data_4RIW
#
_model_server_result.job_id            iTIRC3XkvXBoxr2I0W1OfQ 
_model_server_result.datetime_utc      '2024-11-21 17:29:42' 
_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          4riw 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":1001}' 
#
_entry.id    4RIW 
#
_exptl.entry_id    4RIW 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          5 
_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          110.89 
_cell.angle_gamma         90 
_cell.entry_id            4RIW 
_cell.length_a            65.78 
_cell.length_b            154.64 
_cell.length_c            86.97 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4RIW 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
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,B,E,F,G,H 1 1 
C,D,I,J,K,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
? 5 G N N 
? 5 K 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 OD1 ASN 145 A ASN 820 1_555 F MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.816 ? 
metalc ? metalc2 A OD2 ASP 158 A ASP 833 1_555 F MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? 
metalc ? metalc3 E O3A ANP . A ANP 1101 1_555 F MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? 
metalc ? metalc4 B OD1 ASN 165 B ASN 818 1_555 H MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? 
metalc ? metalc5 B OD2 ASP 178 B ASP 831 1_555 H MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? 
metalc ? metalc6 G O1B ADP . B ADP 1001 1_555 H MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? 
metalc ? metalc7 G O2A ADP . B ADP 1001 1_555 H MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.706 ? 
metalc ? metalc8 C OD1 ASN 145 C ASN 820 1_555 J MG MG . C MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc9 C OD2 ASP 158 C ASP 833 1_555 J MG MG . C MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
metalc ? metalc10 I O3A ANP . C ANP 1101 1_555 J MG MG . C MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? 
metalc ? metalc11 I O2A ANP . C ANP 1101 1_555 J MG MG . C MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? 
metalc ? metalc12 D OD1 ASN 165 D ASN 818 1_555 L MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.621 ? 
metalc ? metalc13 D OD2 ASP 178 D ASP 831 1_555 L MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? 
metalc ? metalc14 K O2B ADP . D ADP 1001 1_555 L MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? 
metalc ? metalc15 K O2A ADP . D ADP 1001 1_555 L MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.666 ? 
#
_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                     4RIW 
_atom_sites.fract_transf_matrix[1][1]    0.015202 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.005802 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006467 
_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]    0.012307 
_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 3 ANP A 1 1101 1 ANP ANP . 
F 4 MG A 1 1102 2 MG MG . 
G 5 ADP B 1 1001 1 ADP ADP . 
H 4 MG B 1 1002 2 MG MG . 
I 3 ANP C 1 1101 1 ANP ANP . 
J 4 MG C 1 1102 2 MG MG . 
K 5 ADP D 1 1001 1 ADP ADP . 
L 4 MG D 1 1002 2 MG MG . 
#
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 . . . G 5 3.621 -4.154 7.973 1 47.2 ? PB ADP 1001 B 1 
HETATM 2 O O1B ADP . . . G 5 3.047 -3.563 6.71 1 49.26 ? O1B ADP 1001 B 1 
HETATM 3 O O2B ADP . . . G 5 3.635 -3.195 9.139 1 46.51 1 O2B ADP 1001 B 1 
HETATM 4 O O3B ADP . . . G 5 3.059 -5.518 8.298 1 50.27 ? O3B ADP 1001 B 1 
HETATM 5 P PA ADP . . . G 5 6.09 -3.901 6.496 1 40.11 ? PA ADP 1001 B 1 
HETATM 6 O O1A ADP . . . G 5 7.058 -4.99 6.096 1 35.81 1 O1A ADP 1001 B 1 
HETATM 7 O O2A ADP . . . G 5 5.249 -3.221 5.444 1 37.23 ? O2A ADP 1001 B 1 
HETATM 8 O O3A ADP . . . G 5 5.186 -4.463 7.711 1 17.33 ? O3A ADP 1001 B 1 
HETATM 9 O O5' ADP . . . G 5 6.9 -2.713 7.216 1 36.28 ? O5' ADP 1001 B 1 
HETATM 10 C C5' ADP . . . G 5 7.166 -1.539 6.454 1 39.49 ? C5' ADP 1001 B 1 
HETATM 11 C C4' ADP . . . G 5 7.48 -0.346 7.347 1 35.58 ? C4' ADP 1001 B 1 
HETATM 12 O O4' ADP . . . G 5 8.504 -0.698 8.278 1 30.25 ? O4' ADP 1001 B 1 
HETATM 13 C C3' ADP . . . G 5 7.987 0.81 6.501 1 32.5 ? C3' ADP 1001 B 1 
HETATM 14 O O3' ADP . . . G 5 7.274 2.01 6.815 1 40.16 ? O3' ADP 1001 B 1 
HETATM 15 C C2' ADP . . . G 5 9.451 0.961 6.856 1 29.61 ? C2' ADP 1001 B 1 
HETATM 16 O O2' ADP . . . G 5 9.728 2.303 7.265 1 39.45 ? O2' ADP 1001 B 1 
HETATM 17 C C1' ADP . . . G 5 9.723 -0.012 7.992 1 27.6 ? C1' ADP 1001 B 1 
HETATM 18 N N9 ADP . . . G 5 10.689 -1.014 7.488 1 30.24 ? N9 ADP 1001 B 1 
HETATM 19 C C8 ADP . . . G 5 10.445 -2.33 7.332 1 24.17 ? C8 ADP 1001 B 1 
HETATM 20 N N7 ADP . . . G 5 11.535 -2.977 6.845 1 17.45 ? N7 ADP 1001 B 1 
HETATM 21 C C5 ADP . . . G 5 12.504 -2.058 6.681 1 24.54 ? C5 ADP 1001 B 1 
HETATM 22 C C6 ADP . . . G 5 13.906 -2.059 6.201 1 30.85 ? C6 ADP 1001 B 1 
HETATM 23 N N6 ADP . . . G 5 14.503 -3.205 5.793 1 29.44 ? N6 ADP 1001 B 1 
HETATM 24 N N1 ADP . . . G 5 14.569 -0.882 6.191 1 37.79 ? N1 ADP 1001 B 1 
HETATM 25 C C2 ADP . . . G 5 13.988 0.263 6.594 1 38.26 ? C2 ADP 1001 B 1 
HETATM 26 N N3 ADP . . . G 5 12.721 0.339 7.04 1 37.26 ? N3 ADP 1001 B 1 
HETATM 27 C C4 ADP . . . G 5 11.942 -0.767 7.107 1 31.59 ? C4 ADP 1001 B 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           237 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           27 
#