<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.
ECO:0000256	RuleBase:RU364059
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
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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
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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 MDP01644 with Med1 domain of Kingdom Metazoa

Intrinsically Disordered Regions

IDR SequenceStartStop
1) ALGSSDIMEHHSGGQSPLLSTGDLGEKSQKRVKEGNGSGSNLAGPGIDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSSTSGKIKSSKSEGSSGSKMSSSLYSSQGSSSSGQSKSSAQSVGKPGSSPITKHGLSSGSGSTKMKPQGKPSSLMNPSMSKPNISPSHSRPTGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTGSSSSMKSSSGMGSCGSMSQKPPPSSNSSTASSSSFSSGGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGDDPMDGQLGPSSNSSSHTISSKHNMSGGEFQGKREKSDKEKSKVSVSGGAVDSSKKTSDSKSVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDSLRPQMASSKSYGSPLISGSTPKHERCSPSHSKSPAYTPQNIDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSSEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSMKPESWSKSPISADQSLSMTSSTILSAERPSRASPEFLIGEEDDDL
2) KNLPPASSPGYGMTTGSNPMSGTTTPTNTFPGGPITTLFNMSISMKERHDSVGHGEDFSKVSQNPILTSLLQITGNVGSAIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLKENPPQDFSTLYGSSPLERQNSSSGSPRMEMGPGGNKQKKKKSRMPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHSQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPTTNEDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNSENPYTDPADLIADAAVSPN
930
530
1563
841

Molecular Recognition Features

MoRF SequenceStartStop
1) FGEEYF
2) IPKITIQIPKGT
3) IRPLPEYSSEKHKKHKKEKKKVKDKDRDR
4) NKKPSLTAVIDKLKHGVV
5) RASPEFLIGEEDDDLMDVALIGN
6) SIKAKVTLQK
7) VAKIIISKH
8) YGSPLI
868
1048
1476
1288
1549
1393
1379
1421
873
1059
1504
1305
1571
1402
1387
1426