<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 MDP05529

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEDMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPXTVGASHCSTTCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETAEKIACWDFVEATQRTNCSCSRHKXLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLSQPFPAQFPEVIEPTMYVGTAVNLEEDEADTTWKYYKVPKKKDGEFLPPQLPDDKWRDDPVIPAGQENLTSVTELMVQCRKPLKVSDELVLKYQSKNQYLAAVATEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNIEREAGKKHKAEDGTSGVTVLSHEGEDAMSLFSPSVKQDAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRIVNGTDDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQAFVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWAVGKLDLLPPGPAMPFIKDGXGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKXENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTLEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSIEHGSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDSIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQINLVPPSSQPASALPPVTANTGNPNTPSSAPAAPTSSTITVTSNSAMSSAATTANSTLTTTAPSSSSANLGSGIPTSKPSSFPPFSSMNNTTSASLPPQAATVQNGQTGGQQQQPTLQTAGMSGDATSAPAQPHPEVSESTMDRDKVGVPTDGDSHAVTYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFILNML
Length2179
PositionMiddle
OrganismAmazona aestiva (Blue-fronted Amazon parrot)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Psittaciformes> Psittacidae> Amazona.
Aromaticity0.07
Grand average of hydropathy-0.395
Instability index51.90
Isoelectric point5.42
Molecular weight239205.47
Publications









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

>MDP05529
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     198.84|      40|      40|     984|    1023|       1
---------------------------------------------------------------------------
  984- 1022 (72.98/29.59)	........TPF.GM.PPSSAPPSNS..............GAGILPSP.STPRFPTPRTPRT.PRT
 1023- 1063 (44.40/15.03)	P..........rGAgGPASAQGS.............vkxENSDLYSPaSTPSTCRPLNSVE.PAT
 1485- 1513 (35.40/10.45)	....................PPSSQ..............PASALP.P.VTANTGNPNTPSSaPAA
 1514- 1572 (46.05/15.88)	PtsstitvTSN.SA.MSSAATTANStltttapssssanlGSGI.PT..SKPSSFPPFSSMN.NTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     155.39|      39|      40|    1119|    1157|       2
---------------------------------------------------------------------------
 1119- 1143 (37.47/21.46)	.................E.AQYRCT.CGFSAVMNRKF.GNSSGLF
 1144- 1180 (50.51/31.92)	LEDELDILGRNTEC.gkE.AEKR.....FEALRATSI.EHGSGGL
 1186- 1209 (30.01/15.47)	LPDEL.IL..........lLQDQCT.NLFS.....PF.GAAD...
 1210- 1250 (37.40/21.40)	.QDSIPKVGAVSNLvrvE.ERDCCNdCYLALEHGRQFmDNMSG..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.00|      12|      40|     708|     719|       3
---------------------------------------------------------------------------
  708-  719 (23.02/14.96)	LF.PDSKKDRQNI
  749-  761 (17.98/ 9.80)	LFsPSVKQDAQRI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.41|      26|      68|     815|     852|       4
---------------------------------------------------------------------------
  780-  822 (27.65/26.96)	VSYTDLDNLFNsdedelTPGS..KRIVNgtddksnckEakAGNLD
  827-  863 (38.76/32.64)	ISTADLHKMYP......TPPSleQHIMGfspmnmnnkE..YGSMD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     598.81|     192|     263|      46|     257|       5
---------------------------------------------------------------------------
   46-  257 (309.25/259.58)	PVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRelWI.FWWGDDPNFAD.LIHH......DLSEE.EDGVWEnglsyEC..RTLLFKAVHNLLERCLMNRNFV.RIGKW.FVKPYEKdekpinksEHLSCSftffLHGdSNVCTSVEISQHQPV...YLLSEEHLTLAQQ..SNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEDM
  312-  522 (289.56/197.78)	PASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQK..WVkFSSVSDGFISDsTSHHggkiprKLANQvVDRVWQ.....ECnmNRAQNKRKYSATSNGLCDEETAeKIACWdFVEATQR........TNCSCS....RHKxLKPRNSGQQGQAPPVgqqQQAAPKHKTNEKQdkGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.51|      17|      18|    1594|    1610|       6
---------------------------------------------------------------------------
 1594- 1610 (27.58/15.20)	QPTLQTAGMSGDATSAP
 1614- 1630 (29.93/17.22)	HPEVSESTMDRDKVGVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.66|      15|      40|    1423|    1437|       7
---------------------------------------------------------------------------
 1423- 1437 (24.76/12.80)	GP.TASKKLSEKLVTE
 1465- 1480 (21.90/10.46)	GPyLASQPLDNSLLSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     178.24|      61|    1064|     630|     706|       8
---------------------------------------------------------------------------
  562-  627 (96.03/55.19)	QMP....TPDPLVPTKtmEDRLDGLS....Q...PFPAQFPEVIE...PTMYVgTAVNLEEDEADTTWKYYKVpkKKDGE
  632-  706 (82.20/88.18)	QLPddkwRDDPVIPAG..QENLTSVTelmvQcrkPLKVSDELVLKyqsKNQYL.AAVATEADQEPEIDPYAFV..DGDVE
---------------------------------------------------------------------------




































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 MDP05529 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CSCSRHKXLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLSQPFP
2) GPAMPFIKDGXGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKXENSDLYSPASTPST
3) GSPVHSPGSHYPHGGDMGKGQGTDRLLSTESH
4) VPPSSQPASALPPVTANTGNPNTPSSAPAAPTSSTITVTSNSAMSSAATTANSTLTTTAPSSSSANLGSGIPTSKPSSFPPFSSMNNTTSASLPPQAATVQNGQTGGQQQQPTLQTAGMSGDATSAPAQPHPEVSESTMDRDKVGVPTDGD
424
956
2026
1484
587
1052
2057
1634










Molecular Recognition Features






MoRF SequenceStartStop




NANANA