data_5MKO
#
_model_server_result.job_id            USKFXO-d8RFnABeQM286tA 
_model_server_result.datetime_utc      '2024-10-19 10:34:05' 
_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          5mko 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":401}' 
#
_entry.id    5MKO 
#
_exptl.entry_id    5MKO 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              347.221 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ADENOSINE MONOPHOSPHATE' 
_entity.pdbx_number_of_molecules    2 
_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            5MKO 
_cell.length_a            68.86 
_cell.length_b            72.32 
_cell.length_c            128.28 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5MKO 
_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    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,G,H,I,J,K,L 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 G N 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 SG CYS 6 A CYS 3 1_555 D ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? 
metalc ? metalc2 A SG CYS 9 A CYS 6 1_555 D ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? 
metalc ? metalc3 A SG CYS 25 A CYS 22 1_555 D ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? 
metalc ? metalc4 A ND1 HIS 28 A HIS 25 1_555 D ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? 
metalc ? metalc5 A SG CYS 131 A CYS 128 1_555 F FE1 FES . A FES 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? 
metalc ? metalc6 A SG CYS 134 A CYS 131 1_555 F FE2 FES . A FES 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? 
metalc ? metalc7 A SG CYS 223 A CYS 220 1_555 F FE1 FES . A FES 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.673 ? 
metalc ? metalc8 A SG CYS 275 A CYS 272 1_555 E ZN ZN . A ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? 
metalc ? metalc9 A SG CYS 278 A CYS 275 1_555 E ZN ZN . A ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? 
metalc ? metalc10 A SG CYS 287 A CYS 284 1_555 E ZN ZN . A ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? 
metalc ? metalc11 A SG CYS 290 A CYS 287 1_555 E ZN ZN . A ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.728 ? 
metalc ? metalc12 B SG CYS 6 B CYS 3 1_555 H ZN ZN . B ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? 
metalc ? metalc13 B SG CYS 9 B CYS 6 1_555 H ZN ZN . B ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? 
metalc ? metalc14 B SG CYS 25 B CYS 22 1_555 H ZN ZN . B ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.52 ? 
metalc ? metalc15 B ND1 HIS 28 B HIS 25 1_555 H ZN ZN . B ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? 
metalc ? metalc16 B SG CYS 131 B CYS 128 1_555 J FE1 FES . B FES 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.615 ? 
metalc ? metalc17 B SG CYS 134 B CYS 131 1_555 J FE2 FES . B FES 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? 
metalc ? metalc18 B SG CYS 223 B CYS 220 1_555 J FE1 FES . B FES 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? 
metalc ? metalc19 B SG CYS 275 B CYS 272 1_555 I ZN ZN . B ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? 
metalc ? metalc20 B SG CYS 278 B CYS 275 1_555 I ZN ZN . B ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? 
metalc ? metalc21 B SG CYS 287 B CYS 284 1_555 I ZN ZN . B ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? 
metalc ? metalc22 B SG CYS 290 B CYS 287 1_555 I ZN ZN . B ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.763 ? 
#
_chem_comp.formula           'C10 H14 N5 O7 P' 
_chem_comp.formula_weight    347.221 
_chem_comp.id                AMP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'ADENOSINE MONOPHOSPHATE' 
_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
P O1P AMP doub 13 n n 
P O2P AMP sing 14 n n 
P O3P AMP sing 15 n n 
P O5' AMP sing 16 n n 
O2P HOP2 AMP sing 17 n n 
O3P HOP3 AMP sing 18 n n 
O5' C5' AMP sing 19 n n 
C5' C4' AMP sing 20 n n 
C5' "H5'1" AMP sing 21 n n 
C5' "H5'2" AMP sing 22 n n 
C4' O4' AMP sing 23 n n 
C4' C3' AMP sing 24 n n 
C4' H4' AMP sing 25 n n 
O4' C1' AMP sing 26 n n 
C3' O3' AMP sing 27 n n 
C3' C2' AMP sing 28 n n 
C3' H3' AMP sing 29 n n 
O3' HO3' AMP sing 30 n n 
C2' O2' AMP sing 31 n n 
C2' C1' AMP sing 32 n n 
C2' H2' AMP sing 33 n n 
O2' HO2' AMP sing 34 n n 
C1' N9 AMP sing 35 n n 
C1' H1' AMP sing 36 n n 
N9 C8 AMP sing 37 n y 
N9 C4 AMP sing 38 n y 
C8 N7 AMP doub 39 n y 
C8 H8 AMP sing 40 n n 
N7 C5 AMP sing 41 n y 
C5 C6 AMP sing 42 n y 
C5 C4 AMP doub 43 n y 
C6 N6 AMP sing 44 n n 
C6 N1 AMP doub 45 n y 
N6 HN61 AMP sing 46 n n 
N6 HN62 AMP sing 47 n n 
N1 C2 AMP sing 48 n y 
C2 N3 AMP doub 49 n y 
C2 H2 AMP sing 50 n n 
N3 C4 AMP sing 51 n y 
#
_atom_sites.entry_id                     5MKO 
_atom_sites.fract_transf_matrix[1][1]    0.014522 
_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]    0.013827 
_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]    0.007795 
_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
C 2 AMP A 1 401 1 AMP AMP . 
D 3 ZN A 1 402 1 ZN ZN . 
E 3 ZN A 1 403 2 ZN ZN . 
F 4 FES A 1 404 1 FES FES . 
G 2 AMP B 1 401 2 AMP AMP . 
H 3 ZN B 1 402 3 ZN ZN . 
I 3 ZN B 1 403 4 ZN ZN . 
J 4 FES B 1 404 2 FES FES . 
K 5 HOH A 1 501 84 HOH HOH . 
K 5 HOH A 2 502 50 HOH HOH . 
K 5 HOH A 3 503 18 HOH HOH . 
K 5 HOH A 4 504 39 HOH HOH . 
K 5 HOH A 5 505 114 HOH HOH . 
K 5 HOH A 6 506 112 HOH HOH . 
K 5 HOH A 7 507 121 HOH HOH . 
K 5 HOH A 8 508 78 HOH HOH . 
K 5 HOH A 9 509 113 HOH HOH . 
K 5 HOH A 10 510 41 HOH HOH . 
K 5 HOH A 11 511 131 HOH HOH . 
K 5 HOH A 12 512 130 HOH HOH . 
K 5 HOH A 13 513 45 HOH HOH . 
K 5 HOH A 14 514 109 HOH HOH . 
K 5 HOH A 15 515 111 HOH HOH . 
K 5 HOH A 16 516 8 HOH HOH . 
K 5 HOH A 17 517 4 HOH HOH . 
L 5 HOH B 1 501 94 HOH HOH . 
L 5 HOH B 2 502 115 HOH HOH . 
L 5 HOH B 3 503 86 HOH HOH . 
L 5 HOH B 4 504 108 HOH HOH . 
L 5 HOH B 5 505 96 HOH HOH . 
L 5 HOH B 6 506 103 HOH HOH . 
L 5 HOH B 7 507 69 HOH HOH . 
L 5 HOH B 8 508 87 HOH HOH . 
L 5 HOH B 9 509 89 HOH HOH . 
L 5 HOH B 10 510 107 HOH HOH . 
L 5 HOH B 11 511 88 HOH HOH . 
L 5 HOH B 12 512 97 HOH HOH . 
L 5 HOH B 13 513 98 HOH HOH . 
L 5 HOH B 14 514 118 HOH HOH . 
L 5 HOH B 15 515 83 HOH HOH . 
L 5 HOH B 16 516 127 HOH HOH . 
L 5 HOH B 17 517 91 HOH HOH . 
L 5 HOH B 18 518 93 HOH HOH . 
L 5 HOH B 19 519 100 HOH HOH . 
L 5 HOH B 20 520 120 HOH HOH . 
L 5 HOH B 21 521 81 HOH HOH . 
L 5 HOH B 22 522 128 HOH HOH . 
L 5 HOH B 23 523 90 HOH HOH . 
L 5 HOH B 24 524 122 HOH HOH . 
L 5 HOH B 25 525 123 HOH HOH . 
L 5 HOH B 26 526 82 HOH HOH . 
L 5 HOH B 27 527 62 HOH HOH . 
L 5 HOH B 28 528 126 HOH HOH . 
L 5 HOH B 29 529 92 HOH HOH . 
L 5 HOH B 30 530 129 HOH HOH . 
L 5 HOH B 31 531 119 HOH HOH . 
L 5 HOH B 32 532 116 HOH HOH . 
L 5 HOH B 33 533 102 HOH HOH . 
L 5 HOH B 34 534 117 HOH HOH . 
L 5 HOH B 35 535 104 HOH HOH . 
L 5 HOH B 36 536 2 HOH HOH . 
L 5 HOH B 37 537 101 HOH HOH . 
L 5 HOH B 38 538 14 HOH HOH . 
L 5 HOH B 39 539 95 HOH HOH . 
L 5 HOH B 40 540 125 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 P P AMP . . . G 2 -9.321 12.71 34.724 1 93.61 ? P AMP 401 B 1 
HETATM 2 O O1P AMP . . . G 2 -9.33 13.459 33.378 1 94.05 ? O1P AMP 401 B 1 
HETATM 3 O O2P AMP . . . G 2 -10.144 11.436 34.701 1 94.13 ? O2P AMP 401 B 1 
HETATM 4 O O3P AMP . . . G 2 -7.851 12.49 35.143 1 94.41 ? O3P AMP 401 B 1 
HETATM 5 O O5' AMP . . . G 2 -9.914 13.74 35.806 1 90.43 ? O5' AMP 401 B 1 
HETATM 6 C C5' AMP . . . G 2 -9.462 15.096 36.004 1 84.5 ? C5' AMP 401 B 1 
HETATM 7 C C4' AMP . . . G 2 -9.194 15.383 37.461 1 80.17 ? C4' AMP 401 B 1 
HETATM 8 O O4' AMP . . . G 2 -10.302 14.927 38.27 1 77.85 ? O4' AMP 401 B 1 
HETATM 9 C C3' AMP . . . G 2 -7.964 14.714 38.058 1 77.77 ? C3' AMP 401 B 1 
HETATM 10 O O3' AMP . . . G 2 -6.761 15.424 37.778 1 77.52 ? O3' AMP 401 B 1 
HETATM 11 C C2' AMP . . . G 2 -8.308 14.685 39.546 1 76.63 ? C2' AMP 401 B 1 
HETATM 12 O O2' AMP . . . G 2 -8.007 15.937 40.152 1 77.42 ? O2' AMP 401 B 1 
HETATM 13 C C1' AMP . . . G 2 -9.827 14.443 39.517 1 76.09 ? C1' AMP 401 B 1 
HETATM 14 N N9 AMP . . . G 2 -10.239 13.044 39.679 1 72.81 ? N9 AMP 401 B 1 
HETATM 15 C C8 AMP . . . G 2 -10.137 12.048 38.744 1 72.22 ? C8 AMP 401 B 1 
HETATM 16 N N7 AMP . . . G 2 -10.486 10.862 39.181 1 71.72 ? N7 AMP 401 B 1 
HETATM 17 C C5 AMP . . . G 2 -10.856 11.093 40.496 1 71.27 ? C5 AMP 401 B 1 
HETATM 18 C C6 AMP . . . G 2 -11.282 10.231 41.529 1 71.57 ? C6 AMP 401 B 1 
HETATM 19 N N6 AMP . . . G 2 -11.429 8.912 41.379 1 71.25 ? N6 AMP 401 B 1 
HETATM 20 N N1 AMP . . . G 2 -11.545 10.777 42.739 1 71.91 ? N1 AMP 401 B 1 
HETATM 21 C C2 AMP . . . G 2 -11.399 12.098 42.894 1 71.88 ? C2 AMP 401 B 1 
HETATM 22 N N3 AMP . . . G 2 -11 13.007 41.997 1 72.39 ? N3 AMP 401 B 1 
HETATM 23 C C4 AMP . . . G 2 -10.729 12.437 40.813 1 71.61 ? C4 AMP 401 B 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           23 
#