<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 MDP16909

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMERKERTTTVTNWGRRGEEECDGEVNKKILSGPEAVNGNFPYSLHLSKAELTGIKWRRYNFEGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVDVIHRELHMVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLITEEHIHMAQSSPSPFQVLVSPYGLNGTLTGQSYKMSDPATRKLMEEWQYFYPMVLKKKEGMKEEEELGYDNDFPVAVEVIVGGVRMVYPSAFVLISQSDIPMSQNAASTGGHINVGQQGLGSMKDPASTCGMPLTPPTSPEQTVLGESGCSQSSISHSALQEGTVSVHSPKKSRKITPKIHNRMVHRVWKECILNRSQSKRNQMTTANLEEEVPNNTVSWDFVDPVQRVSCSCSRHKVFKQRCAPGSSRPPTINQPGFSVGTSSSSSLPPPASSKHKTTERQEKGDKLQKRPLMPFHHRPSVTEELCMEQDTSGQKLGXPSSRKYEKPLSIPARNPSKQMNMNPMDSPRSPTSPLPPTLSPQPRGQEGENLDPPSVAVTPALYGSGLELQPLPSLDERTVLVGQRLPLMAEVSETALYCGITHNSESRDIWRAYSVPLSDDLEFRPPALPCERYDAKMEITSDSSALKRLLAQPNKRFKILREQKPVQTLNYLDSLPLIQAPGEGLGDASDPYTFEDGDIKYSFTGNKKCKLGAEKDPLKKNKSEDGIGTKEIPTTGHSTPVPDGKDAMSIFSSAPKTDTRQDNAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKTPAVGSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMSYKDGISSETVTALGMMESPMVNMVPTQLAEFKMEVEDGLGSPKPEEIKDFSYVHKVPSFQPFVGSSVFAPLKILPSQCLLPLKVPDACIFRPSWAVPPKIEQLPLPPTATFIRDGYNNVPSVGSLADQDYLQMNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATVQPIPEAHSLYVTLILSDSVLNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDELDIFGKTSDIGQAAERRLMICQSNLISQMGEGARRTQEPPMSLLLLLQNQHTQPFTSLSCLDYMSSNNRQTLPCMNWSYDRLQADSNDSWVECFNALEQGRQYVDNPTGGRVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGTCHSVWEMPIPTDLXXYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLDGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWGTEECDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLLPPKYQTPASQTQPVPGNAGPVPPNSACLSAAGAAPTGSSFSSTPGGGTTSLPAGSSSASGSSVPQLAASSATPGVNQMNATTTPGFSGNIGSGQNTSTGGSTAERAQGNTGPGGETESGQNLPQQQEGQEGVTERERIGIPTEAESADSNAYPPAVVIYMVDPFTYTADEESASTNFWLLSLMRCYTEMLDNLPENMRNSFILQIVPCQYMLQTMKDEQVFYIQHLKSLAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDLPNRSRRSKVSARKIGLQKLWEWCVGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKEVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDASCTHILVFPTSATIQVAPANYPNEDGFSPTNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGIGVGPHFQPSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPKWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRSSCLPVHFVVLTQLYNAIMNIL
Length2229
PositionMiddle
OrganismColumba livia (Rock dove)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Columbiformes> Columbidae> Columba.
Aromaticity0.07
Grand average of hydropathy-0.404
Instability index58.60
Isoelectric point5.82
Molecular weight245046.88
Publications
PubMed=23371554

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

>MDP16909
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     108.52|      24|      27|    1563|    1586|       1
---------------------------------------------------------------------------
  461-  490 (26.79/ 9.11)	...PGssrpptinqPGFSVGTSSSSSL.PPPASS
 1563- 1581 (24.59/ 7.67)	..............PPNSACLSAAGAA.PTGSSF
 1582- 1610 (26.86/ 9.16)	SSTPG...ggttslPAGSS..SASGSSvPQLAAS
 1611- 1642 (30.28/11.41)	SATPGvnqmnatttPGFSGNIGSGQNT.STGGS.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.72|      26|      27|    1049|    1074|       2
---------------------------------------------------------------------------
 1049- 1074 (47.54/25.99)	GAGVLPSPATPRFSVPTPRTP.RTPRT
 1077- 1103 (41.17/21.32)	GGGTASGQGSVKYDSTDQGSPaSTPST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.89|      24|      27|     557|     583|       3
---------------------------------------------------------------------------
  536-  559 (39.95/21.66)	P..SSRKYEKPLSIPARNPSK.QMNMN
  560-  586 (35.94/30.77)	PmdSPRSPTSPLPPTLSPQPRgQEGEN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.80|      25|      28|    1142|    1166|       4
---------------------------------------------------------------------------
 1142- 1166 (52.19/28.41)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1169- 1197 (37.60/18.58)	NEDQYrCTCGFSaiMNRKlGYNSGLFIED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     392.17|     124|     409|     336|     471|       5
---------------------------------------------------------------------------
  336-  471 (203.42/160.37)	LGSMKDP....ASTCGMPLTP.PTSPEQTVLGEsGCSQSSISHSALQEGTVSVHSPKK..SRKIT......PKIH..NRMVHRVWKECILNRSQSKRNQMTTANLEEEVPnntVSWDFVDPVQRVSCSCSRHKVFKqrcapgssRPPTINQ
  748-  886 (188.75/128.13)	LGAEKDPlkknKSEDGIGTKEiPTTGHSTPVPD.GKDAMSIFSSAPKTDTRQDNAAGRagSGSLTqvtdlaPSLHdlDNIFDNSDEDELGAVSPALRSSKTPAVGSEERP...VGKDGRTAVPYPPTVADLQRMFP........TPPSLEQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.61|      25|      27|      84|     108|       6
---------------------------------------------------------------------------
   84-  108 (48.54/33.50)	FIRCLQANLLCVWRRDVKPDCKELW
  110-  134 (49.06/33.95)	FWWGDEPNLVDVIHRELHMVEEGLW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.72|      25|      28|    1996|    2020|       7
---------------------------------------------------------------------------
 1972- 1996 (38.63/21.57)	AMEPQGSFVVMP.DAV.TMGS....VFGRST
 1997- 2021 (42.25/24.38)	ALNLQSSQLNTP.QDA.SCTH....ILVFPT
 2022- 2051 (21.85/ 8.51)	SATIQVAPANYPnEDGfSPTNddmfDLPFP.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     152.53|      48|     409|    1739|    1792|       9
---------------------------------------------------------------------------
 1739- 1792 (76.02/68.47)	RNSfilQIVPCQYMLQTMKDEQVFYIQHLKSLAFsVYC....QCRRP.LPtqIHIKSLT
 2167- 2219 (76.51/49.77)	RNS...QRVPHPLDSKTTSDVLRFVLEQYNALSW.LTCnpatQDRSScLP..VHFVVLT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.04|      13|     409|    1489|    1516|      11
---------------------------------------------------------------------------
   10-   22 (27.45/ 6.73)	VTNWGRR..GEEECD
 1496- 1510 (22.59/23.38)	VSEWFNQpwGTEECD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.62|      18|     409|     995|    1026|      12
---------------------------------------------------------------------------
  975-  993 (32.66/14.00)	LPLKvPDACIFRPSWAVPP
  998- 1015 (34.96/24.45)	LPLP.PTATFIRDGYNNVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.50|      19|      28|    1344|    1364|      13
---------------------------------------------------------------------------
 1344- 1364 (30.63/23.52)	LSLQPFLQDAiqKKRTGRT....WE
 1373- 1395 (33.86/19.51)	LTWQQFHKMA..GRGTYGTchsvWE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.21|      12|      17|    1246|    1257|      14
---------------------------------------------------------------------------
 1246- 1257 (22.19/14.05)	QNQHTQPFTSLS
 1265- 1276 (25.01/17.05)	NNRQTLPCMNWS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.79|      10|     904|     204|     213|      15
---------------------------------------------------------------------------
  204-  213 (19.56/11.16)	SVEIAQHQPI
 1109- 1118 (19.23/10.84)	SVEPATVQPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      29.40|       9|      17|    1206|    1215|      16
---------------------------------------------------------------------------
 1206- 1215 (11.99/11.97)	SDIGQAAeRR
 1225- 1233 (17.41/11.28)	SQMGEGA.RR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.40|      16|      21|     655|     670|      18
---------------------------------------------------------------------------
  655-  670 (31.43/17.64)	SDDLEF.RPPALPCERY
  678-  694 (22.97/10.76)	SDSSALkRLLAQPNKRF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.80|      20|    1484|     589|     614|      23
---------------------------------------------------------------------------
  595-  614 (36.79/27.74)	TPALYGSGLELQPLPSLDER
 2080- 2099 (38.01/15.60)	SPSGIGVGPHFQPSRSQGER
---------------------------------------------------------------------------




































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 MDP16909 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GAEKDPLKKNKSEDGIGTKEIPTTGHSTPVPDGKDAMSIFSSAPKTDTRQDNAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKTPAVGSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPV
2) GSLADQDYLQMNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATV
3) KQRCAPGSSRPPTINQPGFSVGTSSSSSLPPPASSKHKTTERQEKGDKLQKRPLMPFHHRPSVTEELCMEQDTSGQKLGXPSSRKYEKPLSIPARNPSKQMNMNPMDSPRSPTSPLPPTLSPQPRGQEGENLDPPSVAVTPALY
4) NAASTGGHINVGQQGLGSMKDPASTCGMPLTPPTSPEQTVLGESGCSQS
5) NLHSSPNSSPVPSPGSPSGIGVGPHFQPSRSQGERLLSREAPE
6) PPKYQTPASQTQPVPGNAGPVPPNSACLSAAGAAPTGSSFSSTPGGGTTSLPAGSSSASGSSVPQLAASSATPGVNQMNATTTPGFSGNIGSGQNTSTGGSTAERAQGNTGPGGETESGQNLPQQQEGQEGVTERERIGIPTEAES
749
1018
456
321
2065
1542
893
1115
599
369
2107
1687










Molecular Recognition Features






MoRF SequenceStartStop




1) MSLYLLWRD
1
9