<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 MDP27784

Description Mediator of RNA polymerase II transcription subunit 13
SequenceFLQADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISSCLKEMSEDKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGSSHCSTSCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQNKRKYSASSAGLCEEETADKVTSWDFVEATQRTNCCCSRHKNLKPRNSGQPGQALSLSQQQQVLAKHKTNEKQEKSEKPQKRPLTPFHHRVSISDDVVMDTDSASQRLVISAPDSQVRFSNIRTNDVAKTSQMHGTEMANSPQPPPLSPHPCDVADEGVTKTPSTPQSQHFYQMPTPDPLVPSKLMEDRIDSLSQAFPAQFQEAVEPTIYVGAAVNLEEDEANIVWKYYKVPKKKDVEFLPPQLPSDKFKVKNSMSHVSIVLVILLNYSMKVILIWDDFLSPPTQRFPILFWSVFPFPQTEQKYFGENNKKEPKIDPYAFVEGDEEFLFPDKKDRQNNEREAGKKQKVEDGSSSVTVLSHEEDAMSLFSPSIKLTNVDALRPTSHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTVSIPLMIKPGSKKLANGSDDKSNCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGNMDTTPGGTVLEGNSCSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLELLPSGPAMPFIKDRYGLDPGDASDGSAMDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTECGKEAEKRFEALRTTEHVNGGLKESEKLPDELILLLQDQCTNLFSPFGAADKDPFPKIGVVSNWVRVEERDYCNDCYLALEHGRQFMDNMSGGKVDEVLVKSSCLHPWSKRNVVIDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLSYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMRVGSTASKKLSEKLVAEWFSQTADGNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLSQPNLVAPTSQSLITPPQMTNTGNANTPSATLASAASSTMTVTSVATANSTLTTTSTSSSSSSNLNSGVSNKLPSFPPFGSLNSSAAGSMSTQNGQLGGQQSSALQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNNRARRKKGSARRFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCKMCCISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNADGMGFFDLLDTADDLDPDIINIIPASPTGSPVHSPGSHYPHGVDAGKHLKKLKGLGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFSKASLHLHVPSVQSDELLHSKDSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2177
PositionMiddle
OrganismMyotis lucifugus (Little brown bat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Chiroptera> Microchiroptera> Vespertilionidae> Myotis.
Aromaticity0.08
Grand average of hydropathy-0.373
Instability index50.90
Isoelectric point5.62
Molecular weight241034.17
Publications
PubMed=21993624

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. 
GO - Cellular Component
mediator complex	GO:0016592	IEA:Ensembl
nucleoplasm	GO:0005654	IEA:Ensembl

GO - Biological Function
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl

GO - Biological Process
cholesterol homeostasis	GO:0042632	IEA:Ensembl
negative regulation of DNA-binding transcription factor activity	GO:0043433	IEA:Ensembl
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl
triglyceride homeostasis	GO:0070328	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27784
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|    1485.11|     435|     485|     498|     980|       1
---------------------------------------------------------------------------
  228-  577 (394.85/215.05)	.....................................................................................................................................................................KEMSEDKQED...MD.....WEDD.......SL.....AAVEVLVAGVRMIYPACFVlVPqsdiPTPSSVGSSHC.STSCLG..VHQVPASTRDPAMSSVTL.TPPTSPEEVQTVDPQSAQKWVKFSSVsDGFNSDSTS..HHG.....GKIPRKLAN............HVVDrvWQECNMNraqNKR..KYSASSA.....................GLCEEETADkVTswDFVEA.TQRTNC....CC.SRHKNLKPrnsgQPGQA.L....SL.SQQQQVLakHKTNEKQEKSEKPQKRPLTPFhhrvsISD..................DVVMDTDSAS...QRlviSAPDSqvrfsnirtndvAKTSQMHGT.EMANSPQPPPLS.....PHPcDVADEGVTKTPSTPQSQHFYQMPTPdplVPSKLMEDRIDSLSQA.FPAQFQ..EAVEP
  578- 1069 (688.77/453.59)	TIYVG.....AAVNLEE....DEANIVWKYYKVpKKKDVEFLPPQlPSDKFKVKNSMShvsivlvillnysmkviliwddFLSPPTQRFP....IlfwsvfpFPQTEQKYFGENNK..KEPK.....IDPYAFVEG..DEEFLFPDK.....KDRQNN.EREAGKKQKVEDGSSSVTVLS.....HEED.....AMSL.....FSPSIKLTNVDALRPTSHA.RP....PSTSLIYDSDL.AVSYTD..LDNLFNSDEDELTVSIPLmIKPGSKKLANGSDDKSNCKESKTGNL.DPLSCISTADLHKM.....YPTPPSLEQ............HIMG..FSPMNMN...NKEYgNMDTTPGgTVLEgnscSIGAQFkievdeGFCSPKPSE.IK..DFSYV.YKPENCQVLVGC.SMFAPLKT....LPSQC.LP...PI.KLPEECI..YRQSWTVGKLELLPSGPAMPF.....IKD..................RYGLDPGDAS...DG...SAMDQ........eygpAYTPQTHTSfGMPPSSAPPSNSgagilPSP.STPRFPTPRTPRTPRTPRGAGGPAS...AQGSVKYENSDLYSPAsTPSTCRplNSVEP
 1080- 1513 (401.48/214.20)	SLYVNlilseSVMNLFKdcnfDSCCICVCNMNI.KGADVGVYIPD.PTQEAQYRCTCG......................FSAVMNRKFGnnsgL.......FLEDELDIIGRNTEcgKEAEkrfeaLRTTEHVNGglKESEKLPDElilllQDQCTNlFSPFGAADK..DPFPKIGVVSnwvrvEERDycndcYLALehgrqFMDNMSGGKVDEV.................LVKSSCLhPWSKRNvvIDVSMQCSQDILRMLLSL..QP...VLQDAIQKKRTVR..PWGVQ.GPL...TWQQFHKMagrgsYGTDESPEPlpiptfllsydyDFLV..LSPFALP...YWER.........LMLE....PYGSQR....................DIAYVvLCPENEALLNGAkSFFRDLTA....IYESCrLGqhrPIsRLLTDGI..MRVGSTASK.KLSEKLVAEWF.....SQTadgnneafsklklyaqvcRYDLGPYLASqplDS...SLLSQ.pnlvaptsqslITPPQMTNT.GNANTP.........................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     330.66|      79|     354|    1544|    1627|       2
---------------------------------------------------------------------------
 1544- 1622 (131.06/70.50)	SSSSSNLNSGVSNKLPSFPPFGSL....NSSAAGSMSTQNGQLGGQQSSALQTAGISGESSSL..PTQPHPDVSESTMDRDKVGI
 1901- 1982 (109.58/56.96)	SAADS..PSILSACLVAMEPQGSFvimpDSVSTGSVFGRSTTL.NMQTSQLNTPQDTSCTHILvfPTSASVQVASATYTTENLDL
 1998- 2058 (90.02/50.33)	LDTADDLDPDIINIIPA.SPTGSP....VHS.PGS.HYPHGVDAGKHLKKLK..GL.GTDRLL..STESHDEV............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     172.97|      53|      69|    1645|    1703|       4
---------------------------------------------------------------------------
 1646- 1703 (81.62/65.53)	TYENKDESTnSSNVWTLGLLRCFLEMVQTL.PPHIKSTVSVQIVPcqYLLQPVKheDRQ
 1718- 1771 (91.35/59.33)	TQCRRPLPT.STNVKTLTGFGPGLAMETALkSPDRPECIRLYTPP..FILAPVK..DKQ
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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 MDP27784 with Med13 domain of Kingdom Metazoa
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