data_4NHY
#
_model_server_result.job_id            2lXsovkcLp6foQm-vMVy8g 
_model_server_result.datetime_utc      '2024-11-13 20:33:26' 
_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          4nhy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":603}' 
#
_entry.id    4NHY 
#
_exptl.entry_id    4NHY 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              167.119 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PYRIDINE-2,4-DICARBOXYLIC ACID' 
_entity.pdbx_number_of_molecules    4 
_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            4NHY 
_cell.length_a            108.68 
_cell.length_b            130.473 
_cell.length_c            175.784 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4NHY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
PISA dimeric 2 software_defined_assembly 5 
PISA dimeric 2 software_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,G,P 1 1 
B,H,I,J,Q 2 1 
C,K,L,R 3 1 
D,M,N,O,S 4 1 
A,E,F,G,P 5 1 
B,H,I,J,Q 5 2 
D,M,N,O,S 6 1 
C,K,L,R 6 3 
#
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_555 x+1/2,-y+1/2,-z 1 0 0 0 -1 0 0 0 -1 54.34 65.2365 0 
3 'crystal symmetry operation' 3_454 -x-1/2,y+1/2,-z-1 -1 0 0 0 1 0 0 0 -1 -54.34 65.2365 -175.784 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 G N N 
? 4 J N N 
? 4 L N N 
? 4 O 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 NE2 HIS 175 A HIS 155 1_555 E MN MN . A MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? 
metalc ? metalc2 A OD1 ASP 177 A ASP 157 1_555 E MN MN . A MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? 
metalc ? metalc3 A NE2 HIS 238 A HIS 218 1_555 E MN MN . A MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? 
metalc ? metalc4 E MN MN . A MN 601 1_555 G O21 PD2 . A PD2 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? 
metalc ? metalc5 E MN MN . A MN 601 1_555 G N1 PD2 . A PD2 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? 
metalc ? metalc6 E MN MN . A MN 601 1_555 P O HOH . A HOH 715 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? 
metalc ? metalc7 B NE2 HIS 175 B HIS 155 1_555 H MN MN . B MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? 
metalc ? metalc8 B OD1 ASP 177 B ASP 157 1_555 H MN MN . B MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? 
metalc ? metalc9 B OD2 ASP 177 B ASP 157 1_555 H MN MN . B MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? 
metalc ? metalc10 B NE2 HIS 238 B HIS 218 1_555 H MN MN . B MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? 
metalc ? metalc11 H MN MN . B MN 601 1_555 J O22 PD2 . B PD2 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? 
metalc ? metalc12 H MN MN . B MN 601 1_555 J N1 PD2 . B PD2 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? 
metalc ? metalc13 C NE2 HIS 175 C HIS 155 1_555 K MN MN . C MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? 
metalc ? metalc14 C OD1 ASP 177 C ASP 157 1_555 K MN MN . C MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? 
metalc ? metalc15 C OD2 ASP 177 C ASP 157 1_555 K MN MN . C MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? 
metalc ? metalc16 C NE2 HIS 238 C HIS 218 1_555 K MN MN . C MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? 
metalc ? metalc17 K MN MN . C MN 601 1_555 L O22 PD2 . C PD2 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc18 K MN MN . C MN 601 1_555 L N1 PD2 . C PD2 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? 
metalc ? metalc19 D NE2 HIS 175 D HIS 155 1_555 M MN MN . D MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? 
metalc ? metalc20 D OD1 ASP 177 D ASP 157 1_555 M MN MN . D MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? 
metalc ? metalc21 D OD2 ASP 177 D ASP 157 1_555 M MN MN . D MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc22 D NE2 HIS 238 D HIS 218 1_555 M MN MN . D MN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? 
metalc ? metalc23 M MN MN . D MN 601 1_555 O O22 PD2 . D PD2 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? 
metalc ? metalc24 M MN MN . D MN 601 1_555 O N1 PD2 . D PD2 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? 
#
_chem_comp.formula           'C7 H5 N O4' 
_chem_comp.formula_weight    167.119 
_chem_comp.id                PD2 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PYRIDINE-2,4-DICARBOXYLIC ACID' 
_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
O42 C41 PD2 doub 250 n n 
C41 O41 PD2 sing 251 n n 
C41 C4 PD2 sing 252 n n 
O41 H41 PD2 sing 253 n n 
C4 C5 PD2 doub 254 n y 
C4 C3 PD2 sing 255 n y 
C5 C6 PD2 sing 256 n y 
C5 H5 PD2 sing 257 n n 
C6 N1 PD2 doub 258 n y 
C6 H6 PD2 sing 259 n n 
C3 C2 PD2 doub 260 n y 
C3 H3 PD2 sing 261 n n 
C2 N1 PD2 sing 262 n y 
C2 C21 PD2 sing 263 n n 
C21 O21 PD2 doub 264 n n 
C21 O22 PD2 sing 265 n n 
O22 H22 PD2 sing 266 n n 
#
_atom_sites.entry_id                     4NHY 
_atom_sites.fract_transf_matrix[1][1]    0.009201 
_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]    0.007664 
_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]    0.005689 
_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 2 MN A 1 601 601 MN MN . 
F 3 GOL A 1 602 651 GOL GOL . 
G 4 PD2 A 1 603 701 PD2 PD2 . 
H 2 MN B 1 601 601 MN MN . 
I 3 GOL B 1 602 651 GOL GOL . 
J 4 PD2 B 1 603 701 PD2 PD2 . 
K 2 MN C 1 601 601 MN MN . 
L 4 PD2 C 1 602 701 PD2 PD2 . 
M 2 MN D 1 601 601 MN MN . 
N 3 GOL D 1 602 651 GOL GOL . 
O 4 PD2 D 1 603 701 PD2 PD2 . 
P 5 HOH A 1 701 1 HOH HOH . 
P 5 HOH A 2 702 2 HOH HOH . 
P 5 HOH A 3 703 3 HOH HOH . 
P 5 HOH A 4 704 4 HOH HOH . 
P 5 HOH A 5 705 5 HOH HOH . 
P 5 HOH A 6 706 6 HOH HOH . 
P 5 HOH A 7 707 7 HOH HOH . 
P 5 HOH A 8 708 8 HOH HOH . 
P 5 HOH A 9 709 9 HOH HOH . 
P 5 HOH A 10 710 10 HOH HOH . 
P 5 HOH A 11 711 11 HOH HOH . 
P 5 HOH A 12 712 12 HOH HOH . 
P 5 HOH A 13 713 34 HOH HOH . 
P 5 HOH A 14 714 35 HOH HOH . 
P 5 HOH A 15 715 53 HOH HOH . 
P 5 HOH A 16 716 54 HOH HOH . 
P 5 HOH A 17 717 55 HOH HOH . 
P 5 HOH A 18 718 56 HOH HOH . 
P 5 HOH A 19 719 57 HOH HOH . 
P 5 HOH A 20 720 58 HOH HOH . 
P 5 HOH A 21 721 59 HOH HOH . 
P 5 HOH A 22 722 60 HOH HOH . 
P 5 HOH A 23 723 62 HOH HOH . 
P 5 HOH A 24 724 63 HOH HOH . 
P 5 HOH A 25 725 64 HOH HOH . 
P 5 HOH A 26 726 65 HOH HOH . 
P 5 HOH A 27 727 66 HOH HOH . 
P 5 HOH A 28 728 67 HOH HOH . 
P 5 HOH A 29 729 68 HOH HOH . 
P 5 HOH A 30 730 69 HOH HOH . 
P 5 HOH A 31 731 70 HOH HOH . 
P 5 HOH A 32 732 71 HOH HOH . 
P 5 HOH A 33 733 72 HOH HOH . 
P 5 HOH A 34 734 73 HOH HOH . 
P 5 HOH A 35 735 81 HOH HOH . 
P 5 HOH A 36 736 82 HOH HOH . 
Q 5 HOH B 1 701 13 HOH HOH . 
Q 5 HOH B 2 702 14 HOH HOH . 
Q 5 HOH B 3 703 15 HOH HOH . 
Q 5 HOH B 4 704 16 HOH HOH . 
Q 5 HOH B 5 705 17 HOH HOH . 
Q 5 HOH B 6 706 18 HOH HOH . 
Q 5 HOH B 7 707 19 HOH HOH . 
Q 5 HOH B 8 708 20 HOH HOH . 
Q 5 HOH B 9 709 21 HOH HOH . 
Q 5 HOH B 10 710 22 HOH HOH . 
Q 5 HOH B 11 711 23 HOH HOH . 
Q 5 HOH B 12 712 24 HOH HOH . 
Q 5 HOH B 13 713 25 HOH HOH . 
Q 5 HOH B 14 714 26 HOH HOH . 
Q 5 HOH B 15 715 61 HOH HOH . 
Q 5 HOH B 16 716 74 HOH HOH . 
Q 5 HOH B 17 717 75 HOH HOH . 
Q 5 HOH B 18 718 76 HOH HOH . 
R 5 HOH C 1 701 27 HOH HOH . 
R 5 HOH C 2 702 28 HOH HOH . 
R 5 HOH C 3 703 29 HOH HOH . 
R 5 HOH C 4 704 30 HOH HOH . 
R 5 HOH C 5 705 31 HOH HOH . 
R 5 HOH C 6 706 32 HOH HOH . 
R 5 HOH C 7 707 33 HOH HOH . 
R 5 HOH C 8 708 36 HOH HOH . 
R 5 HOH C 9 709 37 HOH HOH . 
R 5 HOH C 10 710 38 HOH HOH . 
R 5 HOH C 11 711 39 HOH HOH . 
R 5 HOH C 12 712 40 HOH HOH . 
R 5 HOH C 13 713 41 HOH HOH . 
R 5 HOH C 14 714 42 HOH HOH . 
R 5 HOH C 15 715 43 HOH HOH . 
R 5 HOH C 16 716 44 HOH HOH . 
R 5 HOH C 17 717 45 HOH HOH . 
R 5 HOH C 18 718 46 HOH HOH . 
R 5 HOH C 19 719 77 HOH HOH . 
R 5 HOH C 20 720 78 HOH HOH . 
R 5 HOH C 21 721 79 HOH HOH . 
R 5 HOH C 22 722 80 HOH HOH . 
R 5 HOH C 23 723 83 HOH HOH . 
S 5 HOH D 1 701 47 HOH HOH . 
S 5 HOH D 2 702 48 HOH HOH . 
S 5 HOH D 3 703 49 HOH HOH . 
S 5 HOH D 4 704 50 HOH HOH . 
S 5 HOH D 5 705 51 HOH HOH . 
S 5 HOH D 6 706 52 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 O O42 PD2 . . . G 4 -12.172 42.289 -64.542 1 55.6 ? O42 PD2 603 A 1 
HETATM 2 C C41 PD2 . . . G 4 -12.457 43.354 -63.91 1 56.35 ? C41 PD2 603 A 1 
HETATM 3 O O41 PD2 . . . G 4 -13.646 43.796 -63.828 1 51.2 ? O41 PD2 603 A 1 
HETATM 4 C C4 PD2 . . . G 4 -11.348 44.145 -63.255 1 46.72 ? C4 PD2 603 A 1 
HETATM 5 C C5 PD2 . . . G 4 -11.612 45.413 -62.833 1 50.44 ? C5 PD2 603 A 1 
HETATM 6 C C6 PD2 . . . G 4 -10.622 46.174 -62.228 1 44.41 ? C6 PD2 603 A 1 
HETATM 7 C C3 PD2 . . . G 4 -10.1 43.623 -63.083 1 40.72 ? C3 PD2 603 A 1 
HETATM 8 C C2 PD2 . . . G 4 -9.113 44.388 -62.478 1 39.25 ? C2 PD2 603 A 1 
HETATM 9 N N1 PD2 . . . G 4 -9.379 45.653 -62.057 1 39.07 ? N1 PD2 603 A 1 
HETATM 10 C C21 PD2 . . . G 4 -7.718 43.843 -62.287 1 49.15 ? C21 PD2 603 A 1 
HETATM 11 O O21 PD2 . . . G 4 -6.845 44.572 -61.729 1 52.36 ? O21 PD2 603 A 1 
HETATM 12 O O22 PD2 . . . G 4 -7.434 42.683 -62.702 1 55.2 ? O22 PD2 603 A 1 
#
_model_server_stats.io_time_ms              33 
_model_server_stats.parse_time_ms           19 
_model_server_stats.create_model_time_ms    24 
_model_server_stats.query_time_ms           305 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           12 
#