<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 MDP01644

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceETEKLNKMSTLLERLHTKYNQNRPWTETMKLVRQVMEKRVVMNSGGHQHLVSCLETLQKALKVSSLPAMTDRLESIARQNSLGSHLSANGTECYITSDMFYVEVQLDPTGLLCDVKVAHHGENPVSCPELVQHLREKNFDEFSKHLRGLVNLYKLPGDNKLKTKMYLALQSLELDLSKMAGMYWQATNANPLDKILHGSVGYLTPRSGGLLMNLKYYVSPYDLFEDGTGAPVILHENNVPRSLGMNVSVTVEGTMAMYKLPIAPLIMGSHPVDSKGTPSFSSITSANSVDLPACFFLKFPRPIPVSRAFIQKLQGCTGIPLFDTPPTFVPLYELITQFELSKEADSLPLNHNMHFYAALPGQQHCYFLNKDAPLPDGRSLQGTLISKIAFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTVLKEDSPGILQFEVCPLSDSCFSVSFQHPVNDSLVCVVMDVQDSTHVNCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGSNPMSGTTTPTNTFPGGPITTLFNMSISMKERHDSVGHGEDFSKVSQNPILTSLLQITGNVGSAIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLKENPPQDFSTLYGSSPLERQNSSSGSPRMEMGPGGNKQKKKKSRMPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHSQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPTTNEDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNSENPYTDPADLIADAAVSPNSDSSNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDTDDFKGYASQALTTLGVQVLGADGGENKFKGSAQSDTVDFSIIAAASKALGSSDIMEHHSGGQSPLLSTGDLGEKSQKRVKEGNGSGSNLAGPGIDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSSTSGKIKSSKSEGSSGSKMSSSLYSSQGSSSSGQSKSSAQSVGKPGSSPITKHGLSSGSGSTKMKPQGKPSSLMNPSMSKPNISPSHSRPTGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTGSSSSMKSSSGMGSCGSMSQKPPPSSNSSTASSSSFSSGGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGDDPMDGQLGPSSNSSSHTISSKHNMSGGEFQGKREKSDKEKSKVSVSGGAVDSSKKTSDSKSVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDSLRPQMASSKSYGSPLISGSTPKHERCSPSHSKSPAYTPQNIDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSSEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSMKPESWSKSPISADQSLSMTSSTILSAERPSRASPEFLIGEEDDDLMDVALIGN
Length1571
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.
Aromaticity0.05
Grand average of hydropathy-0.633
Instability index54.37
Isoelectric point8.81
Molecular weight166918.68
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

>MDP01644
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            11|    1033.11|     109|     109|    1105|    1213|       1
---------------------------------------------------------------------------
  534-  616 (59.19/10.64)	......PA..SSP.......GYGM.TTG.......................................................SNPMSGT..................TTP.TNTFPGGPittlfnmsISMKER...............hdsvgHGE...DFSKV.........SqnpilTSLLQIT..GNvgSA..IG..SSPTP
  617-  720 (96.49/21.91)	PHHTPPPV..SSP................ASNT.KNHP..M.........LMN.....LLK.EN............PPQD...FSTLYGSSP........LerqnsssGSPrMEMGPGGN........KQKKKKS.......rmPADKP.....KHQ...TEDDF.........Q.....RELFSMD..VD..SQ..NPifDVNMT
  721-  822 (100.30/23.06)	ADTLDTPH..ITP..A...P.....SQC.STPP.TTYP..QP...IPHS...QPS...IQRmVRL...........SSSD...SIGADVTDI........L.......SDI.AEEASKLP........TTNEDCP...pigtpvRDSSS.....SGH...SQSAL........fD.....PDVF.................QTNNS
  823-  946 (85.22/18.50)	ENPYTDP...ADL..I...ADAAV.SPN.SDSSnHFFP..DGvdfNP.D.LLN.S...QSQ.SGF...........GEEYfdeSSQSGDTDDfkgyasqaL.......TTL.GVQVLGA.........DGGENKF.........K..........GS...AQSDTvdfsiiaaaS.....KALGSSDimEH..HS..GG..Q..SP
  947- 1038 (69.51/13.76)	LLSTGDLGekSQK..R...VKEG...NG.SGSN.LAGPgiDG...KPGKrSRTPSsdgKSK.EKLpkrkkqetdgkSPSH...S.........................SS.NRPF..TP........PASTGGS.........KSPGS.....SGR............................SQ...................
 1039- 1136 (108.77/25.62)	..T..PPGvaTPP..I...PKITI.QIP.KGTV.TV.....G...KPSS...........H.GQY...........TSSG...SVTSSSSKS........H.......HS.........H........SSSSSSSsssstsgkiKSSKS.....EGS...SGSKM.........S.....SSLYSSQ..GS..SS..SG..QSKSS
 1137- 1235 (169.65/44.01)	AQSVGKPG..SSP..I...TKHGL.SSG.SGST.KMKP..QG...KPSS.LMNPS...MSK.PNI...........SPSH...SRPTGGSDK........L.......ASP.MKPVPGTP........PSSKA...........KSPIS.....SGS...GGSHM.........S.....GT.......GS..SS..SM..KS...
 1236- 1287 (75.98/15.71)	..........SS..........G..M....GSC........G............S...MS...................Q.................................K..P..P........PSSNSST.........ASSSS.....FSS...GGSSM.........S.....SS..QNQ..HG..SS..KG..KSPSR
 1288- 1370 (80.19/16.99)	NK...KPS..LTA..VidkLKHGVvTSGpGGDD.PMDG..QL...GPSS.....N...SSS.HTI...........SSKH...N..MSGGE.....................FQ..GKRE........KSDKEKS.........KVS.....................................VSG..GA..VD..SS..KKTSD
 1371- 1450 (88.17/19.39)	SKSVGSTG..VAKiiI...SKH...DGG.SPSI.KAK................VT...LQK.PG......................EGGGDS........L..............................RPQM.........ASSKS.....YGSpliSGSTP.........K.....HERCSPS..HS..KS..PA..YTPQN
 1451- 1549 (99.64/22.86)	IDSESESG..SSI..A...EKSYQ.NSP.SSDD.GIRP..LP...EYSS.EKHKK...HKK.EKK...........KVKD...KDRDRDRDK.....................................DRDKKK........sHSMKP.....ESW...SKSPI.........S.....ADQSLSM..TS..STilSA..ERPSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     286.17|      82|      98|     323|     406|       2
---------------------------------------------------------------------------
  294-  347 (82.03/52.69)	.....................CFFLKFPRPIPVSRAF....IQKL..QGCTGIPL.........................fDTPPTFVPLYEL.ITQFELSKEADSL
  348-  441 (110.03/84.24)	PLNHNMhFYAALPGQQ..H..CYFLNKDAPLPDGRSLQGTLISKIAfQHPGRVPLILNLIRHQvayntligscvkrtvlkeDSP.........gILQFEVCPLSDSC
  449-  522 (94.11/62.05)	PVNDSL.VCVVMDVQDstHvnCK.LYKG..LSDALICTDDFIAKVV.QRCMSIPVTMRAIRRK.................aETIQADTPALSL.IAE..........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     237.88|      77|     102|     106|     193|       3
---------------------------------------------------------------------------
  106-  193 (121.05/98.49)	LDPT..GLLCDVK..VAHHG..ENPVSCPeLVQHlrEKNFD.....EFSKHLRGLVNLYKLPgdnklktKMYLALQSLELDlSKMAGMYWQATNANPLD
  203-  290 (116.84/69.55)	LTPRsgGLLMNLKyyVSPYDlfEDGTGAP.VILH..ENNVPrslgmNVSVTVEGTMAMYKLP.......IAPLIMGSHPVD.SKGTPSFSSITSANSVD
---------------------------------------------------------------------------




































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 MDP01644 with Med1 domain of Kingdom Metazoa
Unable to open file!