data_4JD3
#
_model_server_result.job_id            HA-9JfpOVBsq0gMoIATMgg 
_model_server_result.datetime_utc      '2024-11-05 04:55:56' 
_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          4jd3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":402}' 
#
_entry.id    4JD3 
#
_exptl.entry_id    4JD3 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              767.534 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'COENZYME A' 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          97.82 
_cell.angle_gamma         90 
_cell.entry_id            4JD3 
_cell.length_a            72.166 
_cell.length_b            48.863 
_cell.length_c            194.473 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4JD3 
_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 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,C,E,H,I,K,M 1 1 
B,D,F,G,J,L,N 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
? 3 G N N 
? 3 I N N 
#
_chem_comp.formula           'C21 H36 N7 O16 P3 S' 
_chem_comp.formula_weight    767.534 
_chem_comp.id                COA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'COENZYME A' 
_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
N1A C2A COA sing 70 n y 
N1A C6A COA doub 71 n y 
C2A N3A COA doub 72 n y 
C2A H2A COA sing 73 n n 
N3A C4A COA sing 74 n y 
C4A C5A COA doub 75 n y 
C4A N9A COA sing 76 n y 
C5A C6A COA sing 77 n y 
C5A N7A COA sing 78 n y 
C6A N6A COA sing 79 n n 
N6A H61A COA sing 80 n n 
N6A H62A COA sing 81 n n 
N7A C8A COA doub 82 n y 
C8A N9A COA sing 83 n y 
C8A H8A COA sing 84 n n 
N9A C1B COA sing 85 n n 
C1B C2B COA sing 86 n n 
C1B O4B COA sing 87 n n 
C1B H1B COA sing 88 n n 
C2B O2B COA sing 89 n n 
C2B C3B COA sing 90 n n 
C2B H2B COA sing 91 n n 
O2B HO2A COA sing 92 n n 
C3B O3B COA sing 93 n n 
C3B C4B COA sing 94 n n 
C3B H3B COA sing 95 n n 
O3B P3B COA sing 96 n n 
P3B O7A COA doub 97 n n 
P3B O8A COA sing 98 n n 
P3B O9A COA sing 99 n n 
O8A HOA8 COA sing 100 n n 
O9A HOA9 COA sing 101 n n 
C4B O4B COA sing 102 n n 
C4B C5B COA sing 103 n n 
C4B H4B COA sing 104 n n 
C5B O5B COA sing 105 n n 
C5B H51A COA sing 106 n n 
C5B H52A COA sing 107 n n 
O5B P1A COA sing 108 n n 
P1A O1A COA doub 109 n n 
P1A O2A COA sing 110 n n 
P1A O3A COA sing 111 n n 
O2A HOA2 COA sing 112 n n 
O3A P2A COA sing 113 n n 
P2A O4A COA doub 114 n n 
P2A O5A COA sing 115 n n 
P2A O6A COA sing 116 n n 
O5A HOA5 COA sing 117 n n 
O6A CCP COA sing 118 n n 
CBP CCP COA sing 119 n n 
CBP CDP COA sing 120 n n 
CBP CEP COA sing 121 n n 
CBP CAP COA sing 122 n n 
CCP H121 COA sing 123 n n 
CCP H122 COA sing 124 n n 
CDP H131 COA sing 125 n n 
CDP H132 COA sing 126 n n 
CDP H133 COA sing 127 n n 
CEP H141 COA sing 128 n n 
CEP H142 COA sing 129 n n 
CEP H143 COA sing 130 n n 
CAP OAP COA sing 131 n n 
CAP C9P COA sing 132 n n 
CAP H10 COA sing 133 n n 
OAP HO1 COA sing 134 n n 
C9P O9P COA doub 135 n n 
C9P N8P COA sing 136 n n 
N8P C7P COA sing 137 n n 
N8P HN8 COA sing 138 n n 
C7P C6P COA sing 139 n n 
C7P H71 COA sing 140 n n 
C7P H72 COA sing 141 n n 
C6P C5P COA sing 142 n n 
C6P H61 COA sing 143 n n 
C6P H62 COA sing 144 n n 
C5P O5P COA doub 145 n n 
C5P N4P COA sing 146 n n 
N4P C3P COA sing 147 n n 
N4P HN4 COA sing 148 n n 
C3P C2P COA sing 149 n n 
C3P H31 COA sing 150 n n 
C3P H32 COA sing 151 n n 
C2P S1P COA sing 152 n n 
C2P H21 COA sing 153 n n 
C2P H22 COA sing 154 n n 
S1P HS1 COA sing 155 n n 
#
_atom_sites.entry_id                     4JD3 
_atom_sites.fract_transf_matrix[1][1]    0.013857 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001903 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.020465 
_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]    0.00519 
_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 PLM A 1 400 400 PLM PLM . 
F 2 PLM C 1 401 401 PLM PLM . 
G 3 COA C 1 402 402 COA COA . 
H 2 PLM B 1 401 401 PLM PLM . 
I 3 COA B 1 402 402 COA COA . 
J 2 PLM D 1 400 400 PLM PLM . 
K 4 HOH A 1 501 501 HOH HOH . 
K 4 HOH A 2 502 502 HOH HOH . 
K 4 HOH A 3 503 503 HOH HOH . 
K 4 HOH A 4 504 504 HOH HOH . 
K 4 HOH A 5 505 505 HOH HOH . 
K 4 HOH A 6 506 506 HOH HOH . 
K 4 HOH A 7 507 507 HOH HOH . 
K 4 HOH A 8 508 508 HOH HOH . 
K 4 HOH A 9 509 509 HOH HOH . 
K 4 HOH A 10 510 510 HOH HOH . 
K 4 HOH A 11 511 511 HOH HOH . 
K 4 HOH A 12 512 512 HOH HOH . 
K 4 HOH A 13 513 513 HOH HOH . 
K 4 HOH A 14 514 514 HOH HOH . 
K 4 HOH A 15 515 515 HOH HOH . 
K 4 HOH A 16 516 516 HOH HOH . 
K 4 HOH A 17 517 517 HOH HOH . 
K 4 HOH A 18 518 518 HOH HOH . 
K 4 HOH A 19 519 519 HOH HOH . 
K 4 HOH A 20 520 520 HOH HOH . 
L 4 HOH C 1 501 501 HOH HOH . 
L 4 HOH C 2 502 502 HOH HOH . 
L 4 HOH C 3 503 503 HOH HOH . 
L 4 HOH C 4 504 504 HOH HOH . 
L 4 HOH C 5 505 505 HOH HOH . 
L 4 HOH C 6 506 506 HOH HOH . 
L 4 HOH C 7 507 507 HOH HOH . 
L 4 HOH C 8 508 508 HOH HOH . 
L 4 HOH C 9 509 509 HOH HOH . 
L 4 HOH C 10 510 510 HOH HOH . 
L 4 HOH C 11 511 511 HOH HOH . 
L 4 HOH C 12 512 512 HOH HOH . 
L 4 HOH C 13 513 513 HOH HOH . 
L 4 HOH C 14 514 514 HOH HOH . 
L 4 HOH C 15 515 515 HOH HOH . 
L 4 HOH C 16 516 516 HOH HOH . 
L 4 HOH C 17 517 517 HOH HOH . 
L 4 HOH C 18 518 518 HOH HOH . 
L 4 HOH C 19 519 519 HOH HOH . 
L 4 HOH C 20 520 520 HOH HOH . 
L 4 HOH C 21 521 521 HOH HOH . 
L 4 HOH C 22 522 522 HOH HOH . 
L 4 HOH C 23 523 523 HOH HOH . 
L 4 HOH C 24 524 524 HOH HOH . 
L 4 HOH C 25 525 525 HOH HOH . 
M 4 HOH B 1 501 501 HOH HOH . 
M 4 HOH B 2 502 502 HOH HOH . 
M 4 HOH B 3 503 503 HOH HOH . 
M 4 HOH B 4 504 504 HOH HOH . 
M 4 HOH B 5 505 505 HOH HOH . 
M 4 HOH B 6 506 506 HOH HOH . 
M 4 HOH B 7 507 507 HOH HOH . 
M 4 HOH B 8 508 508 HOH HOH . 
M 4 HOH B 9 509 509 HOH HOH . 
M 4 HOH B 10 510 510 HOH HOH . 
M 4 HOH B 11 511 511 HOH HOH . 
M 4 HOH B 12 512 512 HOH HOH . 
M 4 HOH B 13 513 513 HOH HOH . 
M 4 HOH B 14 514 514 HOH HOH . 
M 4 HOH B 15 515 515 HOH HOH . 
M 4 HOH B 16 516 516 HOH HOH . 
M 4 HOH B 17 517 517 HOH HOH . 
M 4 HOH B 18 518 518 HOH HOH . 
M 4 HOH B 19 519 519 HOH HOH . 
M 4 HOH B 20 520 520 HOH HOH . 
M 4 HOH B 21 521 521 HOH HOH . 
M 4 HOH B 22 522 522 HOH HOH . 
M 4 HOH B 23 523 523 HOH HOH . 
M 4 HOH B 24 524 524 HOH HOH . 
M 4 HOH B 25 525 525 HOH HOH . 
M 4 HOH B 26 526 526 HOH HOH . 
M 4 HOH B 27 527 527 HOH HOH . 
M 4 HOH B 28 528 528 HOH HOH . 
M 4 HOH B 29 529 529 HOH HOH . 
M 4 HOH B 30 530 530 HOH HOH . 
N 4 HOH D 1 501 501 HOH HOH . 
N 4 HOH D 2 502 502 HOH HOH . 
N 4 HOH D 3 503 503 HOH HOH . 
N 4 HOH D 4 504 504 HOH HOH . 
N 4 HOH D 5 505 505 HOH HOH . 
N 4 HOH D 6 506 506 HOH HOH . 
N 4 HOH D 7 507 507 HOH HOH . 
N 4 HOH D 8 508 508 HOH HOH . 
N 4 HOH D 9 509 509 HOH HOH . 
N 4 HOH D 10 510 510 HOH HOH . 
N 4 HOH D 11 511 511 HOH HOH . 
N 4 HOH D 12 512 512 HOH HOH . 
N 4 HOH D 13 513 513 HOH HOH . 
N 4 HOH D 14 514 514 HOH HOH . 
N 4 HOH D 15 515 515 HOH HOH . 
N 4 HOH D 16 516 516 HOH HOH . 
N 4 HOH D 17 517 517 HOH HOH . 
N 4 HOH D 18 518 518 HOH HOH . 
N 4 HOH D 19 519 519 HOH HOH . 
N 4 HOH D 20 520 520 HOH HOH . 
N 4 HOH D 21 521 521 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 N1A COA . . . G 3 -8.414 -5.897 7.202 1 26.87 ? N1A COA 402 C 1 
HETATM 2 C C2A COA . . . G 3 -8.79 -6.766 6.251 1 29.05 ? C2A COA 402 C 1 
HETATM 3 N N3A COA . . . G 3 -10.031 -7.234 6.101 1 29.87 ? N3A COA 402 C 1 
HETATM 4 C C4A COA . . . G 3 -11.02 -6.846 6.927 1 35.14 ? C4A COA 402 C 1 
HETATM 5 C C5A COA . . . G 3 -10.672 -5.92 7.973 1 28.85 ? C5A COA 402 C 1 
HETATM 6 C C6A COA . . . G 3 -9.312 -5.451 8.084 1 27.42 ? C6A COA 402 C 1 
HETATM 7 N N6A COA . . . G 3 -9.085 -4.605 9.087 1 24.15 ? N6A COA 402 C 1 
HETATM 8 N N7A COA . . . G 3 -11.746 -5.655 8.674 1 33.34 ? N7A COA 402 C 1 
HETATM 9 C C8A COA . . . G 3 -12.732 -6.348 8.144 1 37.84 ? C8A COA 402 C 1 
HETATM 10 N N9A COA . . . G 3 -12.318 -7.071 7.114 1 37.81 ? N9A COA 402 C 1 
HETATM 11 C C1B COA . . . G 3 -13.283 -7.893 6.352 1 45.75 ? C1B COA 402 C 1 
HETATM 12 C C2B COA . . . G 3 -13.989 -8.924 7.183 1 48.82 ? C2B COA 402 C 1 
HETATM 13 O O2B COA . . . G 3 -13.314 -10.164 7.065 1 51.09 ? O2B COA 402 C 1 
HETATM 14 C C3B COA . . . G 3 -15.448 -8.867 6.724 1 54.83 ? C3B COA 402 C 1 
HETATM 15 O O3B COA . . . G 3 -15.771 -9.401 5.455 1 59.31 ? O3B COA 402 C 1 
HETATM 16 P P3B COA . . . G 3 -15.9 -10.902 4.962 1 63.23 ? P3B COA 402 C 1 
HETATM 17 O O7A COA . . . G 3 -14.677 -11.598 5.408 1 50.94 ? O7A COA 402 C 1 
HETATM 18 O O8A COA . . . G 3 -17.181 -11.346 5.556 1 59.36 ? O8A COA 402 C 1 
HETATM 19 O O9A COA . . . G 3 -15.936 -10.712 3.511 1 46.75 ? O9A COA 402 C 1 
HETATM 20 C C4B COA . . . G 3 -15.608 -7.429 6.373 1 49.81 ? C4B COA 402 C 1 
HETATM 21 O O4B COA . . . G 3 -14.334 -7.008 5.946 1 48.55 ? O4B COA 402 C 1 
HETATM 22 C C5B COA . . . G 3 -15.943 -6.567 7.531 1 49.13 ? C5B COA 402 C 1 
HETATM 23 O O5B COA . . . G 3 -16.664 -7.238 8.536 1 49.02 ? O5B COA 402 C 1 
HETATM 24 P P1A COA . . . G 3 -17.209 -6.353 9.721 1 46.7 ? P1A COA 402 C 1 
HETATM 25 O O1A COA . . . G 3 -18.551 -6.81 10.083 1 53.19 ? O1A COA 402 C 1 
HETATM 26 O O2A COA . . . G 3 -16.151 -6.325 10.725 1 43.9 ? O2A COA 402 C 1 
HETATM 27 O O3A COA . . . G 3 -17.42 -4.922 9.076 1 46.07 ? O3A COA 402 C 1 
HETATM 28 P P2A COA . . . G 3 -18.706 -3.973 9.089 1 39.68 ? P2A COA 402 C 1 
HETATM 29 O O4A COA . . . G 3 -19.697 -4.461 10.063 1 41.44 ? O4A COA 402 C 1 
HETATM 30 O O5A COA . . . G 3 -19.136 -3.602 7.738 1 40.22 ? O5A COA 402 C 1 
HETATM 31 O O6A COA . . . G 3 -18.034 -2.644 9.57 1 30.79 ? O6A COA 402 C 1 
HETATM 32 C CBP COA . . . G 3 -15.907 -1.659 10.478 1 32.02 ? CBP COA 402 C 1 
HETATM 33 C CCP COA . . . G 3 -16.67 -2.339 9.34 1 30.53 ? CCP COA 402 C 1 
HETATM 34 C CDP COA . . . G 3 -14.572 -1.235 9.923 1 27.48 ? CDP COA 402 C 1 
HETATM 35 C CEP COA . . . G 3 -16.639 -0.453 11.039 1 25.41 ? CEP COA 402 C 1 
HETATM 36 C CAP COA . . . G 3 -15.655 -2.662 11.618 1 35.14 ? CAP COA 402 C 1 
HETATM 37 O OAP COA . . . G 3 -15.042 -3.863 11.127 1 37.46 ? OAP COA 402 C 1 
HETATM 38 C C9P COA . . . G 3 -14.949 -2.099 12.825 1 35.02 ? C9P COA 402 C 1 
HETATM 39 O O9P COA . . . G 3 -15.577 -1.451 13.599 1 28.72 ? O9P COA 402 C 1 
HETATM 40 N N8P COA . . . G 3 -13.684 -2.419 13.02 1 40.8 ? N8P COA 402 C 1 
HETATM 41 C C7P COA . . . G 3 -12.597 -1.507 13.31 1 33.5 ? C7P COA 402 C 1 
HETATM 42 C C6P COA . . . G 3 -12.113 -1.655 14.726 1 31.7 ? C6P COA 402 C 1 
HETATM 43 C C5P COA . . . G 3 -10.625 -1.568 14.895 1 33.24 ? C5P COA 402 C 1 
HETATM 44 O O5P COA . . . G 3 -9.943 -2.563 14.936 1 32.05 ? O5P COA 402 C 1 
HETATM 45 N N4P COA . . . G 3 -10.141 -0.36 15.027 1 33.78 ? N4P COA 402 C 1 
HETATM 46 C C3P COA . . . G 3 -9.022 -0.01 15.866 1 31.95 ? C3P COA 402 C 1 
HETATM 47 C C2P COA . . . G 3 -9.147 -0.444 17.32 1 30.46 ? C2P COA 402 C 1 
HETATM 48 S S1P COA . . . G 3 -8.2 0.594 18.42 1 42.62 ? S1P COA 402 C 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           235 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           48 
#