#=GF ID   Rep_4
#=GF AC   PF05797.6
#=GF DE   Yeast trans-acting factor (REP1/REP2)
#=GF PI   Yeast_TAF; 
#=GF AU   Moxon SJ
#=GF SE   Pfam-B_7680 (release 8.0)
#=GF GA   25.00 25.00;
#=GF TC   28.40 27.90;
#=GF NC   21.70 21.50;
#=GF BM   hmmbuild HMM.ann SEED.ann
#=GF SM   hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
#=GF TP   Family
#=GF RN   [1]
#=GF RM   12177044
#=GF RT   The 2 micron plasmid purloins the yeast cohesin complex: a
#=GF RT   mechanism for coupling plasmid partitioning and chromosome
#=GF RT   segregation? 
#=GF RA   Mehta S, Yang XM, Chan CS, Dobson MJ, Jayaram M, Velmurugan S; 
#=GF RL   J Cell Biol 2002;158:625-637.
#=GF DR   INTERPRO; IPR008897;
#=GF CC   This family consists of the yeast trans-acting factor B and C
#=GF CC   (REP1 and 2) proteins. The yeast plasmid stability system
#=GF CC   consists of two plasmid-coded proteins, Rep1 and Rep2, and a
#=GF CC   cis-acting locus, STB. The Rep proteins show both self- and
#=GF CC   cross-interactions in vivo and in vitro, and bind to the STB DNA
#=GF CC   with assistance from host factor(s). Within the yeast nucleus,
#=GF CC   the Rep1 and Rep2 proteins tightly associate with STB-containing
#=GF CC   plasmids into well organised plasmid foci that form a cohesive
#=GF CC   unit in partitioning. It is generally accepted that the
#=GF CC   protein-protein and DNA-protein interactions engendered by the
#=GF CC   Rep-STB system are central to plasmid partitioning. Point
#=GF CC   mutations in Rep1 that knock out interaction with Rep2 or with
#=GF CC   STB simultaneously block the ability of these Rep1 variants to
#=GF CC   support plasmid stability [1].
#=GF SQ   16
#=GS A7THI0_VANPO/42-212  AC A7THI0.1
#=GS Q01090_KLUWA/11-282  AC Q01090.1
#=GS REP1_YEAST/1-336     AC P03871.1
#=GS REP1_ZYGRO/11-355    AC P13778.1
#=GS REP1_KLULC/27-369    AC P13775.1
#=GS H1PIJ1_9SACH/1-336   AC H1PIJ1.1
#=GS H0H002_9SACH/12-312  AC H0H002.1
#=GS E7KJU5_YEASA/1-199   AC E7KJU5.1
#=GS REP1_ZYGBA/11-356    AC P13776.1
#=GS REP1_ZYGBI/137-282   AC P13777.1
#=GS H2B171_KAZAF/8-320   AC H2B171.1
#=GS REP2_LACFM/2-154     AC P13742.1
#=GS E7KWB6_YEASL/1-336   AC E7KWB6.1
#=GS O43094_TORDE/33-344  AC O43094.1
#=GS C5DT21_ZYGRC/11-355  AC C5DT21.1
#=GS A5LQV4_STRPN/1-30    AC A5LQV4.1
A7THI0_VANPO/42-212             .............................lgvdid--------------------------TNEIITVAELLKIPKEYMKCIFLALYYVDRQTQKFGIGIL-DEF..EWIKPIETVVMLLSDPLLHLQLanKNIDGTIYIKDMEKYFSRLDLMPSSK..MLDGTNSSKNRKQVVR-IGLEGIR-GDGKEELSSFLKLMRSYNEFKQHYPFNTRFALIFTN----.-------------------------------..-----..---------------------------------......................-----------------------------------------------------------.-----------------.-----------etnndsieglsda.......
Q01090_KLUWA/11-282             ..................................t-DHDGYHNCLKECCLVGTVDVLYVPQLKELVSPYGSTKLPKEYSEHPQLALFYYSYMINKNTASAARSELtfEWPKPYVVLNTIVKRLESHIFV.vRNK-YTQLPSIVKKHIGEGIECPTND..SIEELTPFLDPRKRHP-----IIIRLGPKREALDFFTELTDLEAAQSKYENLSKLEVRISCRQWF.GSSLDVERSARTIRRLWLLEMVMSRAESIQQaaAAEDQ..EPTVDNE-----SQGESSGSGPPIDHA------......................AFWDELSQLERN-----------------------------------------------.-----------------.-----------qlllmsmvtkrtlsqdylia
REP1_YEAST/1-336                ..................................m-NGERLLACIKQCIMQHFQPMVYDESRCVIETTRGTFPVPDNYKKYKTLAFAFVGHVLNTDDTPVIEKEL..DWPDPALVYNTIVDRIINHPEL..SQFISVAFISQLKATIGEGLDINVKG..---TLNRRGKGIRRPKGVFFRYMESPFVNTKVTAFFSYLRDYNKIASEYHNNTKFILTFSCQAYW.ASGPNFSALKNVIRCSIIHEYISKFVEREQDkgHIGDQelPPEEDPSRELNNVQHEVNSLTEQDAEADE----......................GLWGEIDSLCEKWQSEAEDQTEAEIIADRIIGNSQRMANLKIRRTKFKSVLYHILKELI.QSQGTVKVYRGSSFSHD.SIKISLHYEEQ....................
REP1_ZYGRO/11-355               ...................................RPDREL-RMMNDVLMTYPYTVIHLPAQNMLSTAKGMVNIAENYRDYPILAIFYVKYLMKKLPYGVIPVNL..EWPEPYVVLNTILKRLKEHKFF..ANKDKEDFAERLHKLIAPDVSIPESR..KDEILGQQKKERVVTKTINENFLDPVNARPRLQRFFEKLHNGTLVENLEVGLCKVEILVSSKAML.GQSFKLQIMAANVRELWVGEMVCNMITNETD..YGFDE..GGGDDDEGSSVEVQNSQSASPGQDQEAQRAPEApet................ssqLFDKIVSALQDDPDSAKAQLGQCRKLASYLLSHKREQEDFFMQTKDTRARLYLDLKGCL.GSSWKFSIYRGVRCKQNgQLKVSLKPSN-s...................
REP1_KLULC/27-369               ...................................QQVREIYRALLDSFKFKNEYNAYDPLNNTIITQHGSYEVPEAFAQCTYLAQIYVSYKINSLPYQTYIKDL..EWISPAEVYKLIMERLQKNKYF.lRKQ--VQAMEKIKVLLCPSPELLENNyvDDNLKISSHKVTQRHPEKVYDLMTYQEIADGIDDFFS-LLEMPNLSLAFVNKTSIKLNISCSGANnHIGSFIGRTARTIRHYWIKNAILEFADYKKK..TVPYPfvGPPRDPGLFEHIVDDCSTGAPINWDDFSIDSYA......................SYVTVMEHLEEVVELTDRHRRVIEYLGMYIASDLHEEGKLTRARKLDRTTLFHTVRDVL.LHDGSYTRHKGVRCLDNgSVRVSIRLKHR....................
H1PIJ1_9SACH/1-336              ..................................m-NGERLLVCIKQCIMQHFQPMVYDESRCVIETTRGTFPVPDNYKKYKTLAFAFVGHVLNTDDTPVIEKEL..DWPDPALVYNTIVDRIINHPEL..SQFISVAFISQLKATIGEGLDINVKG..---TLNRRGKGIRRPKGVFFRYMESPFVNTKVTAFFSYLRDYNKIASEYHNNTKFILTFSCQAYW.ASGPNFSALKNVIRCSIIHEYISKFVEREQDkgHIGDQelPPEEDPSRELNNVQHEVNSLTEQDAEADE----......................GLWGEIDSLCEKWQSEAEDQTEAEIIADRIIGNSQRMANLKIRRTKFKSVLYHILKELI.QSQGTVKVYRGSSFSHD.SIKISLHYEEQ....................
H0H002_9SACH/12-312             ..................................m-NGEKLLICIKQCIMEHFQPMIYVENRNVIQTTRGTFSVPDNYRNHKFLAFTFIGHILYTEDTPVIEKEW..DWPDPALVFNTVVDRITNHPEL..AQFISVSFISTLKATIGQGLDMNVKG..---TLNHKEKGIRRPKTVSFRYMESPLVNKKVTKFFSYLRNYNKIAPEYGNNTKFTLKFSCQAYW.ASGPNFAALKNVIRCFIVHEYISEYVERERTkyHIKKQgsWAEEDHPRDLSKAQYEGNGLTEKSPNTDE----......................ELGTKIDSLCEQWQSEAEDQADAEILAKKIVGNSQRMANLKNSSHKVQ-----------.-----------------.-----------kypi................
E7KJU5_YEASA/1-199              ...................................----------------------------------------------------------------------..----------------------..--------------------------..----------------------MESPFVNTKVTAFFSYLRDYNKIASEYHNNTKFILTFSCQAYW.ASGPNFSALKNVIRCSIIHEYISKFVEREQDkgHIGDQelPPEEDPSRELNNVQHEVNSLTEQDAEADE----......................GLWGEIDSLCEKWQSEAEDQTEAEIIADRIIGNSQRMANLKIRRTKFKSVLYHILKELI.QSQGTVKVYRGSSFSHD.SIKISLHYEEQ....................
REP1_ZYGBA/11-356               ...................................RPTKEM-KMIFDVLMTFPYFAVHVPSKNILITPKGTVEIPENYQNYPILAIFYVKYLMKKNPYDLLPSTV..NWPEPYVVVNTITKRFQDHKLF..ANKNADVYVERLQNAIASGIKIPESK..KNERLGQPKKTKNVTKEIEETFIDATNARKELDEYFRKLQDGTLTGDLEGGLCKVKTLISCKALFgGHTQELQFMATNVRKVWIGEIVCGMVSNKN-..-AIDD..NDLEEEE---------RNASGEQTTTAREESEAldttsngldalntqinaieteeSFWEAIRALHNELRTSPTQLEECRKAAVFLLGHKKILQTFTKQKDTARALFYINLKECL.GTSWNLEYTEASDAR--.--KMAIKGEL-q...................
REP1_ZYGBI/137-282              hstqqniptklpstqqavervvssqttsraaetre----------------------------------------------------------------------..----------------------..--------------------------..-----------------------------------------------------------------.-------------------------------..-----..-----------RSPEHTEASTQEAETAEE---Aln..................keEFWNLYRSLESKSYISRENVPDIRLLVMCLKANLEIQGEFDRRRVGLKNRLYIILKDLV.EEPWELRAYRGCRSADGlTLSVSFKYKN-r...................
H2B171_KAZAF/8-320              ...................eldqliaelwtkitgg-----------------EEKLLYNYETHELKTRNKIIKLPKEFWDYPELASYYLS--MQ--EY-FGFSKL..EWPKPYVLYNTLIKDFPLTKYK..GLPNINALYDSFKNRFGRNIVIPLGF..ENRA--VYHNVN----NIKIDLTTNKEFEQTVKKIYNMFNSPKQMELFYDNQTKFIILIPYSVLC.KEQSTIQQACDNIKIFWFSRKIMEKLKEDKN..-IIQN..NASEKKT---------HTGSSTKTTSS---SRI......................NFMEMINNIGK-SHSFNDGETSINVVVNYMQQFPELMEELSLLVDRLGGNL-KSIKNKIvSNIGKVHMEKDLYCSEDrSVIMYL-----nffn................
REP2_LACFM/2-154                ..............................eanpg----------------------------------------------------------------------..----------------------..--------------------------..-----------------------------------------------------------------.----ELERFGKAIRKIWLYETIMLGAEKIAK.gNLSEE.sTSTSESEIPNTSSQQDVISSSEHVSDSL-----......................KFWEVLNFLEVSWVPHSGEDGVQHKLSQYVEKDPSTFEELKKRRLAAKNDVYGYVRQIM.YSKGQVRIYRGVRCKPNgVLKVSL-----fyg.................
E7KWB6_YEASL/1-336              ..................................m-NGERLLACIKQCIMQHFQPMVYDESRCVIETTRGTFPVPDNYKKYKTLAFAFVGHVLNTDDTPVIEKEL..DWPDPALVYNTIVDRIINHPEL..SQFISVAFISQLKATIGEGLDINVKG..---TLNRRGKGIRRPKGVFFRYMESPFVNTKVTAFFSYLRDYNKIASEYHNNTKFILTFSCQAYW.ASGPNFSALKNVIRCSIIHEYISKFVEREQDkgHIGDQelPPEEDPSRELNNVQHEVNSLTEQDAEADE----......................GLWGEIDSLCEKWQSEAEDQTEAEIIADRIIGNSQRMANLKIRRTKFKSVLYHILKELI.QSQGTVKVYRGSSFSHD.SIKISLHYEEQ....................
O43094_TORDE/33-344             ..................................p-INKEVRAYLSECFFLLPHRVIYCPEHQCVVGMRGYMNVPDPYAEYPMLAIYFAKYRLRKYPFDILRNDI..TWPEPYVVLNTIMRRLRTHRFL.kGNADAASIPDDIRKVIAPNLDIPSGM..EGELLEVPYSERKLGANRVMKVFEGQDARLEMERFFDELL-GSSHSELYPDSSVIRV-VSDYPL-.RSQADVIVFSEYLRKLWYIEKILVLMNMVPD..SVRDR..PDLEDPS--------------------------......................IVWDLLEDLQRQPVYEPSQNERMTQVAALLKLWPDALEEFQQQRKDCRTFIYSKIRAWL.PKKNKVKIYRGTSVLEDgSVKVSLNFTE-y...................
C5DT21_ZYGRC/11-355             ...................................RPDREL-RMMNDVLMTYPYTVIHLPAQNMLSTPKGMVNIAENYRDYPILAIFYVKYLMKKSPYQVIPVNL..EWPEPYVVLNTILKRLKEHKFF..ANKDKEDFAERLHKLIAPDVSIPESR..KDEILGQQKKERVVTKTISENFLDPVNARPRLQRFFEKLHNGTLVENLEVGLCKVEILVSSKAML.GQPLKLQFMAANVRELWVGEMVCNMITNETD..YGFDE..RGGDDDEGSSVEVQNSQSASPGQDQEAQRAPEApet................ssqLFDKIVSALQDDPDSAKAQLGQCRKLANYLLSHKREQEDFFMQTKDTRARLYLDLKGCL.GSSWKFSIYRGVRCKQNgQLKVSLKPSN-s...................
A5LQV4_STRPN/1-30               ...................................----------------------------------------------------------------------..----------------------..--------------------------..-----------------------------------------------------------------.-------------------------------..-----..---------------------------------......................---------------------------------------------------------LI.QSQGTVKVYRGSSFSHD.SIKISLHYEEQ....................
#=GC seq_cons                   ......................................cth..hh.pshh.h...hla..tpp.l.T.pGhh.lPcpYtpa.hLAhhaltahhpp.sh.hh.ppl..-WPcPhlVhNTlhcRh.pH..h..tph..sthhppl+thlu.slphs.pt.....hht..tp.h.h..th..phhcs..sppclptFFphLpshsthtp.a.s.oKhhlhhSspshh.tps.phphhtpslRp.hltEhl.phhppcpp...hh-p..sst-Dsp.....sptp.su.stpsspup...........................thhp.lssLpcp.pspspp.sphchluthlhup.pt.tphphpppph+shlYh.l+thl.tsphplchYRGsphpps.slKlSL+.pp.....................
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