLFKAIHNLLERCLNDKGFVRIGKWFFKPHELEEKSLGSSEHLSCSFSFFLHGESNVCTSVEIVQHQPAYHITERHIRLAQTSSTPVQVILSPYGLSGTLTGQAFKMSDPAARKLIEEWSYFYPMVLPQKEGSGEKEQKEAGQAYDRSSHVAVDVIVGGVRMTYPAAFVLIAQGDLPVEQSPPVPAALGLNKELNNCSVPLTPPTSPEQPCSADSGFVTSASNVPTPDSGMGITTFSPKHSGKKLTCQVVHQAWRECYLNQSQNVPNQVTDASQRKEVPNAVATWNFNDLGARTTCSCSRLKQQKLNMSTTLTANIQPCSSSSLSSGPSLYPTSVPKHKTSERPEKPDKQSKRPAVIPFHHRLSVTEESPLEQGSPGGPQLGALVALESPMEPLSSLPSCKCSKSLSNERKAPESLLHSSMSPLPPTLSPHPRMQDPEVLDASVDMLACPDGPSGLGVITSETAVYTAQLRQRESGSGWWRGFRTPRTDKSEFRPPELPTEKLEQVETETSTVNNAFKRLYSRSHKRFKISEEKVEEHIHALGLFEQPGVEALRETGTGDDPYDFKEGDIEYPFPSSKRFKGSGRETKQKAKGEEITSNGSLPDGKDAMSIFNSAPKSDDLGQEDAPTKTNPSLTEAKDLAVNISDLENILDEEDVGTVYPNQHSTKLLLSTEDRLSGKEGRVSVSYPPTVADLQRMFPTPPSLEQHPAFSPITPYRDTPSQEPPVPSGVTDHLPSLAPTQLTDYMMEMEDGATSPRQDDIKPQIGSSMFAPLSCLPSQTLPPLKIPEQCYYRPSWALLPKMEHFTPIMHPQNVAFTKDGYTNTPSVNTLTDQDYVQMSVNTASVSTTTGILPSPATPRFSVPTPRTPRTPRGINTASSGQGSVKQDGTELSSPVSTPSTSLPLSSVEHLARPGPPIPEAHSLYVVLLLSDSVLSVFKDRNFDSCCICACNMNVKGADVGVYIPDSTCEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRTSEGGRAAERRLALCRRDPTMGDSRAKQSQDTGPGSPSVMVVIQEQCSQPISCLTSLHLPINSSCHGRKGALLQSWMSEKQWADASDACVDCFNAFEQGLQYVDNPTGGKVDLTVVRSSAIHSWPHTNVVDMSRLSSQDMVRMLLSMQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTVLLGYDRERDFLALSPLALPFWEKLLLEPYGGQRDVAYVVVCPSSTSLLAASQAFFQELSAVYETCRLGKHRPLSKVSKDGLVQVGQEVEPEKLEELNVDQWLSGQWAGQQHSDNISKLKLYAYALKQQLGPQLAALTLDSSLLLPPKPQPPVNNTSSSGQPQTWSADGEQPSGAVSASNASTPGGAISSQPGEITQGGSSDSKGQPSSTPAANTPADTAELSSEQTRIGIPTEADSADSIANPPAVVIYVVDAFLSSSGMRHEGREEEEEEGEEVESGSIWLLGLLRCYTEMLQNLPETMRPALVLQVVPCQYLLQPASGESRLYLQHLRSMAFSCYSQCRRLLPQQTYIKSLTGFGPVSTVSSILKSPEYPRPLQLYSPPFILGPSRPKYPEPGEIWAEVPPKFNVLFVGYCLSHDQRWILVSCTDQQGELLETCVINVDVPNRTRRPKVSARKMGLQKVWEWCIGIIQMTSLPWRIVIGRLGRLGHGELKDWSSLLGEHSLQSIGRQLREACRVCGISAADSPSILSACLVAMEPQGSFVIMPDAVTMGSVFGRSNALNLQTSQLNTPQDASCTHILVFPTSATTQLAPSSYPTEDNNDDMFPDLPFPDELENDIGHDMMLITSLHSPPNTSPVPSPGSPSGIGMGSHFHHTRSQGERLLSRDNPPEELKQQPLALGYYVSTAQANGLPHWFWASCPQAESQCPLFLKASLHHHISIAQSDEIPSDKTKRTPHPLDSKTTSDVLRFVLEQYNALSWLTCTPATQDRQSCLPVHLAVLVQMYNAILNLL
Length2115
PositionMiddle
OrganismXiphophorus maculatus (Southern platyfish) (Platypoecilus maculatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Cyprinodontiformes> Poeciliidae> Poeciliinae> Xiphophorus.
Aromaticity0.07
Grand average of hydropathy-0.399
Instability index59.13
Isoelectric point5.57
Molecular weight232108.37
Publications
PubMed=23542700

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

>MDP30939
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      97.65|      25|      41|     959|     983|       1
---------------------------------------------------------------------------
  449-  467 (24.99/ 7.61)	SLYPT.....SVPKHKTS.ERP.EKP.....
  959-  983 (43.38/19.19)	SVNTA.....SVSTTTGILPSP.ATPRFSVP
  993- 1023 (29.28/10.31)	GINTAssgqgSVKQDGTELSSPvSTPSTSLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     220.37|      40|      41|     844|     883|       2
---------------------------------------------------------------------------
  302-  347 (56.37/21.14)	PPVPAalGLNKELNNcsvpLTPPTSPEQPCSADSGFVTSASNVPTP
  819-  842 (34.67/10.27)	.PTPP..SLEQH.PA....FSP..ITPY....RD...TPSQ.....
  844-  883 (69.87/27.91)	PPVPS..GVTDHLPS....LAPTQLTDYMMEMEDGATSPRQDDIKP
  891-  927 (59.46/22.70)	APLSC.......LPS..qtLPPLKIPEQCYYRPSWALLPKMEHFTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.90|      32|      33|    1495|    1527|       3
---------------------------------------------------------------------------
 1495- 1527 (51.12/33.24)	QPSGAvSASNASTPGGAISSQPGEITQGGSSDS
 1530- 1561 (54.77/31.57)	QPSST.PAANTPADTAELSSEQTRIGIPTEADS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.69|      15|      39|     222|     236|       4
---------------------------------------------------------------------------
  222-  236 (26.49/17.56)	GQAFKMSDPAARKLI
  262-  276 (26.20/17.29)	GQAYDRSSHVAVDVI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.44|      30|      39|    1411|    1441|       5
---------------------------------------------------------------------------
 1411- 1441 (49.63/27.50)	QEVEPEkLEELNVDQWLSGQWAGQQHSDNIS
 1452- 1481 (51.81/25.11)	QQLGPQ.LAALTLDSSLLLPPKPQPPVNNTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.64|      28|      45|     483|     527|       7
---------------------------------------------------------------------------
  486-  514 (43.29/17.89)	TEESP...LEQG.SPGGPQLGALVALESPmEPL
  529-  560 (43.35/27.52)	ERKAPeslLHSSmSPLPPTLSPHPRMQDP.EVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     343.68|      91|     461|     712|     802|       8
---------------------------------------------------------------------------
  712-  796 (132.98/78.15)	.......KGEEI.TSNGSLP...DGKDA.MSIFNSAPKSDDLGQEDAPTKTN.PSLTEAKD.....LAVNISDL.....ENILDE.....EDVGTVYPNQHSTKLLLSTE....DRL
 1186- 1278 (123.21/71.79)	SSCH.GRKGALL.QSWMSEKqwaDASDAcVDCFNAFEQG..LQYVDNPTGGK.VDLTVVRS.....SAIHSWPH.....TNVVDM.....SRLSS....QDMVRMLLSMQpflqDAI
 1279- 1373 (87.48/48.56)	QKKRtGR.....tWENIQHV...QGPLT.WQQFHKMAGRGSYGSEESPEPLPiPTVLLGYDrerdfLA..LSPLalpfwEKLLLEpyggqRDVAYVVVCPSSTSLL...........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     173.24|      57|     559|    1067|    1158|       9
---------------------------------------------------------------------------
 1093- 1158 (81.07/85.06)	RCMcGFSA.ivnRRLAHGTGlFLEdELDIFGRTSEGG...RAAE..RRLALCRRDPTMGDSRAKQSQdtgPG
 1655- 1720 (92.18/33.80)	RSM.AFSCysqcRRLLPQQT.YIK.SLTGFGPVSTVSsilKSPEypRPLQLYSPPFILGPSRPKYPE...PG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.47|      25|     461|     137|     161|      10
---------------------------------------------------------------------------
  137-  161 (46.25/29.27)	KGF..VRIGKWFFKPHELEEKSLGSSE
  601-  627 (41.23/25.14)	RGFrtPRTDKSEFRPPELPTEKLEQVE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.54|      10|     460|     563|     573|      11
---------------------------------------------------------------------------
  563-  573 (17.65/11.23)	SVDMLACPdGP
 1026- 1035 (20.89/ 8.83)	SVEHLARP.GP
---------------------------------------------------------------------------




































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 MDP30939 with Med13 domain of Kingdom Metazoa
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