data_4LPH
#
_model_server_result.job_id            xW0h5RBdH11pHHJ4ujeALA 
_model_server_result.datetime_utc      '2024-11-30 01:39:22' 
_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          4lph 
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_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":402}' 
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_entry.id    4LPH 
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_exptl.entry_id    4LPH 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              335.318 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '({[6-(4-methylphenyl)thieno[2,3-d]pyrimidin-4-yl]amino}methyl)phosphonic acid' 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
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_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            4LPH 
_cell.length_a            111.12 
_cell.length_b            111.12 
_cell.length_c            77.19 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
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_symmetry.entry_id                 4LPH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
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_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
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_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
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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' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 111.12 111.12 38.595 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C14 H14 N3 O3 P S' 
_chem_comp.formula_weight    335.318 
_chem_comp.id                YL3 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '({[6-(4-methylphenyl)thieno[2,3-d]pyrimidin-4-yl]amino}methyl)phosphonic 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
OAV PAS YL3 doub 380 n n 
PAS OAU YL3 sing 381 n n 
PAS CAR YL3 sing 382 n n 
PAS OAT YL3 sing 383 n n 
CAR NAJ YL3 sing 384 n n 
NAJ C4 YL3 sing 385 n n 
CAQ CAN YL3 sing 386 n n 
CAO CAN YL3 doub 387 n y 
CAO CAP YL3 sing 388 n y 
CAC C5 YL3 sing 389 n y 
CAC CAD YL3 doub 390 n y 
C4 C5 YL3 doub 391 n y 
C4 N3 YL3 sing 392 n y 
CAN CAM YL3 sing 393 n y 
CAP CAK YL3 doub 394 n y 
CAM CAL YL3 doub 395 n y 
C5 C6 YL3 sing 396 n y 
CAK CAL YL3 sing 397 n y 
CAK CAD YL3 sing 398 n n 
N3 C2 YL3 doub 399 n y 
CAD SAE YL3 sing 400 n y 
C6 SAE YL3 sing 401 n y 
C6 N1 YL3 doub 402 n y 
C2 N1 YL3 sing 403 n y 
OAT H1 YL3 sing 404 n n 
OAU H2 YL3 sing 405 n n 
CAR H3 YL3 sing 406 n n 
CAR H4 YL3 sing 407 n n 
NAJ H5 YL3 sing 408 n n 
C2 H6 YL3 sing 409 n n 
CAC H7 YL3 sing 410 n n 
CAL H8 YL3 sing 411 n n 
CAM H9 YL3 sing 412 n n 
CAQ H10 YL3 sing 413 n n 
CAQ H11 YL3 sing 414 n n 
CAQ H12 YL3 sing 415 n n 
CAO H13 YL3 sing 416 n n 
CAP H14 YL3 sing 417 n n 
#
_atom_sites.entry_id                     4LPH 
_atom_sites.fract_transf_matrix[1][1]    0.008999 
_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]    0.008999 
_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]    0.012955 
_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
B 2 PO4 F 1 401 1 PO4 PO4 . 
C 3 YL3 F 1 402 1 YL3 YL3 . 
D 4 HOH F 1 501 1 HOH HOH . 
D 4 HOH F 2 502 2 HOH HOH . 
D 4 HOH F 3 503 3 HOH HOH . 
D 4 HOH F 4 504 4 HOH HOH . 
D 4 HOH F 5 505 5 HOH HOH . 
D 4 HOH F 6 506 6 HOH HOH . 
D 4 HOH F 7 507 7 HOH HOH . 
D 4 HOH F 8 508 8 HOH HOH . 
D 4 HOH F 9 509 9 HOH HOH . 
D 4 HOH F 10 510 10 HOH HOH . 
D 4 HOH F 11 511 11 HOH HOH . 
D 4 HOH F 12 512 12 HOH HOH . 
D 4 HOH F 13 513 13 HOH HOH . 
D 4 HOH F 14 514 14 HOH HOH . 
D 4 HOH F 15 515 15 HOH HOH . 
D 4 HOH F 16 516 16 HOH HOH . 
D 4 HOH F 17 517 17 HOH HOH . 
D 4 HOH F 18 518 18 HOH HOH . 
D 4 HOH F 19 519 19 HOH HOH . 
D 4 HOH F 20 520 20 HOH HOH . 
D 4 HOH F 21 521 21 HOH HOH . 
D 4 HOH F 22 522 22 HOH HOH . 
D 4 HOH F 23 523 23 HOH HOH . 
D 4 HOH F 24 524 24 HOH HOH . 
D 4 HOH F 25 525 25 HOH HOH . 
D 4 HOH F 26 526 26 HOH HOH . 
D 4 HOH F 27 527 27 HOH HOH . 
D 4 HOH F 28 528 28 HOH HOH . 
D 4 HOH F 29 529 29 HOH HOH . 
D 4 HOH F 30 530 30 HOH HOH . 
D 4 HOH F 31 531 31 HOH HOH . 
D 4 HOH F 32 532 32 HOH HOH . 
D 4 HOH F 33 533 33 HOH HOH . 
D 4 HOH F 34 534 34 HOH HOH . 
D 4 HOH F 35 535 35 HOH HOH . 
D 4 HOH F 36 536 36 HOH HOH . 
D 4 HOH F 37 537 37 HOH HOH . 
D 4 HOH F 38 538 38 HOH HOH . 
D 4 HOH F 39 539 39 HOH HOH . 
D 4 HOH F 40 540 40 HOH HOH . 
D 4 HOH F 41 541 41 HOH HOH . 
D 4 HOH F 42 542 42 HOH HOH . 
D 4 HOH F 43 543 43 HOH HOH . 
D 4 HOH F 44 544 44 HOH HOH . 
D 4 HOH F 45 545 45 HOH HOH . 
D 4 HOH F 46 546 46 HOH HOH . 
D 4 HOH F 47 547 47 HOH HOH . 
D 4 HOH F 48 548 48 HOH HOH . 
D 4 HOH F 49 549 49 HOH HOH . 
D 4 HOH F 50 550 50 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 OAT YL3 . . . C 3 9.464 71.508 26.823 1 100.66 ? OAT YL3 402 F 1 
HETATM 2 P PAS YL3 . . . C 3 8.102 71.909 25.981 1 140.82 ? PAS YL3 402 F 1 
HETATM 3 O OAU YL3 . . . C 3 7.667 73.309 26.404 1 99.62 ? OAU YL3 402 F 1 
HETATM 4 O OAV YL3 . . . C 3 8.208 71.519 24.546 1 98.71 ? OAV YL3 402 F 1 
HETATM 5 C CAR YL3 . . . C 3 6.996 70.754 26.599 1 131.67 ? CAR YL3 402 F 1 
HETATM 6 N NAJ YL3 . . . C 3 6.372 71.565 27.657 1 122.57 ? NAJ YL3 402 F 1 
HETATM 7 C C4 YL3 . . . C 3 5.122 71.374 27.991 1 111.15 ? C4 YL3 402 F 1 
HETATM 8 N N3 YL3 . . . C 3 4.741 70.095 28.178 1 115.35 ? N3 YL3 402 F 1 
HETATM 9 C C2 YL3 . . . C 3 3.436 69.821 28.549 1 117.16 ? C2 YL3 402 F 1 
HETATM 10 N N1 YL3 . . . C 3 2.599 70.92 28.698 1 116.63 ? N1 YL3 402 F 1 
HETATM 11 C C6 YL3 . . . C 3 3.06 72.178 28.494 1 92.94 ? C6 YL3 402 F 1 
HETATM 12 S SAE YL3 . . . C 3 2.285 73.543 28.634 1 81.68 ? SAE YL3 402 F 1 
HETATM 13 C C5 YL3 . . . C 3 4.328 72.464 28.128 1 100.26 ? C5 YL3 402 F 1 
HETATM 14 C CAC YL3 . . . C 3 4.583 73.832 27.977 1 96.13 ? CAC YL3 402 F 1 
HETATM 15 C CAD YL3 . . . C 3 3.517 74.66 28.222 1 87.41 ? CAD YL3 402 F 1 
HETATM 16 C CAK YL3 . . . C 3 3.355 76.057 28.169 1 78.63 ? CAK YL3 402 F 1 
HETATM 17 C CAL YL3 . . . C 3 4.392 77.03 28.218 1 72.95 ? CAL YL3 402 F 1 
HETATM 18 C CAM YL3 . . . C 3 4.138 78.417 28.124 1 63.66 ? CAM YL3 402 F 1 
HETATM 19 C CAN YL3 . . . C 3 2.84 78.915 28.019 1 66.62 ? CAN YL3 402 F 1 
HETATM 20 C CAQ YL3 . . . C 3 2.566 80.308 27.967 1 66.13 ? CAQ YL3 402 F 1 
HETATM 21 C CAO YL3 . . . C 3 1.803 77.987 27.974 1 60.36 ? CAO YL3 402 F 1 
HETATM 22 C CAP YL3 . . . C 3 2.064 76.613 28.067 1 64.07 ? CAP YL3 402 F 1 
#
_model_server_stats.io_time_ms              82 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           445 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           22 
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