<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 MDP02000

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceSGIPLFDTTPTFVPLYELITQFELSKEADPLPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLISKIAFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTVLKEDSPGILQFEVCPLSDSCFSVSFQHPVNDSLVCVVMDVQDSTHVNCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGSNPMSGTTTPTNTFPGGPITTLFNMSISMKERHDSVGHGEDFSKVSQNPILTSLLQITGNVGSTIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLKENPPQDFSTLYGSSPLERQNSSSGSPRMEMGPGVNKQKKKKSRVPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHSQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPTANEDCPPIGTPVRDSSSSGHSQSALFDPDVFQTSNSENPYTDPADLIADAAVSPNSDSSNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDTDDFKGYAPQALSTLGVQVLGSDGGENKFKGSSQSDTVDFSIIAAASKALGSSDIMEHHTGGQSPLLNTGDLAKEKSQKRVKEGNGSGSSMAGPGLDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSTSGKIKSSKSEGSSGSKMSSSLYSSQGGSSSGQSKSSAQSVGKPGSSPITKHGLSSGSGSTKMKPQGKPSSLMNPSMSKPNISPSHSRPSGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGAGSSSSMKSSSGMGSSGSMSQKPPPSSNSSTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGPNSNSSSHTMSSKHNMSGGEFQGKREKSDKEKSKVSVSGGSVDSSKKTSDSKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDSLRPQMASSKSYGSPLISGSTPKHERCSPSHGKSPAYTPQNVDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSSEKHKKHKKEKKKVKDKDRDRDRDRDKDRDKKKSHSIKPESWSKSPISADQSLSMTSSAIISAERPSRASPEFLIGEEDDDLMDVALIGN
Length1257
PositionMiddle
OrganismTinamus guttatus (White-throated tinamou)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Palaeognathae> Tinamiformes> Tinamidae> Tinamus.
Aromaticity0.04
Grand average of hydropathy-0.750
Instability index55.81
Isoelectric point8.92
Molecular weight132053.69
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

>MDP02000
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|    1129.55|     162|     162|     663|     824|       1
---------------------------------------------------------------------------
  217-  340 (74.03/11.35)	......................................................................................PPAS..SPGygmttGSNPmsGTTTPTN.TFPGgpittlfnmsismkerhdsvghgedfskVSQNPILTSLLQI.TGNV..............GStIGSSPTPPHHTPPPVSSPA.....SNTKN.HPMLMNLLKENPPQ.DF..................STLY...........GSS
  341-  476 (157.73/32.86)	PLERQ.NS.......SS......GSP.....RM....EMGPGVNKQ...........KKKKSRVPAD.KPKHQT.EDdfqRElF.SMDVD..........SQNP...IFDVNM.TADT............................LDTPHITPAPSQCSTPPTTYPQPIPHSQPSIQRM.VRLSSSDSIGADVTDILSD.....IAEEA.SKLPTANEDCP..........................................
  477-  629 (143.86/29.29)	.........................PiGTPVRD....SSSSGHSQSAL...............FDPD.VFQTSN.SE...NP.Y.TDPADliADA.....AVSP..NSDSSNHfFPDG............................VDFNP..........DLLNSQSQSGFGEEYFDES.SQSGDTDDFKGYAPQALSTlgvqvLGSDG.GE...NKFKGSSQS.DTvdfsiiaaaS........KALGS.SdimehhTGGQS
  652-  813 (276.66/63.41)	SGSSM.AGPG.....LD......GKP.GKRSRT....PSSDGKSKEKL........PKRKKQETDGK.SPSHSS.SN...RP.F.TPPAS..TGG.....SKSP..GSSGRSQ.TPPG............................VATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGS.VTSSSSKSHHSHSSSSSSS.....SSSTS.GKIKSSKSEGSSGS.KM.........S........SSLYS.S......QGGSS
  814-  949 (177.87/38.03)	SGQSK.SSAQ.....SV......GKP.GSSPITkhglSSGSGSTKMK.........PQGK..PSSLM.NPSMS.......KP.N.ISPSH..........SRPS..GGSDK...................................LASPMKP.....VP.GT....PPSSKAK....SP.I...SSGSGGSHMSGAGSS.....SS......MKSSSGMGSSGS..M.........SqkpppssnSSTAS.S......SSFSS
  950- 1093 (145.95/29.83)	SGSSM.SSSQnqhgsSK......GKS.PSRNKK....PSLTA.VIDKLkhgvvtsgPG.GEDPMDGQmGPNSNS.SS...H...........TMS.....SKHN..MSGGEFQ.....................................................GKREKSDKEKSKVS.VSGGSVDS..SKKTSDSKN.....VGSTGvAKIIISKHDGGSPSiKA.........K........VTLQKpG......EGGGD
 1094- 1231 (153.47/31.76)	SLRPQmASSK.....SYgsplisGST.PKHERC....SPSHGKS............PAYTPQNVDSE.SESGSSiAE...KS.YqNSPSS.........................DDG............................I..RPLPEYSSEKHKKHKKEKKKVKDKDRDRDRD.RDKDRDK.KKSHSIKPESW.....S........KSPISADQSLS.MT.........S........SAIIS.A......E....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.19|      25|      53|      30|      57|       2
---------------------------------------------------------------------------
   30-   57 (41.81/40.65)	PLPLN...HNMRfYAALPGQqhCY...FLNKDAP
   81-  111 (36.38/22.94)	PLILNlirHQVA.YNTLIGS..CVkrtVLKEDSP
---------------------------------------------------------------------------




































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 MDP02000 with Med1 domain of Kingdom Metazoa
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