data_7VM7 # _model_server_result.job_id XNxTZ2ZqFK1Tp_ef_r5dvg _model_server_result.datetime_utc '2024-11-06 20:42:01' _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 7vm7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 7VM7 # _exptl.entry_id 7VM7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.371 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(6-carbamimidoylnaphthalen-2-yl) 4-carbamimidamidobenzoate' _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 120 _cell.entry_id 7VM7 _cell.length_a 120.982 _cell.length_b 120.982 _cell.length_c 42.222 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7VM7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 31 U CYS 42 1_555 A SG CYS 47 U CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf2 A SG CYS 39 U CYS 50 1_555 A SG CYS 110 U CYS 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 A SG CYS 135 U CYS 136 1_555 A SG CYS 204 U CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf4 A SG CYS 167 U CYS 168 1_555 A SG CYS 183 U CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf5 A SG CYS 194 U CYS 191 1_555 A SG CYS 222 U CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? # _chem_comp.formula 'C19 H17 N5 O2' _chem_comp.formula_weight 347.371 _chem_comp.id 7RF _chem_comp.mon_nstd_flag . _chem_comp.name '(6-carbamimidoylnaphthalen-2-yl) 4-carbamimidamidobenzoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 N3 C8 7RF doub 1 n n N2 C8 7RF sing 2 n n C8 N1 7RF sing 3 n n C4 C3 7RF doub 4 n y C4 C5 7RF sing 5 n y C3 C2 7RF sing 6 n y N1 C5 7RF sing 7 n n C5 C6 7RF doub 8 n y O1 C1 7RF doub 9 n n C2 C1 7RF sing 10 n n C2 C7 7RF doub 11 n y C1 O2 7RF sing 12 n n C18 C17 7RF doub 13 n y C18 C13 7RF sing 14 n y C6 C7 7RF sing 15 n y C14 C13 7RF doub 16 n y C14 C9 7RF sing 17 n y C17 C16 7RF sing 18 n y O2 C9 7RF sing 19 n n C13 C12 7RF sing 20 n y N5 C19 7RF doub 21 n n C9 C10 7RF doub 22 n y C16 C19 7RF sing 23 n n C16 C15 7RF doub 24 n y C19 N4 7RF sing 25 n n C12 C15 7RF sing 26 n y C12 C11 7RF doub 27 n y C10 C11 7RF sing 28 n y C4 H1 7RF sing 29 n n C3 H2 7RF sing 30 n n C14 H3 7RF sing 31 n n C18 H4 7RF sing 32 n n C17 H5 7RF sing 33 n n N5 H6 7RF sing 34 n n N4 H7 7RF sing 35 n n N4 H8 7RF sing 36 n n C15 H9 7RF sing 37 n n C11 H10 7RF sing 38 n n C10 H11 7RF sing 39 n n C7 H12 7RF sing 40 n n C6 H13 7RF sing 41 n n N1 H14 7RF sing 42 n n N3 H15 7RF sing 43 n n N2 H16 7RF sing 44 n n N2 H17 7RF sing 45 n n # _atom_sites.entry_id 7VM7 _atom_sites.fract_transf_matrix[1][1] 0.008266 _atom_sites.fract_transf_matrix[1][2] 0.004772 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009544 _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] 0.023684 _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 7RF U 1 301 301 7RF 7RF . C 3 HOH U 1 401 401 HOH HOH . C 3 HOH U 2 402 402 HOH HOH . C 3 HOH U 3 403 403 HOH HOH . C 3 HOH U 4 404 404 HOH HOH . C 3 HOH U 5 405 405 HOH HOH . C 3 HOH U 6 406 406 HOH HOH . C 3 HOH U 7 407 407 HOH HOH . C 3 HOH U 8 408 408 HOH HOH . C 3 HOH U 9 409 409 HOH HOH . C 3 HOH U 10 410 410 HOH HOH . C 3 HOH U 11 411 411 HOH HOH . C 3 HOH U 12 412 412 HOH HOH . C 3 HOH U 13 413 413 HOH HOH . C 3 HOH U 14 414 414 HOH HOH . C 3 HOH U 15 415 415 HOH HOH . C 3 HOH U 16 416 416 HOH HOH . C 3 HOH U 17 417 417 HOH HOH . C 3 HOH U 18 418 418 HOH HOH . C 3 HOH U 19 419 419 HOH HOH . C 3 HOH U 20 420 420 HOH HOH . C 3 HOH U 21 421 421 HOH HOH . C 3 HOH U 22 422 422 HOH HOH . C 3 HOH U 23 423 423 HOH HOH . C 3 HOH U 24 424 424 HOH HOH . C 3 HOH U 25 425 425 HOH HOH . C 3 HOH U 26 426 426 HOH HOH . C 3 HOH U 27 427 427 HOH HOH . C 3 HOH U 28 428 428 HOH HOH . C 3 HOH U 29 429 429 HOH HOH . C 3 HOH U 30 430 430 HOH HOH . C 3 HOH U 31 431 431 HOH HOH . C 3 HOH U 32 432 432 HOH HOH . C 3 HOH U 33 433 433 HOH HOH . C 3 HOH U 34 434 434 HOH HOH . C 3 HOH U 35 435 435 HOH HOH . C 3 HOH U 36 436 436 HOH HOH . C 3 HOH U 37 437 437 HOH HOH . C 3 HOH U 38 438 438 HOH HOH . C 3 HOH U 39 439 439 HOH HOH . C 3 HOH U 40 440 440 HOH HOH . C 3 HOH U 41 441 441 HOH HOH . C 3 HOH U 42 442 442 HOH HOH . C 3 HOH U 43 443 443 HOH HOH . C 3 HOH U 44 444 444 HOH HOH . C 3 HOH U 45 445 445 HOH HOH . C 3 HOH U 46 446 446 HOH HOH . C 3 HOH U 47 447 447 HOH HOH . C 3 HOH U 48 448 448 HOH HOH . C 3 HOH U 49 449 449 HOH HOH . C 3 HOH U 50 450 450 HOH HOH . C 3 HOH U 51 451 451 HOH HOH . C 3 HOH U 52 452 452 HOH HOH . C 3 HOH U 53 453 453 HOH HOH . C 3 HOH U 54 454 454 HOH HOH . C 3 HOH U 55 455 455 HOH HOH . C 3 HOH U 56 456 456 HOH HOH . C 3 HOH U 57 457 457 HOH HOH . C 3 HOH U 58 458 458 HOH HOH . C 3 HOH U 59 459 459 HOH HOH . C 3 HOH U 60 460 460 HOH HOH . C 3 HOH U 61 461 461 HOH HOH . C 3 HOH U 62 462 462 HOH HOH . C 3 HOH U 63 463 463 HOH HOH . C 3 HOH U 64 464 464 HOH HOH . C 3 HOH U 65 465 465 HOH HOH . C 3 HOH U 66 466 466 HOH HOH . C 3 HOH U 67 467 467 HOH HOH . C 3 HOH U 68 468 468 HOH HOH . C 3 HOH U 69 469 469 HOH HOH . C 3 HOH U 70 470 470 HOH HOH . C 3 HOH U 71 471 471 HOH HOH . C 3 HOH U 72 472 472 HOH HOH . C 3 HOH U 73 473 473 HOH HOH . C 3 HOH U 74 474 474 HOH HOH . C 3 HOH U 75 475 475 HOH HOH . C 3 HOH U 76 476 476 HOH HOH . C 3 HOH U 77 477 477 HOH HOH . C 3 HOH U 78 478 478 HOH HOH . C 3 HOH U 79 479 479 HOH HOH . C 3 HOH U 80 480 480 HOH HOH . C 3 HOH U 81 481 481 HOH HOH . C 3 HOH U 82 482 482 HOH HOH . C 3 HOH U 83 483 483 HOH HOH . C 3 HOH U 84 484 484 HOH HOH . C 3 HOH U 85 485 485 HOH HOH . C 3 HOH U 86 486 486 HOH HOH . C 3 HOH U 87 487 487 HOH HOH . C 3 HOH U 88 488 488 HOH HOH . C 3 HOH U 89 489 489 HOH HOH . C 3 HOH U 90 490 490 HOH HOH . C 3 HOH U 91 491 491 HOH HOH . C 3 HOH U 92 492 492 HOH HOH . C 3 HOH U 93 493 493 HOH HOH . C 3 HOH U 94 494 494 HOH HOH . C 3 HOH U 95 495 495 HOH HOH . C 3 HOH U 96 496 496 HOH HOH . C 3 HOH U 97 497 497 HOH HOH . C 3 HOH U 98 498 498 HOH HOH . C 3 HOH U 99 499 499 HOH HOH . C 3 HOH U 100 500 500 HOH HOH . C 3 HOH U 101 501 501 HOH HOH . C 3 HOH U 102 502 502 HOH HOH . C 3 HOH U 103 503 503 HOH HOH . C 3 HOH U 104 504 504 HOH HOH . C 3 HOH U 105 505 505 HOH HOH . C 3 HOH U 106 506 506 HOH HOH . C 3 HOH U 107 507 507 HOH HOH . C 3 HOH U 108 508 508 HOH HOH . C 3 HOH U 109 509 509 HOH HOH . C 3 HOH U 110 510 510 HOH HOH . C 3 HOH U 111 511 511 HOH HOH . C 3 HOH U 112 512 512 HOH HOH . C 3 HOH U 113 513 513 HOH HOH . C 3 HOH U 114 514 514 HOH HOH . C 3 HOH U 115 515 515 HOH HOH . C 3 HOH U 116 516 516 HOH HOH . C 3 HOH U 117 517 517 HOH HOH . C 3 HOH U 118 518 518 HOH HOH . C 3 HOH U 119 519 519 HOH HOH . C 3 HOH U 120 520 520 HOH HOH . C 3 HOH U 121 521 521 HOH HOH . C 3 HOH U 122 522 522 HOH HOH . C 3 HOH U 123 523 523 HOH HOH . C 3 HOH U 124 524 524 HOH HOH . C 3 HOH U 125 525 525 HOH HOH . C 3 HOH U 126 526 526 HOH HOH . C 3 HOH U 127 527 527 HOH HOH . C 3 HOH U 128 528 528 HOH HOH . C 3 HOH U 129 529 529 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 C4 7RF . . . B 2 -23.645 -11.645 -6.978 1 63.57 ? C4 7RF 301 U 1 HETATM 2 C C3 7RF . . . B 2 -24.568 -12.642 -6.728 1 61.05 ? C3 7RF 301 U 1 HETATM 3 C C2 7RF . . . B 2 -24.747 -13.119 -5.452 1 60.29 ? C2 7RF 301 U 1 HETATM 4 O O2 7RF . . . B 2 -26.687 -13.64 -4.314 1 52.61 ? O2 7RF 301 U 1 HETATM 5 C C1 7RF . . . B 2 -25.696 -14.101 -5.209 1 58.59 ? C1 7RF 301 U 1 HETATM 6 O O1 7RF . . . B 2 -25.593 -15.214 -5.776 1 47.86 ? O1 7RF 301 U 1 HETATM 7 C C14 7RF . . . B 2 -28.455 -15.155 -4.459 1 40.96 ? C14 7RF 301 U 1 HETATM 8 C C13 7RF . . . B 2 -29.369 -16.03 -3.909 1 37.56 ? C13 7RF 301 U 1 HETATM 9 C C18 7RF . . . B 2 -30.229 -16.623 -4.78 1 34 ? C18 7RF 301 U 1 HETATM 10 C C17 7RF . . . B 2 -31.174 -17.505 -4.341 1 32.13 ? C17 7RF 301 U 1 HETATM 11 C C16 7RF . . . B 2 -31.314 -17.844 -3.007 1 29.62 ? C16 7RF 301 U 1 HETATM 12 C C19 7RF . . . B 2 -32.338 -18.806 -2.746 1 27.52 ? C19 7RF 301 U 1 HETATM 13 N N5 7RF . . . B 2 -32.86 -19.494 -3.778 1 22.64 ? N5 7RF 301 U 1 HETATM 14 N N4 7RF . . . B 2 -32.78 -19.078 -1.531 1 24.94 ? N4 7RF 301 U 1 HETATM 15 C C15 7RF . . . B 2 -30.448 -17.197 -2.088 1 32.43 ? C15 7RF 301 U 1 HETATM 16 C C12 7RF . . . B 2 -29.455 -16.293 -2.55 1 36.99 ? C12 7RF 301 U 1 HETATM 17 C C11 7RF . . . B 2 -28.532 -15.613 -1.724 1 42.56 ? C11 7RF 301 U 1 HETATM 18 C C10 7RF . . . B 2 -27.592 -14.715 -2.279 1 44.48 ? C10 7RF 301 U 1 HETATM 19 C C9 7RF . . . B 2 -27.552 -14.492 -3.672 1 46.38 ? C9 7RF 301 U 1 HETATM 20 C C7 7RF . . . B 2 -23.976 -12.597 -4.415 1 66.16 ? C7 7RF 301 U 1 HETATM 21 C C6 7RF . . . B 2 -23.039 -11.601 -4.669 1 68.86 ? C6 7RF 301 U 1 HETATM 22 C C5 7RF . . . B 2 -22.852 -11.129 -5.963 1 68.31 ? C5 7RF 301 U 1 HETATM 23 N N1 7RF . . . B 2 -21.968 -10.147 -6.163 1 75.02 ? N1 7RF 301 U 1 HETATM 24 C C8 7RF . . . B 2 -21.259 -9.843 -7.278 1 80.28 ? C8 7RF 301 U 1 HETATM 25 N N3 7RF . . . B 2 -21.274 -10.587 -8.389 1 82.71 ? N3 7RF 301 U 1 HETATM 26 N N2 7RF . . . B 2 -20.469 -8.755 -7.279 1 83.75 ? N2 7RF 301 U 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 26 #