data_4KY8
#
_model_server_result.job_id            gN4R-HhMruN86gGHsKi_Ig 
_model_server_result.datetime_utc      '2024-11-25 16:27:58' 
_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          4ky8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":603}' 
#
_entry.id    4KY8 
#
_exptl.entry_id    4KY8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              454.439 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            METHOTREXATE 
_entity.pdbx_number_of_molecules    5 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.36 
_cell.angle_gamma         90 
_cell.entry_id            4KY8 
_cell.length_a            214.162 
_cell.length_b            115.665 
_cell.length_c            218.767 
_cell.Z_PDB               20 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4KY8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 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 
PISA monomeric 1 software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,F,G,H,I,J,K,L,M 1 1 
C,D,N,O,P,Q,R,S,T,U 2 1 
E,V,W,X,Y 3 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 H N N 
? 4 L N N 
? 4 P N N 
? 4 T N N 
? 4 X N N 
#
_chem_comp.formula           'C20 H22 N8 O5' 
_chem_comp.formula_weight    454.439 
_chem_comp.id                MTX 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              METHOTREXATE 
_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
N1 C2 MTX doub 287 n y 
N1 C8A MTX sing 288 n y 
C2 NA2 MTX sing 289 n n 
C2 N3 MTX sing 290 n y 
NA2 HN21 MTX sing 291 n n 
NA2 HN22 MTX sing 292 n n 
N3 C4 MTX doub 293 n y 
C4 NA4 MTX sing 294 n n 
C4 C4A MTX sing 295 n y 
NA4 HN41 MTX sing 296 n n 
NA4 HN42 MTX sing 297 n n 
C4A N5 MTX sing 298 n y 
C4A C8A MTX doub 299 n y 
N5 C6 MTX doub 300 n y 
C6 C7 MTX sing 301 n y 
C6 C9 MTX sing 302 n n 
C7 N8 MTX doub 303 n y 
C7 H7 MTX sing 304 n n 
N8 C8A MTX sing 305 n y 
C9 N10 MTX sing 306 n n 
C9 H91 MTX sing 307 n n 
C9 H92 MTX sing 308 n n 
N10 CM MTX sing 309 n n 
N10 C14 MTX sing 310 n n 
CM HM1 MTX sing 311 n n 
CM HM2 MTX sing 312 n n 
CM HM3 MTX sing 313 n n 
C11 C12 MTX doub 314 n y 
C11 C16 MTX sing 315 n y 
C11 C MTX sing 316 n n 
C12 C13 MTX sing 317 n y 
C12 H12 MTX sing 318 n n 
C13 C14 MTX doub 319 n y 
C13 H13 MTX sing 320 n n 
C14 C15 MTX sing 321 n y 
C15 C16 MTX doub 322 n y 
C15 H15 MTX sing 323 n n 
C16 H16 MTX sing 324 n n 
C O MTX doub 325 n n 
C N MTX sing 326 n n 
N CA MTX sing 327 n n 
N HN MTX sing 328 n n 
CA CT MTX sing 329 n n 
CA CB MTX sing 330 n n 
CA HA MTX sing 331 n n 
CT O1 MTX doub 332 n n 
CT O2 MTX sing 333 n n 
O2 HO2 MTX sing 334 n n 
CB CG MTX sing 335 n n 
CB HB1 MTX sing 336 n n 
CB HB2 MTX sing 337 n n 
CG CD MTX sing 338 n n 
CG HG1 MTX sing 339 n n 
CG HG2 MTX sing 340 n n 
CD OE1 MTX doub 341 n n 
CD OE2 MTX sing 342 n n 
OE2 HOE2 MTX sing 343 n n 
#
_atom_sites.entry_id                     4KY8 
_atom_sites.fract_transf_matrix[1][1]    0.004669 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000356 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008646 
_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]    0.004584 
_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
F 2 NDP A 1 601 207 NDP NDP . 
G 3 UFP A 1 602 1 UFP UFP . 
H 4 MTX A 1 603 161 MTX MTX . 
I 5 1UF A 1 604 1 1UF 1UF . 
J 2 NDP B 1 601 207 NDP NDP . 
K 3 UFP B 1 602 1 UFP UFP . 
L 4 MTX B 1 603 161 MTX MTX . 
M 5 1UF B 1 604 1 1UF 1UF . 
N 2 NDP C 1 601 207 NDP NDP . 
O 3 UFP C 1 602 1 UFP UFP . 
P 4 MTX C 1 603 161 MTX MTX . 
Q 5 1UF C 1 604 1 1UF 1UF . 
R 2 NDP D 1 601 207 NDP NDP . 
S 3 UFP D 1 602 1 UFP UFP . 
T 4 MTX D 1 603 161 MTX MTX . 
U 5 1UF D 1 604 1 1UF 1UF . 
V 2 NDP E 1 601 207 NDP NDP . 
W 3 UFP E 1 602 1 UFP UFP . 
X 4 MTX E 1 603 161 MTX MTX . 
Y 5 1UF E 1 604 1 1UF 1UF . 
#
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 N N1 MTX . . . L 4 285.1 -108.58 530.408 1 65.62 ? N1 MTX 603 B 1 
HETATM 2 C C2 MTX . . . L 4 284.229 -109.31 529.69 1 64.18 ? C2 MTX 603 B 1 
HETATM 3 N NA2 MTX . . . L 4 282.831 -108.983 529.754 1 69.66 ? NA2 MTX 603 B 1 
HETATM 4 N N3 MTX . . . L 4 284.617 -110.333 528.913 1 68.02 ? N3 MTX 603 B 1 
HETATM 5 C C4 MTX . . . L 4 285.922 -110.667 528.83 1 66.4 ? C4 MTX 603 B 1 
HETATM 6 N NA4 MTX . . . L 4 286.345 -111.756 528.007 1 62.2 ? NA4 MTX 603 B 1 
HETATM 7 C C4A MTX . . . L 4 286.879 -109.929 529.567 1 66.35 ? C4A MTX 603 B 1 
HETATM 8 N N5 MTX . . . L 4 288.211 -110.231 529.513 1 73.07 ? N5 MTX 603 B 1 
HETATM 9 C C6 MTX . . . L 4 289.085 -109.494 530.235 1 68.28 ? C6 MTX 603 B 1 
HETATM 10 C C7 MTX . . . L 4 288.658 -108.43 531.04 1 72.35 ? C7 MTX 603 B 1 
HETATM 11 N N8 MTX . . . L 4 287.336 -108.147 531.081 1 65.88 ? N8 MTX 603 B 1 
HETATM 12 C C8A MTX . . . L 4 286.435 -108.882 530.354 1 64.33 ? C8A MTX 603 B 1 
HETATM 13 C C9 MTX . . . L 4 290.553 -109.842 530.169 1 67.15 ? C9 MTX 603 B 1 
HETATM 14 N N10 MTX . . . L 4 291.334 -109.628 531.371 1 78.78 ? N10 MTX 603 B 1 
HETATM 15 C CM MTX . . . L 4 292.466 -108.738 531.346 1 75.61 ? CM MTX 603 B 1 
HETATM 16 C C11 MTX . . . L 4 290.239 -111.558 534.987 1 69.38 ? C11 MTX 603 B 1 
HETATM 17 C C12 MTX . . . L 4 290.925 -110.347 535.013 1 68.15 ? C12 MTX 603 B 1 
HETATM 18 C C13 MTX . . . L 4 291.282 -109.719 533.824 1 68.92 ? C13 MTX 603 B 1 
HETATM 19 C C14 MTX . . . L 4 290.957 -110.299 532.606 1 68.87 ? C14 MTX 603 B 1 
HETATM 20 C C15 MTX . . . L 4 290.267 -111.508 532.574 1 63.87 ? C15 MTX 603 B 1 
HETATM 21 C C16 MTX . . . L 4 289.908 -112.135 533.767 1 68.68 ? C16 MTX 603 B 1 
HETATM 22 C C MTX . . . L 4 289.842 -112.237 536.278 1 69.72 ? C MTX 603 B 1 
HETATM 23 O O MTX . . . L 4 290.279 -111.799 537.33 1 73.17 ? O MTX 603 B 1 
HETATM 24 N N MTX . . . L 4 288.948 -113.376 536.3 1 73.13 ? N MTX 603 B 1 
HETATM 25 C CA MTX . . . L 4 288.581 -113.987 537.554 1 78.06 ? CA MTX 603 B 1 
HETATM 26 C CT MTX . . . L 4 287.985 -115.317 537.289 1 74.92 ? CT MTX 603 B 1 
HETATM 27 O O1 MTX . . . L 4 287.604 -115.613 536.127 1 70.39 ? O1 MTX 603 B 1 
HETATM 28 O O2 MTX . . . L 4 287.855 -116.156 538.232 1 73.17 ? O2 MTX 603 B 1 
HETATM 29 C CB MTX . . . L 4 287.569 -113.13 538.239 1 78.69 ? CB MTX 603 B 1 
HETATM 30 C CG MTX . . . L 4 287.399 -113.274 539.723 1 80.75 ? CG MTX 603 B 1 
HETATM 31 C CD MTX . . . L 4 286.039 -113.012 540.286 1 89.54 ? CD MTX 603 B 1 
HETATM 32 O OE1 MTX . . . L 4 285.448 -111.934 540.025 1 91.81 ? OE1 MTX 603 B 1 
HETATM 33 O OE2 MTX . . . L 4 285.487 -113.865 541.015 1 91.15 ? OE2 MTX 603 B 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    25 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           33 
#