data_3VW7 # _model_server_result.job_id 8hovDaPXsejmLjmCWftpIQ _model_server_result.datetime_utc '2024-11-24 10:00:20' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 3vw7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":2001}' # _entry.id 3VW7 # _exptl.entry_id 3VW7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 492.582 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ethyl [(1R,3aR,4aR,6R,8aR,9S,9aS)-9-{(E)-2-[5-(3-fluorophenyl)pyridin-2-yl]ethenyl}-1-methyl-3-oxododecahydronaphtho[2,3-c]fur an-6-yl]carbamate' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 3VW7 _cell.length_a 44.044 _cell.length_b 71.46 _cell.length_c 172.187 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VW7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 93 A CYS 175 1_555 A SG CYS 172 A CYS 254 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc1 A OD2 ASP 66 A ASP 148 1_555 M NA NA . A NA 2012 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc2 A OG SER 107 A SER 189 1_555 M NA NA . A NA 2012 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? metalc ? metalc3 A OD2 ASP 444 A ASP 367 1_555 M NA NA . A NA 2012 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc4 M NA NA . A NA 2012 1_555 N O HOH . A HOH 3065 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc5 M NA NA . A NA 2012 1_555 N O HOH . A HOH 3066 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? # _chem_comp.formula 'C29 H33 F N2 O4' _chem_comp.formula_weight 492.582 _chem_comp.id VPX _chem_comp.mon_nstd_flag . _chem_comp.name 'ethyl [(1R,3aR,4aR,6R,8aR,9S,9aS)-9-{(E)-2-[5-(3-fluorophenyl)pyridin-2-yl]ethenyl}-1-methyl-3-oxododecahydronaphtho[2,3-c]fur an-6-yl]carbamate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms vorapaxar # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag CAH CAI VPX doub 440 n y CAH CAJ VPX sing 441 n y CAI CAZ VPX sing 442 n y CAJ CBC VPX doub 443 n y CAZ FAE VPX sing 444 n n CAZ CAN VPX doub 445 n y CBC CAN VPX sing 446 n y CBC CBB VPX sing 447 n n CAL CBB VPX doub 448 n y CAL CAK VPX sing 449 n y CBB CAM VPX sing 450 n y CAK CBA VPX doub 451 n y CAM NAT VPX doub 452 n y CAA CAO VPX sing 453 n n CBA NAT VPX sing 454 n y CBA CAF VPX sing 455 n n CAP CAQ VPX sing 456 n n CAP CBE VPX sing 457 n n OAV CAO VPX sing 458 n n OAV CAX VPX sing 459 n n CAQ CBI VPX sing 460 n n CAX OAC VPX doub 461 n n CAX NAU VPX sing 462 n n CAG CAF VPX doub 463 e n CAG CBF VPX sing 464 n n NAU CBE VPX sing 465 n n CBE CAR VPX sing 466 n n CBI CBF VPX sing 467 n n CBI CBG VPX sing 468 n n CAB CBD VPX sing 469 n n CBF CBJ VPX sing 470 n n CAR CBG VPX sing 471 n n CBD CBJ VPX sing 472 n n CBD OAW VPX sing 473 n n CBG CAS VPX sing 474 n n CBJ CBH VPX sing 475 n n CAS CBH VPX sing 476 n n OAW CAY VPX sing 477 n n CBH CAY VPX sing 478 n n CAY OAD VPX doub 479 n n CAA H1 VPX sing 480 n n CAA H2 VPX sing 481 n n CAA H3 VPX sing 482 n n CAO H4 VPX sing 483 n n CAO H5 VPX sing 484 n n NAU H6 VPX sing 485 n n CBE H7 VPX sing 486 n n CAR H8 VPX sing 487 n n CAR H9 VPX sing 488 n n CAP H10 VPX sing 489 n n CAP H11 VPX sing 490 n n CAQ H12 VPX sing 491 n n CAQ H13 VPX sing 492 n n CBI H14 VPX sing 493 n n CBG H15 VPX sing 494 n n CAS H16 VPX sing 495 n n CAS H17 VPX sing 496 n n CBH H18 VPX sing 497 n n CBD H19 VPX sing 498 n n CAB H20 VPX sing 499 n n CAB H21 VPX sing 500 n n CAB H22 VPX sing 501 n n CBJ H23 VPX sing 502 n n CBF H24 VPX sing 503 n n CAG H25 VPX sing 504 n n CAF H27 VPX sing 505 n n CAK H29 VPX sing 506 n n CAL H30 VPX sing 507 n n CAM H31 VPX sing 508 n n CAN H32 VPX sing 509 n n CAI H33 VPX sing 510 n n CAH H34 VPX sing 511 n n CAJ H35 VPX sing 512 n n # _atom_sites.entry_id 3VW7 _atom_sites.fract_transf_matrix[1][1] 0.022705 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013994 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.005808 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 VPX A 1 2001 2001 VPX VPX . C 3 OLC A 1 2002 4001 OLC MOG . D 3 OLC A 1 2003 4002 OLC MOG . E 3 OLC A 1 2004 4003 OLC MOG . F 3 OLC A 1 2005 4004 OLC MOG . G 3 OLC A 1 2006 4005 OLC MOG . H 3 OLC A 1 2007 4006 OLC MOG . I 3 OLC A 1 2008 4007 OLC MOG . J 3 OLC A 1 2009 4008 OLC MOG . K 3 OLC A 1 2010 4009 OLC MOG . L 4 CL A 1 2011 5001 CL CL . M 5 NA A 1 2012 5002 NA NA . N 6 HOH A 1 3001 3001 HOH HOH . N 6 HOH A 2 3002 3003 HOH HOH . N 6 HOH A 3 3003 3004 HOH HOH . N 6 HOH A 4 3004 3005 HOH HOH . N 6 HOH A 5 3005 3006 HOH HOH . N 6 HOH A 6 3006 3007 HOH HOH . N 6 HOH A 7 3007 3008 HOH HOH . N 6 HOH A 8 3008 3009 HOH HOH . N 6 HOH A 9 3009 3010 HOH HOH . N 6 HOH A 10 3010 3011 HOH HOH . N 6 HOH A 11 3011 3012 HOH HOH . N 6 HOH A 12 3012 3013 HOH HOH . N 6 HOH A 13 3013 3018 HOH HOH . N 6 HOH A 14 3014 3020 HOH HOH . N 6 HOH A 15 3015 3021 HOH HOH . N 6 HOH A 16 3016 3022 HOH HOH . N 6 HOH A 17 3017 3023 HOH HOH . N 6 HOH A 18 3018 3025 HOH HOH . N 6 HOH A 19 3019 3026 HOH HOH . N 6 HOH A 20 3020 3027 HOH HOH . N 6 HOH A 21 3021 3028 HOH HOH . N 6 HOH A 22 3022 3030 HOH HOH . N 6 HOH A 23 3023 3031 HOH HOH . N 6 HOH A 24 3024 3033 HOH HOH . N 6 HOH A 25 3025 3034 HOH HOH . N 6 HOH A 26 3026 3040 HOH HOH . N 6 HOH A 27 3027 3043 HOH HOH . N 6 HOH A 28 3028 3048 HOH HOH . N 6 HOH A 29 3029 3049 HOH HOH . N 6 HOH A 30 3030 3050 HOH HOH . N 6 HOH A 31 3031 3051 HOH HOH . N 6 HOH A 32 3032 3052 HOH HOH . N 6 HOH A 33 3033 3053 HOH HOH . N 6 HOH A 34 3034 3054 HOH HOH . N 6 HOH A 35 3035 3055 HOH HOH . N 6 HOH A 36 3036 3056 HOH HOH . N 6 HOH A 37 3037 3058 HOH HOH . N 6 HOH A 38 3038 3059 HOH HOH . N 6 HOH A 39 3039 3060 HOH HOH . N 6 HOH A 40 3040 3061 HOH HOH . N 6 HOH A 41 3041 3064 HOH HOH . N 6 HOH A 42 3042 3065 HOH HOH . N 6 HOH A 43 3043 3067 HOH HOH . N 6 HOH A 44 3044 3068 HOH HOH . N 6 HOH A 45 3045 3069 HOH HOH . N 6 HOH A 46 3046 3070 HOH HOH . N 6 HOH A 47 3047 3071 HOH HOH . N 6 HOH A 48 3048 3072 HOH HOH . N 6 HOH A 49 3049 3073 HOH HOH . N 6 HOH A 50 3050 3076 HOH HOH . N 6 HOH A 51 3051 3078 HOH HOH . N 6 HOH A 52 3052 3079 HOH HOH . N 6 HOH A 53 3053 3081 HOH HOH . N 6 HOH A 54 3054 3082 HOH HOH . N 6 HOH A 55 3055 3083 HOH HOH . N 6 HOH A 56 3056 3084 HOH HOH . N 6 HOH A 57 3057 3085 HOH HOH . N 6 HOH A 58 3058 3086 HOH HOH . N 6 HOH A 59 3059 3087 HOH HOH . N 6 HOH A 60 3060 3088 HOH HOH . N 6 HOH A 61 3061 3089 HOH HOH . N 6 HOH A 62 3062 3090 HOH HOH . N 6 HOH A 63 3063 3091 HOH HOH . N 6 HOH A 64 3064 3092 HOH HOH . N 6 HOH A 65 3065 3101 HOH HOH . N 6 HOH A 66 3066 3103 HOH HOH . N 6 HOH A 67 3067 3104 HOH HOH . N 6 HOH A 68 3068 3105 HOH HOH . N 6 HOH A 69 3069 3106 HOH HOH . N 6 HOH A 70 3070 3108 HOH HOH . N 6 HOH A 71 3071 3109 HOH HOH . N 6 HOH A 72 3072 3110 HOH HOH . N 6 HOH A 73 3073 3111 HOH HOH . N 6 HOH A 74 3074 3112 HOH HOH . N 6 HOH A 75 3075 3114 HOH HOH . N 6 HOH A 76 3076 3115 HOH HOH . N 6 HOH A 77 3077 3116 HOH HOH . N 6 HOH A 78 3078 3117 HOH HOH . N 6 HOH A 79 3079 3118 HOH HOH . N 6 HOH A 80 3080 3119 HOH HOH . N 6 HOH A 81 3081 3120 HOH HOH . N 6 HOH A 82 3082 3121 HOH HOH . N 6 HOH A 83 3083 3122 HOH HOH . N 6 HOH A 84 3084 3123 HOH HOH . N 6 HOH A 85 3085 3124 HOH HOH . N 6 HOH A 86 3086 3125 HOH HOH . N 6 HOH A 87 3087 3126 HOH HOH . N 6 HOH A 88 3088 3127 HOH HOH . N 6 HOH A 89 3089 3128 HOH HOH . N 6 HOH A 90 3090 3129 HOH HOH . N 6 HOH A 91 3091 3130 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C CAA VPX . . . B 2 -16.871 -8.997 58.591 1 43.41 ? CAA VPX 2001 A 1 HETATM 2 C CAO VPX . . . B 2 -15.518 -8.462 59.056 1 42.59 ? CAO VPX 2001 A 1 HETATM 3 O OAV VPX . . . B 2 -14.506 -9.421 58.761 1 36.02 ? OAV VPX 2001 A 1 HETATM 4 C CAX VPX . . . B 2 -13.301 -8.96 59.174 1 30.25 ? CAX VPX 2001 A 1 HETATM 5 O OAC VPX . . . B 2 -13.123 -7.754 59.323 1 31.24 ? OAC VPX 2001 A 1 HETATM 6 N NAU VPX . . . B 2 -12.308 -9.821 59.414 1 27.48 ? NAU VPX 2001 A 1 HETATM 7 C CBE VPX . . . B 2 -10.981 -9.389 59.864 1 27.23 ? CBE VPX 2001 A 1 HETATM 8 C CAR VPX . . . B 2 -10.419 -10.432 60.807 1 25 ? CAR VPX 2001 A 1 HETATM 9 C CAP VPX . . . B 2 -10.063 -9.253 58.668 1 24.74 ? CAP VPX 2001 A 1 HETATM 10 C CAQ VPX . . . B 2 -8.68 -8.835 59.131 1 24.56 ? CAQ VPX 2001 A 1 HETATM 11 C CBI VPX . . . B 2 -8.114 -9.869 60.09 1 26.54 ? CBI VPX 2001 A 1 HETATM 12 C CBG VPX . . . B 2 -9.039 -10.014 61.275 1 25.22 ? CBG VPX 2001 A 1 HETATM 13 C CAS VPX . . . B 2 -8.491 -11.083 62.187 1 26.08 ? CAS VPX 2001 A 1 HETATM 14 C CBH VPX . . . B 2 -7.146 -10.671 62.749 1 24.45 ? CBH VPX 2001 A 1 HETATM 15 C CAY VPX . . . B 2 -6.533 -11.811 63.237 1 28.98 ? CAY VPX 2001 A 1 HETATM 16 O OAD VPX . . . B 2 -6.641 -12.137 64.417 1 29.8 ? OAD VPX 2001 A 1 HETATM 17 O OAW VPX . . . B 2 -5.823 -12.514 62.307 1 29.61 ? OAW VPX 2001 A 1 HETATM 18 C CBD VPX . . . B 2 -5.844 -11.699 61.113 1 27.23 ? CBD VPX 2001 A 1 HETATM 19 C CAB VPX . . . B 2 -4.455 -11.701 60.476 1 26.61 ? CAB VPX 2001 A 1 HETATM 20 C CBJ VPX . . . B 2 -6.162 -10.319 61.655 1 24.4 ? CBJ VPX 2001 A 1 HETATM 21 C CBF VPX . . . B 2 -6.763 -9.383 60.584 1 27.32 ? CBF VPX 2001 A 1 HETATM 22 C CAG VPX . . . B 2 -5.789 -9.232 59.407 1 25.16 ? CAG VPX 2001 A 1 HETATM 23 C CAF VPX . . . B 2 -4.981 -7.956 59.63 1 27.97 ? CAF VPX 2001 A 1 HETATM 24 C CBA VPX . . . B 2 -4.007 -7.764 58.656 1 29.41 ? CBA VPX 2001 A 1 HETATM 25 C CAK VPX . . . B 2 -3.785 -8.693 57.644 1 32.13 ? CAK VPX 2001 A 1 HETATM 26 C CAL VPX . . . B 2 -2.797 -8.46 56.69 1 29.17 ? CAL VPX 2001 A 1 HETATM 27 N NAT VPX . . . B 2 -3.275 -6.646 58.716 1 33.43 ? NAT VPX 2001 A 1 HETATM 28 C CAM VPX . . . B 2 -2.281 -6.386 57.776 1 28.65 ? CAM VPX 2001 A 1 HETATM 29 C CBB VPX . . . B 2 -2.041 -7.295 56.759 1 32.74 ? CBB VPX 2001 A 1 HETATM 30 C CBC VPX . . . B 2 -1.045 -7.011 55.833 1 36.39 ? CBC VPX 2001 A 1 HETATM 31 C CAN VPX . . . B 2 0.034 -6.228 56.219 1 35.09 ? CAN VPX 2001 A 1 HETATM 32 C CAZ VPX . . . B 2 1.04 -5.925 55.313 1 34.78 ? CAZ VPX 2001 A 1 HETATM 33 F FAE VPX . . . B 2 2.076 -5.172 55.696 1 37.76 ? FAE VPX 2001 A 1 HETATM 34 C CAI VPX . . . B 2 0.968 -6.406 54.012 1 32.26 ? CAI VPX 2001 A 1 HETATM 35 C CAH VPX . . . B 2 -0.113 -7.188 53.622 1 34.73 ? CAH VPX 2001 A 1 HETATM 36 C CAJ VPX . . . B 2 -1.121 -7.49 54.531 1 39.39 ? CAJ VPX 2001 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 36 #