data_6S3N
#
_model_server_result.job_id            T_1jiOPXmibPiypCaJv4jQ 
_model_server_result.datetime_utc      '2024-10-19 20:11:40' 
_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          6s3n 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":1001}' 
#
_entry.id    6S3N 
#
_exptl.entry_id    6S3N 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_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            6S3N 
_cell.length_a            88.093 
_cell.length_b            102.955 
_cell.length_c            249.697 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6S3N 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,E,F,G,K 1 1 
B,D,H,I,J,L 2 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
? 4 E N N 
? 4 H 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 OG1 THR 35 A THR 98 1_555 F MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? 
metalc ? metalc2 E O2B ADP . A ADP 1001 1_555 F MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? 
metalc ? metalc3 F MG MG . A MG 1002 1_555 G O4 VO4 . A VO4 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? 
metalc ? metalc4 F MG MG . A MG 1002 1_555 K O HOH . A HOH 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? 
metalc ? metalc5 F MG MG . A MG 1002 1_555 K O HOH . A HOH 1108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc6 F MG MG . A MG 1002 1_555 K O HOH . A HOH 1109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
metalc ? metalc7 B OG1 THR 35 B THR 98 1_555 I MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? 
metalc ? metalc8 H O3B ADP . B ADP 1001 1_555 I MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? 
metalc ? metalc9 I MG MG . B MG 1002 1_555 J O4 VO4 . B VO4 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? 
metalc ? metalc10 I MG MG . B MG 1002 1_555 L O HOH . B HOH 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.82 ? 
metalc ? metalc11 I MG MG . B MG 1002 1_555 L O HOH . B HOH 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.723 ? 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                ADP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "ADENOSINE-5'-DIPHOSPHATE" 
_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
PB O1B ADP doub 1 n n 
PB O2B ADP sing 2 n n 
PB O3B ADP sing 3 n n 
PB O3A ADP sing 4 n n 
O2B HOB2 ADP sing 5 n n 
O3B HOB3 ADP sing 6 n n 
PA O1A ADP doub 7 n n 
PA O2A ADP sing 8 n n 
PA O3A ADP sing 9 n n 
PA O5' ADP sing 10 n n 
O2A HOA2 ADP sing 11 n n 
O5' C5' ADP sing 12 n n 
C5' C4' ADP sing 13 n n 
C5' "H5'1" ADP sing 14 n n 
C5' "H5'2" ADP sing 15 n n 
C4' O4' ADP sing 16 n n 
C4' C3' ADP sing 17 n n 
C4' H4' ADP sing 18 n n 
O4' C1' ADP sing 19 n n 
C3' O3' ADP sing 20 n n 
C3' C2' ADP sing 21 n n 
C3' H3' ADP sing 22 n n 
O3' HO3' ADP sing 23 n n 
C2' O2' ADP sing 24 n n 
C2' C1' ADP sing 25 n n 
C2' H2' ADP sing 26 n n 
O2' HO2' ADP sing 27 n n 
C1' N9 ADP sing 28 n n 
C1' H1' ADP sing 29 n n 
N9 C8 ADP sing 30 n y 
N9 C4 ADP sing 31 n y 
C8 N7 ADP doub 32 n y 
C8 H8 ADP sing 33 n n 
N7 C5 ADP sing 34 n y 
C5 C6 ADP sing 35 n y 
C5 C4 ADP doub 36 n y 
C6 N6 ADP sing 37 n n 
C6 N1 ADP doub 38 n y 
N6 HN61 ADP sing 39 n n 
N6 HN62 ADP sing 40 n n 
N1 C2 ADP sing 41 n y 
C2 N3 ADP doub 42 n y 
C2 H2 ADP sing 43 n n 
N3 C4 ADP sing 44 n y 
#
_atom_sites.entry_id                     6S3N 
_atom_sites.fract_transf_matrix[1][1]    0.011352 
_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]    0.009713 
_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]    0.004005 
_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
E 4 ADP A 1 1001 1001 ADP ADP . 
F 5 MG A 1 1002 1002 MG MG . 
G 6 VO4 A 1 1003 1101 VO4 VO4 . 
H 4 ADP B 1 1001 1001 ADP ADP . 
I 5 MG B 1 1002 1002 MG MG . 
J 6 VO4 B 1 1003 1003 VO4 VO4 . 
K 7 HOH A 1 1101 10 HOH HOH . 
K 7 HOH A 2 1102 19 HOH HOH . 
K 7 HOH A 3 1103 12 HOH HOH . 
K 7 HOH A 4 1104 25 HOH HOH . 
K 7 HOH A 5 1105 21 HOH HOH . 
K 7 HOH A 6 1106 27 HOH HOH . 
K 7 HOH A 7 1107 18 HOH HOH . 
K 7 HOH A 8 1108 23 HOH HOH . 
K 7 HOH A 9 1109 26 HOH HOH . 
K 7 HOH A 10 1110 7 HOH HOH . 
K 7 HOH A 11 1111 22 HOH HOH . 
K 7 HOH A 12 1112 14 HOH HOH . 
K 7 HOH A 13 1113 3 HOH HOH . 
K 7 HOH A 14 1114 1 HOH HOH . 
K 7 HOH A 15 1115 5 HOH HOH . 
K 7 HOH A 16 1116 32 HOH HOH . 
K 7 HOH A 17 1117 2 HOH HOH . 
K 7 HOH A 18 1118 11 HOH HOH . 
K 7 HOH A 19 1119 9 HOH HOH . 
K 7 HOH A 20 1120 13 HOH HOH . 
K 7 HOH A 21 1121 17 HOH HOH . 
K 7 HOH A 22 1122 29 HOH HOH . 
K 7 HOH A 23 1123 28 HOH HOH . 
K 7 HOH A 24 1124 31 HOH HOH . 
L 7 HOH B 1 1101 33 HOH HOH . 
L 7 HOH B 2 1102 20 HOH HOH . 
L 7 HOH B 3 1103 15 HOH HOH . 
L 7 HOH B 4 1104 4 HOH HOH . 
L 7 HOH B 5 1105 34 HOH HOH . 
L 7 HOH B 6 1106 6 HOH HOH . 
L 7 HOH B 7 1107 35 HOH HOH . 
L 7 HOH B 8 1108 8 HOH HOH . 
L 7 HOH B 9 1109 24 HOH HOH . 
L 7 HOH B 10 1110 30 HOH HOH . 
L 7 HOH B 11 1111 16 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 PB ADP . . . H 4 47.739 -20.532 -3.932 1 65.83 ? PB ADP 1001 B 1 
HETATM 2 O O1B ADP . . . H 4 48.058 -19.355 -4.817 1 69.17 ? O1B ADP 1001 B 1 
HETATM 3 O O2B ADP . . . H 4 46.473 -20.374 -3.124 1 70.01 ? O2B ADP 1001 B 1 
HETATM 4 O O3B ADP . . . H 4 47.858 -21.875 -4.605 1 67.89 ? O3B ADP 1001 B 1 
HETATM 5 P PA ADP . . . H 4 50.466 -20.775 -3.212 1 66.54 ? PA ADP 1001 B 1 
HETATM 6 O O1A ADP . . . H 4 50.631 -20.529 -4.693 1 73.89 ? O1A ADP 1001 B 1 
HETATM 7 O O2A ADP . . . H 4 50.886 -22.086 -2.593 1 63.92 ? O2A ADP 1001 B 1 
HETATM 8 O O3A ADP . . . H 4 48.923 -20.495 -2.837 1 71.96 ? O3A ADP 1001 B 1 
HETATM 9 O O5' ADP . . . H 4 51.231 -19.6 -2.421 1 56.98 ? O5' ADP 1001 B 1 
HETATM 10 C C5' ADP . . . H 4 52.16 -18.769 -3.109 1 66.36 ? C5' ADP 1001 B 1 
HETATM 11 C C4' ADP . . . H 4 53.263 -18.305 -2.166 1 66.51 ? C4' ADP 1001 B 1 
HETATM 12 O O4' ADP . . . H 4 52.805 -18.293 -0.814 1 67.69 ? O4' ADP 1001 B 1 
HETATM 13 C C3' ADP . . . H 4 54.455 -19.242 -2.227 1 67.44 ? C3' ADP 1001 B 1 
HETATM 14 O O3' ADP . . . H 4 55.593 -18.518 -2.7 1 67.2 ? O3' ADP 1001 B 1 
HETATM 15 C C2' ADP . . . H 4 54.702 -19.702 -0.807 1 73.58 ? C2' ADP 1001 B 1 
HETATM 16 O O2' ADP . . . H 4 56.079 -19.513 -0.474 1 81.37 ? O2' ADP 1001 B 1 
HETATM 17 C C1' ADP . . . H 4 53.822 -18.807 0.047 1 70.98 ? C1' ADP 1001 B 1 
HETATM 18 N N9 ADP . . . H 4 53.204 -19.548 1.175 1 77.64 ? N9 ADP 1001 B 1 
HETATM 19 C C8 ADP . . . H 4 52.038 -20.219 1.134 1 85.1 ? C8 ADP 1001 B 1 
HETATM 20 N N7 ADP . . . H 4 51.748 -20.775 2.338 1 84.18 ? N7 ADP 1001 B 1 
HETATM 21 C C5 ADP . . . H 4 52.751 -20.456 3.178 1 88.4 ? C5 ADP 1001 B 1 
HETATM 22 C C6 ADP . . . H 4 53.078 -20.723 4.598 1 97.11 ? C6 ADP 1001 B 1 
HETATM 23 N N6 ADP . . . H 4 52.25 -21.462 5.378 1 96.68 ? N6 ADP 1001 B 1 
HETATM 24 N N1 ADP . . . H 4 54.229 -20.204 5.086 1 99.75 ? N1 ADP 1001 B 1 
HETATM 25 C C2 ADP . . . H 4 55.056 -19.467 4.321 1 95.27 ? C2 ADP 1001 B 1 
HETATM 26 N N3 ADP . . . H 4 54.823 -19.187 3.026 1 89.59 ? N3 ADP 1001 B 1 
HETATM 27 C C4 ADP . . . H 4 53.707 -19.645 2.408 1 85.79 ? C4 ADP 1001 B 1 
#
_model_server_stats.io_time_ms              249 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           207 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           27 
#