data_3QXV
#
_model_server_result.job_id            RwoM6nknz1gssOJQtqf1kg 
_model_server_result.datetime_utc      '2024-11-30 12:16:30' 
_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          3qxv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":2000}' 
#
_entry.id    3QXV 
#
_exptl.entry_id    3QXV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              454.439 
_entity.id                          2 
_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          90.27 
_cell.angle_gamma         90 
_cell.entry_id            3QXV 
_cell.length_a            43.669 
_cell.length_b            57.605 
_cell.length_c            131.136 
_cell.Z_PDB               10 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3QXV 
_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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
PISA monomeric 1 author_and_software_defined_assembly 4 
PISA monomeric 1 author_and_software_defined_assembly 5 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,F,G,O 1 1 
B,H,I,J,P 2 1 
C,K,L,Q 3 1 
D,M,R 4 1 
E,N,S 5 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
? 2 F N N 
? 2 J N N 
? 2 K N N 
? 2 M N N 
? 2 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
disulf ? disulf1 A SG CYS 24 A CYS 24 1_555 A SG CYS 98 A CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf2 B SG CYS 24 B CYS 24 1_555 B SG CYS 98 B CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf3 C SG CYS 24 C CYS 24 1_555 C SG CYS 98 C CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? 
disulf ? disulf4 D SG CYS 24 D CYS 24 1_555 D SG CYS 98 D CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf5 E SG CYS 24 E CYS 24 1_555 E SG CYS 98 E CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? 
#
_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 216 n y 
N1 C8A MTX sing 217 n y 
C2 NA2 MTX sing 218 n n 
C2 N3 MTX sing 219 n y 
NA2 HN21 MTX sing 220 n n 
NA2 HN22 MTX sing 221 n n 
N3 C4 MTX doub 222 n y 
C4 NA4 MTX sing 223 n n 
C4 C4A MTX sing 224 n y 
NA4 HN41 MTX sing 225 n n 
NA4 HN42 MTX sing 226 n n 
C4A N5 MTX sing 227 n y 
C4A C8A MTX doub 228 n y 
N5 C6 MTX doub 229 n y 
C6 C7 MTX sing 230 n y 
C6 C9 MTX sing 231 n n 
C7 N8 MTX doub 232 n y 
C7 H7 MTX sing 233 n n 
N8 C8A MTX sing 234 n y 
C9 N10 MTX sing 235 n n 
C9 H91 MTX sing 236 n n 
C9 H92 MTX sing 237 n n 
N10 CM MTX sing 238 n n 
N10 C14 MTX sing 239 n n 
CM HM1 MTX sing 240 n n 
CM HM2 MTX sing 241 n n 
CM HM3 MTX sing 242 n n 
C11 C12 MTX doub 243 n y 
C11 C16 MTX sing 244 n y 
C11 C MTX sing 245 n n 
C12 C13 MTX sing 246 n y 
C12 H12 MTX sing 247 n n 
C13 C14 MTX doub 248 n y 
C13 H13 MTX sing 249 n n 
C14 C15 MTX sing 250 n y 
C15 C16 MTX doub 251 n y 
C15 H15 MTX sing 252 n n 
C16 H16 MTX sing 253 n n 
C O MTX doub 254 n n 
C N MTX sing 255 n n 
N CA MTX sing 256 n n 
N HN MTX sing 257 n n 
CA CT MTX sing 258 n n 
CA CB MTX sing 259 n n 
CA HA MTX sing 260 n n 
CT O1 MTX doub 261 n n 
CT O2 MTX sing 262 n n 
O2 HO2 MTX sing 263 n n 
CB CG MTX sing 264 n n 
CB HB1 MTX sing 265 n n 
CB HB2 MTX sing 266 n n 
CG CD MTX sing 267 n n 
CG HG1 MTX sing 268 n n 
CG HG2 MTX sing 269 n n 
CD OE1 MTX doub 270 n n 
CD OE2 MTX sing 271 n n 
OE2 HOE2 MTX sing 272 n n 
#
_atom_sites.entry_id                     3QXV 
_atom_sites.fract_transf_matrix[1][1]    0.0229 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000108 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01736 
_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]    0.007626 
_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 MTX A 1 2000 2000 MTX MTX . 
G 3 SO4 A 1 3000 3000 SO4 SO4 . 
H 3 SO4 B 1 3000 3000 SO4 SO4 . 
I 3 SO4 B 1 3001 3001 SO4 SO4 . 
J 2 MTX B 1 2000 2000 MTX MTX . 
K 2 MTX C 1 2000 2000 MTX MTX . 
L 3 SO4 C 1 3000 3000 SO4 SO4 . 
M 2 MTX D 1 2000 2000 MTX MTX . 
N 2 MTX E 1 2000 2000 MTX MTX . 
O 4 HOH A 1 1000 1000 HOH HOH . 
O 4 HOH A 2 1001 1001 HOH HOH . 
O 4 HOH A 3 1002 1002 HOH HOH . 
O 4 HOH A 4 1003 1003 HOH HOH . 
O 4 HOH A 5 1004 1004 HOH HOH . 
O 4 HOH A 6 1005 1005 HOH HOH . 
O 4 HOH A 7 1006 1006 HOH HOH . 
O 4 HOH A 8 1007 1007 HOH HOH . 
O 4 HOH A 9 1008 1008 HOH HOH . 
O 4 HOH A 10 1009 1009 HOH HOH . 
O 4 HOH A 11 1010 1010 HOH HOH . 
O 4 HOH A 12 1011 1011 HOH HOH . 
O 4 HOH A 13 1012 1012 HOH HOH . 
O 4 HOH A 14 1013 1013 HOH HOH . 
O 4 HOH A 15 1014 1003 HOH HOH . 
P 4 HOH B 1 1000 1000 HOH HOH . 
P 4 HOH B 2 1001 1001 HOH HOH . 
P 4 HOH B 3 1002 1002 HOH HOH . 
P 4 HOH B 4 1003 1010 HOH HOH . 
P 4 HOH B 5 1004 1004 HOH HOH . 
P 4 HOH B 6 1005 1005 HOH HOH . 
P 4 HOH B 7 1006 1006 HOH HOH . 
P 4 HOH B 8 1007 1007 HOH HOH . 
P 4 HOH B 9 1008 1008 HOH HOH . 
P 4 HOH B 10 1009 1009 HOH HOH . 
P 4 HOH B 11 1010 1010 HOH HOH . 
P 4 HOH B 12 1011 1011 HOH HOH . 
P 4 HOH B 13 1012 1012 HOH HOH . 
P 4 HOH B 14 1013 1013 HOH HOH . 
P 4 HOH B 15 1014 1014 HOH HOH . 
P 4 HOH B 16 1015 1015 HOH HOH . 
P 4 HOH B 17 1016 1012 HOH HOH . 
Q 4 HOH C 1 1000 1000 HOH HOH . 
Q 4 HOH C 2 1001 1001 HOH HOH . 
Q 4 HOH C 3 1002 1002 HOH HOH . 
Q 4 HOH C 4 1003 1003 HOH HOH . 
Q 4 HOH C 5 1004 1004 HOH HOH . 
Q 4 HOH C 6 1005 1005 HOH HOH . 
Q 4 HOH C 7 1006 1006 HOH HOH . 
Q 4 HOH C 8 1007 1007 HOH HOH . 
Q 4 HOH C 9 1008 1008 HOH HOH . 
Q 4 HOH C 10 1009 1009 HOH HOH . 
Q 4 HOH C 11 1011 1011 HOH HOH . 
Q 4 HOH C 12 1013 1013 HOH HOH . 
Q 4 HOH C 13 1014 1014 HOH HOH . 
R 4 HOH D 1 1000 1000 HOH HOH . 
R 4 HOH D 2 1001 1001 HOH HOH . 
R 4 HOH D 3 1002 1002 HOH HOH . 
R 4 HOH D 4 1003 1003 HOH HOH . 
R 4 HOH D 5 1004 1004 HOH HOH . 
S 4 HOH E 1 1000 1000 HOH HOH . 
S 4 HOH E 2 1001 1001 HOH HOH . 
S 4 HOH E 3 1002 1002 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 N N1 MTX . . . F 2 -15.602 15.565 -27.817 1 42.1 ? N1 MTX 2000 A 1 
HETATM 2 C C2 MTX . . . F 2 -15.569 16.766 -27.148 1 42.52 ? C2 MTX 2000 A 1 
HETATM 3 N NA2 MTX . . . F 2 -14.445 17.125 -26.515 1 41.93 ? NA2 MTX 2000 A 1 
HETATM 4 N N3 MTX . . . F 2 -16.67 17.605 -27.188 1 43.26 ? N3 MTX 2000 A 1 
HETATM 5 C C4 MTX . . . F 2 -17.83 17.203 -27.858 1 43.88 ? C4 MTX 2000 A 1 
HETATM 6 N NA4 MTX . . . F 2 -18.88 18.028 -27.894 1 41.82 ? NA4 MTX 2000 A 1 
HETATM 7 C C4A MTX . . . F 2 -17.865 15.967 -28.52 1 43.56 ? C4A MTX 2000 A 1 
HETATM 8 N N5 MTX . . . F 2 -18.997 15.537 -29.199 1 46.25 ? N5 MTX 2000 A 1 
HETATM 9 C C6 MTX . . . F 2 -19.015 14.304 -29.807 1 51.57 ? C6 MTX 2000 A 1 
HETATM 10 C C7 MTX . . . F 2 -17.87 13.503 -29.77 1 52.38 ? C7 MTX 2000 A 1 
HETATM 11 N N8 MTX . . . F 2 -16.738 13.931 -29.101 1 46.92 ? N8 MTX 2000 A 1 
HETATM 12 C C8A MTX . . . F 2 -16.744 15.149 -28.467 1 45.07 ? C8A MTX 2000 A 1 
HETATM 13 C C9 MTX . . . F 2 -20.258 13.838 -30.545 1 54.39 ? C9 MTX 2000 A 1 
HETATM 14 N N10 MTX . . . F 2 -19.984 12.662 -31.351 1 56.29 ? N10 MTX 2000 A 1 
HETATM 15 C CM MTX . . . F 2 -19.414 12.883 -32.686 1 51.91 ? CM MTX 2000 A 1 
HETATM 16 C C11 MTX . . . F 2 -22.607 9.381 -31.299 1 73.67 ? C11 MTX 2000 A 1 
HETATM 17 C C12 MTX . . . F 2 -21.712 9.553 -32.351 1 70.54 ? C12 MTX 2000 A 1 
HETATM 18 C C13 MTX . . . F 2 -20.854 10.642 -32.352 1 65.34 ? C13 MTX 2000 A 1 
HETATM 19 C C14 MTX . . . F 2 -20.876 11.555 -31.286 1 63 ? C14 MTX 2000 A 1 
HETATM 20 C C15 MTX . . . F 2 -21.779 11.365 -30.229 1 67.08 ? C15 MTX 2000 A 1 
HETATM 21 C C16 MTX . . . F 2 -22.445 10.14 -30.138 1 71.29 ? C16 MTX 2000 A 1 
HETATM 22 C C MTX . . . F 2 -23.535 8.199 -31.343 1 77.88 ? C MTX 2000 A 1 
HETATM 23 O O MTX . . . F 2 -24.389 7.985 -32.452 1 78.65 ? O MTX 2000 A 1 
HETATM 24 N N MTX . . . F 2 -23.503 7.344 -30.347 1 81.6 ? N MTX 2000 A 1 
HETATM 25 C CA MTX . . . F 2 -22.889 6.059 -30.593 1 84.68 ? CA MTX 2000 A 1 
HETATM 26 C CT MTX . . . F 2 -22.278 5.564 -29.32 1 86.94 ? CT MTX 2000 A 1 
HETATM 27 O O1 MTX . . . F 2 -21.541 6.32 -28.641 1 85.11 ? O1 MTX 2000 A 1 
HETATM 28 O O2 MTX . . . F 2 -22.535 4.401 -28.933 1 89.56 ? O2 MTX 2000 A 1 
HETATM 29 C CB MTX . . . F 2 -21.928 6.118 -31.798 1 82 ? CB MTX 2000 A 1 
HETATM 30 C CG MTX . . . F 2 -20.424 6.068 -31.529 1 81.52 ? CG MTX 2000 A 1 
HETATM 31 C CD MTX . . . F 2 -19.993 4.745 -30.926 1 87.16 ? CD MTX 2000 A 1 
HETATM 32 O OE1 MTX . . . F 2 -19.327 4.734 -29.863 1 89.27 ? OE1 MTX 2000 A 1 
HETATM 33 O OE2 MTX . . . F 2 -20.301 3.647 -31.454 1 88.88 ? OE2 MTX 2000 A 1 
#
_model_server_stats.io_time_ms              80 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           33 
#