<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 MDP12487

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMISTKKDGEAKINGTNSAVDKADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLAEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPITSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSTVGASHCSTTCLGVHQVPATTRDPAMSSVTLTPPTSPEEVQTAVDAQSAQKWVKFSSVSDGFSSDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETVDKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPASQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEAESASQRLVITAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKAMEDRIDGLSQSFPAQFPEVIEPTIYIGTAVNLEEDEADNTWKYYKVPKKKDVEFLPPPLPCDKFRDDPVVPAGQENLTSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVVSETDQEPEIDPYAFVDGDVEFLFPDNKKERQNNERETGKKHKAEDGTPNVTVLSHEGKDAMSLFSPSVKPEQRTAAHARTASTSLIHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGSDDKPNCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSIGAQFRIEVDEGFCSPKPSEIKDYSYVYKPEICQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWAVGKLELLPPGPAMPFIKEGDGSTMDQEYGPAYTPQTHTPFGMPPNSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGGGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEIQYRCTCGFSAVMNRKFGNNSGLFLEDELDILGRNTEGGKEAEKRFEALRATSVEHGGGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDPIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGSTASKKLSEKLVAEWFSQAANANNEAFSKLKLYAQVCRYELGPYLASQPLDSSLLSQINLVPPTSQSVSTQPQAAATTTNSTLTTTAASSSSTNIGSGLSANKPSSFPPFSSMNSTTSASLPTQATTVQNGQPGGQQQQATLQAAGIPGEASSAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVIYIIDPFTYERKDENSSSSSVWTLGLLRCFMEMVQILPSSIRNIVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGELLETCIINIDVPNRARRKKGSARRLGLQKLWDWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSFLSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTADELDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQSTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQLYNFIMNML
Length2146
PositionMiddle
OrganismAlligator sinensis (Chinese alligator)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Crocodylia> Alligatoridae> Alligatorinae> Alligator.
Aromaticity0.07
Grand average of hydropathy-0.424
Instability index49.81
Isoelectric point5.48
Molecular weight236706.52
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

>MDP12487
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     579.75|     154|     203|     289|     491|       1
---------------------------------------------------------------------------
  289-  454 (254.19/230.14)	IPAP.STVGASHCSTTCLGVHQ....VPATTRDPAMSS..VTLTPPTSPEEVQTAVDAQSAQKWVKFSSV..SDGFSSDSTS..HHGGKIPRKLANQVVDRVWQE..CNMNRAQNKRKYSATSNGLcDEETVDKvaSWDFVEATQRTNCN.......CSRHKNlkprnsgqqGQAPPASQQQQAAP
  499-  654 (218.89/125.24)	ITAPdSQVRFSNIRTN..DVAK....TP.QMHGTEMAN..SPQPPPLSPHPCD.VVD....EGVTKTPSTpqSQHFYQMPTP....DPLVPSKAMEDRIDGLSQSfpAQFPEVIEPTIYIGTAVNL.EEDEADN..TWKYYKVPKKKDVEflppplpCDKFRD.........DPVVPAGQENLTSV
  756-  856 (106.66/48.83)	.PEQ.RTAAHARTASTSL.IHEtdlvVSYTDLDNLFNSdeDELT.PGSKRTVNGS.DDKPNCKESKTGNL...DPLSCISTAdlHKMYPTPPSLEQHIMG..FSP..MNMN...NK......................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     654.45|     205|     515|    1363|    1590|       2
---------------------------------------------------------------------------
 1363- 1590 (312.09/216.37)	LEPYGSqrdvayVVVCPENealLNGAKSFFRDLTAIYESCRLGQHRPI.CkllpDGIMRVGSTASKKL.SEKLVAEWFSQAANANNEAFSKLKLYAQV.CRYELGP....YLASQPLDSSLLSQINLVPPTSQSVSTQPQAAATTTNSTLTTTAASSSSTNIGSGLSANKPSSFPPFssmnsTTSASlPtQAttvQNGQPGGQQQQATLQAAGIPGEASSAPAQPHPEVSESTMD
 1889- 2100 (342.36/189.05)	MEPQGS......FIIMPDS...VSTGSVFGRSTTLNMQTSQLNTPQDTsC....THILVFPTSASVQVaSSTYTTENLDLAFNTNNDGADGMGIFDLLdTADELDPdiinILPASPTGSPVHSPGSHYPHGGDMGKGQSTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDW.....FWSAC.P.QA...QNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     257.28|      80|     515|     662|     744|       3
---------------------------------------------------------------------------
  662-  744 (127.91/92.71)	RKPLKVSDELVQQYQSKNQYLAAVVSETDQEPeIDPYAFVDGDVEFLFPD..N......KKERQNNERETGkkHKAEDGTPNVTVLSHEGK
 1180- 1267 (129.37/83.80)	KEPEKLPDELILLLQDQCTNLFSPFGAADQDP.IPKVGAVSNLVRVEERDccNdcylalEHGRQFMDNMSG..GKVDEALVKSTCLHHWSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.49|      30|     203|     874|     918|       4
---------------------------------------------------------------------------
  874-  906 (49.98/49.10)	SSSIGaqfRIE.VDEGFCSP..KPSEI....KDYSYVYKP
  943-  979 (43.51/15.26)	SWAVG...KLElLPPGPAMPfiKEGDGstmdQEYGPAYTP
---------------------------------------------------------------------------




































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 MDP12487 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FPDNKKERQNNERETGKKHKAEDGTPNVTVLSHEGKDAMSLFSPSVKPEQRTAAHARTAST
2) GPAMPFIKEGDGSTMDQEYGPAYTPQTHTPFGMPPNSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGGGGPASAQGSVKYENS
3) GSPVHSPGSHYPHGGDMGKGQSTDRLLSTESH
4) NCNCSRHKNLKPRNSGQQGQAPPASQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEAESASQRLVITAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKAMEDR
5) NLFNSDEDELTPGSKRTVNGSDDKPNCKESKTGN
6) VPPTSQSVSTQPQAAATTTNSTLTTTAASSSSTNIGSGLSANKPSSFPPFSSMNSTTSASLPTQATTVQNGQPGGQQQQATLQAAGIPGEASSAPAQPHPEVSESTMDRDKVGVPTDGD
709
955
1993
423
786
1483
769
1040
2024
578
819
1601










Molecular Recognition Features






MoRF SequenceStartStop




NANANA