<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 MDP13133

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPTTVGASHCSTTCLGVHQVPPSTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGLISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLSQPFPAPFPEVIEPTMYVGTAVNLEEDEADTTWKYYKVPKKKDVEFLPPQLPNDKLRDDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVATEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNMEREAGKKHKAEDGTSSVTVLSHEGEDAMSLFSPSVKQDAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGADDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSVEHGSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDSIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLVPPSSQPAPALPAVTAGAGNPNTPSAAPAAPASSTVTATSNSAMSSAATTANSTLTTTAPASSSATIGSGMPTNKPSSFPPFPSMNNTAPASLPAQAATVQNGQAGGQQQQPALQTTGMAGDAASAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2179
PositionMiddle
OrganismPatagioenas fasciata monilis
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Columbiformes> Columbidae> Patagioenas.
Aromaticity0.07
Grand average of hydropathy-0.399
Instability index51.63
Isoelectric point5.40
Molecular weight239361.62
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

>MDP13133
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     218.30|      62|      71|     926|     994|       1
---------------------------------------------------------------------------
  921-  954 (26.98/15.42)	.....................................PLKTLPSQCLPPI.......KLPEECIYRQSWTvgkldllP
  955- 1023 (113.75/49.77)	PGPAMPFIKDGDGSTMDQE.YGPAYTPQTHTPF.GMPPSSAPPSNSGAGIlpspstpRFPTPRTPRTPRT.......P
 1024- 1065 (45.70/14.02)	RGAGGPASAQGSVKYENSDlYSPASTPSTCRPLnSVEPATVP....................................
 1490- 1518 (31.88/ 7.04)	PAPALPAVTAGAGNPNTPS.AAPA.APASST...............................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.62|      13|      77|     625|     637|       2
---------------------------------------------------------------------------
  625-  637 (25.87/15.24)	DVEFLPPQLPNDK
  704-  716 (24.76/14.20)	DVEFLFPDSKKDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     148.34|      41|      62|     466|     506|       4
---------------------------------------------------------------------------
  466-  493 (40.60/20.49)	....................................DK.PQKRPLTPFHHRVS....ISDDVAMEADSA
  494-  554 (57.65/33.06)	SQRLV.MTAPDSQVrfsnirtndvaktpqmhnaemaNS.PQPPPLSP..HPCD....VVDEGVAKAPST
  557-  611 (50.10/27.50)	SQHFYqMPTPDPLV.............ptktmedrlDGlSQPFP.APFPEVIEptmyVGTAVNLEEDEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.28|      12|      64|    1532|    1544|       6
---------------------------------------------------------------------------
 1532- 1543 (19.98/11.46)	TTANSTLTTTAP
 1548- 1559 (22.30/ 8.18)	ATIGSGMPTNKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     153.57|      47|     712|     849|     896|       8
---------------------------------------------------------------------------
  849-  896 (80.48/58.31)	FSPM.NMNNKEYGSMDTTlGGTVLEGNSSSVGAQFRIEVD..EGFCSPKPA
 1562- 1611 (73.09/47.94)	FPPFpSMNNTAPASLPAQ.AATVQNGQAGGQQQQPALQTTgmAGDAASAPA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.72|      41|    1064|     660|     701|      12
---------------------------------------------------------------------------
  660-  701 (68.81/43.30)	QCRKPLKVSDElVQQYQSKNQYLA.AVATEADQEPE.IDPYA..FV
 1726- 1770 (60.91/33.89)	QCRRPLPTSTN.VKTLTGFGPGLAmETALKSPDRPEcIRLYTppFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     203.58|      63|     265|      46|     115|      13
---------------------------------------------------------------------------
   46-  115 (110.02/97.84)	PVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRelWI.FWWGDDPNFAD.LIHH......DLSEE.EDGVWEnglsyEC
  312-  383 (93.56/65.50)	PPSTRDPAMSSVTLTPPTSPEEVQTVDAQSAQK..WVkFSSVSDGLISDsTSHHggkiprKLANQvVDRVWQ.....EC
---------------------------------------------------------------------------




































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 MDP13133 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DSKKDRQNMEREAGKKHKAEDGTSSVTVLSHE
2) GPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENS
3) GSPVHSPGSHYPHGGDMGKGQGTDRLLSTESH
4) LSQTNLVPPSSQPAPALPAVTAGAGNPNTPSAAPAAPASSTVTATSNSAMSSAATTANSTLTTTAPASSSATIGSGMPTNKPSSFPPFPSMNNTAPASLPAQAATVQNGQAGGQQQQPALQTTGMAGDAASAPAQPHPEVSESTMDRDKVGVPTDGD
5) NCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLSQPFPA
711
956
2026
1478
423
742
1041
2057
1634
588










Molecular Recognition Features






MoRF SequenceStartStop




NANANA