<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 MDP09564

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFIRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPSPFQVLVSPYGLNGTLTGQSYKMSDPATRKLMEEWQYFYPMVLKKKEGMKEEEALGYDNDFPVAVEVIVGGVRMVYPSAFVLISQSDIPMSQNAASTGGHINVGQQGLGSVKDPSSTCGMPLTPPTSPEQAVMGESGCSQSSISHSAVQEGTVSVHSPKKSSKITPKFHNHMVHRVWKECILNRSQSKRTQITTANLEEEVPNNTVSWDFVDPVQRVSCSCSRHKVFKQRCAAGSSRPPMINQPGFSVGTSSSSSLPPPASSKHKATERQDKGEKLQKRPMMPFHHRPSVTEELCVEQDTSGQKLGLAGMEPSLEVPNSRKYEKPLSIPARNPSKQINMNPMDSPHSPSSPLPPTLSPQPRGQEAENLDPPSVPVNPALYGSGLELQPLPSLDERTVLVGQRLPLMAEVSETALYCGIIQNNESLDMWRTYSVPSSDDPEFRPPALPCERDDAKMEVNPDSTALKRLLAQPNKRFKILEEQKPVQTLSYLDPLSLIQQPGEGLGDASDPYTFEDGDIKYSFTGNKKCKLVAEKDLLKKNKSEDGIGTKEIPAAGHSTPVPDGKDAMSIFSSAPKADTRQDNAAGRVGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKMPAVGSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMSYKDGISSETVTTLGMMESPMVSMVPTQLAEFKMEVEDGLGSPKPEEIKDFSYVHKVPSFQPFVGSSVFAPLKILPSQCLLPLKIPDACIFRPSWAVPPKIEQLPLPPATFIRDGYNNVPSVGSLADQDYLQMNTPQMNTPVTLNSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATVQPIPEAHSLYVTLILSDSVLNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDELDIFGKTSDIGQAAERRLMICQSNLISQMGEGARRTQEPPMSLLLLLQNQHTQPFTSLSCLDYMSSNNRQTLPCMNWSYDRLQADSNDSWIECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLDGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWGTEECDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLLPPKYQTPAPASQTQTIPGNTGPVPSNSTCLSTSGAPPTGSSFNSTPNGGTTSLPAGSSSSSGSSVPQLSASSATPGVNQMSATPTPGFSGNIGSGQNTSTGGNAADRSQGSTGPGGDTEAGQNLSQQQQEGQEGVTERERIGIPTEPESADSNAYPPAVVIYMVDPFTYTADEESASTNFWLLSLMRCYTEMLDNLPENMRNSFILQIVPCQYMLQTMKDEQVFYIQHLKSLAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDLPNRSRRSKLSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKEVCRMCGISSADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDASCTHILVFPTSATIQVAPANYPNEDGFSPTNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGIGVGSHYQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISIAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRSSCLPVHFVVLTQLYNAIMNIL
Length2113
PositionMiddle
OrganismGallus gallus (Chicken)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Galloanserae> Galliformes> Phasianidae> Phasianinae> Gallus.
Aromaticity0.07
Grand average of hydropathy-0.390
Instability index60.31
Isoelectric point5.60
Molecular weight231750.71
Publications
PubMed=15592404

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
>MDP09564
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     541.60|      97|     108|     685|     781|       1
---------------------------------------------------------------------------
  342-  473 (99.84/47.48)	INQ.PGFSvgtssssslpPPASSKHK...............atERQDKGEKLQK.RPMMP.F.HHRPSVTEElcVEQDtsgqKLGlaGMEPSL....EVPNSRKY.EKPLS.IPARnpskqinmnpmdsphsPSSPLP.PTLSPQPRG.QEAenldP..PS
  474-  574 (109.18/52.73)	VPVNPAL...............YGSGlelqplpsldertvlvgQRL..PLMAEV.SETA..L.Y..CGIIQN..NESL....DMW..R.TYSVP.SSDDPEFRPP.ALPCE.RDDA................KMEVNP.DSTA.LKRL.LAQ....P..NK
  685-  765 (115.77/56.43)	...........................................GRVGSGSLTQV.TDLAPSL.HDLDNIFDN..SDED....ELG..AVSPALR.SSKMPAVGSE.ERPVG.KDGR................TAVPYP.PTVADLQRM.FPT....P..PS
  766-  876 (120.45/59.06)	LEQHPAFS..........PVMSYKDG........issetvttlGMMESPMVSMVpTQLAEFK.MEVEDGLGS..PKPE....EIK..DFSYVHKvPSFQPFVGSSvFAPLKiLPSQ................CLLPLKiPDACIFRPS.WAV....P..PK
  877-  951 (96.36/45.53)	IEQLP.LP..........PATFIRDG....................................yNNVPSVGSL..ADQD....YLQ..MNTPQMN.T...PVTLNS.TAPAS.NSGA................GVLPSP.AT....PRFsVPT....PrtPR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.62|      14|      19|    1512|    1529|       2
---------------------------------------------------------------------------
 1512- 1525 (26.56/18.82)	GNIGSGQNTSTGGN
 1532- 1545 (27.05/ 9.22)	GSTGPGGDTEAGQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     545.33|     172|     426|    1253|    1508|       3
---------------------------------------------------------------------------
   53-  243 (263.49/88.48)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPIYLINEEHI.HMAQSSPSPF.QVLVS.....PYGLNGTLTGQSYKMSDPATRKLMEewQYFYPMVLKKKEGMKEEealgYDNDFPVAVEVIVGGVRMVYPSAFVLISQSDIPmsqnaaSTGGHINVGQQGlGSVKDP...SSTCGMPLtPPTSPEQAVmgeSGCSQSS
 1322- 1503 (281.84/142.33)	PENEA.LLDGAKTFF.RDLSAVYEMCRLGQHKPICKVLRDGImRVGKTVAQKLtDELVSewfnqPWGTEECDNHSRLKLYAQVCRHHLA..PYLATLQLDSSLLLPPK....YQTPAPASQTQTIPGNTGPVPSNSTCLSTSGAP......PTGSSFNSTPNG.GTTSLPagsSSSSGSSV.PQLSASSAT...PGVNQMS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     216.01|      93|     426|    1561|    1676|       4
---------------------------------------------------------------------------
 1096- 1152 (81.45/38.89)	RLMICQSNLISQMGEGARRT...QEPPMSLLL.LLQNQHTQPFTSLSCLDY.MSSNNRQTLP...................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 1561- 1603 (26.05/23.21)	..............................................................cmnwsydrlqadsndswiecfnaleqgrqyvdnptggkvdealvrsatvhswphsnvldismlssqdvvrmllslqpflqdaiqkkrtgrtweniqhvqgpltwqqfhkmagrgtygseespeplpiptllvgydkdfltispfslpfwerllldpygghrdvayivvcpenealldgaktffrdlsavyemcrlgqhkpickvlrdgimrvgktvaqkltdelvsewfnqpwgteecdnhsrlklyaqvcrhhlapylatlqldsslllppkyqtpapasqtqtipgntgpvpsnstclstsgapptgssfnstpnggttslpagsssssgssvpqlsassatpgvnqmsatptpgfsgnigsgqntstggnaadrsqgstgpggdteagqnlsqqqqegqegvterERIGIPTEPESADSNaypPAVVIYmvdpFTYTADEESASTNFW
 1606- 1667 (72.43/59.83)	SLMRCYTEMLDNLPENMRNSfilQIVPCQYMLqTMKDEQVFYIQHLKSLAFsVYCQCRRPLP...................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 1982- 2017 (36.08/ 8.32)	............................................................................................................................................................tqihiksltgfgpaasiemtlknperpspiqlysppfilapikdkqtelgetfgeasqkynvlfvgyclshdqrwllasctdlhgelletcivnidlpnrsrrsklsarkiglqklwewcigivqmtslpwrvvigrlgrlghgelkdwsillgecslqtiskqlkevcrmcgissadspsilsaclvamepqgsfvvmpdavtmgsvfgrstalnlqssqlntpqdascthilvfptsatiqvapanypnedgfsptnddmfdlpfpddmdndirilitgnlhsspnsspvpspgspsgigvgshyqhsrsqgERLLSREAPEELKQQ...PLALGY....FVSTAKAENLPQWFW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     248.59|      79|    1505|     254|     340|       5
---------------------------------------------------------------------------
  254-  340 (129.48/112.34)	VSVHSPKKS..SKITPKfhNHMVHRVWKECI.LNRSQSKRTQITTANLEEEVPNNTVSWDFvdpvqrVSCSCSRHKVFKQ.....R.CAAGSSRPP
 1760- 1847 (119.11/83.11)	VNIDLPNRSrrSKLSAR..KIGLQKLWEWCIgIVQMTSLPWRVVIGRLGRLGHGELKDWSI......LLGECSLQTISKQlkevcRmCGISSADSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.37|      11|      19|    1273|    1283|       6
---------------------------------------------------------------------------
 1273- 1283 (21.66/11.87)	SPEPLPI.PTLL
 1294- 1305 (16.71/ 6.93)	SPFSLPFwERLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     150.20|      46|    1321|     600|     647|       7
---------------------------------------------------------------------------
  600-  647 (77.97/49.06)	PGE.GLGDASD.....PYTFE.DGDIKYSFTGNKKCKlvAEKDLLKKNKSEDGIG
 1917- 1969 (72.23/39.99)	PNEdGFSPTNDdmfdlPFPDDmDNDIRILITGNLHSS..PNSSPVPSPGSPSGIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.42|      11|     506|     488|     498|       8
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  488-  498 (21.32/ 9.88)	QPLPSLDERTV
  986-  996 (19.10/ 8.02)	RPLNSVEPATV
---------------------------------------------------------------------------




































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 MDP09564 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) APSLHDLDNIFDNSDEDELGAVSPALRSSKMPAVGSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLE
2) CAAGSSRPPMINQPGFSVGTSSSSSLPPPASSKHKATERQDKGEKLQKRPMMPFHHRPSVTEELCVEQDTSGQKLGLAGMEPSLEVPNSRKYEKPLSIPARNPSKQINMNPMDSPHSPSSPLPPTLSPQPRGQEAENLDPPSVPVNPALYGSGLELQ
3) GSLADQDYLQMNTPQMNTPVTLNSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATVQ
4) KDPSSTCGMPLTPPTSPEQAVMGESGCSQS
5) KSEDGIGTKEIPAAGHSTPVPDGKDAMSIFSSAPKADTRQDNAAGRVGSGSLTQVTD
6) LPPKYQTPAPASQTQTIPGNTGPVPSNSTCLSTSGAPPTGSSFNSTPNGGTTSLPAGSSSSSGSSVPQLSASSATPGVNQMSATPTPGFSGNIGSGQNTSTGGNAADRSQGSTGPGGDTEAGQNLSQQQQEGQEGVTERERIGIPTEPESA
7) MWRTYSVPSSDDPEFRPPALPCERDDAKMEVNPDSTALK
8) NLHSSPNSSPVPSPGSPSGIGVGSHYQHSRSQGERLLSREAPE
699
332
899
213
641
1422
528
1949
767
488
997
242
697
1572
566
1991










Molecular Recognition Features






MoRF SequenceStartStop




NANANA