Cryo-EM structure of apo BAM from P. aeruginosa PAO1

2026-08-26 REL RCSB 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 INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY 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.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _em_admin.last_update EXPERIMENTAL_SUMMARY citation citation_author em_admin _citation.country _citation.journal_abbrev _citation.journal_id_CSD _citation.journal_id_ISSN _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _em_admin.last_update DATABASE_REFERENCES citation citation_author em_admin _citation.journal_volume _citation_author.identifier_ORCID _em_admin.last_update EXPERIMENTAL_SUMMARY citation citation_author em_admin _citation.journal_volume _citation_author.identifier_ORCID _em_admin.last_update RCSB RCSB 2025-08-05 2026-06-10 2026-06-10 2026-08-26 Australian Research Council (ARC) DP230102150 Australia Cryo-EM structure of apo BAM from P. aeruginosa PAO1 Munder F Venugopal H Grinter R protein complex, outer membrane, beta-barrel, protein folding, Gram-negative bacterial protein, MEMBRANE PROTEIN Munder F Johnson MD Samuels I McCaughey L Zdorevskyi O Wang C Kropp A Zavan L Price EP Sarovich DS Varshney S McDevitt CA Venugopal H Sharma V Doyle MT Short F Ghosal D Connolly JPR Knott GJ Grinter R L-type pyocins inhibit the BAM complex to kill without cell entry. Nat Commun UK 17 2026 42393045 doi:10.1038/s41467-026-74995-w 2041-1723 9pxg FULLOVERLAP EMDB EMD-71969 associated EM volume

PAO1-BAM PAO1-BAM 0 1 2 3 4 5

BAM complex natively purified from P. aeruginosa PAO1

Pseudomonas aeruginosa PAO1 0.019 BamA 1 1

BamA subunit of the BAM complex

Pseudomonas aeruginosa PAO1 BamB 1 2

Bamb of the BAM complex

Pseudomonas aeruginosa PAO1 BamC 1 3

BamC of the BAM complex

Pseudomonas aeruginosa PAO1 BamD 1 4

BamD of the BAM complex

Pseudomonas aeruginosa PAO1 BamE 1 5

BamE of the BAM complex

Pseudomonas aeruginosa PAO1 Outer membrane protein assembly factor BamA Pseudomonas aeruginosa PAO1 0.092258469 1 LEVO MKRFLLPALLSALMIAEVHAESAWSHPQFEKGGGSGGGSGGSAWSHPQFEKENLYFQGSFTVSDIRVNGLQRVSAGSVFA ALPLNVGETIDDQALVQATRSLFKTGFFQDIQLGRDGNVLVVTVVERPSISSIEIEGNKAISKEDLLKGLKQSGLAEGEI FQRATLEGVRNELQRQYVAQGRYSAEINAEVIPQPRNRVALKININEGTVAAISHINVVGNTVFSEEDLTDLFELKTTNW LSFFKNDDKYAREKLSGDLERLRSYYLDRGYINMDIASTQVSITPDKKHVYITVNINEGEKYTIRDVKLTGDLKVPEEEV KRLLLVQKGQVFSRKVMTTTSDLITRRLGNEGYTFANVNGVPEAHDDDKTVSVTFVVDPGKRAYVNRINFRGNTKTEDEV LRREMRQMEGGWASTYLIDQSKARLERLGYFKEVNVETPAVPGTDDQVDVNYSVEEQPSGSITASVGFAQSAGLILGGSI SQNNFLGTGNKVSIGLTRSEYQTRYNFGFVDPYWTVDGVSLGYNAFYRKTDYDELDVDVASYSVNSLGAGMSIGYPISET SRLTYGLSVQRDQIDTGRYTVDEIYDFLDKEGDNFTNFKASIGWSESTLNKGVLATRGHSQSLTLETTLPGSDLSFYKID YRGQVFAPLTDNYTMRFHTELGYGDGYGSTERLPFYENYYAGGFNSVRGFKDSTLGPRSTPSVARNPDGTPMKNQGPDSK GRYTDPDQDPEAFGGNILITGGAELLFPLPFVKDQRQLRTVLFWDVGSTFDTDCPTKTTTNCDGIKTDNLASSVGVGLTW ITALGPLSFSLATPIKKPDNAETQVFQFSLGQTF Q9HXY4 Outer membrane protein assembly factor BamB Pseudomonas aeruginosa PAO1 0.040436656 1 LEVO MVQWKHAALLALALAVVGCSSNSKKELPPAELTDFKEEVVLSKQWSRSVGDGQGDLYNLLEPAVDGSTIYAASAEGRVMA IQRETGDVLWKKDLERPVSGGVGVGYGLVLVGTLRGDVIALDEATGKKKWTKRVNSEVLSAPATNGDVVVVQTQDDKLIG LDAASGDQRWIYESTVPVLTLRGTGAPLIAGNMALAGLASGKVVAVDVQRGLPIWEQRVAIPQGRSELDRVVDIDGGLLL SGDTLYVVSYQGRAAALDVNSGRLLWQREASSYVGVAEGFGNIYVSQASGSVEGLDSRGASSLWNNDALARRQLSAPAVF SSNVVVGDLEGYVHLLSQVDGRFVGRERVDSDGVRVRPLVVGSWMYVFGNGGKLVAYTIR Q9HXJ7 Outer membrane protein assembly factor BamC Pseudomonas aeruginosa PAO1 0.043100664 1 LEVO MKRLAGLTALALVIGNTSGCGWLWGPEGYFRDRGDDYLGARETPPMQLPEGVHSKPLDPLLPIPLNVATTHEKEGEYEVP RPQPLANAGDISDYSLQRSGDSRWVVAQRPPAEVWPVARQFFEENGFRIADERPQTGEFSSDWQSLSQLSAPLARRLSSR VSGVEPDGQARVRVRIEPGVQSNTSEVYVLSQTRAAGDTSSPSWPSKSVAPSLDAALLDEMVASMARSAEQGGSVSLLAA NSIYDTPGTFELSKDGSGNPVLTLQSDFDRSWVSVGRALDNADIRVDDLNRSLGVYYVNIAEGAKKPDEDKPGFFSRLFG GGEKTKEEEDAKAQRYQVRLTTVSDAVQVTVDKDINTSAPADVAQNVLEKLQESMRNAVRGSGQRKPGQFGLGEQF Q9I4W2 Outer membrane protein assembly factor BamD Pseudomonas aeruginosa PAO1 0.038660914 1 LEVO MQVKHLLLIAILALTAACSSNKETVDENLSESQLYQQAQDDLNNKSYNSAVTKLKALESRYPFGRYAEQAQLELIYANYK NMEPEAARAAAERFIRLHPQHPNVDYAYYLKGLSSFDQDRGLLARFLPLDMTKRDPGAARDSFNEFAQLTSRFPNSRYAP DAKARMVYLRNLLAAYEVHVGHYYLKRQAYVAAANRGRYVVENFQETPAVGDGLAIMVEAYRRLGLDDLASTSLETLKLN YPDNASLKDGEFVARESEADTRSWLAKATLGLIEGGEPPPHMETQAAKDVIKQYEDAEREIPAELKPENQDHSADDEKPE SDDDEDSGRSWWSYMTFGLFD P33641 Outer membrane protein assembly factor BamE Pseudomonas aeruginosa PAO1 0.019411865 1 LEVO MQNAKLMLTCLAFAGLAALAGCSFPGVYKIDIQQGNVVTQDMIDQLRPGMTRRQVRFIMGNPLIVDTFHANRWDYLYSIQ PGGGRRQQERVSLFFNDSDQLAGLNGDFMPGVSRDEAILGKEGSTTVTQPADQQKPEAQKEEPPKPGSTLEQLQREVDEA QPVPVPTPEPLDPSPQ O68562 SODIUM ION 2.299e-05 1 NA singleParticle particle 2.8 8.0 50.0 Tris-HCl 150.0 NaCl Sodium chloride

Buffer originally contained 0.01 % LMNG, but before grid preparation, LMNG concentration was removed by dilution and re-concentrating in 100 kDa concentrators

UltrAuFoil R1.2/1.3 GOLD 300 CARBON HOLEY 50.0 GLOW DISCHARGE 180 AIR ETHANE 100 277 FEI VITROBOT MARK IV TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 0.5 1.5 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN FEI FALCON IV (4k x 4k) 8372 5.22 60.0 1 3831721

Particles picked with trained TOPAZ picking model

RELION 5.0 PHASE FLIPPING AND AMPLITUDE CORRECTION 1 C1 2.75 FSC 0.143 CUT-OFF cryoSPARC 4.0 121910 MAXIMUM LIKELIHOOD cryoSPARC MAXIMUM LIKELIHOOD cryoSPARC emd_71969.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -0.84883356 1.1106242 -0.00046640373 0.025778363 0.75 0.75 0.75 0.1 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Cryosparc consensus sharp map of BAM (BamA-BamE) AlphaFold in silico model

BamA-E

emd_71969_msk_3.map emd_71969_msk_2.map emd_71969_msk_1.map emd_71969_additional_7.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -0.31405765 0.519304 -0.0004664037 0.014278313 0.75 0.75 0.75 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Cryosparc consensus map of BAM (BamA-BamE) emd_71969_additional_6.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -0.37513316 0.7479072 -0.00047930944 0.012246131 0.75 0.75 0.75 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Cryosparc local refined map of BamDE (and C) emd_71969_additional_5.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -1.2295954 1.695783 -0.0004793095 0.028430874 0.75 0.75 0.75 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Cryosparc local refined sharp map of BamDE (and C) emd_71969_additional_4.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -0.25213054 0.53943557 -0.00046583297 0.011368459 0.75 0.75 0.75 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Cryosparc local refined map of BamB emd_71969_additional_3.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -1.1344348 1.6113032 -0.00046583294 0.02863825 0.75 0.75 0.75 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Cryosparc local refined sharp map of BamB emd_71969_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -0.39526328 0.63044626 -0.00047629076 0.014617223 0.75 0.75 0.75 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Cryosparc local refined map of BamA emd_71969_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -1.123794 1.4679706 -0.00047629085 0.03363852 0.75 0.75 0.75 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Cryosparc local refined sharp map of BamA emd_71969_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -0.9764743 0.89589095 0.0003933596 0.10562952 0.75 0.75 0.75 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Half map B of consensus map emd_71969_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 240.0 240.0 240.0 90.0 90.0 90.0 X Y Z -0.9109867 0.848315 0.00038081902 0.10562778 0.75 0.75 0.75 AUTHOR ::::EMDATABANK.org::::EMD-71969:::: Half map A of consensus map