data_3VQY
#
_model_server_result.job_id            wFiz_Poki6CQu9texKH1aQ 
_model_server_result.datetime_utc      '2025-01-11 12:43:31' 
_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          3vqy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":502}' 
#
_entry.id    3VQY 
#
_exptl.entry_id    3VQY 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              246.303 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N~6~-(tert-butoxycarbonyl)-L-lysine 
_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            3VQY 
_cell.length_a            103.355 
_cell.length_b            103.355 
_cell.length_c            70.906 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3VQY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        172 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 64' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 4_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 51.6775 89.508056 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_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
metalc ? metalc1 A OE2 GLU 233 A GLU 396 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.699 ? 
metalc ? metalc2 A OE1 GLU 233 A GLU 396 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.934 ? 
metalc ? metalc3 A OG SER 236 A SER 399 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? 
metalc ? metalc4 B O1B ANP . A ANP 501 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? 
metalc ? metalc5 B O1G ANP . A ANP 501 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? 
metalc ? metalc6 B O2B ANP . A ANP 501 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? 
metalc ? metalc7 B O2A ANP . A ANP 501 1_555 E MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.932 ? 
metalc ? metalc8 D MG MG . A MG 503 1_555 F O HOH . A HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? 
metalc ? metalc9 D MG MG . A MG 503 1_555 F O HOH . A HOH 656 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? 
metalc ? metalc10 D MG MG . A MG 503 1_555 F O HOH . A HOH 685 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? 
metalc ? metalc11 D MG MG . A MG 503 1_555 F O HOH . A HOH 697 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? 
metalc ? metalc12 E MG MG . A MG 504 1_555 F O HOH . A HOH 640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.93 ? 
#
_chem_comp.formula           'C11 H22 N2 O4' 
_chem_comp.formula_weight    246.303 
_chem_comp.id                LBY 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              N~6~-(tert-butoxycarbonyl)-L-lysine 
_chem_comp.type              'l-peptide linking' 
_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
O C LBY doub 223 n n 
C OXT LBY sing 224 n n 
C CA LBY sing 225 n n 
N CA LBY sing 226 n n 
CA CB LBY sing 227 n n 
CB CG LBY sing 228 n n 
CG CD LBY sing 229 n n 
C3 CT LBY sing 230 n n 
O2 CT LBY sing 231 n n 
O2 CZ LBY sing 232 n n 
CT C1 LBY sing 233 n n 
CT C2 LBY sing 234 n n 
CD CE LBY sing 235 n n 
CE NZ LBY sing 236 n n 
CZ NZ LBY sing 237 n n 
CZ O1 LBY doub 238 n n 
C1 H11 LBY sing 239 n n 
C1 H12 LBY sing 240 n n 
C1 H13 LBY sing 241 n n 
C2 H21 LBY sing 242 n n 
C2 H22 LBY sing 243 n n 
C2 H23 LBY sing 244 n n 
C3 H31 LBY sing 245 n n 
C3 H32 LBY sing 246 n n 
C3 H33 LBY sing 247 n n 
NZ HZ1 LBY sing 248 n n 
CE HE2 LBY sing 249 n n 
CE HE3 LBY sing 250 n n 
CD HD2 LBY sing 251 n n 
CD HD3 LBY sing 252 n n 
CG HG2 LBY sing 253 n n 
CG HG3 LBY sing 254 n n 
CB HB2 LBY sing 255 n n 
CB HB3 LBY sing 256 n n 
CA HA LBY sing 257 n n 
OXT HXT LBY sing 258 n n 
N H LBY sing 259 n n 
N H2 LBY sing 260 n n 
#
_atom_sites.entry_id                     3VQY 
_atom_sites.fract_transf_matrix[1][1]    0.009675 
_atom_sites.fract_transf_matrix[1][2]    0.005586 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011172 
_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]    0.014103 
_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 ANP A 1 501 301 ANP ANP . 
C 3 LBY A 1 502 501 LBY BLS . 
D 4 MG A 1 503 701 MG MG . 
E 4 MG A 1 504 702 MG MG . 
F 5 HOH A 1 601 1 HOH TIP . 
F 5 HOH A 2 602 2 HOH TIP . 
F 5 HOH A 3 603 3 HOH TIP . 
F 5 HOH A 4 604 4 HOH TIP . 
F 5 HOH A 5 605 5 HOH TIP . 
F 5 HOH A 6 606 6 HOH TIP . 
F 5 HOH A 7 607 7 HOH TIP . 
F 5 HOH A 8 608 8 HOH TIP . 
F 5 HOH A 9 609 9 HOH TIP . 
F 5 HOH A 10 610 10 HOH TIP . 
F 5 HOH A 11 611 11 HOH TIP . 
F 5 HOH A 12 612 12 HOH TIP . 
F 5 HOH A 13 613 13 HOH TIP . 
F 5 HOH A 14 614 14 HOH TIP . 
F 5 HOH A 15 615 15 HOH TIP . 
F 5 HOH A 16 616 17 HOH TIP . 
F 5 HOH A 17 617 18 HOH TIP . 
F 5 HOH A 18 618 19 HOH TIP . 
F 5 HOH A 19 619 20 HOH TIP . 
F 5 HOH A 20 620 21 HOH TIP . 
F 5 HOH A 21 621 22 HOH TIP . 
F 5 HOH A 22 622 23 HOH TIP . 
F 5 HOH A 23 623 24 HOH TIP . 
F 5 HOH A 24 624 25 HOH TIP . 
F 5 HOH A 25 625 26 HOH TIP . 
F 5 HOH A 26 626 27 HOH TIP . 
F 5 HOH A 27 627 28 HOH TIP . 
F 5 HOH A 28 628 29 HOH TIP . 
F 5 HOH A 29 629 30 HOH TIP . 
F 5 HOH A 30 630 31 HOH TIP . 
F 5 HOH A 31 631 32 HOH TIP . 
F 5 HOH A 32 632 33 HOH TIP . 
F 5 HOH A 33 633 34 HOH TIP . 
F 5 HOH A 34 634 35 HOH TIP . 
F 5 HOH A 35 635 36 HOH TIP . 
F 5 HOH A 36 636 37 HOH TIP . 
F 5 HOH A 37 637 38 HOH TIP . 
F 5 HOH A 38 638 40 HOH TIP . 
F 5 HOH A 39 639 41 HOH TIP . 
F 5 HOH A 40 640 42 HOH TIP . 
F 5 HOH A 41 641 43 HOH TIP . 
F 5 HOH A 42 642 44 HOH TIP . 
F 5 HOH A 43 643 45 HOH TIP . 
F 5 HOH A 44 644 46 HOH TIP . 
F 5 HOH A 45 645 47 HOH TIP . 
F 5 HOH A 46 646 48 HOH TIP . 
F 5 HOH A 47 647 49 HOH TIP . 
F 5 HOH A 48 648 50 HOH TIP . 
F 5 HOH A 49 649 51 HOH TIP . 
F 5 HOH A 50 650 52 HOH TIP . 
F 5 HOH A 51 651 53 HOH TIP . 
F 5 HOH A 52 652 54 HOH TIP . 
F 5 HOH A 53 653 55 HOH TIP . 
F 5 HOH A 54 654 56 HOH TIP . 
F 5 HOH A 55 655 57 HOH TIP . 
F 5 HOH A 56 656 58 HOH TIP . 
F 5 HOH A 57 657 59 HOH TIP . 
F 5 HOH A 58 658 60 HOH TIP . 
F 5 HOH A 59 659 61 HOH TIP . 
F 5 HOH A 60 660 63 HOH TIP . 
F 5 HOH A 61 661 67 HOH TIP . 
F 5 HOH A 62 662 69 HOH TIP . 
F 5 HOH A 63 663 71 HOH TIP . 
F 5 HOH A 64 664 72 HOH TIP . 
F 5 HOH A 65 665 76 HOH TIP . 
F 5 HOH A 66 666 79 HOH TIP . 
F 5 HOH A 67 667 81 HOH TIP . 
F 5 HOH A 68 668 82 HOH TIP . 
F 5 HOH A 69 669 83 HOH TIP . 
F 5 HOH A 70 670 86 HOH TIP . 
F 5 HOH A 71 671 89 HOH TIP . 
F 5 HOH A 72 672 91 HOH TIP . 
F 5 HOH A 73 673 93 HOH TIP . 
F 5 HOH A 74 674 94 HOH TIP . 
F 5 HOH A 75 675 95 HOH TIP . 
F 5 HOH A 76 676 96 HOH TIP . 
F 5 HOH A 77 677 97 HOH TIP . 
F 5 HOH A 78 678 99 HOH TIP . 
F 5 HOH A 79 679 100 HOH TIP . 
F 5 HOH A 80 680 104 HOH TIP . 
F 5 HOH A 81 681 106 HOH TIP . 
F 5 HOH A 82 682 109 HOH TIP . 
F 5 HOH A 83 683 110 HOH TIP . 
F 5 HOH A 84 684 111 HOH TIP . 
F 5 HOH A 85 685 113 HOH TIP . 
F 5 HOH A 86 686 115 HOH TIP . 
F 5 HOH A 87 687 117 HOH TIP . 
F 5 HOH A 88 688 119 HOH TIP . 
F 5 HOH A 89 689 121 HOH TIP . 
F 5 HOH A 90 690 128 HOH TIP . 
F 5 HOH A 91 691 131 HOH TIP . 
F 5 HOH A 92 692 132 HOH TIP . 
F 5 HOH A 93 693 136 HOH TIP . 
F 5 HOH A 94 694 141 HOH TIP . 
F 5 HOH A 95 695 142 HOH TIP . 
F 5 HOH A 96 696 143 HOH TIP . 
F 5 HOH A 97 697 146 HOH TIP . 
F 5 HOH A 98 698 147 HOH TIP . 
#
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 C1 LBY . . . C 3 38.417 29.986 -6.691 1 91.11 ? C1 LBY 502 A 1 
HETATM 2 C CT LBY . . . C 3 38.631 28.845 -5.696 1 90.84 ? CT LBY 502 A 1 
HETATM 3 C C2 LBY . . . C 3 37.832 27.622 -6.152 1 90.19 ? C2 LBY 502 A 1 
HETATM 4 C C3 LBY . . . C 3 40.119 28.492 -5.623 1 91.03 ? C3 LBY 502 A 1 
HETATM 5 O O2 LBY . . . C 3 38.155 29.241 -4.403 1 91.26 ? O2 LBY 502 A 1 
HETATM 6 C CZ LBY . . . C 3 38.751 30.358 -3.899 1 89.81 ? CZ LBY 502 A 1 
HETATM 7 O O1 LBY . . . C 3 39.732 30.824 -4.476 1 87.83 ? O1 LBY 502 A 1 
HETATM 8 N NZ LBY . . . C 3 38.265 30.919 -2.794 1 88.26 ? NZ LBY 502 A 1 
HETATM 9 C CE LBY . . . C 3 37.104 30.436 -2.029 1 86.99 ? CE LBY 502 A 1 
HETATM 10 C CD LBY . . . C 3 36.575 29.099 -2.552 1 87.22 ? CD LBY 502 A 1 
HETATM 11 C CG LBY . . . C 3 35.177 28.8 -2.005 1 86.93 ? CG LBY 502 A 1 
HETATM 12 C CB LBY . . . C 3 34.569 27.528 -2.6 1 86.66 ? CB LBY 502 A 1 
HETATM 13 C CA LBY . . . C 3 34.148 27.666 -4.065 1 87 ? CA LBY 502 A 1 
HETATM 14 C C LBY . . . C 3 33.034 28.704 -4.215 1 86.8 ? C LBY 502 A 1 
HETATM 15 O OXT LBY . . . C 3 32.333 28.934 -3.205 1 86.54 ? OXT LBY 502 A 1 
HETATM 16 O O LBY . . . C 3 32.906 29.243 -5.335 1 86.6 ? O LBY 502 A 1 
HETATM 17 N N LBY . . . C 3 35.304 28.067 -4.878 1 88.25 ? N LBY 502 A 1 
#
_model_server_stats.io_time_ms              66 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           267 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           17 
#