<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 MDP01436

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMAAGPGVSMQSGSPARELSISVQQGSSQTFGERIKTEDVTEAEKQSRMAALLERLHAKHNASRPWEGTINVVRQAMEKRSVMNEAGHQLLLNCLETLQRALKVSSLPSMTDRLESIARQNMLGSHLSTTKTECYITSDMFYVEVQLDTGGQLVDVKVAHQGENPTSCSELIQHLSEKNFEAFSKHLKGLVDLYRLPGDNKLKTKMYIALQSLELDLTKMMTMFRLATNANTVETILHGSVGWLTPRSGGNLVSLQCYVSPYDIFEVETGSQLSLPDNNVPRSLGVSVSVTIEGTSAVYKLPIAPLITGSHPVDNKGTPSFSTVSNSNSVDLPACFFLKMNRPMPFSLSFIQRLGSATSIPVFETPPPLSLLYQLIVQSQLQLLEEGSATPATLNNMHFYSILPDQHHCYFLNGDAPVQDGHSLQGAMVSKIPFRHPAHVPLLLDIIRHQAAYNTLIGSCVKRTSVKEDSAGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSRQVSCHLYKGPSDALICTDEFITKVVTRCMSIPVTMRAIRRKAETIQADTPALSLIAQTVETMVKNNPPPSGSPPYKMVGGDGTNPMGLPGLTGGNTPTGGGPPGGPNFAGPITSLFGMPRAERQAQGECLTPGGVTGQQPLPQQQQVHSDDYSKVTQNPILTSLLQITGNVGSSPSSQNAPQPHQTPPPTSSPASNTKSHPMLMNLLKDNPTQDFAALYSSSPLERQNSSSGSPRTDSMGGACPSGNTKGKKKRPRGSEKGGVLPGVGAGGGLGMKPQPGSSMPQHLQHHSVSHEDDFHRKLLSMDVDASQNSIFDVNLAGDSLDTHHSITPTLSQCGTPPPGSGMAYSQSHVQTQQQQPGSVPPRIVRLPSSDSIGPDITEILQELPEQTGKGSGGSHGQPEDGGPLGTPIRDSSSSGQGSAVFDSADIFNTNSNENPFTDAADLIAEAAATAATPNSDSSSTNFFPDASDFNPDLLTSGHGFSQSYFDDSSPSADGDMDLVKGFGGGSQQNTPSGTPQNPQHGQSTPEPSLKDPFDMGIVFGGNSGGGKPLLGQAPDLIDTHSGGSQSPLMMGLGGACSDFKTTDPKIKTGLIRPKDENGGNGGSGSGMGSSSAEGKQIKRSRTPSSEGKSKDKPPKRKKLDPDGKSPSHSSGGRPYTPPSGGSGSGGSISGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKGTITGGKTSSHSGYTSSSSATSSTGGVGGTSSSSKSHHSHSSSSGKIKSKEGSMTQSSSSKPGGSGGGGGQSQMKGSSQGMGVAKSGSSPITKHGLSGPGGAGGGMGSGSKIKPQGGKPPGSLMNPNIKPNISPSHSRSSSSGDKLSSPMKMQQSQVPGTPPSSKAKSPIGSGSGSSGGSKSSSGGSSQKPGGGGSSGSTSSSSTSSSGSMSFSGGSQSQYGSGGSGGGGGGNGNEGNGGGSGGGAGQNNSNNPNSKGKSPSRNKKPSLTAVIDKLKSVGSGGVGEDGCEVGTPVGGPGSTSTPCGPGNVPSGPPNVGSSKHSSSSQSGDYKREKSDKDGKAKVMVTGGGSGDKKMMDPKTSGSGGTTLAKIIISKPDGGSPSIKAKVTLQKPGEGSGESIRQQISGLKASPLFSGSTPKHDRSSPSHSRSPGYTPLNQDSESESGSSSVAEKSHQNSPSSDDDQTVRPLPPQDYMSSIPLSSGEKHKKHKKEKKKLKDKERERDRDRDRDRDKEKKKSSMSMGSSSHSTKADSWSRSPISASDSSLSMLGSDRPSRSSPMYMRNEDDDLMDSALTGDF
Length1793
PositionMiddle
OrganismPoecilia formosa (Amazon molly) (Limia formosa)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Cyprinodontiformes> Poeciliidae> Poeciliinae> Poecilia.
Aromaticity0.04
Grand average of hydropathy-0.647
Instability index54.35
Isoelectric point8.76
Molecular weight185397.38
Publications









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: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

>MDP01436
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|    1406.85|     272|     272|    1114|    1385|       2
---------------------------------------------------------------------------
  581-  878 (300.51/55.76)	PPYKMVGG.DGT......NPMGLP....GlT...............GGN.............TpTGGG.......PPG...........GPNFAGPITSLFGMPRAERQaqgecLTP................GGVTGQQPLPQQQQVHSddyskvtqnpilTSLLQITGNV.GSSPSS..QNAPQPHQTPPP..TSSPASNTKshpmlmnllkdnptqdfaalysssplerqnsSSGSPRTDSMGGACPS.......GNTKGKKKRP......RGS...EKG..GVL.PGvGAG....GGL..G..MKPQ.....PGSSMPQHLQHH.SVSHeddfHR......KLLS.MDVDASQnsifdvnLAGdsldthhsitptlsqcgTPP..................PG....SGMAYSQSH.VQTQQ........QQ.PGS......VPPRIVRL.....
  879- 1156 (332.87/62.63)	.PSSDSIGPDITeilqelPEQTGK....G.S...............GGShgqpedggplgtpI.RDSS.....SSGQGSAvfdsadifnTNSNENPFTDAADL...........IAE................AAATAATPNSDSSSTNF............FPDASDFNPD.LLTSGHgfSQSYFDDSSPSA.....DGDMDL...............................VK.....GFGGGSQQNTP....SGTPQNPQHGQ......STPEP......SLKDPF.DMGivfgGNSG.........GGKP...LLGQ..APDLIDTH....SGGSQS..PLMMGLGGACSD.......FKT.................TDPKIKTglirpKDENGgngGSG....SGMGSSSAEGKQIKR........SRTPSSEGKSKDKPPKRKKLDPDGK
 1157- 1416 (467.05/91.11)	SPSHSSGGRPYT......PPSGGS....G.S...............GGS.............I.SGGG.....SKSPGSS.........GRSQTPPGGATPPIPKITIQ.....IPK................GTITGGKTSSHSGYTSS............SSATSSTGGV.GGTSSS..SKSHHSHSSSSGKIKSKEGSMTQ...............................SSSSKPGGSGGGGGQSQM....KGSSQGMGVAK......SGSSPITKH..GLSGPG.GAG....GGMGSGSKIKPQ.GGKPPGSLMNPNIKPNISPSH....SRSSSSGDKLSSPMKMQQSQ.......VPG.................TPPSSKA.....KSPIG..sGSG....SSGGSKSSSGGS...........SQKPGGGGSS..........GSTSS
 1417- 1715 (306.42/57.01)	SSTSSSGSMSF.........SGGSqsqyG.SggsggggggngnegnGGG...............SGGGagqnnSNNPNSK.........GKS..PSRNKKPSL...TAV.....IDKlksvgsggvgedgcevGTPVGG........PGS............TSTPCGPGNVpSGPPNV..GSSKHSSSSQSGDYK.REKS.DK...............................DGKAKVMVTGGGSGDKKMmdpkTSGSGGTTLAKiiiskpDGGSPSIKAkvTLQKPG.E.........GSGESIRQQiSGLKA............SPLF....SGSTPKHDR.SSP...SHSR.......SPG................yTPLNQDS.....ESESG...SSSvaekSHQNSPSSDDDQTVRplppqdymSSIPLSSGEKHKKHKKEKKKLKDKE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     213.49|      67|     178|     292|     361|       4
---------------------------------------------------------------------------
  292-  361 (111.32/68.60)	EGTSAVYKLPIAPLITGS......HPVDNKGTPSFSTVSNSNSVdlpAC.FFLKMNRPMPFSLSFIQR.LGSATSIPV
  467-  541 (102.18/55.88)	EDSAGLLQFEVCPLTDSSfsvsfqHPVNESLVCVVMEVIDSRQV...SChLYKGPSDALICTDEFITKvVTRCMSIPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.94|      19|      24|    1733|    1751|       5
---------------------------------------------------------------------------
 1733- 1751 (35.32/15.59)	SSMSMGSSSHS.TKADSWSR
 1752- 1771 (28.61/11.11)	SPISASDSSLSmLGSDRPSR
---------------------------------------------------------------------------




































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 MDP01436 with Med1 domain of Kingdom Metazoa
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