<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 MDP01649

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPTAVGASHCSTACLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAELANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKAMEDRLDGLPQPFPAQFPEVIEPTMYVGTAVNLEEDEADTTWKYYKVPKKKDVEFLPPQLPNDKLRDDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVATEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNIEREAGKKHKTEDGTSSVTVLSHEGEDAMSLFSPSVKQDAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGADDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSLDTTLGGTVLEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSVEHGSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDSVPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLVPPSSQPASALPPVTANSGNPNTPSSAPAAPTSSTMTVTSNSALSSAATTANSTLTTTAPSSSSANIGSGIPTSKPSSSFPPFSSMNSTTSASLPTQAATVQNGQTGGQQQQPTLQTTAMAGDAPTAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQLYNFIMNML
Length2180
PositionMiddle
OrganismCalypte anna (Anna's hummingbird) (Archilochus anna)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Caprimulgimorphae> Apodiformes> Trochilidae> Calypte.
Aromaticity0.07
Grand average of hydropathy-0.403
Instability index51.64
Isoelectric point5.40
Molecular weight239643.69
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

>MDP01649
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.73|      16|      18|    1528|    1545|       1
---------------------------------------------------------------------------
 1004- 1031 (14.83/ 8.35)	PSpSTprfptprtprtPRTPRGAGGPAS
 1507- 1522 (24.90/ 6.62)	PS.SA...........PAAPTSSTMTVT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     213.65|      60|      62|     468|     529|       2
---------------------------------------------------------------------------
  468-  506 (51.98/25.29)	........................PQKR....................PLTPfHHRVSIS....DD.VAMEADSA..SQRLV.MTAPDSQV
  507-  570 (81.08/41.97)	RFSNIRTNDVAKTPqMHNAELANsPQPP....................PLSP..HPCDVV....DEgVA.KAPSTpqSQHFYqMPTPDPLV
 1565- 1646 (80.59/37.95)	PFSSMNSTTSASLP.TQAATVQN.GQTGgqqqqptlqttamagdaptaPAQP.HPEVSEStmdrDK.VGVPTDGD..SH..A.ITYPPAIV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.00|      12|      40|     708|     719|       4
---------------------------------------------------------------------------
  708-  719 (23.02/15.13)	LF.PDSKKDRQNI
  749-  761 (17.98/ 9.90)	LFsPSVKQDAQRI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.21|      21|      68|     974|     994|       5
---------------------------------------------------------------------------
  974-  994 (44.82/24.75)	YGPAYTPQTHTPF.GMPPSSAP
 1044- 1065 (35.39/17.63)	YSPASTPSTCRPLnSVEPATVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      84.95|      19|      40|     382|     400|       7
---------------------------------------------------------------------------
  342-  354 (15.85/ 6.03)	......AQKWVKFSSVSDG
  382-  400 (34.48/22.85)	ECNMNRAQNKRKYSATSNG
  423-  441 (34.62/22.98)	NCNCSRHKNLKPRNSGQQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.76|      10|      71|    1486|    1495|       9
---------------------------------------------------------------------------
 1486- 1495 (18.94/ 8.64)	PSSQPASALP
 1555- 1564 (19.82/ 9.49)	PTSKPSSSFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     145.64|      46|    1065|     660|     706|      14
---------------------------------------------------------------------------
  660-  706 (77.03/51.80)	QCRKPLKVSDElVQQYQSKNQYLA.AVATEADQEPE.IDPYA..FVDGDVE
 1727- 1776 (68.61/41.44)	QCRRPLPTSTN.VKTLTGFGPGLAmETALKSPDRPEcIRLYTppFILAPVK
---------------------------------------------------------------------------




































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 MDP01649 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DSKKDRQNIEREAGKKHKTEDGTSSVTVLSHE
2) GPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENS
3) GSPVHSPGSHYPHGGDMGKGQGTDRLLSTESH
4) LSQTNLVPPSSQPASALPPVTANSGNPNTPSSAPAAPTSSTMTVTSNSALSSAATTANSTLTTTAPSSSSANIGSGIPTSKPSSSFPPFSSMNSTTSASLPTQAATVQNGQTGGQQQQPTLQTTAMAGDAPTAPAQPHPEVSESTMDRDKVGVPTDGD
5) NCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAELANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKAMEDRLDGLPQPFPA
711
956
2027
1478
423
742
1041
2058
1635
588










Molecular Recognition Features






MoRF SequenceStartStop




NANANA