2026-02-04 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY COORDINATE_REPLACEMENT AUTHOR Atomic clashes
We wanted to improve upon the previous clashscore
STRUCTURE_SUMMARY atom_site em_admin pdbx_contact_author pdbx_struct_sheet_hbond pdbx_validate_torsion refine_ls_restr struct_conf struct_conn struct_mon_prot_cis struct_sheet struct_sheet_order struct_sheet_range _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _em_admin.last_update _refine_ls_restr.dev_ideal _refine_ls_restr.number _struct_conn.pdbx_dist_value _struct_mon_prot_cis.pdbx_omega_angle EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update RCSB RCSB 2025-06-27 2025-07-23 2025-07-23 2026-02-04 Other private Antibody (1B2) Bound Crosslinked Rifamycin Synthetase Module 1 with a C-terminal Type II Thioesterase Cogan DP Liu C West RC Chen M Polyketide Synthase Module, Antibody (Fab), Transferase-Immune System complex Liu C West RC Chen M Cohn W Wang G Mandot AM Kim S Cogan DP Molecular Basis for Asynchronous Chain Elongation During Rifamycin Antibiotic Biosynthesis. Biorxiv US 2025 40631255 doi:10.1101/2025.07.05.663307 2692-8205 9pc6 FULLOVERLAP EMDB EMD-71497 associated EM volume
Antibody (1B2) Bound Crosslinked Rifamycin Synthetase Module 1 with a C-terminal Type II Thioesterase
 Two antibody fragments (Fabs) in complex with homodimeric, crosslinked polyketide synthase module 1 of the rifamycin synthetase fused with a C-terminal type II thioesterase Two antibody fragments (Fabs) in complex with homodimeric, crosslinked polyketide synthase module 1 of the rifamycin synthetase fused with a C-terminal type II thioesterase 0 1 2 3 Amycolatopsis mediterranei NRRL B-3240 0.49504131 6-deoxyerythronolide-B synthase,RifR Amycolatopsis mediterranei 0.196008141 2 Escherichia coli BL21(DE3) LEVO MASTDSEKVAEYLRRATLDLRAARQRIRELEGEPIAIVGMACRLPGGVASPEDLWRLVAERVDAVSEFPGDRGWDLDSLI DPDRERAGTSYVGQGGFLHDAGEFDAGFFGISPREAVAMDPQQRLLLETSWEALENAGVDPIALKGTDTGVFSGLMGQGY GSGAVAPELEGFVTTGVASSVASGRVSYVLGLEGPAVTVDTACSSSLVAMHLAAQALRQGECSMALAGGVTVMATPGSFV EFSRQRALAPDGRCKAFAAAADGTGWSEGVGVVVLERLSVARERGHRILAVLRGSAVNQDGASNGLTAPNGLSQQRVIRR ALAAAGLAPSDVDVVEAHGTGTTLGDPIEAQALLATYGQERKQPLWLGSLKSNIGHAQAAAGVAGVIKMVQALRHETLPP TLHVDKPTLEVDWSAGAIELLTEARAWPRNGRPRRAGVSSFGVSGTNAHLILEEAPAEEPVAAPELPVVPLVVSARSTES LSGQAERLASLLEGDVSLTEVAGALVSRRAVLDERAVVVAGSREEAVTGLRALNTAGSGTPGKVVWVFPGQGTQWAGMGR ELLAESPVFAERIAECAAALAPWIDWSLVDVLRGEGDLGRVDVLQPACFAVMVGLAAVWESVGVRPDAVVGHSQGEIAAA CVSGALSLEDAAKVVALRSQAIAAELSGRGGMASVALGEDDVVSRLVDGVEVAAVNGPSSVVIAGDAHALDATLEILSGE GIRVRRVAVDYASHTRHVEDIRDTLAETLAGISAQAPAVPFYSTVTSEWVRDAGVLDGGYWYRNLRNQVRFGAAATALLE QGHTVFVEVSAHPVTVQPLSELTGDAIGTLRREDGGLRRLLASMGELFVRGIDVDWTAMVPAAGWVDLPTYAFEHRHYWL EPAEPASAGDPLLGTVVSTPGSDRLTAVAQWSRRAQPWAVDGLVPNAALVEAAIRLGDLAGTPVVGELVVDAPVVLPRRG SREVQLIVGEPGEQRRRPIEVFSREADEPWTRHAHGTLAPAAAAVPEPAAAGDATDVTVAGLRDADRYGIHPALLDAAVR TVVGDDLLPSVWTGVSLLASGATAVTVTPTATGLRLTDPAGQPVLTVESVRGTPFVAEQGTTDALFRVDWPEIPLPTAET ADFLPYEATSAEATLSALQAWLADPAETRLAVVTGDCTEPGAAAIWGLVRSAQSEHPGRIVLADLDDPAVLPAVVASGEP QVRVRNGVASVPRLTRVTPRQDARPLDPEGTVLITGGTGTLGALTARHLVTAHGVRHLVLVSRRGEAPELQEELTALGAS VAIAACDVADRAQLEAVLRAIPAEHPLTAVIHTAGVLDDGVVTELTPDRLATVRRPKVDAARLLDELTREADLAAFVLFS SAAGVLGNPGQAGYAAANAELDALARQRNSLDLPAVSIAWGYWATVSGMTEHLGDADLRRNQRIGMSGLPADEGMALLDA AIATGGTLVAAKFDVAALRATAKAGGPVPPLLRGLAPLPRRAAAKTASLTERLAGLAETEQAAALLDLVRRHAAEVLGHS GAESVHSGRTFKDAGFD(4HH)LTAVELRNRLAAATGLTLSPAMIFDYPKPPALADHLRAKLFGSGGGGSGGGGSHRPEA EKWLRRFERAPDARARLVCLPHAGGSASFFFPLAKALAPAVEVLAVQYPGRQDRRHEPPVDSIGGLTNRLLEVLRPFGDR PLALFGHSMGAIIGYELALRMPEAGLPAPVHLFASGRRAPSRYRDDDVRGASDERLVAELRKLGGSDAAMLADPELLAMV LPAIRSDYRAVETYRHEPGRRVDCPVTVFTGDHDPRVSVGEARAWEEHTTGPADLRVLPGGHFFLVDQAAPMIATMTEKL AGPALTGSTGGNSGNSSSVDKLAAALEHHHHHH O54666 Q7BUF9 2.3.1.94 Antibody Fragment 1B2 Heavy Chain Homo sapiens 0.026447611 2 Escherichia coli BL21(DE3) LEVO MAEVQLVQSGGGLVQPGRSLRLSCTASGFTFGDYAMSWVRQAPGKGLEWVGFIRSKAYGGTTEYAASVKGRFTISRDDSK SIAYLQMNSLKTEDTAVYYCTRGGTLFDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVS WNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCAALVPRGSAHHHHHHAA DYKDDDDKA Antibody Fragment 1B2 Light Chain Homo sapiens 0.025715831999999997 2 Escherichia coli BL21(DE3) LEVO LFAIPLVVPFYSHSALDVVMTQSPLSLPVTPGEPASISCRSSQSLLHSNGYNYLDWYLQKPGQSPQLLIYLGSNRASGVP DRFSGSGSGTDFTLKISRVEAEDVGVYYCMQSLQTPRLTFGPGTKVDIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNN FYPRGAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC singleParticle particle 10 7.2 100.0 C6H8O7 citric acid 10.0 C8H18N2O4S hepes
100 mM citric acid, 10 mM HEPES, pH 7.2 (NaOH)
 Quantifoil R2/1 COPPER 300 CARBON HOLEY GLOW DISCHARGE AIR 0.036000000000000004 ETHANE 100 277.15 FEI VITROBOT MARK IV TFS GLACIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 0.1 3.677 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN FEI FALCON IV (4k x 4k) 1 7631 50.0 1 1229709 cryoSPARC 4.7.0 PHASE FLIPPING AND AMPLITUDE CORRECTION 1 C1 3.96 FSC 0.143 CUT-OFF cryoSPARC 4.7.0 91575 MAXIMUM LIKELIHOOD cryoSPARC 4.7.0 MAXIMUM LIKELIHOOD cryoSPARC 4.7.0 5 RELION 5.0 emd_71497.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 438.0 438.0 438.0 90.0 90.0 90.0 X Y Z -0.05061764 0.14521205 0.000020064628 0.0047266833 0.73 0.73 0.73 0.0502 AUTHOR Antibody (1B2) Bound Crosslinked Rifamycin Synthetase Module 1 with a C-terminal Type II Thioesterase AlphaFold in silico model RIGID BODY FIT REAL emd_71497_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 438.0 438.0 438.0 90.0 90.0 90.0 X Y Z -13.011760000000001 29.739681000000001 0.008928141 0.5576087 0.73 0.73 0.73 AUTHOR Additional Map emd_71497_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 438.0 438.0 438.0 90.0 90.0 90.0 X Y Z -1.4351894 1.4473633 0.000113984206 0.15315996 0.73 0.73 0.73 AUTHOR Half Map B emd_71497_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 438.0 438.0 438.0 90.0 90.0 90.0 X Y Z -1.3612769 1.3995738 0.00011170662 0.15341781 0.73 0.73 0.73 AUTHOR Half Map A