Cryo-EM model of E. coli aspartate transcarbamoylase in the R-state complexed with CP, succinate, CTP, and Mg2+

2026-05-27 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 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 2024-11-19 2026-04-15 2026-04-15 2026-05-27 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R35 GM124847 United States National Science Foundation (NSF, United States) DMR-1719875 United States Other government U24 GM129539 Simons Foundation SF349247 United States Cryo-EM model of E. coli aspartate transcarbamoylase in the R-state complexed with CP, succinate, CTP, and Mg2+ Miller RC Ando N Complex, Allostery, ATCase, R-State, CP, Succinate, CTP, CYTOSOLIC PROTEIN Miller RC Patterson MG Bhatt N Pei X Ando N Cooperativity in E. coli aspartate transcarbamoylase is tuned by allosteric breathing. Nat Commun UK 17 2026 41862478 doi:10.1038/s41467-026-70909-y 2041-1723 Liebschner D Afonine PV Baker ML Bunkoczi G Chen VB Croll TI Hintze B Hung LW Jain S McCoy AJ Moriarty NW Oeffner RD Poon BK Prisant MG Read RJ Richardson JS Richardson DC Sammito MD Sobolev OV Stockwell DH Terwilliger TC Urzhumtsev AG Videau LL Williams CJ Adams PD Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix Acta Crystallogr., Sect. D: Biol. Crystallogr. DK 75 861 877 2019 31588918 doi:10.1107/S2059798319011471 0907-4449 0766 ABCRE6 EMD-47956 other EM volume EMD-47957 other EM volume EMD-47959 other EM volume EMD-47966 other EM volume EMD-47958 other EM volume EMD-47961 other EM volume EMD-47963 other EM volume EMD-47964 other EM volume EMD-47965 other EM volume 9eeo FULLOVERLAP EMDB EMD-47956 other EM volume EMDB EMD-47957 other EM volume EMDB EMD-47959 other EM volume EMDB EMD-47966 other EM volume EMDB EMD-47958 other EM volume EMDB EMD-47961 other EM volume EMDB EMD-47963 other EM volume EMDB EMD-47964 other EM volume EMDB EMD-47965 other EM volume EMDB EMD-47960 associated EM volume

PDB 9EEK unspecified PDB 9EEL unspecified PDB 9EEN unspecified PDB 9EEU unspecified PDB 9EEM unspecified PDB 9EEP unspecified PDB 9EEQ unspecified PDB 9EER unspecified PDB 9EES unspecified PDB 9EEJ unspecified PDB 9EEH unspecified E. coli aspartate transcarbamoylase in the presence of substrate analogs CP and succinate and nucleotide effector CTP E. coli aspartate transcarbamoylase in the presence of substrate analogs CP and succinate and nucleotide effector CTP 0 1 2 Escherichia coli Aspartate carbamoyltransferase Escherichia coli 0.034337105 6 Escherichia coli LEVO ANPLYQKHIISINDLSRDDLNLVLATAAKLKANPQPELLKHKVIASCFFEASTRTRLSFETSMHRLGASVVGFSDSANTS LGKKGETLADTISVISTYVDAIVMRHPQEGAARLATEFSGNVPVLNAGDGSNQHPTQTLLDLFTIQETQGRLDNLHVAMV GDLKYGRTVHSLTQALAKFDGNRFYFIAPDALAMPQYILDMLDEKGIAWSLHSSIEEVMAEVDILYMTRVQKERLDPSEY ANVKAQFVLRASDLHNAKANMKVLHPLPRVDEIATDVDKTPHAWYFQQAGNGIFARQALLALVLNRDLVL C3SF53 2.1.3.2 Aspartate carbamoyltransferase regulatory chain Escherichia coli 0.017143625 6 Escherichia coli LEVO MTHDNKLQVEAIKRGTVIDHIPAQIGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLSEDQVDQLALYAPQ ATVNRIDNYEVVGKSRPSLPERIDNVLVCPNSNCISHAEPVSSSFAVRKRANDIALKCKYCEKEFSHNVVLAN C3SF57 PHOSPHORIC ACID MONO(FORMAMIDE)ESTER 0.00014102 6 CP SUCCINIC ACID 0.00011808799999999998 6 SIN ZINC ION 6.5409e-05 6 ZN CYTIDINE-5'-TRIPHOSPHATE 0.000483156 12 CTP MAGNESIUM ION 2.4305e-05 6 MG singleParticle particle 7.5 40.0 C4H11NO3 Tris(Hydroxymethyl)aminomethane 15.0 MgCl2 Magnesium chloride 1.0 C9H15O6P Tris(2-carboxyethyl)phosphine Quantifoil R1.2/1.3 COPPER 300 CARBON HOLEY GLOW DISCHARGE

Grids were manually coated with graphene-oxide following glow-discharge as is described in the associated publication.

ETHANE TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.8 2.3000000000000003 GATAN K3 BIOQUANTUM (6k x 4k) 51.75 1 cryoSPARC 4 PHASE FLIPPING AND AMPLITUDE CORRECTION C1 3.53 FSC 0.143 CUT-OFF RELION 4 450000 RANDOM ASSIGNMENT cryoSPARC 4 MAXIMUM LIKELIHOOD RELION 4 emd_47960.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 384.84 384.84 384.84 90.0 90.0 90.0 X Y Z -0.012131047 0.0155275725 -0.00000014706505 0.00043741745 1.069 1.069 1.069 0.00419 AUTHOR ::::EMDATABANK.org::::EMD-47960:::: emd_47960_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 384.84 384.84 384.84 90.0 90.0 90.0 X Y Z -0.028859917 0.04414214 0.000012309061 0.0006608245 1.069 1.069 1.069 AUTHOR ::::EMDATABANK.org::::EMD-47960:::: emd_47960_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 384.84 384.84 384.84 90.0 90.0 90.0 X Y Z -0.01674998 0.021438893 -0.00000008537335 0.0009362784 1.069 1.069 1.069 AUTHOR ::::EMDATABANK.org::::EMD-47960:::: emd_47960_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 384.84 384.84 384.84 90.0 90.0 90.0 X Y Z -0.015356213 0.023434587 -0.00000019579483 0.00093790266 1.069 1.069 1.069 AUTHOR ::::EMDATABANK.org::::EMD-47960::::