data_6AM9
#
_model_server_result.job_id            DiGlIll4Lmm1SkjIgWTgng 
_model_server_result.datetime_utc      '2024-11-07 04:31:11' 
_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          6am9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":401}' 
#
_entry.id    6AM9 
#
_exptl.entry_id    6AM9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              316.204 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '2-{[(E)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene]amino}prop-2-enoic acid' 
_entity.pdbx_number_of_molecules    3 
_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            6AM9 
_cell.length_a            87.502 
_cell.length_b            109.122 
_cell.length_c            160.491 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6AM9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
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 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,I,O,P 1 1 
C,D,J,K,L,M,N,Q,R 2 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 J N N 
? 4 M 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 O GLY 48 A GLY 48 1_555 F NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.926 ? 
metalc ? metalc2 A O SER 263 A SER 263 1_555 E NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.606 ? 
metalc ? metalc3 A OG SER 263 A SER 263 1_555 E NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.08 ? 
metalc ? metalc4 A OG SER 265 A SER 265 1_555 E NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.775 ? 
metalc ? metalc5 A O TYR 301 A TYR 301 1_555 E NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.541 ? 
metalc ? metalc6 A O GLY 303 A GLY 303 1_555 E NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.729 ? 
metalc ? metalc7 E NA NA . A NA 401 1_555 O O HOH . A HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? 
metalc ? metalc8 F NA NA . A NA 402 1_555 B O PRO 50 B PRO 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.2 ? 
metalc ? metalc9 B O SER 263 B SER 263 1_555 I NA NA . B NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? 
metalc ? metalc10 B OG SER 265 B SER 265 1_555 I NA NA . B NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.685 ? 
metalc ? metalc11 B O TYR 301 B TYR 301 1_555 I NA NA . B NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.538 ? 
metalc ? metalc12 B O GLY 303 B GLY 303 1_555 I NA NA . B NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.565 ? 
metalc ? metalc13 I NA NA . B NA 402 1_555 P O HOH . B HOH 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? 
metalc ? metalc14 C O GLY 48 C GLY 48 1_555 L NA NA . C NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.884 ? 
metalc ? metalc15 C O SER 263 C SER 263 1_555 K NA NA . C NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? 
metalc ? metalc16 C OG SER 265 C SER 265 1_555 K NA NA . C NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.786 ? 
metalc ? metalc17 C O TYR 301 C TYR 301 1_555 K NA NA . C NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.813 ? 
metalc ? metalc18 C O GLY 303 C GLY 303 1_555 K NA NA . C NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.599 ? 
metalc ? metalc19 L NA NA . C NA 403 1_555 D O GLY 48 D GLY 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.167 ? 
metalc ? metalc20 D O SER 263 D SER 263 1_555 N NA NA . D NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? 
metalc ? metalc21 D OG SER 265 D SER 265 1_555 N NA NA . D NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? 
metalc ? metalc22 D O TYR 301 D TYR 301 1_555 N NA NA . D NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.644 ? 
metalc ? metalc23 D O GLY 303 D GLY 303 1_555 N NA NA . D NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.68 ? 
metalc ? metalc24 N NA NA . D NA 402 1_555 R O HOH . D HOH 528 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? 
#
_chem_comp.formula           'C11 H13 N2 O7 P' 
_chem_comp.formula_weight    316.204 
_chem_comp.id                0JO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '2-{[(E)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene]amino}prop-2-enoic 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
O C 0JO doub 1 n n 
OXT C 0JO sing 2 n n 
C CA 0JO sing 3 n n 
CA CB 0JO doub 4 n n 
CA N 0JO sing 5 n n 
O3 C3 0JO sing 6 n n 
N C4A 0JO doub 7 n n 
C4A C4 0JO sing 8 n n 
C3 C4 0JO doub 9 n y 
C3 C2 0JO sing 10 n y 
C2A C2 0JO sing 11 n n 
C4 C5 0JO sing 12 n y 
C2 N1 0JO doub 13 n y 
OP3 P 0JO doub 14 n n 
C5 C5A 0JO sing 15 n n 
C5 C6 0JO doub 16 n y 
N1 C6 0JO sing 17 n y 
OP4 C5A 0JO sing 18 n n 
OP4 P 0JO sing 19 n n 
OP1 P 0JO sing 20 n n 
P OP2 0JO sing 21 n n 
OXT H1 0JO sing 22 n n 
CB H2 0JO sing 23 n n 
CB H3 0JO sing 24 n n 
C4A H4 0JO sing 25 n n 
O3 H5 0JO sing 26 n n 
C2A H6 0JO sing 27 n n 
C2A H7 0JO sing 28 n n 
C2A H8 0JO sing 29 n n 
C6 H9 0JO sing 30 n n 
C5A H10 0JO sing 31 n n 
C5A H11 0JO sing 32 n n 
OP1 H12 0JO sing 33 n n 
OP2 H13 0JO sing 34 n n 
#
_atom_sites.entry_id                     6AM9 
_atom_sites.fract_transf_matrix[1][1]    0.011428 
_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]    0.009164 
_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]    0.006231 
_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 NA A 1 401 2 NA NA . 
F 2 NA A 1 402 6 NA NA . 
G 3 PLS A 1 403 1 PLS PLS . 
H 4 0JO B 1 401 4 0JO 0JO . 
I 2 NA B 1 402 1 NA NA . 
J 4 0JO C 1 401 3 0JO 0JO . 
K 2 NA C 1 402 4 NA NA . 
L 2 NA C 1 403 7 NA NA . 
M 4 0JO D 1 401 2 0JO 0JO . 
N 2 NA D 1 402 3 NA NA . 
O 5 HOH A 1 501 40 HOH HOH . 
O 5 HOH A 2 502 37 HOH HOH . 
O 5 HOH A 3 503 77 HOH HOH . 
O 5 HOH A 4 504 44 HOH HOH . 
O 5 HOH A 5 505 46 HOH HOH . 
O 5 HOH A 6 506 53 HOH HOH . 
O 5 HOH A 7 507 26 HOH HOH . 
O 5 HOH A 8 508 95 HOH HOH . 
O 5 HOH A 9 509 63 HOH HOH . 
O 5 HOH A 10 510 85 HOH HOH . 
O 5 HOH A 11 511 100 HOH HOH . 
O 5 HOH A 12 512 68 HOH HOH . 
O 5 HOH A 13 513 84 HOH HOH . 
O 5 HOH A 14 514 117 HOH HOH . 
O 5 HOH A 15 515 106 HOH HOH . 
O 5 HOH A 16 516 111 HOH HOH . 
O 5 HOH A 17 517 75 HOH HOH . 
O 5 HOH A 18 518 66 HOH HOH . 
O 5 HOH A 19 519 89 HOH HOH . 
O 5 HOH A 20 520 59 HOH HOH . 
P 5 HOH B 1 501 54 HOH HOH . 
P 5 HOH B 2 502 39 HOH HOH . 
P 5 HOH B 3 503 48 HOH HOH . 
P 5 HOH B 4 504 86 HOH HOH . 
P 5 HOH B 5 505 102 HOH HOH . 
P 5 HOH B 6 506 99 HOH HOH . 
P 5 HOH B 7 507 43 HOH HOH . 
P 5 HOH B 8 508 74 HOH HOH . 
P 5 HOH B 9 509 56 HOH HOH . 
P 5 HOH B 10 510 125 HOH HOH . 
P 5 HOH B 11 511 116 HOH HOH . 
P 5 HOH B 12 512 61 HOH HOH . 
P 5 HOH B 13 513 47 HOH HOH . 
P 5 HOH B 14 514 36 HOH HOH . 
P 5 HOH B 15 515 120 HOH HOH . 
P 5 HOH B 16 516 29 HOH HOH . 
P 5 HOH B 17 517 19 HOH HOH . 
P 5 HOH B 18 518 64 HOH HOH . 
P 5 HOH B 19 519 72 HOH HOH . 
P 5 HOH B 20 520 108 HOH HOH . 
P 5 HOH B 21 521 82 HOH HOH . 
P 5 HOH B 22 522 13 HOH HOH . 
P 5 HOH B 23 523 113 HOH HOH . 
P 5 HOH B 24 524 12 HOH HOH . 
Q 5 HOH C 1 501 55 HOH HOH . 
Q 5 HOH C 2 502 124 HOH HOH . 
Q 5 HOH C 3 503 51 HOH HOH . 
Q 5 HOH C 4 504 119 HOH HOH . 
Q 5 HOH C 5 505 122 HOH HOH . 
Q 5 HOH C 6 506 107 HOH HOH . 
Q 5 HOH C 7 507 50 HOH HOH . 
Q 5 HOH C 8 508 33 HOH HOH . 
Q 5 HOH C 9 509 25 HOH HOH . 
Q 5 HOH C 10 510 76 HOH HOH . 
Q 5 HOH C 11 511 42 HOH HOH . 
Q 5 HOH C 12 512 109 HOH HOH . 
Q 5 HOH C 13 513 4 HOH HOH . 
Q 5 HOH C 14 514 98 HOH HOH . 
Q 5 HOH C 15 515 57 HOH HOH . 
Q 5 HOH C 16 516 81 HOH HOH . 
Q 5 HOH C 17 517 22 HOH HOH . 
Q 5 HOH C 18 518 112 HOH HOH . 
Q 5 HOH C 19 519 10 HOH HOH . 
Q 5 HOH C 20 520 62 HOH HOH . 
Q 5 HOH C 21 521 18 HOH HOH . 
Q 5 HOH C 22 522 114 HOH HOH . 
Q 5 HOH C 23 523 91 HOH HOH . 
R 5 HOH D 1 501 123 HOH HOH . 
R 5 HOH D 2 502 60 HOH HOH . 
R 5 HOH D 3 503 58 HOH HOH . 
R 5 HOH D 4 504 52 HOH HOH . 
R 5 HOH D 5 505 78 HOH HOH . 
R 5 HOH D 6 506 45 HOH HOH . 
R 5 HOH D 7 507 38 HOH HOH . 
R 5 HOH D 8 508 41 HOH HOH . 
R 5 HOH D 9 509 21 HOH HOH . 
R 5 HOH D 10 510 34 HOH HOH . 
R 5 HOH D 11 511 70 HOH HOH . 
R 5 HOH D 12 512 8 HOH HOH . 
R 5 HOH D 13 513 31 HOH HOH . 
R 5 HOH D 14 514 97 HOH HOH . 
R 5 HOH D 15 515 101 HOH HOH . 
R 5 HOH D 16 516 79 HOH HOH . 
R 5 HOH D 17 517 121 HOH HOH . 
R 5 HOH D 18 518 5 HOH HOH . 
R 5 HOH D 19 519 67 HOH HOH . 
R 5 HOH D 20 520 3 HOH HOH . 
R 5 HOH D 21 521 71 HOH HOH . 
R 5 HOH D 22 522 93 HOH HOH . 
R 5 HOH D 23 523 73 HOH HOH . 
R 5 HOH D 24 524 2 HOH HOH . 
R 5 HOH D 25 525 11 HOH HOH . 
R 5 HOH D 26 526 110 HOH HOH . 
R 5 HOH D 27 527 7 HOH HOH . 
R 5 HOH D 28 528 35 HOH HOH . 
R 5 HOH D 29 529 94 HOH HOH . 
R 5 HOH D 30 530 92 HOH HOH . 
R 5 HOH D 31 531 23 HOH HOH . 
R 5 HOH D 32 532 96 HOH HOH . 
R 5 HOH D 33 533 69 HOH HOH . 
R 5 HOH D 34 534 49 HOH HOH . 
R 5 HOH D 35 535 104 HOH HOH . 
R 5 HOH D 36 536 118 HOH HOH . 
R 5 HOH D 37 537 28 HOH HOH . 
R 5 HOH D 38 538 24 HOH HOH . 
R 5 HOH D 39 539 105 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 O 0JO . . . H 4 -5.757 -36.154 -45.572 1 54.88 ? O 0JO 401 B 1 
HETATM 2 C C 0JO . . . H 4 -5.15 -37.105 -44.9 1 53.48 ? C 0JO 401 B 1 
HETATM 3 O OXT 0JO . . . H 4 -4.7 -36.903 -43.782 1 56.85 ? OXT 0JO 401 B 1 
HETATM 4 C CA 0JO . . . H 4 -5.06 -38.431 -45.567 1 51.22 ? CA 0JO 401 B 1 
HETATM 5 C CB 0JO . . . H 4 -5.694 -38.663 -46.86 1 50.77 ? CB 0JO 401 B 1 
HETATM 6 N N 0JO . . . H 4 -4.382 -39.42 -44.877 1 48.28 ? N 0JO 401 B 1 
HETATM 7 C C4A 0JO . . . H 4 -3.485 -40.163 -45.441 1 46.71 ? C4A 0JO 401 B 1 
HETATM 8 C C4 0JO . . . H 4 -2.692 -41.161 -44.718 1 47.34 ? C4 0JO 401 B 1 
HETATM 9 C C3 0JO . . . H 4 -2.671 -41.187 -43.32 1 48.11 ? C3 0JO 401 B 1 
HETATM 10 O O3 0JO . . . H 4 -3.375 -40.311 -42.561 1 46.48 ? O3 0JO 401 B 1 
HETATM 11 C C2 0JO . . . H 4 -1.894 -42.152 -42.651 1 48.5 ? C2 0JO 401 B 1 
HETATM 12 C C2A 0JO . . . H 4 -1.863 -42.192 -41.151 1 49.24 ? C2A 0JO 401 B 1 
HETATM 13 N N1 0JO . . . H 4 -1.172 -43.046 -43.334 1 49.29 ? N1 0JO 401 B 1 
HETATM 14 C C6 0JO . . . H 4 -1.182 -43.025 -44.683 1 48.32 ? C6 0JO 401 B 1 
HETATM 15 C C5 0JO . . . H 4 -1.915 -42.119 -45.413 1 47.15 ? C5 0JO 401 B 1 
HETATM 16 C C5A 0JO . . . H 4 -1.876 -42.182 -46.915 1 46.78 ? C5A 0JO 401 B 1 
HETATM 17 O OP4 0JO . . . H 4 -1.17 -41.021 -47.448 1 44.59 ? OP4 0JO 401 B 1 
HETATM 18 P P 0JO . . . H 4 0.302 -41.29 -48.061 1 44.64 ? P 0JO 401 B 1 
HETATM 19 O OP3 0JO . . . H 4 0.175 -42.481 -48.989 1 43.48 ? OP3 0JO 401 B 1 
HETATM 20 O OP1 0JO . . . H 4 1.237 -41.571 -46.901 1 45.81 ? OP1 0JO 401 B 1 
HETATM 21 O OP2 0JO . . . H 4 0.637 -40.002 -48.784 1 42.52 ? OP2 0JO 401 B 1 
#
_model_server_stats.io_time_ms              31 
_model_server_stats.parse_time_ms           33 
_model_server_stats.create_model_time_ms    34 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           21 
#