data_3NMK
#
_model_server_result.job_id            0NdI0kIDOWnuUWtcSh18zQ 
_model_server_result.datetime_utc      '2024-11-15 13:26:49' 
_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          3nmk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":151}' 
#
_entry.id    3NMK 
#
_exptl.entry_id    3NMK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              237.257 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-1,10-phenanthrolin-5-ylacetamide 
_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         120 
_cell.entry_id            3NMK 
_cell.length_a            99.467 
_cell.length_b            99.467 
_cell.length_c            109.544 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3NMK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65' 
#
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 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,O 1 1 
B,G,H,I,P 2 1 
C,J,K,L,Q 3 1 
D,M,N,R 4 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
? 3 F N N 
? 3 H N N 
? 3 L N N 
? 3 N 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 SD MET 7 A MET 7 1_555 E FE HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? 
metalc ? metalc2 A NE2 HIS 102 A HIS 102 1_555 E FE HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.937 ? 
metalc ? metalc3 F NAJ PXX . A PXX 151 1_555 J ZN ZN . C ZN 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? 
metalc ? metalc4 F NAK PXX . A PXX 151 1_555 J ZN ZN . C ZN 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? 
metalc ? metalc5 B SD MET 7 B MET 7 1_555 G FE HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? 
metalc ? metalc6 B NE2 HIS 102 B HIS 102 1_555 G FE HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? 
metalc ? metalc7 P O HOH . B HOH 113 1_555 I ZN ZN . B ZN 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.637 ? 
metalc ? metalc8 H NAK PXX . B PXX 151 1_555 I ZN ZN . B ZN 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc9 H NAJ PXX . B PXX 151 1_555 I ZN ZN . B ZN 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? 
metalc ? metalc10 I ZN ZN . B ZN 152 1_555 N NAJ PXX . D PXX 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? 
metalc ? metalc11 I ZN ZN . B ZN 152 1_555 N NAK PXX . D PXX 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? 
metalc ? metalc12 C SD MET 7 C MET 7 1_555 K FE HEM . C HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? 
metalc ? metalc13 C NE2 HIS 102 C HIS 102 1_555 K FE HEM . C HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? 
metalc ? metalc14 Q O HOH . C HOH 107 1_555 J ZN ZN . C ZN 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? 
metalc ? metalc15 L NAK PXX . C PXX 151 1_555 J ZN ZN . C ZN 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? 
metalc ? metalc16 L NAJ PXX . C PXX 151 1_555 J ZN ZN . C ZN 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? 
metalc ? metalc17 D SD MET 7 D MET 7 1_555 M FE HEM . D HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.289 ? 
metalc ? metalc18 D NE2 HIS 102 D HIS 102 1_555 M FE HEM . D HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? 
#
_chem_comp.formula           'C14 H11 N3 O' 
_chem_comp.formula_weight    237.257 
_chem_comp.id                PXX 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-1,10-phenanthrolin-5-ylacetamide 
_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
CAA CAM PXX sing 359 n n 
CAM OAB PXX doub 360 n n 
CAM NAL PXX sing 361 n n 
NAL CAN PXX sing 362 n n 
CAN CAP PXX doub 363 n y 
CAN CAI PXX sing 364 n y 
CAP CAH PXX sing 365 n y 
CAP CAR PXX sing 366 n y 
CAH CAD PXX doub 367 n y 
CAD CAF PXX sing 368 n y 
CAF NAK PXX doub 369 n y 
NAK CAR PXX sing 370 n y 
CAR CAQ PXX doub 371 n y 
CAQ NAJ PXX sing 372 n y 
CAQ CAO PXX sing 373 n y 
NAJ CAE PXX doub 374 n y 
CAE CAC PXX sing 375 n y 
CAC CAG PXX doub 376 n y 
CAG CAO PXX sing 377 n y 
CAO CAI PXX doub 378 n y 
CAA HAA PXX sing 379 n n 
CAA HAAA PXX sing 380 n n 
CAA HAAB PXX sing 381 n n 
NAL HNAL PXX sing 382 n n 
CAH HAH PXX sing 383 n n 
CAD HAD PXX sing 384 n n 
CAF HAF PXX sing 385 n n 
CAE HAE PXX sing 386 n n 
CAC HAC PXX sing 387 n n 
CAG HAG PXX sing 388 n n 
CAI HAI PXX sing 389 n n 
#
_atom_sites.entry_id                     3NMK 
_atom_sites.fract_transf_matrix[1][1]    0.010054 
_atom_sites.fract_transf_matrix[1][2]    0.005804 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011609 
_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]    0.009129 
_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 HEM A 1 150 150 HEM HEM . 
F 3 PXX A 1 151 151 PXX PXX . 
G 2 HEM B 1 150 150 HEM HEM . 
H 3 PXX B 1 151 151 PXX PXX . 
I 4 ZN B 1 152 152 ZN ZN . 
J 4 ZN C 1 152 152 ZN ZN . 
K 2 HEM C 1 150 150 HEM HEM . 
L 3 PXX C 1 151 151 PXX PXX . 
M 2 HEM D 1 150 150 HEM HEM . 
N 3 PXX D 1 151 151 PXX PXX . 
O 5 HOH A 1 108 7 HOH HOH . 
O 5 HOH A 2 109 25 HOH HOH . 
O 5 HOH A 3 110 29 HOH HOH . 
O 5 HOH A 4 112 17 HOH HOH . 
P 5 HOH B 1 107 8 HOH HOH . 
P 5 HOH B 2 108 9 HOH HOH . 
P 5 HOH B 3 109 11 HOH HOH . 
P 5 HOH B 4 110 27 HOH HOH . 
P 5 HOH B 5 111 32 HOH HOH . 
P 5 HOH B 6 112 34 HOH HOH . 
P 5 HOH B 7 113 2 HOH HOH . 
Q 5 HOH C 1 107 1 HOH HOH . 
Q 5 HOH C 2 108 5 HOH HOH . 
Q 5 HOH C 3 109 6 HOH HOH . 
Q 5 HOH C 4 110 12 HOH HOH . 
Q 5 HOH C 5 111 15 HOH HOH . 
Q 5 HOH C 6 112 4 HOH HOH . 
Q 5 HOH C 7 113 18 HOH HOH . 
Q 5 HOH C 8 114 20 HOH HOH . 
Q 5 HOH C 9 115 22 HOH HOH . 
Q 5 HOH C 10 116 24 HOH HOH . 
Q 5 HOH C 11 117 26 HOH HOH . 
Q 5 HOH C 12 118 33 HOH HOH . 
R 5 HOH D 1 108 3 HOH HOH . 
R 5 HOH D 2 109 10 HOH HOH . 
R 5 HOH D 3 110 13 HOH HOH . 
R 5 HOH D 4 111 14 HOH HOH . 
R 5 HOH D 5 112 16 HOH HOH . 
R 5 HOH D 6 113 19 HOH HOH . 
R 5 HOH D 7 114 21 HOH HOH . 
R 5 HOH D 8 115 23 HOH HOH . 
R 5 HOH D 9 116 31 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 C CAA PXX . . . L 3 -28.497 39.12 -28.987 1 33.68 ? CAA PXX 151 C 1 
HETATM 2 C CAM PXX . . . L 3 -28.389 40.374 -28.158 1 33.99 ? CAM PXX 151 C 1 
HETATM 3 O OAB PXX . . . L 3 -27.509 41.193 -28.359 1 37.31 ? OAB PXX 151 C 1 
HETATM 4 N NAL PXX . . . L 3 -29.225 40.496 -27.123 1 36.55 ? NAL PXX 151 C 1 
HETATM 5 C CAN PXX . . . L 3 -29.183 41.609 -26.26 1 32.97 ? CAN PXX 151 C 1 
HETATM 6 C CAP PXX . . . L 3 -28.794 41.459 -24.926 1 27.83 ? CAP PXX 151 C 1 
HETATM 7 C CAH PXX . . . L 3 -28.396 40.221 -24.443 1 23.5 ? CAH PXX 151 C 1 
HETATM 8 C CAD PXX . . . L 3 -28.022 40.118 -23.11 1 22.55 ? CAD PXX 151 C 1 
HETATM 9 C CAF PXX . . . L 3 -28.07 41.236 -22.283 1 26.88 ? CAF PXX 151 C 1 
HETATM 10 N NAK PXX . . . L 3 -28.487 42.42 -22.75 1 28.13 ? NAK PXX 151 C 1 
HETATM 11 C CAR PXX . . . L 3 -28.864 42.536 -24.043 1 26.23 ? CAR PXX 151 C 1 
HETATM 12 C CAQ PXX . . . L 3 -29.272 43.772 -24.499 1 26.27 ? CAQ PXX 151 C 1 
HETATM 13 N NAJ PXX . . . L 3 -29.283 44.806 -23.63 1 30.24 ? NAJ PXX 151 C 1 
HETATM 14 C CAE PXX . . . L 3 -29.661 46.024 -24.04 1 28.77 ? CAE PXX 151 C 1 
HETATM 15 C CAC PXX . . . L 3 -30.099 46.227 -25.345 1 32 ? CAC PXX 151 C 1 
HETATM 16 C CAG PXX . . . L 3 -30.068 45.181 -26.263 1 30.34 ? CAG PXX 151 C 1 
HETATM 17 C CAO PXX . . . L 3 -29.629 43.939 -25.833 1 29.94 ? CAO PXX 151 C 1 
HETATM 18 C CAI PXX . . . L 3 -29.618 42.855 -26.708 1 31.96 ? CAI PXX 151 C 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           281 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           18 
#