#=GF ID BpuJI_N
#=GF AC PF11564.3
#=GF DE Restriction endonuclease BpuJI - N terminal
#=GF AU Pollington J
#=GF SE pdb_2vla
#=GF GA 25.00 25.00;
#=GF TC 112.60 112.60;
#=GF NC 24.50 24.30;
#=GF BM hmmbuild HMM.ann SEED.ann
#=GF SM hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
#=GF TP Family
#=GF WK BpuJI
#=GF RN [1]
#=GF RM 18433771
#=GF RT The recognition domain of the BpuJI restriction endonuclease in
#=GF RT complex with cognate DNA at 1.3-A resolution.
#=GF RA Sukackaite R, Grazulis S, Bochtler M, Siksnys V;
#=GF RL J Mol Biol. 2008;378:1084-1093.
#=GF DR INTERPRO; IPR021108;
#=GF CC BpuJI is a restriction endonuclease which recognises the
#=GF CC asymmetric sequence 5'-CCCGT and cuts at multiple sites in the
#=GF CC surrounding area of the target sequence. This family of proteins
#=GF CC is the N terminal domain of BpuJI which has DNA recognition
#=GF CC functions. The recognition domain has two subdomains D1 and D2.
#=GF CC The recognition of the target sequence occurs through major
#=GF CC groove contacts of amino acids on the helix-turn-helix region
#=GF CC and the N-terminal arm [1].
#=GF SQ 14
#=GS E9S8F5_RUMAL/1-141 AC E9S8F5.1
#=GS F9HC57_STRMT/1-119 AC F9HC57.1
#=GS D3H8J5_STRM6/1-281 AC D3H8J5.1
#=GS F2BHI1_STRSA/1-281 AC F2BHI1.1
#=GS D2BR72_LACLK/3-281 AC D2BR72.1
#=GS A5LKH4_STRPN/1-281 AC A5LKH4.1
#=GS A3FMN7_BACPU/1-285 AC A3FMN7.1
#=GS A3FMN7_BACPU/1-285 DR PDB; 2VLA A; 1-280;
#=GS E4TPW2_MARTH/6-303 AC E4TPW2.1
#=GS E5UMM8_NEIMU/1-291 AC E5UMM8.1
#=GS G6RL09_STRPN/1-281 AC G6RL09.1
#=GS E3PUV9_CLOSD/1-282 AC E3PUV9.1
#=GS F9HC56_STRMT/1-171 AC F9HC56.1
#=GS F5S6P5_9NEIS/4-306 AC F5S6P5.1
#=GS F0F9L7_9BACT/1-295 AC F0F9L7.1
E9S8F5_RUMAL/1-141 ml-------.-------------------------------------------------....-.-.....---.--------------------......----.---.------------------------------------------------.....----------...-A.KY...A..NITLTKSDIGYYVLNNLDVLQRKATPA.EVIEQIDKDRKNRIERKVHT............D..GKASSYDVQHINEQINYLELANLV.IIDD.K..D....VSINPNEMETVQMFADEYNSDPMFDCSAYNF....DTVEGRKLFSQKWNEYFSTL-----snvsdk.
F9HC57_STRMT/1-119 ..MYQVPEKyYFRLHHPRPRFKNDVENVLVYMATNISYLGILPKKEFSQQLNDIIKQYA....G.N....aDKT.EKTINNWRTEIS-SLFGMMI......EKEG.FVY.SGNRAKELTEDQDLIRFFKTFCI-------------------------.....----------...--.--...-..---------------------------.--------------------............-..------------------------.----.-..-....-------------------------------....-------------------------ilnilvg
D3H8J5_STRM6/1-281 ..MYQVPEKyYFRLHHPRPRFKNDVENVLVYMATNISYLGILPKKEFSQQLNDIIKQYA....G.N....aDKT.EKTINNWRTEIS-SLFGMMI......EKEG.FVY.SGNRAKELTEDQDLIRFFKTFLYNFEYPGGHLKDNEIVKLCQIGVQFK.....PAQYLLELFTeasQA.EE...K..TIYLTDEEVAHCIFNDLRCTRDREPVL.EIWNRIKENRASKVAYDTK-............-..GDVIRYA----KDILDYMVIASLL.TVQG.G..R....YKINSMEEQAIN---DFLQSDATFDGYAQFIgnasTTIEDVRNFRSAWFEY---VNRDLG.......
F2BHI1_STRSA/1-281 ..MYQVPEKyYFRLHHPRPRFKNDVENVLVYMATNISDLGILPKKEFSKKLNEIIKHYA....G.N....aDKT.EKTINNWRTEIS-SLFGLMI......EKEG.FVY.SGNRAKELTDDQDLIRFFKTFLYNFEYPGGHLKDNEIVKLCQIGVQFK.....PSQYLLELLTeasQV.EE...K..AIYLTDEEVAHCIFNDLRCTRDKEPVL.KVWNRIKDNRESKMVYDTT-............-..GDVIRYA----KDILDYMVIASLL.SVQG.G..R....YKINSIEEQAIN---EFLQSDTVFDGYAQFIgkssTRIEEIREYRSAWFEY---VNRDLG.......
D2BR72_LACLK/3-281 .t-YQTPKEyYRRIHHVRPRFKNKVEEVLIFMATRLSSLGTLDSNKFAESMNKAIREFP....D.N....hDLT.LKTIQNWRTEIS-ALFGFVL......TENG.VSR.AGRTAVELADNQDLVKFFKEFLFSFQYPGAHTKDKEILELCQDDIRFQ.....PAYFLINLMK...NCpIQ...R..EAYITKDEATHLIFNDLRVTAKKETIS.ETWKRVIDSRKSNMNFDSS-............-..GDVTRYA----GDILDYMELANFI.NLKG.R..N....FYLNKNEKDSIN---KFMENATFFSEYSDLKrknkLTLESIKEIRVKWFSF---VNRDLG.......
A5LKH4_STRPN/1-281 ..MYQVPEKyYFRLHHPRPRFKNDVENVLVYMATNISYLGILPKKEFSQQLNDIIKQYA....G.N....aDKT.EKTINNWRTEIS-SLFGMMI......EKEG.FVY.SGNRAKELTEDQDLIRFFKTFLYNFEYPGGHLKDNEIVKLCQIGVQFK.....PAQYLLELFTeasQA.EE...K..TIYLTDEEVAHCIFNDLRCTRDREPVL.EIWNRIKENRASKVAYDTK-............-..GDVIRYA----KDILDYMVIASLL.TVQG.G..R....YKINSMEEQAIN---DFLQSDATFDGYAQFIgnasTTIEDVRNFRSAWFEY---VNRDLG.......
A3FMN7_BACPU/1-285 ..MNYNPEE.QFRCTIIRGKAKNMLDNLLPAYANIIDDICPCDKASFVKDFNNRLIEIL....G.E.....ETT.KKTLDNHRTEIAGKLFGMFY......EDDE.VIF.PSGRTNKYIEDSDQPAFFKDICFKFQFPNGMDKLDKVIEKVGAKIQIR.....QFPYILQVLL...TA.DN...N..NIQLSKDDIAYYVLNSLQVLQGKIKPI.EVIEKIIEDRSNDITKKVRH............P..GKETSYSMQHIREQLNYLELANLI.RIDG.N..L....VKLNYREAENINYIAQFWGNKPEFNAYKYDF....TSEDDKKSFFKDWQQYYSNVNSHKS.......
#=GR A3FMN7_BACPU/1-285 SS ..----TTS.B--------SSSTTHHHHHHHHHHHHHHH-SEEHHHHHHHHHHHHHHHH....-.T.....T--.HHHHHHHHHHIIIIIS--EE......EETT.EEE.E-HHHHHHHHH--HHHHHHHHHHH--BS-SSS-HHHHHHHHHTT--B-.....HHHHHHHHHH...HH.HH...T..T--B-HHHHHHHTTTBHHHHTT---HH.HHHHHHHHHHHTT-------............T..T--HHHHHHHHHHHHHHHHHTTSE.EE-S.S..-....EEE-GGGHHHHHHHHTTTTS--SS-GGGS-T....T-HHHHHHHHHHHHHHHH--XXXXX.......
E4TPW2_MARTH/6-303 .k-YKIPDDyFFRLHHVRPRFKNDVEEVLLYVATSISEMPILDKEVFRDELNKVLFSFK....K.N....aTST.QKTVDNWRTEIS-ALFGFIQ......ESNG.KQY.PGVTAKRLANNQYLDEFFNYFLFSFQYPGGHIKSQNVIKQIEAGVRFK.....PCQFILRLLI...EG.EKilgK..PFSFTAEELTQCAYFDLRVTRDGRHPK.EVAELILSNRFRNLEYEHRYeqlkn.hrtgsyPsrGDVYRYA----GDILDYMVLANLL.HHKG.TgyY....YYLNDQNKDAIN---FHLKNSVWFKEYDEFYkidsITNPEIGTLEELWFDF---VN----sfde...
E5UMM8_NEIMU/1-291 .m--FNPDI.QYRCDIIRGKAQKELDDLLPTYSTIVADICPADENIFNQQFNNRLSQSFy..qK.NynelgKNQ.QKTIRNHITEIAGKLFGLYF......KKNG.LVY.ESPSNSKLVNDQDQPAFFKNLCLNFQFPNGTQKIQTIAERINKQIKFK.....PFHFILALLA...EA.EQ...V..KFTITTYHIGYYVLNALEVLQGKVTPK.EVLDTIISNSQKNSLKRVP-............-..--VTSHDFQHIRELLNLLVLANLI.VIDE.N..RsskaIQLNHYENQLIKLFIKEYNTPLQFDIYQFDL....NAEHIGKRIEMEWAEYFAQI-----alqna..
G6RL09_STRPN/1-281 ..MYQVPEKyYFRLHHPRPRFKNDVENVLVYMATNISYLGILPKKEFSQQLNDIIKQYA....G.N....aDKT.EKTINNWRTEIS-SLFGMMI......EKEG.FVY.SGNRAKELTEDQDLIRFFKTFLYNFEYPGGHLKDNEIVKLCQIGVQFK.....PAQYLLELFTeasQA.EE...K..TIYLTDEEVAHCIFNDLRCTRDREPVL.EIWNRIKENRASKVAYDTK-............-..GDVIRYA----KDILDYMVIASLL.TVQG.G..R....YKINSMEEQAIN---DFLQSDATFDGYAQFIgnasTTIEDVRNFRSAWFEY---VNRDLG.......
E3PUV9_CLOSD/1-282 ..MYLVPNEyYVRLHHVRPRFKGDIENVLLYVAEEISKIPELPCNEFADELNNAIKCYP....G.N....vNRK.IKTINNWRTEIS-ALFG-FI......ESDG.VTSrAGRRAIELSEKQDLVESFKMFLFSFQYPGAHIKSHEILKLIQQGVHFK.....PAQYILKVIQsgeKI.MG...K..KNYITKAEACHCIFNDLRCVRDNENTD.LTWKRIEKNREDEIEYDMT-............-..GDIIRYA----GDIIDYMEIANLLvSYDG.K..Q....YYLNSLENEAIL---KFVKSTEWFNDYDQFIsnktASLQEINNCKKNWFAF---VNRG--mg.....
F9HC56_STRMT/1-171 ..-------.-------------------------------------------------....-.-.....---.--------------------......----.---.---------------------MYNFEYPGGHLKDNEIVKLCQIGVQFK.....PAQYLLELFTeasQA.EE...K..TIYLTDEEVAHCIFNDLRCTRDREPVL.EIWNRIKENRASKVAYDTK-............-..GDVIRYA----KDILDYMVIASLL.TVQG.G..R....YKINSMEEQAIN---DFLQSDATFDGYAQFIgnasTTIEDVRNFRSAWFEY---VNRDLG.......
F5S6P5_9NEIS/4-306 .t-YQIPEEyFFRLHHIRPRFKSNVEEVLLYVANSISDLGKLPEKAFNEQLNAVLRNFV....K.N.....QTAeQKTINNWRTEIA-ALFSFIQ......ETENnELL.PSKMAKRLAENQFLDEFFNYFLYSFQYPAGHNKSHAVIAQIQNGIQFRpcqfrPCQFILQIFQaacKL.SD...K..PFYLTAEELTQCAYFDLRVTSHQTKTAnDVAKQIIENRENKVSYNHKYeqlktesgnypsS..GDVYRYA----GDILDYMVLANLL.KTKGtG..H....YYLNT---DNTDFIKRHLDNTAWFNQYADFYgkqeISAREITVLEKKWFDY---VN----qfdn...
F0F9L7_9BACT/1-295 .m--YDPTL.QYRCTIIRGKSQTDMEDLLPLYANIVHKYCPCEEKQFRASCCKALSKALfsteAyDr..lsDSN.QKTVLNHLTEIAGTLLGLYYpayddeTKTN.YIN.ESDSCKYLIESGDYPTFFKNLCLNFQFPNGAKWLQFIEDDIKNKIRIK.....PFCYVVSLLF...HA.QQ...QveRELLTKQEIGFYVLNSLEVLQGKVPCS.DVYDRIMADRKNKVRRERL-............S..---GSHDWQHIKEQFNLLELADII.ETDA.T..Y....IWLNKNAAESIACFIK-HKDDFIFDAYKYDL....KSKAGRIQYMEDWKKAYGMFNREL-q......
#=GC SS_cons ..----TTS.B--------SSSTTHHHHHHHHHHHHHHH-SEEHHHHHHHHHHHHHHHH....-.T.....T--.HHHHHHHHHHIIIIIS--EE......EETT.EEE.E-HHHHHHHHH--HHHHHHHHHHH--BS-SSS-HHHHHHHHHTT--B-.....HHHHHHHHHH...HH.HH...T..T--B-HHHHHHHTTTBHHHHTT---HH.HHHHHHHHHHHTT-------............T..T--HHHHHHHHHHHHHHHHHTTSE.EE-S.S..-....EEE-GGGHHHHHHHHTTTTS--SS-GGGS-T....T-HHHHHHHHHHHHHHHH--XXXXX.......
#=GC seq_cons ...Y.sP-cYaaRlHH.RPRFKs-lEsVLlahAspIS.ls.LscppFspphNphlppah....s.N....scps.pKTIsNWRTEIu.uLFGhhh......EcpG.hlh.suspApcLs-sQDL.cFFKpFhasFpYPuGHhKsppIlchhp.slpFK.....PspalLpLht...pu.cp...+..shhLTc-EluahlaNDLRsspc+pssh.Elhp+IhcNRtsclta-sp................GDVhRYA....pDILDYM.lAsLl.plpG.s..p....ahlNs.EppuIs...cahpssshFcsYsphht.tpsohc-l+phcptWF-Y...VNpt.........
//
