2025-07-23 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY DATABASE_REFERENCES citation citation_author em_admin _citation.country _citation.journal_abbrev _citation.journal_id_CSD _citation.journal_id_ISSN _citation.journal_volume _citation.page_first _citation.page_last _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _em_admin.last_update DATA_COLLECTION em_admin _em_admin.last_update PDBe PDBe 2024-03-28 2025-04-09 2025-04-09 2025-07-23 German Research Foundation (DFG) 359471283 Germany German Research Foundation (DFG) 456578072 Germany German Research Foundation (DFG) 525040890 Germany German Research Foundation (DFG) 428774170 Germany German Research Foundation (DFG) INST 93/903-1 Germany German Research Foundation (DFG) INST 93/1042-1 Germany German Research Foundation (DFG) 93/1143-1 Germany German Research Foundation (DFG) BO1150/18-1 Germany Lymphostatin, conformation 2 (composite structure) Griessmann M Rasmussen T Bottcher B bacterial virulence factor, glycosyltransferase, protease, TOXIN Griessmann M Rasmussen T Flegler VJ Kraft C Schneider R Hateley M Spantzel L Stevens MP Borsch M Bottcher B Structure of lymphostatin, a large multi-functional virulence factor of pathogenic Escherichia coli. Nat Commun UK 16 5389 5389 2025 40562750 doi:10.1038/s41467-025-60995-9 2041-1723 EMD-19984 consensus EM volume
consensus map, but better resolution in N-terminal part
 EMD-19985 focused EM volume
focused map of C-terminal map
 EMD-19982 other EM volume
other conformation
 EMD-19983 other EM volume
other conformation, focused map
 EMD-19987 other EM volume
other conformation, composite map
 9euw FULLOVERLAP Lymphostatin Lymphostatin 0 1
C-terminal His6 tag
Escherichia coli O127:H6 str. E2348/69 0.3 Efa1/LifA protein Escherichia coli O127:H6 str. E2348/69 0.36723406199999997
C-terminal His6 tag
1 Escherichia coli LEVO MRLPEKVLFPPVTSGLSGQEKQKKPKSITGFQENYQRNIRPIKTASEARLRFFDKMVSKENSLEDVVSLGEMIQKEIYGH EQRTFSPVHHTGNWKSSLLHNALLGLANVYNGLRETEYPNTFNRDGIKSTNSFRDNLLTKTRTPRDNFEEGIKHPEHATI PYDNDNESNKLLKAGKIAGNNNELLMEIKKESQSDHQIPLSDKFLKRKKRSPVAEDKVQNSLTPENFVQKISLSDELKTK YANEIIEIKRIMGEYNLLPDKNSRNGLKLLQKQADLLKIIMEDTSVTENTFKNIEIAITDIKREYYSHTVDIEKNIHAIW VAGSPPESISDYIKTFLKTYKEFTYYLWVDEKAFGAAKFTSVLKQIAFDLACRTIQQNTPQKNIDFINLYNEIRKKYNNN PSGQQEYLNKLRELYATYQKISTPLKHMFNSFFLENMIKLQDNFFNYCIVKGVTEINDELRINYLKNVIKLSDDDIGNYQ KTINDNKDRVKKLILDLQKQFGENRISIKDVNSLTSLSKSENNHNYQTEMLLRWNYPAASDLLRMYILKEHGGIYTDTDM MPAYSKQVIFKIMMQTNGDNRFLEDLKLRRAISDGVLRYVNNQNIDEVNYNEISDADKNIIKKILTEISKMPEDSIFTKI NTRIPRDTMPILRRYHLWPDGWNIRGLNGFMLSHKGSEVIDAVIAGQNQAYRELRRIRDNIHSEIYFKQTDELSSLPDTD KIGGILVKKYLSGSLFSKFRQDTIIPEALSTLQISGPDLIQRKMLQFFRSRGVLGEEFINERKLSDKAYIGVYKTTGTGK YDWLTPESIGVNDVTPADESTWCIGKGRCVDDFLFKDVSTLKTENLPELFLTKIDTDTFFSQWSTKTKKDLQKKIQDLTV RYNELIDSSTIDFKNLYEIDQMLHMIMLEMNDDIAKRSLFSLQVQIAEKIRRMTIPVDNIINIYPDLHKKNDNDLSMSIK GFLASNPHTKINILYSNKTEHNIFIKDLFSFAVMENELRDIINNMSKDKTPENWEGRVMLQRYLELKMKDHLSLQSSQEA NEFLEISTFIYENDFLREKIEAVKNKMNSHELYFEKIKKEQNTWQDLSTKEQKLQLIKALKEISGNTEKDSHYDRLLDAF FKKHNENIHNKIQRIKDEFKEYSRVAIHNIDKVIFKGQTLDRLYHEGYVFSDINTLSRYTLHGLGITGVHTEENLLPAPS SSLINILKEHYNEDEISAKLPLAYDYILNKKESSSIPVEILNKLSELPPHELLTPVLGQSVNPLGMGYSSDNGKITEQVI VSGADGFDNPISGLIYTYLEDLYNIHVRMREGTLNSQNLRQLLENSVSSCFLTEQSINKLLSEAEKRPYQSLTEIHQHLT GLPTIADATLSLLSVGLPGTGKLLRREQDYGRPPVTAIQDSTFVLPYNFKGIGFNDNIISSAPVASSLHFIAEHAKYTLL SWPEFYRHHAQRWFEMAKGYGSQNIDFHPQSLLVTQEGRCMGLALLYLQTEDTAHYSILQENLMTVSALHQTSNRDKLPL SKDDNSLMTRTYSLIEMLQYQGNKYITNESLLHKTAWNQERITLLFNEKGVKRALISTPNHTLVLQQLEDIYRLTDPNFG HADFLSPIDALKFIEAMIQLTPTLQEYYGLLNKDINKHIQVHYAESDMVWNKLLPENDAGLSTRIQHTTTDRLANLAEPV AVAGISLPVKTLYDIGATLDGRRITSPPTSEQIPSLRLNGDVLNDYLSRTVLTPEQADNIRKILHTQGIRSGTRPIDPEM IRGTQDDLVSSQTRLQRQATRVKQQLAGVLDTLQQHFQNIPRSSGRHLSVENIELADIGSGRFNLQIRDGETLHTTSVEV PEVVSRFQKLSTMLSALPASGIMDFDLGMSVVGVVQYARLLQQGHEDSTLAKINLAMDIKQLSEATLGSMIQIAGNKFLN TEGIQGFRLESAVAEGMRSVATRTGGTMGKALSASARVLELPVLETVLGTWNLYNSVIQLQQATSYSETMAARVQIAFDS ISLGLTAASVAFPPLIIATGPIAAIGMGASSIARNVARKEERHTQWLEYKKFLTDGSKHIVVASPERGLLDFSGNKVFGK MVLDLRQSPPLLHGESSFNADRKIGHRPDLGDWQIREKVGYANSISPYSSLAHGYANSKWPRTIPKIPSGEYDTIILGYG HQYQANTEIEYLSNWIVWREAVPDSTSRHKRPPLEVLNSQCTVIAGERKTTVLPLRVLSDLTPECTEQAISLKDYKFILR GGSGGLAVQVGGAGYYDIDANLVAKENTLSFRGLPEEFPLTFDLSKQTQSVMLKTPDDEVPVMTITQKGINTLVGTAAGK DRLIGNDKDNTFHTSSGGGTVISGGGNNRYIIPRDLKTPLTLTLSSNSVSHEIFLPETTLAELKPVAFELSLIYWAGNNI NVQPEDEAKLNHFAGNFRVHTRDGMTLEAVSRENGIQLAISLCDVQRWQAVYPEENNRPDAILDRLHDMGWSLTPEVRFQ GGETQVSYDPLTRQLVYQLQARYSEFQLAGSRHHTTAVTGTPGSRYIIMKPVTTQILPTQIILAGDNDHPETIDLLEASP VLVEGKKDKNSVILTIATIQYSLQLTISGIEESLPETTRVAIQPQDTRLLGDVLRILPDNGNWVGIFRSGHTPTVNRLEN LMALNQVMTFLPRVSGSAEQVLCLENLGGVRKKVEGELLSGKLKGAWKAEGEPTVPVNISDLSIPPYSRLYLIFEGKNNV LLRSKVHAAPLKITSAGEMQLSERQWQQQEHIIVKPDNEAPSLILSEFRRFTISSDKTFSLKLMCHQGMVRIDRRSLSVR LFYLREQPGIGSLRLTFRDFFTEVMDTTDREILEKELRPILIGDTHRFINAAYKNHLNIQLGDGVLNLADIVAEYARIQK EETSKILYQYQGAMKKKTDGPSVVEDAIMTTTVTTDSGELFPTFHPWYTDDLSGRYKSVPMARKADTLYHLTPKGDLQII YQVATKMVNQAMIVSLPNYRHEWEKYNLSILSEIPQNNNTVVHSILRVNGPTMQVRTIDYRGTDENNPIVSFSDTTFING EQMLSYDSHSSGRVYSREEYMMWELQQRVSEASSARTQDYWLMDAAVRNGEWKITPELLRHTPGYIRSTVSKWSRGWLKT GTILQTPEDRNTDVYLTTIQNNVFSRQGGGYQVYYRIDGMAGADIADNAPGETRCTLRPGTCFEVTSVDERHYEWNIIYV TLKTCGWSRNGQSKTPNGDNLFNHHHHHH B7UI23 singleParticle particle 0.9 4.0 25.0 NaH2PO4 sodium dihydrongen phosphate 100.0 NaCl sodium chloride 0.075 MnCl2 manganese cloride 1.5 C9H15O6PHCl TCEP Quantifoil R0.6/1 GOLD 300 GOLD HOLEY ARRAY GLOW DISCHARGE AIR ETHANE 90 277 FEI VITROBOT MARK IV FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 2.7 0.5 1.4000000000000001 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN TFS Selectris 5 FEI FALCON IV (4k x 4k) 41392 6.2 70.0 1 13373262 cryoSPARC 4.4 PHASE FLIPPING AND AMPLITUDE CORRECTION 2.8 FSC 0.143 CUT-OFF RELION 5.0 182000 MAXIMUM LIKELIHOOD cryoSPARC MAXIMUM LIKELIHOOD RELION 5.0 3 RELION 5.0 emd_19988.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 378.4 378.4 378.4 90.0 90.0 90.0 Z Y X -34.889429999999997 68.256389999999996 -0.007134838 1.1090758 0.946 0.946 0.946 6.5 AUTHOR composite map obtained in Phenix
from the model of conformation 1 residues from G2434 to the end were first rigidly fitted into the map. Then further refinement followed.
REAL