2026-08-12 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update REFINEMENT_DESCRIPTION chem_comp_atom chem_comp_bond em_3d_fitting_list pdbx_initial_refinement_model _em_3d_fitting_list.accession_code _em_3d_fitting_list.initial_refinement_model_id _em_3d_fitting_list.source_name _em_3d_fitting_list.type REMEDIATION REPOSITORY Metalloprotein remediation STRUCTURE_SUMMARY em_admin pdbx_entry_details pdbx_modification_feature pdbx_nonpoly_atom_coordination pdbx_nonpoly_atom_coordination_sphere pdbx_nonpoly_atom_coordination_sphere_order pdbx_struct_conn_angle struct_conn _em_admin.last_update _pdbx_entry_details.has_protein_modification RCSB RCSB 2022-04-26 2022-08-17 2022-08-17 2026-08-12 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01GM099813 United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R35GM138206 United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) T32 GM008326 United States National Aeronautic Space Administration (NASA, United States) 80NSSC18M0093 United States CryoEM structure of Azotobacter vinelandii nitrogenase complex (1:1 FeP:MoFeP, ADP/ATP-bound) during catalytic N2 reduction Rutledge HL Cook B Tezcan FA Herzik MA nitrogenase, MoFeP, nitrogen fixation, FeP, OXIDOREDUCTASE Rutledge HL Cook BD Nguyen HPM Herzik Jr MA Tezcan FA Structures of the nitrogenase complex prepared under catalytic turnover conditions. Science US 377 865 869 2022 35901182 doi:10.1126/science.abq7641 1095-9203 0038 SCIEAS 7ut9 FULLOVERLAP EMDB EMD-26763 associated EM volume
CryoEM structure of Azotobacter vinelandii nitrogenase complex (1:1 FeP:MoFeP, ADP/ATP-bound) during catalytic N2 reduction
 Azotobacter vinelandii nitrogenase complex (1:1 FeP:MoFeP, ATP/ADP-bound) during catalytic N2 reduction Azotobacter vinelandii nitrogenase complex (1:1 FeP:MoFeP, ATP/ADP-bound) during catalytic N2 reduction 0 1 2 3
Wild-type MoFeP and FeP were purified from the native organism, Azotobacter vinelandii. This map is the structure of the 1:1 ATP/ADP-bound complex that formed during catalytic N2 reduction.
Azotobacter vinelandii DJ 0.29621 Nitrogenase molybdenum-iron protein alpha chain Azotobacter vinelandii DJ 0.055363042999999994 2 LEVO MTGMSREEVESLIQEVLEVYPEKARKDRNKHLAVNDPAVTQSKKCIISNKKSQPGLMTIRGCAYAGSKGVVWGPIKDMIH ISHGPVGCGQYSRAGRRNYYIGTTGVNAFVTMNFTSDFQEKDIVFGGDKKLAKLIDEVETLFPLNKGISVQSECPIGLIG DDIESVSKVKGAELSKTIVPVRCEGFRGVSQSLGHHIANDAVRDWVLGKRDEDTTFASTPYDVAIIGDYNIGGDAWSSRI LLEEMGLRCVAQWSGDGSISEIELTPKVKLNLVHCYRSMNYISRHMEEKYGIPWMEYNFFGPTKTIESLRAIAAKFDESI QKKCEEVIAKYKPEWEAVVAKYRPRLEGKRVMLYIGGLRPRHVIGAYEDLGMEVVGTGYEFAHNDDYDRTMKEMGDSTLL YDDVTGYEFEEFVKRIKPDLIGSGIKEKFIFQKMGIPFREMHSWDYSGPYHGFDGFAIFARDMDMTLNNPCWKKLQAPWE ASEGAEKVAASA P07328 1.18.6.1 Nitrogenase molybdenum-iron protein beta chain Azotobacter vinelandii DJ 0.059535879 2 LEVO MSQQVDKIKASYPLFLDQDYKDMLAKKRDGFEEKYPQDKIDEVFQWTTTKEYQELNFQREALTVNPAKACQPLGAVLCAL GFEKTMPYVHGSQGCVAYFRSYFNRHFREPVSCVSDSMTEDAAVFGGQQNMKDGLQNCKATYKPDMIAVSTTCMAEVIGD DLNAFINNSKKEGFIPDEFPVPFAHTPSFVGSHVTGWDNMFEGIARYFTLKSMDDKVVGSNKKINIVPGFETYLGNFRVI KRMLSEMGVGYSLLSDPEEVLDTPADGQFRMYAGGTTQEEMKDAPNALNTVLLQPWHLEKTKKFVEGTWKHEVPKLNIPM GLDWTDEFLMKVSEISGQPIPASLTKERGRLVDMMTDSHTWLHGKRFALWGDPDFVMGLVKFLLELGCEPVHILCHNGNK RWKKAVDAILAASPYGKNATVYIGKDLWHLRSLVFTDKPDFMIGNSYGKFIQRDTLHKGKEFEVPLIRIGFPIFDRHHLH RSTTLGYEGAMQILTTLVNSILERLDEETRGMQATDYNHDLVR C1DGZ8 1.18.6.1 Nitrogenase iron protein gamma chain Azotobacter vinelandii DJ DJ / ATCC BAA-1303 0.03154824 2 LEVO MAMRQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVEDLELEDVLKAG YGGVKCVESGGPEPGVGCAGRGVITAINFLEEEGAYEDDLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMY AANNISKGIVKYANSGSVRLGGLICNSRNTDREDELIIALANKLGTQMIHFVPRDNVVQRAEIRRMTVIEYDPKAKQADE YRALARKVVDNKLLVIPNPITMDELEELLMEFGIMEVEDESIVGKTAEEV C1DGZ6 1.18.6.1 3-HYDROXY-3-CARBOXY-ADIPIC ACID 0.00020615 2 HCA iron-sulfur-molybdenum cluster with interstitial carbon 0.000787451 2 ICS FE(8)-S(7) CLUSTER 0.000671215 2 CLF FE (III) ION 5.5845e-05 2 FE MAGNESIUM ION 2.4305e-05 2 MG ADENOSINE-5'-DIPHOSPHATE 0.000427201 1 ADP IRON/SULFUR CLUSTER 0.00035163999999999996 1 SF4 ADENOSINE-5'-TRIPHOSPHATE 0.000507181 1 ATP water 1.8015e-05 60 HOH singleParticle particle 5.0 8.0 20.0 (HOCH2)3CNH2 TRIS 25.0 NaCl sodium chloride
Solutions were prepared and filtered immediately prior to the experiment.
 UltrAuFoil R1.2/1.3 GOLD 300 GOLD HOLEY PLASMA CLEANING ETHANE-PROPANE 95 277 HOMEMADE PLUNGER
Custom manual plunger. Greater than 95% humidity..
1.4 mg/mL MoFeP 3.6 mg/mL FeP
 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 2.7 1.2 2.0 135000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 93.0 123.0 GATAN K3 (6k x 4k) 1 14903 65.0 1 19711170 CTFFIND 4.1 PHASE FLIPPING ONLY 4WZA
Used chains A,B,C,D for MoFeP Used chains E,F for FeP
 C1 2.44 FSC 0.143 CUT-OFF cryoSPARC 3.3.2 48293 MAXIMUM LIKELIHOOD RELION 4.0/beta2 MAXIMUM LIKELIHOOD RELION 4.0/beta2 4 42412.0 cryoSPARC 3.32 emd_26763.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 320.63998 320.63998 320.63998 90.0 90.0 90.0 X Y Z -0.11086246 2.4587653 0.0010972586 0.023184957 0.835 0.835 0.835 0.075 AUTHOR deepEMhanced sharpened map 4WZA PDB experimental model RIGID BODY FIT REAL emd_26763_msk_1.map emd_26763_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 320.63998 320.63998 320.63998 90.0 90.0 90.0 X Y Z 0.0 35.519419999999997 0.16075443 1.3333955 0.835 0.835 0.835 AUTHOR locally refined unsharpened map emd_26763_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 320.63998 320.63998 320.63998 90.0 90.0 90.0 X Y Z -0.6411528 2.5367541 0.06909579 0.10485985 0.835 0.835 0.835 AUTHOR gold-standard half map B emd_26763_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 320.63998 320.63998 320.63998 90.0 90.0 90.0 X Y Z -0.6299121 2.3439107 0.06919418 0.10495461 0.835 0.835 0.835 AUTHOR gold-standard half map A