data_3WCB
#
_model_server_result.job_id            k9FKn1jFU4hR2Iagi0igWA 
_model_server_result.datetime_utc      '2024-11-02 13:42:21' 
_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          3wcb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":401}' 
#
_entry.id    3WCB 
#
_exptl.entry_id    3WCB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              412.355 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'hydrogen [(1R)-2-(3-decyl-1H-imidazol-3-ium-1-yl)-1-hydroxy-1-phosphonoethyl]phosphonate' 
_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         90 
_cell.entry_id            3WCB 
_cell.length_a            79.395 
_cell.length_b            127.694 
_cell.length_c            142.562 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3WCB 
_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
? tetrameric 4 author_defined_assembly 1 
PISA monomeric 1 software_defined_assembly 2 
PISA monomeric 1 software_defined_assembly 3 
PISA monomeric 1 software_defined_assembly 4 
PISA monomeric 1 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,B,C,D,E,F,G,H,I,J,K,L 1 1 
A,E,I 2 1 
B,F,J 3 1 
C,G,K 4 1 
D,H,L 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 E N N 
? 2 F N N 
? 2 G N N 
? 2 H N N 
#
_chem_comp.formula           'C15 H30 N2 O7 P2' 
_chem_comp.formula_weight    412.355 
_chem_comp.id                8PH 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'hydrogen [(1R)-2-(3-decyl-1H-imidazol-3-ium-1-yl)-1-hydroxy-1-phosphonoethyl]phosphonate' 
_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 CAL 8PH sing 1 n n 
CAL CAM 8PH sing 2 n n 
CAM CAN 8PH sing 3 n n 
CAN CAO 8PH sing 4 n n 
CAO CAP 8PH sing 5 n n 
CAP CAQ 8PH sing 6 n n 
CAQ CAR 8PH sing 7 n n 
CAR CAS 8PH sing 8 n n 
CAS CAT 8PH sing 9 n n 
CAT NAV 8PH sing 10 n n 
NAV CAK 8PH doub 11 n y 
NAV CAI 8PH sing 12 n y 
CAK NAW 8PH sing 13 n y 
CAI CAJ 8PH doub 14 n y 
OAB PAY 8PH doub 15 n n 
NAW CAJ 8PH sing 16 n y 
NAW CAU 8PH sing 17 n n 
OAF PAY 8PH sing 18 n n 
PAY OAE 8PH sing 19 n n 
PAY CAX 8PH sing 20 n n 
CAU CAX 8PH sing 21 n n 
CAX OAD 8PH sing 22 n n 
CAX PAZ 8PH sing 23 n n 
OAH PAZ 8PH doub 24 n n 
PAZ OAG 8PH sing 25 n n 
PAZ OAC 8PH sing 26 n n 
OAE H1 8PH sing 27 n n 
OAF H2 8PH sing 28 n n 
OAC H4 8PH sing 29 n n 
OAD H5 8PH sing 30 n n 
CAU H6 8PH sing 31 n n 
CAU H7 8PH sing 32 n n 
CAK H8 8PH sing 33 n n 
CAJ H9 8PH sing 34 n n 
CAI H10 8PH sing 35 n n 
CAT H11 8PH sing 36 n n 
CAT H12 8PH sing 37 n n 
CAS H13 8PH sing 38 n n 
CAS H14 8PH sing 39 n n 
CAR H15 8PH sing 40 n n 
CAR H16 8PH sing 41 n n 
CAQ H17 8PH sing 42 n n 
CAQ H18 8PH sing 43 n n 
CAP H19 8PH sing 44 n n 
CAP H20 8PH sing 45 n n 
CAO H21 8PH sing 46 n n 
CAO H22 8PH sing 47 n n 
CAN H23 8PH sing 48 n n 
CAN H24 8PH sing 49 n n 
CAM H25 8PH sing 50 n n 
CAM H26 8PH sing 51 n n 
CAL H27 8PH sing 52 n n 
CAL H28 8PH sing 53 n n 
CAA H29 8PH sing 54 n n 
CAA H30 8PH sing 55 n n 
CAA H31 8PH sing 56 n n 
#
_atom_sites.entry_id                     3WCB 
_atom_sites.fract_transf_matrix[1][1]    0.012595 
_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]    0.007831 
_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]    0.007014 
_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 8PH A 1 401 1 8PH 8PH . 
F 2 8PH B 1 401 2 8PH 8PH . 
G 2 8PH C 1 401 3 8PH 8PH . 
H 2 8PH D 1 401 4 8PH 8PH . 
I 3 HOH A 1 501 2 HOH WAT . 
I 3 HOH A 2 502 5 HOH WAT . 
I 3 HOH A 3 503 7 HOH WAT . 
I 3 HOH A 4 504 9 HOH WAT . 
I 3 HOH A 5 505 12 HOH WAT . 
I 3 HOH A 6 506 14 HOH WAT . 
I 3 HOH A 7 507 16 HOH WAT . 
I 3 HOH A 8 508 18 HOH WAT . 
I 3 HOH A 9 509 23 HOH WAT . 
I 3 HOH A 10 510 24 HOH WAT . 
I 3 HOH A 11 511 25 HOH WAT . 
I 3 HOH A 12 512 26 HOH WAT . 
I 3 HOH A 13 513 27 HOH WAT . 
I 3 HOH A 14 514 28 HOH WAT . 
I 3 HOH A 15 515 29 HOH WAT . 
I 3 HOH A 16 516 33 HOH WAT . 
I 3 HOH A 17 517 40 HOH WAT . 
I 3 HOH A 18 518 44 HOH WAT . 
I 3 HOH A 19 519 48 HOH WAT . 
I 3 HOH A 20 520 54 HOH WAT . 
I 3 HOH A 21 521 55 HOH WAT . 
I 3 HOH A 22 522 61 HOH WAT . 
I 3 HOH A 23 523 63 HOH WAT . 
I 3 HOH A 24 524 65 HOH WAT . 
I 3 HOH A 25 525 67 HOH WAT . 
I 3 HOH A 26 526 73 HOH WAT . 
I 3 HOH A 27 527 77 HOH WAT . 
I 3 HOH A 28 528 78 HOH WAT . 
I 3 HOH A 29 529 82 HOH WAT . 
I 3 HOH A 30 530 85 HOH WAT . 
I 3 HOH A 31 531 92 HOH WAT . 
I 3 HOH A 32 532 94 HOH WAT . 
I 3 HOH A 33 533 95 HOH WAT . 
I 3 HOH A 34 534 96 HOH WAT . 
I 3 HOH A 35 535 102 HOH WAT . 
I 3 HOH A 36 536 103 HOH WAT . 
I 3 HOH A 37 537 106 HOH WAT . 
I 3 HOH A 38 538 118 HOH WAT . 
I 3 HOH A 39 539 119 HOH WAT . 
I 3 HOH A 40 540 122 HOH WAT . 
I 3 HOH A 41 541 124 HOH WAT . 
I 3 HOH A 42 542 126 HOH WAT . 
I 3 HOH A 43 543 130 HOH WAT . 
I 3 HOH A 44 544 132 HOH WAT . 
I 3 HOH A 45 545 139 HOH WAT . 
I 3 HOH A 46 546 142 HOH WAT . 
I 3 HOH A 47 547 143 HOH WAT . 
I 3 HOH A 48 548 152 HOH WAT . 
I 3 HOH A 49 549 153 HOH WAT . 
I 3 HOH A 50 550 158 HOH WAT . 
I 3 HOH A 51 551 160 HOH WAT . 
I 3 HOH A 52 552 161 HOH WAT . 
I 3 HOH A 53 553 164 HOH WAT . 
I 3 HOH A 54 554 168 HOH WAT . 
I 3 HOH A 55 555 170 HOH WAT . 
I 3 HOH A 56 556 171 HOH WAT . 
I 3 HOH A 57 557 172 HOH WAT . 
I 3 HOH A 58 558 173 HOH WAT . 
I 3 HOH A 59 559 175 HOH WAT . 
I 3 HOH A 60 560 190 HOH WAT . 
I 3 HOH A 61 561 192 HOH WAT . 
I 3 HOH A 62 562 193 HOH WAT . 
J 3 HOH B 1 501 4 HOH WAT . 
J 3 HOH B 2 502 6 HOH WAT . 
J 3 HOH B 3 503 8 HOH WAT . 
J 3 HOH B 4 504 11 HOH WAT . 
J 3 HOH B 5 505 13 HOH WAT . 
J 3 HOH B 6 506 21 HOH WAT . 
J 3 HOH B 7 507 22 HOH WAT . 
J 3 HOH B 8 508 31 HOH WAT . 
J 3 HOH B 9 509 36 HOH WAT . 
J 3 HOH B 10 510 45 HOH WAT . 
J 3 HOH B 11 511 46 HOH WAT . 
J 3 HOH B 12 512 47 HOH WAT . 
J 3 HOH B 13 513 56 HOH WAT . 
J 3 HOH B 14 514 57 HOH WAT . 
J 3 HOH B 15 515 58 HOH WAT . 
J 3 HOH B 16 516 62 HOH WAT . 
J 3 HOH B 17 517 72 HOH WAT . 
J 3 HOH B 18 518 81 HOH WAT . 
J 3 HOH B 19 519 86 HOH WAT . 
J 3 HOH B 20 520 93 HOH WAT . 
J 3 HOH B 21 521 98 HOH WAT . 
J 3 HOH B 22 522 101 HOH WAT . 
J 3 HOH B 23 523 104 HOH WAT . 
J 3 HOH B 24 524 105 HOH WAT . 
J 3 HOH B 25 525 107 HOH WAT . 
J 3 HOH B 26 526 111 HOH WAT . 
J 3 HOH B 27 527 112 HOH WAT . 
J 3 HOH B 28 528 113 HOH WAT . 
J 3 HOH B 29 529 115 HOH WAT . 
J 3 HOH B 30 530 125 HOH WAT . 
J 3 HOH B 31 531 135 HOH WAT . 
J 3 HOH B 32 532 137 HOH WAT . 
J 3 HOH B 33 533 149 HOH WAT . 
J 3 HOH B 34 534 154 HOH WAT . 
J 3 HOH B 35 535 159 HOH WAT . 
J 3 HOH B 36 536 163 HOH WAT . 
J 3 HOH B 37 537 176 HOH WAT . 
J 3 HOH B 38 538 177 HOH WAT . 
J 3 HOH B 39 539 178 HOH WAT . 
J 3 HOH B 40 540 179 HOH WAT . 
J 3 HOH B 41 541 180 HOH WAT . 
J 3 HOH B 42 542 181 HOH WAT . 
J 3 HOH B 43 543 182 HOH WAT . 
K 3 HOH C 1 501 3 HOH WAT . 
K 3 HOH C 2 502 17 HOH WAT . 
K 3 HOH C 3 503 19 HOH WAT . 
K 3 HOH C 4 504 34 HOH WAT . 
K 3 HOH C 5 505 35 HOH WAT . 
K 3 HOH C 6 506 38 HOH WAT . 
K 3 HOH C 7 507 43 HOH WAT . 
K 3 HOH C 8 508 49 HOH WAT . 
K 3 HOH C 9 509 50 HOH WAT . 
K 3 HOH C 10 510 51 HOH WAT . 
K 3 HOH C 11 511 52 HOH WAT . 
K 3 HOH C 12 512 64 HOH WAT . 
K 3 HOH C 13 513 68 HOH WAT . 
K 3 HOH C 14 514 70 HOH WAT . 
K 3 HOH C 15 515 71 HOH WAT . 
K 3 HOH C 16 516 74 HOH WAT . 
K 3 HOH C 17 517 75 HOH WAT . 
K 3 HOH C 18 518 76 HOH WAT . 
K 3 HOH C 19 519 79 HOH WAT . 
K 3 HOH C 20 520 87 HOH WAT . 
K 3 HOH C 21 521 88 HOH WAT . 
K 3 HOH C 22 522 91 HOH WAT . 
K 3 HOH C 23 523 99 HOH WAT . 
K 3 HOH C 24 524 108 HOH WAT . 
K 3 HOH C 25 525 109 HOH WAT . 
K 3 HOH C 26 526 120 HOH WAT . 
K 3 HOH C 27 527 121 HOH WAT . 
K 3 HOH C 28 528 131 HOH WAT . 
K 3 HOH C 29 529 133 HOH WAT . 
K 3 HOH C 30 530 136 HOH WAT . 
K 3 HOH C 31 531 140 HOH WAT . 
K 3 HOH C 32 532 141 HOH WAT . 
K 3 HOH C 33 533 145 HOH WAT . 
K 3 HOH C 34 534 146 HOH WAT . 
K 3 HOH C 35 535 148 HOH WAT . 
K 3 HOH C 36 536 150 HOH WAT . 
K 3 HOH C 37 537 155 HOH WAT . 
K 3 HOH C 38 538 156 HOH WAT . 
K 3 HOH C 39 539 162 HOH WAT . 
K 3 HOH C 40 540 174 HOH WAT . 
K 3 HOH C 41 541 183 HOH WAT . 
K 3 HOH C 42 542 184 HOH WAT . 
K 3 HOH C 43 543 185 HOH WAT . 
K 3 HOH C 44 544 191 HOH WAT . 
K 3 HOH C 45 545 194 HOH WAT . 
K 3 HOH C 46 546 195 HOH WAT . 
K 3 HOH C 47 547 196 HOH WAT . 
L 3 HOH D 1 501 1 HOH WAT . 
L 3 HOH D 2 502 10 HOH WAT . 
L 3 HOH D 3 503 15 HOH WAT . 
L 3 HOH D 4 504 20 HOH WAT . 
L 3 HOH D 5 505 30 HOH WAT . 
L 3 HOH D 6 506 32 HOH WAT . 
L 3 HOH D 7 507 37 HOH WAT . 
L 3 HOH D 8 508 39 HOH WAT . 
L 3 HOH D 9 509 41 HOH WAT . 
L 3 HOH D 10 510 42 HOH WAT . 
L 3 HOH D 11 511 53 HOH WAT . 
L 3 HOH D 12 512 59 HOH WAT . 
L 3 HOH D 13 513 60 HOH WAT . 
L 3 HOH D 14 514 66 HOH WAT . 
L 3 HOH D 15 515 69 HOH WAT . 
L 3 HOH D 16 516 80 HOH WAT . 
L 3 HOH D 17 517 83 HOH WAT . 
L 3 HOH D 18 518 84 HOH WAT . 
L 3 HOH D 19 519 89 HOH WAT . 
L 3 HOH D 20 520 90 HOH WAT . 
L 3 HOH D 21 521 97 HOH WAT . 
L 3 HOH D 22 522 100 HOH WAT . 
L 3 HOH D 23 523 110 HOH WAT . 
L 3 HOH D 24 524 114 HOH WAT . 
L 3 HOH D 25 525 116 HOH WAT . 
L 3 HOH D 26 526 117 HOH WAT . 
L 3 HOH D 27 527 123 HOH WAT . 
L 3 HOH D 28 528 127 HOH WAT . 
L 3 HOH D 29 529 128 HOH WAT . 
L 3 HOH D 30 530 129 HOH WAT . 
L 3 HOH D 31 531 134 HOH WAT . 
L 3 HOH D 32 532 138 HOH WAT . 
L 3 HOH D 33 533 144 HOH WAT . 
L 3 HOH D 34 534 147 HOH WAT . 
L 3 HOH D 35 535 151 HOH WAT . 
L 3 HOH D 36 536 157 HOH WAT . 
L 3 HOH D 37 537 165 HOH WAT . 
L 3 HOH D 38 538 166 HOH WAT . 
L 3 HOH D 39 539 167 HOH WAT . 
L 3 HOH D 40 540 169 HOH WAT . 
L 3 HOH D 41 541 186 HOH WAT . 
L 3 HOH D 42 542 187 HOH WAT . 
L 3 HOH D 43 543 188 HOH WAT . 
L 3 HOH D 44 544 189 HOH WAT . 
#
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 OAE 8PH . . . F 2 -15.844 -46.974 -40.839 1 116.51 ? OAE 8PH 401 B 1 
HETATM 2 P PAY 8PH . . . F 2 -14.55 -47.378 -39.971 1 116.6 ? PAY 8PH 401 B 1 
HETATM 3 O OAF 8PH . . . F 2 -14.941 -48.729 -39.187 1 115.85 ? OAF 8PH 401 B 1 
HETATM 4 O OAB 8PH . . . F 2 -14.12 -46.296 -39.056 1 115.76 ? OAB 8PH 401 B 1 
HETATM 5 C CAX 8PH . . . F 2 -13.244 -47.85 -41.216 1 117.7 ? CAX 8PH 401 B 1 
HETATM 6 P PAZ 8PH . . . F 2 -14.077 -48.612 -42.703 1 118.58 ? PAZ 8PH 401 B 1 
HETATM 7 O OAG 8PH . . . F 2 -13.206 -49.909 -43.091 1 119.12 ? OAG 8PH 401 B 1 
HETATM 8 O OAH 8PH . . . F 2 -15.496 -49.164 -42.181 1 118.44 ? OAH 8PH 401 B 1 
HETATM 9 O OAC 8PH . . . F 2 -14.217 -47.659 -43.827 1 118.15 ? OAC 8PH 401 B 1 
HETATM 10 O OAD 8PH . . . F 2 -12.363 -46.776 -41.548 1 117.69 ? OAD 8PH 401 B 1 
HETATM 11 C CAU 8PH . . . F 2 -12.388 -48.942 -40.571 1 117.44 ? CAU 8PH 401 B 1 
HETATM 12 N NAW 8PH . . . F 2 -11.403 -48.32 -39.656 1 117.46 ? NAW 8PH 401 B 1 
HETATM 13 C CAK 8PH . . . F 2 -11.633 -47.948 -38.4 1 116.83 ? CAK 8PH 401 B 1 
HETATM 14 C CAJ 8PH . . . F 2 -10.156 -47.983 -39.968 1 117.3 ? CAJ 8PH 401 B 1 
HETATM 15 C CAI 8PH . . . F 2 -9.615 -47.394 -38.905 1 116.82 ? CAI 8PH 401 B 1 
HETATM 16 N NAV 8PH . . . F 2 -10.527 -47.372 -37.937 1 116.76 ? NAV 8PH 401 B 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           16 
#