<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 MDP29156

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMNPCFVPNGASLEDCHSNLFCLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCMAADVLSVWRRHHTQGRRELWLFWWGDDPSFAELIHNELSSEEDGEWESGLSYECRTLLFKAIHNLLERCLMNRGFVRIGKWFVKPYQKEEKIINKSEHLSCAFTFFVHGDSNVCTSVEIAQHQPLQRLSEEHLSLAQQSSSPLQVILSPYGLNGTLTGQAFKMSDHPTQKLIEEWRQFYPISPNPKEVQEDKMEDSDWEDDSLAAVEVLVAGVRMVYPSCLVLLPLTDVPAVVPQGSANTSGSMCGPQQGPHRDPAISSVTLTPPTSPEEAQCFCTDSQLAQRWLKLSSASDGYSSHNTLHGGKIPCRMAGQMVETVWQEYNLNRTGHKRKFPTLPNGTCEEEPDKTGIWDFVESTHGPHCNCSRHKNQKQRSSSTSGHPPSSGQPSQPIPKHKLGEKPEKSEKQQKRPQTPFHHRSSVSEEQPLEPQTQRLCLRPQEEGSYPSLHHVDAVPSKAPTLHTHGPPADLAGSPPPPPLSPHPCDHTDNEGTPGGMKNSSTPIHQTFYPPSVEPCILPQKGSPEEPQHGNAPLPLPFPPSYSETLEPTLFVGSAVNPNEDTTHNPWKYFNLPRKKASNFPTPQLPVNKMRDDSGGGAESPPSITEVMSGSTHRLKVSQERVKTYAQRRNSHLVTIAGDAEQSDAADPYAFVEGDEEFTFAEKKDKPGTEKDGSKKHKVSLATCRLQAKVANVYCARVDVDGQGPAGNKPSASTSLIHVNDLAVSYSDLDKIFNSDEDELAPGCKRAGGGSDDKFACKEAKAAALDPHSCISSADLHQMFPTPPSLDQPGYSPMNSGTKDGLEAGAGLTLLDGSLLNNHFKMEVEEGFCSPKPSDVKDFSFVYKPETSQLFVGCSMYAPLKTLPSQCLLPIKLPEECVYTPSWSLGKMELIPPVTNVSLLAKDNNIPSVEPDYSQTYTPQTHTPFMSSSAPPSNSGTGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYDNSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLKDNGEAQYPCTCGFSAVANRRFGQSAGLFLEDELDVVGRGSDSGRDTERCFEELRASSVQKAGSLVEKPPDNLILLLQDQCTNPFAPMAGVEHSKTNASPTSFLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDETLVKSTCLHRWPKSADMSKLFSQDVLRVLLSLQPVLQDTIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGGTDESPEPLPIPTFLVGYEFDFLVLSPFVLPYWEKLLLEPFGSQRDVGYVVICPENEALLSRAKTFFKDLSTTYEKQACQLGQHRPICRSHPEGILKFGATEGRSITEQPLSDWFLKMAARDRYNEAFNKLKLFAQVCRYDLAPYLSEQSLDSSLLSQRSPALASSSSPSQTSSSSSITSGPQSTTACGQPAQISSTPPSSSSVSQAIGGMASSKPSSYSPFGNAGLQSGSSQNGPQATPQGAAGPAENGATNQPQGSAEVPESTVERDKVGKPTDGESHAVSYPPAIMVYIVDPFSYEAADREAHSSTYTLGLLCCYMEMLKLLPARIRNAVSVQIVPCQYLLQPVHSGERHVYSQHLKSLAFSVYTQCRRPLPNSTNFKALTGFGPGLAIDTALKNPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQHGELLETCIISIDVPSSRARRKNGNVRRVGLQKLWDWCLGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNTNTSEPIDINFNPINPDGSDGMGIFDLFDNDMVDPDLINILPNSPTTSPVHSPGSHYHHGGDGSKGQSADRMESHEEALNILQQPMALGYFVSTAKTGPLPDWFWSACPQAQNQCPVFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVYFVVLTQMYNFIRNTL
Length2130
PositionMiddle
OrganismTetraodon nigroviridis (Spotted green pufferfish) (Chelonodon nigroviridis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Tetraodon.
Aromaticity0.08
Grand average of hydropathy-0.448
Instability index58.16
Isoelectric point5.88
Molecular weight234027.98
Publications
PubMed=15496914

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. 
ECO:0000256	RuleBase:RU364134
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

>MDP29156
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     135.03|      33|      36|     964|     999|       1
---------------------------------------------------------------------------
  568-  592 (48.08/17.32)	PSVEP....CILPQK.GSP.....EEPQH.GNAPLP
  964-  998 (57.98/30.28)	PSVEPDYSqTYTPQT.HTPfMSSSAPPSNSGTGILP
 1002- 1027 (28.97/ 9.92)	...TPRFS.VPTPRTpRTP.RTPRGPSSVQG.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     163.46|      35|      36|      30|      64|       2
---------------------------------------------------------------------------
    3-   35 (28.41/ 9.39)	......PCFVPngASLED...ChSNLFCLA.DltgikWRRFVW
   36-   74 (64.18/31.08)	QGPTSSPILFP..VTEEDPILC.SFSRCMAAD.vlsvWRRHHT
   75-   91 (25.62/ 7.70)	QGR.RELWLF...WWGDDP....SF..................
  310-  338 (45.25/19.60)	QGPHRDPAISS..VTLTPPTSP.EEAQCFCTD...........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     130.98|      33|      36|     428|     460|       3
---------------------------------------------------------------------------
  428-  451 (38.15/14.13)	..............KNQK.QRSSSTSGHPPSSGQPSQPI
  452-  486 (48.60/20.21)	PKHKLGEKP....eKSEKqQKRPQTPFHHRSSVSEEQPL
 1486- 1520 (44.24/17.67)	SSSSITSGPqsttaCGQP.AQISSTP...PSSSSVSQAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.30|      23|      36|    1716|    1739|       4
---------------------------------------------------------------------------
 1716- 1739 (38.23/26.65)	CLRlYTPPFILAPVKDKQTELGET
 1755- 1777 (44.06/26.58)	CLS.HDQRWLLASCTDQHGELLET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.37|      17|      17|    1533|    1549|       5
---------------------------------------------------------------------------
 1533- 1549 (32.78/21.29)	PFGNAGLQSGSSQNGPQ
 1552- 1568 (32.59/21.11)	PQGAAGPAENGATNQPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     372.39|      79|     862|     487|     565|       6
---------------------------------------------------------------------------
  487-  564 (140.62/69.91)	................EPQTQR.....................LCLRPQEEGSYPSLHHVDAVPSKAPTLHTHG..P......PADLAGSPPPPPLSPHPCDH.TDNEGT.PGGMKNSSTPIHQT
  595-  663 (92.47/43.08)	F...............PPS.............................YSETLEPTLFVGSAVNPNEDT..THN..PwkyfnlPRKKASNFPTPQL...PVNKmRDDSG...GGAE..SPPSITE
  664-  768 (64.33/27.40)	VmsgsthrlkvsqervKTYAQRrnshlvtiagdaeqsdaadpyAFVEGDEEFTFA..EKKDKPGTEKDGSKKH..........KVSLATCRLQAKVANVYCAR.VDVDGQgPAGNKPS.......
  801-  860 (74.97/33.33)	............................................CKRAG.GGSDDKFACKEA...KAAALDPHSciS......SADLHQMFPTPPSLDQPGYS.PMNSGT.KDGLE.........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.89|      15|      17|    1397|    1412|       7
---------------------------------------------------------------------------
 1397- 1412 (25.20/18.88)	RPICRsHP..EGILKFGA
 1416- 1432 (23.69/12.32)	RSITE.QPlsDWFLKMAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.72|      22|     863|     353|     386|       8
---------------------------------------------------------------------------
  345-  368 (36.99/41.29)	WLKLSSASDGYSSH.NTLHGGkiPC
  379-  401 (38.74/15.68)	WQEYNLNRTGHKRKfPTLPNG..TC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.08|      27|      29|    1794|    1820|       9
---------------------------------------------------------------------------
 1794- 1820 (51.95/35.69)	GNVRRVGLQKLWDWCLGLVQ..VTSLPWR
 1824- 1852 (42.14/27.36)	GRLGRMGHGELRDWSILLSRrnLQSLSKR
---------------------------------------------------------------------------




































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 MDP29156 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) HCNCSRHKNQKQRSSSTSGHPPSSGQPSQPIPKHKLGEKPEKSEKQQKRPQTPFHHRSSVSEEQPLEPQTQRLCLRPQEEGSYPSLHHVDAVPSKAPTLHTHGPPADLAGSPPPPPLSPHPCDHTDNEGTPGGMKNSSTPIHQTFYPPSVEPCILPQKGSPEEPQHGNAPLPLPFPPSYSETLEPTLFVGSAVNPNEDTTHNPWKYFNLPRKK
2) INILPNSPTTSPVHSPGSHYHHGGDGSKGQSADRMESHEEA
3) LSQRSPALASSSSPSQTSSSSSITSGPQSTTACGQPAQISSTPPSSSSVSQAIGGMASSKPSSYSPFGNAGLQSGSSQNGPQATPQGAAGPAENGATNQPQGSAEVPESTVERDKVGKPTDGES
4) SNFPTPQLPVNKMRDDSGGGAESPPSITEVMSGSTHRLKVSQERVKT
5) SVEPDYSQTYTPQTHTPFMSSSAPPSNSGTGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYD
6) WQEYNLNRTGHKRKFPTLPNGTCEEEPDKTGI
421
1971
1468
635
965
379
633
2011
1591
681
1032
410










Molecular Recognition Features






MoRF SequenceStartStop




1) HNPWKYFNLPRKKA
621
634