2025-05-14 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY PDBe PDBe 2024-04-26 2025-05-14 2025-05-14 2025-05-14 Not funded Pre-assembled baseplate cup of Klebsiella phage KP1 variant vB_Kpn_Lilla1 Orlova EV Isupov MN Baseplate cup, baseplate wedge, fibers, VIRUS Orlova EV Isupov MN Baseplate cup of Klebsiella phage KP1 variant vB_Kpn_Lilla1 To Be Published 0353 9f4b FULLOVERLAP vB_Kpn_Lilla1 vB_Kpn_Lilla1 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 vB_Kpn_Lilla1 Klebsiella VIRION OTHER false false Baseplate wedge protein gp6 Klebsiella phage KP1 0.07368924199999999 12 LEVO MAIKEPLNYQLTRTANAIPDAFTGATFDEIKNQLINWLSGQKEFQDFDFAGSRLNVLLDLLAYNTLYIQQFGNTALYESF IGTANLRSSVVQAAQQNGYLPSSKSAATASIMLEVTHPNPEPAIKIPRGTKFLAYARDSSVDPYNFVVTENVIALRDTSA PEGVNRYLPIVNLAQGRIIRTQLSYDPKKPIVIRDQSIDRKQVKLWVDGAEWTNWTDRSMVHASSISTIYYMRETVDGNT EFFFGEGVAEASVAGGVLESNFIGGLKPTKGAQVVIEYIRTDGESANGATDFSYADTLQYIVVNKIIENWSDSPDYVGAD GGGEPEDIERIRELAQIKRESQMRCVSKTDYESFVSSRFGSIVQAVQCFTDQDKPGYAFIAIKPKSGLQLTAVQREDIQD YLRPFCLAPITPSVMSPDYLFIRHNIKASYALNKLQESEQWLQSKIIDSINRYYVDEVEMFNKNFSKSKLLTYIDDTDHS IIGSSVDIQMVREIVNYFTLPSAGIKYYNTITPRTLRSGDLVFTVTPTADSYPVNIVGTDPDKNGKGNMVIGPFKPGDIK ENTHIQPYTEDDFDRTTNGERTRWYKIGEVDYYGDNIYWSLGAIGADPLQFEDQSIELYSTPTQDIVFARDGTLIVFEND LRPQYTTIKLEPITQ A0A2K9V5R4 Baseplate tail tube cap Klebsiella phage KP1 0.038263663999999996 6 LEVO MIFEELADGLENIKKSGTRISQGKSKLTNAPTTKVAQFPAERSAGNDSAQDMRVHDLYRNGLLFTAYDFKGRTTPDLRSF RRDVMLSSVFDSPMSALANSSSSTTSTAPVANILLPRSKSDVDSVSHKFNDVGDSLVTRGGGTATGVLSNVASTAVFGSI ESLTQGLMADNGEQIYNTARSMYAGPDNRTKVFTWDLTPRSADDLIQIIRIYEIFNYYSYGVTGNSSYAKEVKAAIDEWY KGTLKSAAPDGAKVENTVFEQITSFLSNVIVVSNPTIWTVRNFGYSTSMDGREDIFGPCQIQSIRFDKTPNGHFNGLAIA PNLPSTFTLEITMREILTLNRGNVYIGGIE A0A2K9V618 Baseplate subunit Klebsiella phage KP1 0.033716129 6 LEVO MFTLEEFKSQAADIDFQRTNMFSVVFATVPSSKTQALLNDFGGELYNNMGLDGNWLGLTPGEFNQGITTIVTQGTRQVVR KSGVNTFMIGAMTQRVVQSLLGEFTVGTYLLDFFNMAFPTAGLMVYSAKIPENRLSYEMDKFHNAPNIKITGRDMEPLVL SFRMDPEASNYRAMQDWVNAVEDPVTGLRGLPQDVECDIQVNLHARNGLPHTVCLFSGAMPVACGAPEFTYDGENTIAVF DVTFAYRSMQTGSVGKQAAMDWLEDKAIQKIETINPNQGLSASASRLSRLGGAGGGISNITTTTSRII A0A7I8V4E3 Baseplate wedge subunit Klebsiella phage KP1 0.024693419999999997 6 LEVO MLFSFFSPIDYSAKTVKGAKAKAIPTADIFRNYRKYFDTVAENYLLQTYYISGAPRPEELAYILYGNSQLYWILLMCNNV YDPFRDWIKTQDACYQFAQQKYADVGGDQILYHVDANGNRYYNLEQYPENSGIWYDKGDFNHQYPQYTGALAGVDIYEDS IIENEKLRQINIINPSDIEAFLSDIIREMEKAPDSEYESGRYKSQTTIGEVL A0A2K9V5R5 Baseplate central spike protein Klebsiella phage KP1 0.063317457 3 LEVO MIEMNDSLKWFTGVVEDRQDPLKQGRVRVRVYGLHPFEKVQGAITGLPTEDLPWMSVIQPTNSAGISGVGSSITGMVEGT SVFGLWLDEFKTAGLVIGTYSAHRKTKPNYTEGFSDPTGQYPRQVGSDTNPLVQGDETGYSAIPNIIQDRNLDIGINPDD ADLSDIPEDPNPAITITDMLNRDEGLRLKVYWDTEGYPTVGIGHLIMAQKVRDMSVINKTLSNQVGRTVTGNPGIITMDE AVALFKQDRDKMLSDIKTNSRVGPVYAKVNKSRQMALENMSFQMGVGGLAKFGKMLDAMLIGDWKTAYTEARNSVWFNQT KGRASRVSMIILTGNMESYGVPAPKPEGKNLSAAYVEPKSGGNPEDPWTPEDSRILFKEPESSYNGQYPYVHTMETESGH IQEFDDTPGYERYRIVHPTGSYEEVAPDGRRTRKTVADLYDMTQGDGNILISGDKKVNVGGNETYYNMYNRRQQIDGDNT LYVRGNETKTIEGDGTIFVKGNIKIVVEGNADIQVNGDATTKVDGNHDVTVGGNLTWQVAGTVNWNVGGAWTETMASMSS IAQGQYTVDGSRIDVG A0A976LXP5 3.2.1.17 Phospholipase Klebsiella phage KP1 0.01009636 1 LEVO MAGLSYDKCVTAGHSAYPPTEVNATQSKVFTGGIAVLVDGDSITPHTKTVDPHDTHGGVVQPRTSKVFVTGKKAVQMADP ISCGDTVAQSSSKVFIH A0A2K9V5W6 Baseplate wedge protein gp7 Klebsiella phage KP1 0.119645719 6 LEVO MTIAPFVTSLRIHKLSANQVNIRWDDVGANFYYFVELAETRNRAGEVIPADNLSWSSLGYTADNDWFEQNRIEPLTYYKM RVQTTSAGFEPSEWVETEEFQTFEENAYTFEHMQEFSLVKEFIKQKFSLNNMSYVNFNTSAMMASLMTESFQFSPEYSHL SAIENFVVGESGYHEIQGPIEAVCVDKNRTMLGEIDGILYLFERFQHMVKVSNDKGQNWQYVQLFNDRVGNPVSRVVIYQ SKTTSYVLGYDKIFYGRKSSDVRWSSNEVKFSDNEVTFAKLGDQLKLGFEVELFGTYASLPADVTKYAEAFTCNDDYLYV VAKDTVRKVKLKDAPIDTDPLSPTFGEKVFEKEVSHITGNPKSVCFKMDSVGGKIFALITGEVKTLGLDPTDPRNVVDSA TKGVYVYQEGTNTWKRVFGNTDEEKRRIEHLWTSMSTDGKEIFFSSANFKTTEYAQDIELETKYPELISTAVKNVNPIQY HSDKHYHMMSFRADEFSRWETFVPGPMRFYAEPWFVWMAREGNRCWISTADHAVVIYNDILYQKRVDAAAQGTTERILSE VWDKGDATFYCPPVSFNGFLQYASGIMFHEPDGKLIGYYAFDYRVRDQVTLNWKPTDVMFKAFLQNQTREEDWTPEHTPG LRDPDLRPYLTKMMPDSYLLQDSNFEHFCKYYLQFLSDGNGTHYNSLVNLVKNKYPREENAWEYLWSEVYKRNIYLSKDA RDAVVRFFEARKNDFYATKGIEDSYKFLFKLLYNEDVEIDIESKNTTEYDIIVESTNISDDLVGRTIYTASGRSNVTYIE REYRDGRLLWRITIHNLSGRFIEGQEIKSERTDFEGIIVQGVRGKDMLSNNIDYINRSRSYYVMKIKSQLPTSRFRDDVL RFVHPVGFGFIGITLLTMFINSGLNMKHVETIINKLKNYKWDAGLPSVYPDRVAIIASDDTIERDPITNEPRYSSRAQAG EPFPLPANYNQENNNSVIAGQNPGQRRKPLSPTFDQSAVTFANYRDLVNQRLKDDAGNPRDPENPTQVKIDE A0A2K9V5T9 Baseplate wedge subunit Klebsiella phage KP1 0.038704387 12 LEVO MSNSTRASSTRSTIYRAIITSKFRTEKMYTFYKSIGPGTDQNTLYVSFGKSTPWSDNESEPGFAPPYPADNEDGVVDIWT NMMGAVKIESSMLDCVVPRRDWGDTRYPNPRTFLIGDIVVANSAPYNRTDAGFGWMVYRCIDVPKNGMCSIGNLTSKEEC IKLGGKWTPSTISGSAPRGRGDANGTVDLGDGYLWEYLYEIPADVSINRCTNEYIVVPWPEEIEESPARWGFQNNLTWQQ NDFNLIYRMKCNTIRFKAYLDAVYFPEFSLPGNTGFRQLSIITNPLEVKPMPNSPNVKAEKGWYSASGLERQSGEMIYME NRQPIIRSMDQTEELNLIFEF A0A2Z4QAY9 Baseplate wedge tail fiber connector Klebsiella phage KP1 0.032380195 18 LEVO MYTDKGKKIIDVGEIGNASTGDILYDGGVKINDNFDAIYNAFADQRLFAAGGGALNQKIHATSYYQKIKFGDANSAGTVP MGSCIDADCSEGAVQIRLSKGKAGEAVFVVNSNGSASKARSIKITTNGEGVADAFKDGSRELIINTPRCRIELWCVEVKA NGAAVWDYSISSMFGSTYSPLEATYNLTSSPINIRLGYNDDYSTVKLLLSFSANPGGQTIKRQSSEVMLMIDPTITSSAP NGRVFDTEYAVLRSGESSENEKMYSISYSINAQKDLICTASTSYGNARLAVKVIATQTVGVSQ A0A2K9V5S1 Baseplate wedge protein gp10 Klebsiella phage KP1 0.06671207 18 LEVO MKQNLIVGQSVDDGSGDYLRKGGLKINNNFDDLYSELGDGSVPFAAGAWKTFKASPTGTTLNAKFGQAFAINTQAARVNV QLPKGTANDYNKVIKLRDVWSTWRLSPITVIPAQGDTLKGSASPKIFNTNFQDLELVYCAPGRWEYIENKTVDKLTNGNL STVAKKSIIATAGQTDFLNIFDGVEYNEDSLNVYRRGNILYYGETSVMDKANADYGSPGTVAGQLVELNGKDIRLKVPCV EGEVITFETFLDGIGVYRSSYNKLAIQIRDSAQTTSQTIPGSMIVDNLATLRRITLDDMGVLPGVGVNPNSLEISLNGKE LLEAGTAGLPLFYCEGAEGGYAEDCINNGGQWVNSNQDYRLEFDSTGTNVEAIIFGEAFEDKDLLTVRWFNNNIGTTMDI DDIMAETDQVYMNAEQLVTLKNRIEYTNYDEPNQKNMRPVADDIMIKVNNIAAFFDVIYPIGTIYENAHNHANPADYMGF GVWKLYSQGRVTAGWNNDSSDPYFSRNNNNLNENGQPSLTAGGTVGDLTFTLGKEHIPELMSRDKVLISDPEHGSVVIGG CQLDPDAQGPGYSKYREDTVAVNNGVVPNDITKIQPTITVYRWIRVG A0A2K9V5S8 Baseplate wedge subunit and tail pin Klebsiella phage KP1 0.024534469 18 LEVO MTIETKTREGAKVNSRLAAFSEYRVDPQNIAVGNTAPIGSLTFEQMDLGVWYPNTEAAINDLMSLQSAEIGTIICNDTGI SPQPAQQITRATFSGVVALEPKEDGSVGDPVIIHILGLPIRIANGDDFAAVATRWYDKVKELEAVGKVVQQVTQSPATPQ YVDIIHLDYQNHNFETYKKYGLTVEFTITSPAKAGYGQWDAIGNESKTFGANTFTFHYFRRMG A0A2K9V5T5 Gp12 short tail fibers Klebsiella phage KP1 0.048092476999999995 18 LEVO MAQNNYNHYSDLAKYTIFDPTNTQWPVAIKDVQSALELIGSWARTDTGLPVASPTVAGVIRTATQAEVDAGTIGNAAVTP ATLKSTVTRPEATTAVLGLTRYATNTEAAALTAGNRTITAAALGHVFKTVKAQENVDGTVRLTTAAQAQAGTDETTAVTP KRVVEMIGKFSVSPPSYTSATESNLGLVRVATQAQVAAGAVHDGYAVTPKTFMASKASDSVFGIVKFAKDSDVASATSNN LAVTPKSLQALKSTKDKYGLTRLSGSPTTDASLAAAATDAVFKTRRINGKTLDNDITITNNDINCYTRQESDGRYMPAGT RVGNVTWVEGQSWISRGATFTCNAPWEASSRLALNVNVKFERNNDGYDNRIFRFVVIVNGSQWGGELTLNIENTKGGRNG HSWRFEAYASSNFFFNNIPPNATVQIRPTEDSRIIFYDCMLTFCTNRP A0A7R8MRX7 Tail tube protein Klebsiella phage KP1 0.018633738 12 LEVO MELTDITRAFESGDFARPNLFEVEIPYLGRNFSFKCKAAPMPAGIVEKVPVGYMNRKINVAGDRTYDDWTVTIYNDDKHE VRKAIIAWQAQAHAQGNDISGMTPADYKKVATVRQFSRDGKTITNEHTITGLWPTNVGEVQMDWDSNNEVETFETTFAID WWE A0A2K9V5T6 IraD/Gp25-like domain-containing protein Klebsiella phage KP1 0.01538236 6 LEVO MSNIDKLYSDLDPEMRLAWDTDVSKTVGARSVKNSLLGIITTRKGSRPFDPEFGCDITNELFENMTPLTGDTIKRNIVSA VRNYEPRINRLSVDVLPLYDDNAIIVTVQFSIVDDPDTLERIRIQMRSNANSSSRV A0A0K1Y5J2 Putative baseplate hub subunit Klebsiella phage KP1 0.043526016 3 LEVO MTTQRLGYPNISIKLYSGYDAWLANRFVELAATFITLTMRDSLRGTNEGLLQFYDSKNMHTRMNGDELVQISVANSNTSR TQTRIYGIKHFTVGVDDKGDSIITLQLGTLHDIMNLKFSRAFFSSAYETIKEMIGAMYVDQPLIAPPINGINAYVPRVPW TSTLKDYLRYVRNVGISTDNDQFIFAWEDITGINMMDYESMISQDPNVFMFGAPQTIGQFAAGLKYPLAWDFEWLVKSNR YNRNPMKNATFYAHSFVDKDVTRIINGEGQNSVFINRSGGYSDMIFRNGYEEALRISTMAQYDGYAQTKCYGNFELTPGM KINFVDLKDQFRTDFYIDEVIHEISNNTSITNLYMFTNGSALEPVDLIKVKNELKRDSSY A0A7T3TJP2 Baseplate hub subunit tail length determinator Klebsiella phage KP1 0.06412701999999999 3 LEVO MTKKSEMNSMRRRVIADSAPQKKAESQADAQINTLEDIGRRLDDQQASTDLISDVIETKSNEIIKSVEDVSAGVELTAEA SERTTDVVSKLNDTASLINDKLTKLADLLSKKHDVQQDVQKTGTGTSLETITEQVPDAPTQQPLEELLERLIPPQDDRRP DADFFPSTEEQEEKAEPKKETEDKNKKFLDLKFGELIKSVKSGFGKTISLTDKISSMLFSYTVSALAQMAKTAAMVLGVI MLIDLIKVHFNYWTKLFEKNFVEFNKQAKEWGPLLTAISEMSNEIVKSFVKGDWGGLAKAIGSGLVDVIDKLGETIMLGM SKLLAGMLRALGFNDSADNIEGAALDRFQTVTGAELDEEDAKMRAKYVDRQEREYDEQPEWKRKLSAKFQKFTGQIDDDE YNKLLSGEKKQSAYADLPEDERLKIITARNNAEAELKRTKAYVEKTDASDSTRLDSAKDAVQSTTTRYKELEKLSPEVAK DLKVELDQLQKLLDSKISEPAPTAEAIPAAEQPEVKQSASIKAAADSRETARTRESNTQSQPIQVNTAVNKNSTYVYRTP PQTSTAAPGMQGAMKTS A0A2K9V5Z4 CHLORIDE ION 3.5453e-05 1 CL POTASSIUM ION 3.9098e-05 6 K ZINC ION 6.5409e-05 6 ZN singleParticle particle 7.5
100mM NaCl, 8mM MgSO4, 50mM Tris-HCl
 EMS Lacey Carbon COPPER 400 CARBON LACEY 300.0 PLASMA CLEANING AIR 0.00034 ETHANE 92.0 281 FEI VITROBOT MARK IV
Klebsiella phage KP1 variant vB_Kpn_Lilla1
 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 100.0 2.7 0.5 2.5 81000.0 83505.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 78.7 93.6
Alignment procedure: EPU Autocoma and Autosrigmate Residual tilt (if alignment procedure is coma free, mrad): 68 Software used to collect images EPU 2.4, Tomo 5.13 Film/CCD/Direct electron detector model*: post GIF K3
GATAN K3 (6k x 4k) COUNTING 4092 5760 4 2.0 40.0 1 34529 cryoSPARC 4.3 PHASE FLIPPING AND AMPLITUDE CORRECTION 98 C3 FOURIER SPACE 3.36 FSC 0.143 CUT-OFF cryoSPARC 4.3 34528 OTHER cryoSPARC 4.3 MAXIMUM LIKELIHOOD cryoSPARC 4.3 200 60.0 cryoSPARC 4.3 emd_50187.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 648 648 648 0 0 0 648 648 648 691.416 691.416 691.416 90.0 90.0 90.0 X Y Z -1.9509985 3.3170292 0.0038926061 0.10214141 1.067 1.067 1.067 0.42 AUTHOR Map of the whole baseplate cup, resolution 3.36 Angstrom. FLEXIBLE FIT REAL emd_50187_additional_3.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 648 648 648 0 0 0 648 648 648 691.416 691.416 691.416 90.0 90.0 90.0 X Y Z -2.7706416 4.551149 -0.0028941142 0.06968866 1.067 1.067 1.067 AUTHOR Focused map of the region around one monomer of gp161, resolution 3.3 Angstrom. emd_50187_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 648 648 648 0 0 0 648 648 648 691.416 691.416 691.416 90.0 90.0 90.0 X Y Z -1.3865515 3.0824804 -0.0019028069 0.053582218 1.067 1.067 1.067 AUTHOR Focused map of the fibers region, resolution 3.33 Angstrom. emd_50187_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 648 648 648 0 0 0 648 648 648 691.416 691.416 691.416 90.0 90.0 90.0 X Y Z -2.5205078 3.8085127 -0.0022177978 0.08153137 1.067 1.067 1.067 AUTHOR Focused map of the fibers to wedge interface, resolution 3.4 Angstrom. emd_50187_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 648 648 648 0 0 0 648 648 648 691.416 691.416 691.416 90.0 90.0 90.0 X Y Z -1.0920283 1.9241903 0.0026694962 0.13163051 1.067 1.067 1.067 AUTHOR emd_50187_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 648 648 648 0 0 0 648 648 648 691.416 691.416 691.416 90.0 90.0 90.0 X Y Z -0.926092 2.0003705 0.0027154735 0.13158883 1.067 1.067 1.067 AUTHOR