<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 MDP19835

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSACFVPNGASLEDCHSNLFYLADLTGIKWKRYVWQGPISAPMLFPVTEEDPILCSFSRCLKSDVLSVWRRSQRQGRRELWLFWWGDDPNFADLIHHELTAEDDGVWESGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKREHLSCSFTFFLHGDSNVCTSVEINQHQPVYHLSEDHLTLAQQASSPFQVILSPFGLNGTLTGQSFKLSDPPTQKLIEEWNQFYPISPTSKESAEDKMEDIDWEDDSLAAVEVLVGGVRMVYPACLVLVPQSDIPTITQTGSSHCTAVYSNGHQVPASNRDPAISSVTLTPPTSPEEAQTVHSHSAQKWMRLPVAMDGFSVDNTSHHGGKIPRRMASQVVETVWQECNINRAQNKRKFSATASNGTSEEETLIKVGAWDFVDSTQRSNCNCSRHKTLKQRASSTPGQPPTAGQTQQPPIKHKAGEKPEKGDKQQKRPQTPFHHRNSVCEDVTMETDASAGQRLALRGQESGRFPGLRPTDVGTGSKPPQLHSGAGSTVGSSGPTEMVGSPQPPPLSPHPCERGEEPSDTIKNPSTPQHFYPPSTEPCLLPQKGPDDARLEPLTQPFPPAYPETLEPTPYISAAVNMDDDGSHAPWRFFNLPRRKDAEFPTPTLPGDKLREEASLGAEGIMSVTESMAASKRLLKVSDERIQMYLQRQNQHLAAAITDGDHEPEVDPYAFVDGDVKFTFSDKKDKAGLEREPGKKHKGEDGNAASDDAQRAAAHNRAASTSLIHDSDLAVSIKDLDNLFNSDEDEQTPGARRAVNGADEKFGSKETKPATLDPVSCISTADLHQMFPTPPSLEQHFMGYSPMNMGSKDGCMEPGSGLNALDGPTALGGPFKIEVEESFCSPKPSEIKDFSFVYKPELCQPFVGCSMFAPLKSLPSQCLPPIKLPDECVYRPSWTVGKLELLNSVPAMTIFSKDGENNAMEQDYIQTYTPQTHTPFLSNSAPPSNSGTSILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGIYINDPNMEAQYPCGCGFSAVVNRRYGNGSGLFLEDELDIIGRGSDVSQEAEKRFEALRCISLEKTGGGGKDRVPDELISLLQDQCTNPFSPILALDPEGLSSQGPGGTTVPPCVRVEERDFHNDCYLALEHGRQFMDNMSGGKVDEVLVKSTCLHHWAKRSAVDVSALCSQDVLRVLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDVGYLVLCPDSDSLLTGAKSFFRELTAVYESCKLGQHRPISKVHADGIVRVGGAAAKKLSEQPVNDWFLKAASGSSDAFAKLKLFAQVCRHDLGKTYLTLLSLPLSLSVILDTMDTYQALFVPLIFFLSAFSSAPYLATQPLDSSLLIQPTPVPSSTQSSSSQSSGSASSNSQTSMASGGSALNNNNNSAASNSGSGLPGSTNNTPSSSSSGPQGSSIQSAKPSSFPPFGSMGVQGNSSQSGALGQQAVTQNSSLSGDNSAINSQTQGPSEPPESTMEREKVGVPTDGDSHAITYPPAIMIYIVDPFSYEEAEPGTSQSSKWTLGLLRCYLEMLQALPTHIRNSVFVQIVPCQYLLQPVRSEERHLYAQHLKSLAFSVFTQCRRPLPTSTNVKSLTGFGPGLALDTSLRNPDRPECLRLYTPPFILAPTKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIISVDVPNRARRKKGSARKMGLQKLWEWCLGLVQMTSLPWRVVIGRLGRIGHGELRDWSILLSRRNLQSVSRRLKENCKLCGISASDTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAFVQVNSSNYTHENIDIAFNPGNDGSDPMGGIFDLLEQENDLVDPDIINILPASPTTSPVHSPGSQYPHGGDGSKGQSTDRMESHEEAPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMTML
Length2197
PositionMiddle
OrganismDanio rerio (Zebrafish) (Brachydanio rerio)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Cypriniformes> Danionidae> Danioninae> Danio.
Aromaticity0.07
Grand average of hydropathy-0.403
Instability index51.48
Isoelectric point5.57
Molecular weight240503.95
Publications
PubMed=23594743

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	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP19835
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     204.90|      43|      47|    1552|    1598|       1
---------------------------------------------------------------------------
  992- 1023 (41.34/15.70)	TSILPSPA.TPRFSAPTPRT.........PRT.PrtPRGPA.....SV...................
 1508- 1559 (40.69/26.12)	SSLLIQPTPVPSST....QSSSS..QSSGSASSN..SQTSM.......asggsalnnnnNsaaSnSG
 1560- 1604 (76.43/38.72)	SGLPGSTNNTPSSSSSGPQGSSI..QSAKPSSFP..PFGSM.....GV.........qgN...S.SQ
 1605- 1648 (46.44/18.90)	SGALGQQAVTQNSSLSG.DNSAInsQTQGPSE.P..PESTMerekvGV...................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     184.70|      49|     747|    1296|    1352|       2
---------------------------------------------------------------------------
  215-  245 (27.89/12.59)	.......GTLTGQSF.KLSDPPTQK.lIE......EWNQFYPIsPT................
 1296- 1348 (92.25/64.64)	VRSWGVQGPLTWQQFHKMAGRGSYG..TD......ESPEPLPI.PTFLvGYeydFVVLSPFG
 2050- 2098 (64.56/32.73)	VHSPGSQYP......H..GGDGSKGqsTDrmesheEAPNILQQ.PLAL.GY...FVSTAKAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     188.09|      37|      47|     497|     533|       3
---------------------------------------------------------------------------
  428-  469 (46.53/17.82)	SRHKTLKQRASST............pgQP.PTAGQ.TQQPPikhkaGEKPEKGDKQ
  470-  520 (52.42/21.07)	QKRPQTPFHHRNSvcedvtmetdasagQRLALRGQESGRFP.....GLRPTDVGTG
  521-  568 (54.50/22.22)	SKPPQLHSGAGST.vgssgptemvgspQPPPLSPHPCER.......GEEPSDTIKN
  569-  607 (34.64/11.26)	PSTPQ.HFYPPST..epcllpqkgpddARLEPLTQP...FP.....PAYP......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     441.36|     142|     742|    1026|    1209|       4
---------------------------------------------------------------------------
 1026- 1182 (219.55/156.72)	SLKyeNSD......LYSPastPSTCRPLNSVEPATVPSIPEA....HSLYVNLILSESVMNLFKDC.NFDSCCICVCNMNIkgaDVgIYINDP.NMEAQYPCGCGFSAVVNRRYGNGSGLFLE..DELD...IIGRGSDVSQEAEKRFeALRCISLEKtggggKDRVPDELISL
 1665- 1738 (80.07/32.39)	.......................................................................................IYIVDPfSYEEAEP...GTSQSSKWTLGLLR.CYLEmlQALP...THIRNSVFVQIVPCQY.LLQPVRSEE.....RHLYAQHLKSL
 1771- 1888 (141.73/100.57)	SLR..NPDrpeclrLYTP...PFILAPTKDKQTELGETFGEAsqkyNVLFVGYCLSHDQRWLLATCtDLYGELLETCIISV...DV......P.N.RARRKKGSARKMGLQKLWEWCLGLVQM..TSLPwrvVIGR......................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.54|      23|      50|     862|     889|       5
---------------------------------------------------------------------------
  862-  889 (32.67/35.48)	LNALdgPTALGGPFKIEVEesfCSPKPS
  915-  937 (44.87/28.87)	LKSL..PSQCLPPIKLPDE...CVYRPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.23|      39|     744|     633|     678|       7
---------------------------------------------------------------------------
  633-  678 (49.32/49.69)	FFnlpRRKDAEFPTPTLpGDKlREEASLGAEGIMSVteSMAASKRL
 1385- 1423 (68.91/40.67)	FF...RELTAVYESCKL.GQH.RPISKVHADGIVRV..GGAAAKKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.92|      26|     658|    1427|    1455|       8
---------------------------------------------------------------------------
 1427- 1455 (42.61/34.67)	PVNDWFLKAASGSSDAFAklkLFAQVCRH
 2099- 2124 (53.31/35.34)	PLPDWFWSACPQAQNQCP...LFLKASLH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     139.03|      41|     658|     149|     192|       9
---------------------------------------------------------------------------
  149-  192 (67.71/39.59)	KDEKPINkREHLSCSFTFFLHGDSNVCTSVEinQH....QPVYHLSED
  809-  853 (71.31/33.51)	KETKPAT.LDPVSCISTADLHQMFPTPPSLE..QHfmgySPMNMGSKD
---------------------------------------------------------------------------




































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 MDP19835 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AMEQDYIQTYTPQTHTPFLSNSAPPSNSGTSILPSPATPRFSAPTPRTPRTPRTPRGPASVQGS
2) DKKDKAGLEREPGKKHKGEDGNAASDDAQRAAAHNRAAST
3) DLDNLFNSDEDEQTPGARRAVNGADEKFGSKETKP
4) LIQPTPVPSSTQSSSSQSSGSASSNSQTSMASGGSALNNNNNSAASNSGSGLPGSTNNTPSSSSSGPQGSSIQSAKPSSFPPFGSMGVQGNSSQSGALGQQAVTQNSSLSGDNSAINSQTQGPSEPPESTMEREKVGVPTDGDS
5) NCNCSRHKTLKQRASSTPGQPPTAGQTQQPPIKHKAGEKPEKGDKQQKRPQTPFHHRNSVCEDVTMETDASAGQRLALRGQESGRFPGLRPTDVGTGSKPPQLHSGAGSTVGSSGPTEMVGSPQPPPLSPHPCERGEEPSDTIKNPSTPQHFYPPSTEPCLLPQKGPDDARLEPLTQPFPPAYPETLEPTPYISAAVNM
6) PASPTTSPVHSPGSQYPHGGDGSKGQSTDRMESHEEAP
963
726
779
1511
424
2042
1026
765
813
1654
622
2079










Molecular Recognition Features






MoRF SequenceStartStop




1) APWRFFNLPRRK
629
640