<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 MDP20488

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSSFVPNGASLEDCHCNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISSCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGSSHCSASCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAPNKRKYSASSGGLSEEEIPDKVASWDFVEATQRTNCSCLRHKNLKPRNPGQQGQAPSLSQQQQVLPKHKTNEKQEKSEKPQKRPLTPFHHRISVSDDIGMDTDSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDRIDGLSQSFPAQFQEAVEPTVYVGTAVNLEEDEANIAWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQYLSAIASDAEQESKIDPYAFVEGDEEFLFPDKKERQNSEREAVKKHKVEDGPSSVTVLSHEEDAMSLFSPSIKQDAPRPTSHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSANGTDDKSSSKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMSNKEYGSMDITPGGTVLEGNSSSIGTQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKSLPSQCLPPIKLPEECIYRQSWTVGKLELLPSGPAVPFIKEGDGSTIDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPVQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTECGKEAEKRFEALRATSAEHVNGGLKESEKFPDELILLLQDQCTNLFSPFGAADQDPFPRIGVISNWVRVEERDCCSDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMRVGSTASKKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLSQPNLVAPTSQSLITPPQMTSTGNANTPSATLASAASSTMTMTSGVTMSSSVATANSTLTTTATSSSSSSNLNSGVSSNKLPSFPPFGSMNSNATGSMSTQASTVQNGQLGGQQSSALPTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKEESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKGSARRFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSSLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQMLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDAGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2174
PositionMiddle
OrganismOdobenus rosmarus divergens (Pacific walrus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Caniformia> Odobenidae> Odobenus.
Aromaticity0.08
Grand average of hydropathy-0.398
Instability index53.27
Isoelectric point5.41
Molecular weight239557.61
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the 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

>MDP20488
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|    1572.10|     411|     421|    1306|    1726|       1
---------------------------------------------------------------------------
  897- 1185 (379.15/188.01)	...............................................................K.DFSY.VYK..PENCQVLVGC.SMFAPLKSLPSQC.LP...PI.KLPEECIYR...........QSWTVGKlELLPSGPA............VPFIKEGDGST............IDQEYGP..AYTPQTHTSFGMP....PSS.....APPSNSGAGilpSPSTPRFPTPRTPRTPRTPRAGgpASAQGSVKYENSDLYSP....ASTPS........TCRPLNS.VEPATVPSIPEAHSLYVNLI.............................................LSESVMNLFK....DCNFDSCCIcvcnmNIKGADVgVYIPDPVQEAQYRCTCGFSAV.......MNRKFGNNSGLF...LEDELDIigRNTECGKE..AEKRFEAL..RATSAEH..VNgGLKESeKFPD......
 1306- 1725 (668.67/364.33)	PlTWQQFHKMAGRGSYGTDESPEPLP.IPTFLLGYDYDFlVLSPFALPYWErlMLEPYG..SQR.DIAYVVLC..PENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMR...........VGSTASK.KLSEKLVA............EWFSQAADGNNEAFSKlKLyAQVCRYDLGPYLASQPLDSSLLSQPNLVAPTSQ.SLITPPQMTSTG...NANTPSATLASAASSTMTMTSG..VTMSSSVATANSTLTTT....ATSSS........SSSNLNSgVSSNKLPSFPPFGSMNSNATGSMSTqASTVQNG.QLGGQQSSALPtAGISGESSSLPTQ..PHPDVSESTMDRDK.VGIPTDGDSHAI.....TYPPAIV.VYIIDPFTYENKEESTNSSNVWT...LGLLRCFLEMVQTLPPHIKSTVSV..QIVPCQYL..LQPVKHED..RQIYTQH..LK.SLAFS.AFTQCRRP.L
 1726- 2156 (524.28/266.03)	P.TSTNVKTLTGFGPGLAMETALKSPdRPECIRLYTPPF.ILAPVKDKQTE..LGETFGeaGQKyNVLFVGYClsHDQRWILASCTDLYGEL...LETCIINIDVPNRARRKKGSARrfglqklwewcLGLVQMS.SLPWRVVIgrlgrighgelkDWSSLLSRRNLQSLSK.RL.KDMCRM.CGISAADSP...SILS.ACLVAMEPQgSFVIMPDSVSTG...SVFGRSTTL........NMQT......SQMLNTPQDTSCTHilvfPTSASvqvasatyTTENLD........LAFNP....NNDGADGMGI.FDLLDTGdDLDPDIINILP.ASPTGSPVHSPGShyPHGGDAGKGQGTDRlLSTESHDEVTNI.....LQQPLAL.GYFV.....STAKAGPLPDWFWSacpQAQYQCPLFLKASLHLHVPSVQSD..ELLHSKHShpLDSNQTSDvlRFVLEQYnaLS.WLTCD.PAIQDRRScL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     199.85|      44|      61|     463|     506|       2
---------------------------------------------------------------------------
  200-  245 (53.41/24.18)	..SNSPFQVILSPFGLNGTLTGQAFKMSDSA..TKKligewkqFY....PISSC
  463-  506 (75.73/37.37)	EKSEKPQKRPLTPFHHRISVSDDIGMDTDSA..SQR.......LV.ISAPDSQV
  526-  570 (70.71/34.41)	EMANSPQPPPLSP..HPCDVVDEGVTKTPSTpqSQH.......FYqMPTPDPLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     145.47|      43|     282|       6|      52|       3
---------------------------------------------------------------------------
    6-   52 (80.06/61.84)	VPNGASLEDCHCNLFCLadltGIKWKRYVWQGPT.SAPILFPVT..EE....DP
  290-  339 (65.41/41.07)	IPTPSSVGSSHCSASCL....GVHQVPASTRDPAmSSVTLTPPTspEEvqtvDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     256.32|      65|     287|     352|     417|       4
---------------------------------------------------------------------------
  352-  417 (107.23/71.02)	SDGFNSDSTSHHGGK.........IPRKLANHVVDRVWQE..CNMNRAPNKRKYSASSGGLSEEEIpDKVASWDFVE
  571-  619 (59.67/33.11)	.........................PSKPMEDRIDGLSQSfpAQFQEAVEPTVYVGTAVNLEEDEA..NIA.WKYYK
  635-  702 (89.42/53.77)	SDKFKDDPVGPFGQEsvtsvtelmVQCKKPLKVSDELVQQ..YQI.....KNQYLSAIASDAEQE..SKIDPYAFVE
---------------------------------------------------------------------------




































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 MDP20488 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CSCLRHKNLKPRNPGQQGQAPSLSQQQQVLPKHKTNEKQEKSEKPQKRPLTPFHHRISVSDDIGMDTDSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDRIDGLSQSFP
2) DLDNLFNSDEDELTPGSKKSANGTDDKSSSKESKTGNLDP
3) FPDKKERQNSEREAVKKHKVEDGPSSVTVLSHEE
4) GSPVHSPGSHYPHGGDAGKGQGTDRLLSTESH
5) TIDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRAGGPASAQGS
6) TSGVTMSSSVATANSTLTTTATSSSSSSNLNSGVSSNKLPSFPPFGSMNSNATGSMSTQASTVQNGQLGGQQSSALPTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGD
7) VAPTSQSLITPPQMTSTGNANTPSATLASAASSTM
424
782
709
2021
967
1516
1479
587
821
742
2052
1032
1628
1513










Molecular Recognition Features






MoRF SequenceStartStop




NANANA