data_3VBP
#
_model_server_result.job_id            VmwAlLdNLUUqSl89MFx94Q 
_model_server_result.datetime_utc      '2024-11-28 04:56:42' 
_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          3vbp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":189}' 
#
_entry.id    3VBP 
#
_exptl.entry_id    3VBP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              767.534 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'COENZYME A' 
_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            3VBP 
_cell.length_a            71.339 
_cell.length_b            71.339 
_cell.length_c            138.184 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3VBP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        76 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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 D N N 
? 2 F N N 
? 2 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                     3VBP 
_atom_sites.fract_transf_matrix[1][1]    0.014018 
_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]    0.014018 
_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]    0.007237 
_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
D 2 COA A 1 189 1 COA COA . 
E 3 TYD A 1 301 301 TYD TYD . 
F 2 COA C 1 189 1 COA COA . 
G 4 CL C 1 190 1 CL CL . 
H 3 TYD C 1 301 301 TYD TYD . 
I 2 COA E 1 189 1 COA COA . 
J 3 TYD E 1 301 301 TYD TYD . 
K 5 HOH A 1 190 2 HOH HOH . 
K 5 HOH A 2 191 4 HOH HOH . 
K 5 HOH A 3 192 5 HOH HOH . 
K 5 HOH A 4 193 6 HOH HOH . 
K 5 HOH A 5 194 7 HOH HOH . 
K 5 HOH A 6 195 8 HOH HOH . 
K 5 HOH A 7 196 9 HOH HOH . 
K 5 HOH A 8 197 11 HOH HOH . 
K 5 HOH A 9 198 12 HOH HOH . 
K 5 HOH A 10 199 13 HOH HOH . 
K 5 HOH A 11 200 14 HOH HOH . 
K 5 HOH A 12 201 15 HOH HOH . 
K 5 HOH A 13 202 17 HOH HOH . 
K 5 HOH A 14 203 18 HOH HOH . 
K 5 HOH A 15 204 35 HOH HOH . 
K 5 HOH A 16 205 43 HOH HOH . 
K 5 HOH A 17 206 44 HOH HOH . 
K 5 HOH A 18 207 45 HOH HOH . 
K 5 HOH A 19 208 46 HOH HOH . 
K 5 HOH A 20 209 53 HOH HOH . 
K 5 HOH A 21 210 54 HOH HOH . 
K 5 HOH A 22 211 55 HOH HOH . 
K 5 HOH A 23 212 57 HOH HOH . 
K 5 HOH A 24 213 60 HOH HOH . 
K 5 HOH A 25 214 62 HOH HOH . 
K 5 HOH A 26 215 63 HOH HOH . 
K 5 HOH A 27 216 64 HOH HOH . 
K 5 HOH A 28 217 65 HOH HOH . 
K 5 HOH A 29 218 66 HOH HOH . 
K 5 HOH A 30 219 67 HOH HOH . 
K 5 HOH A 31 220 68 HOH HOH . 
K 5 HOH A 32 221 69 HOH HOH . 
K 5 HOH A 33 222 70 HOH HOH . 
K 5 HOH A 34 223 73 HOH HOH . 
K 5 HOH A 35 224 74 HOH HOH . 
K 5 HOH A 36 225 75 HOH HOH . 
K 5 HOH A 37 226 76 HOH HOH . 
K 5 HOH A 38 227 77 HOH HOH . 
K 5 HOH A 39 228 78 HOH HOH . 
K 5 HOH A 40 229 79 HOH HOH . 
K 5 HOH A 41 230 80 HOH HOH . 
K 5 HOH A 42 232 82 HOH HOH . 
K 5 HOH A 43 233 83 HOH HOH . 
K 5 HOH A 44 234 108 HOH HOH . 
K 5 HOH A 45 235 109 HOH HOH . 
K 5 HOH A 46 236 110 HOH HOH . 
K 5 HOH A 47 237 111 HOH HOH . 
K 5 HOH A 48 238 113 HOH HOH . 
K 5 HOH A 49 239 114 HOH HOH . 
K 5 HOH A 50 240 116 HOH HOH . 
K 5 HOH A 51 241 117 HOH HOH . 
K 5 HOH A 52 242 128 HOH HOH . 
K 5 HOH A 53 243 136 HOH HOH . 
K 5 HOH A 54 244 137 HOH HOH . 
K 5 HOH A 55 245 138 HOH HOH . 
K 5 HOH A 56 246 139 HOH HOH . 
L 5 HOH C 1 191 3 HOH HOH . 
L 5 HOH C 2 192 10 HOH HOH . 
L 5 HOH C 3 193 19 HOH HOH . 
L 5 HOH C 4 194 20 HOH HOH . 
L 5 HOH C 5 195 22 HOH HOH . 
L 5 HOH C 6 196 23 HOH HOH . 
L 5 HOH C 7 197 24 HOH HOH . 
L 5 HOH C 8 198 25 HOH HOH . 
L 5 HOH C 9 199 26 HOH HOH . 
L 5 HOH C 10 200 40 HOH HOH . 
L 5 HOH C 11 201 41 HOH HOH . 
L 5 HOH C 12 202 42 HOH HOH . 
L 5 HOH C 13 203 47 HOH HOH . 
L 5 HOH C 14 204 48 HOH HOH . 
L 5 HOH C 15 205 50 HOH HOH . 
L 5 HOH C 16 206 51 HOH HOH . 
L 5 HOH C 17 207 84 HOH HOH . 
L 5 HOH C 18 208 85 HOH HOH . 
L 5 HOH C 19 209 86 HOH HOH . 
L 5 HOH C 20 210 87 HOH HOH . 
L 5 HOH C 21 211 88 HOH HOH . 
L 5 HOH C 22 212 89 HOH HOH . 
L 5 HOH C 23 213 90 HOH HOH . 
L 5 HOH C 24 214 91 HOH HOH . 
L 5 HOH C 25 215 92 HOH HOH . 
L 5 HOH C 26 216 118 HOH HOH . 
L 5 HOH C 27 217 120 HOH HOH . 
L 5 HOH C 28 218 121 HOH HOH . 
L 5 HOH C 29 219 122 HOH HOH . 
L 5 HOH C 30 220 125 HOH HOH . 
L 5 HOH C 31 221 130 HOH HOH . 
L 5 HOH C 32 222 133 HOH HOH . 
L 5 HOH C 33 223 134 HOH HOH . 
L 5 HOH C 34 224 141 HOH HOH . 
L 5 HOH C 35 225 142 HOH HOH . 
M 5 HOH E 1 190 21 HOH HOH . 
M 5 HOH E 2 191 27 HOH HOH . 
M 5 HOH E 3 192 28 HOH HOH . 
M 5 HOH E 4 193 29 HOH HOH . 
M 5 HOH E 5 194 31 HOH HOH . 
M 5 HOH E 6 195 32 HOH HOH . 
M 5 HOH E 7 196 33 HOH HOH . 
M 5 HOH E 8 197 34 HOH HOH . 
M 5 HOH E 9 198 36 HOH HOH . 
M 5 HOH E 10 199 37 HOH HOH . 
M 5 HOH E 11 200 38 HOH HOH . 
M 5 HOH E 12 201 39 HOH HOH . 
M 5 HOH E 13 202 49 HOH HOH . 
M 5 HOH E 14 203 52 HOH HOH . 
M 5 HOH E 15 204 56 HOH HOH . 
M 5 HOH E 16 205 58 HOH HOH . 
M 5 HOH E 17 206 59 HOH HOH . 
M 5 HOH E 18 207 61 HOH HOH . 
M 5 HOH E 19 208 93 HOH HOH . 
M 5 HOH E 20 209 94 HOH HOH . 
M 5 HOH E 21 210 95 HOH HOH . 
M 5 HOH E 22 211 96 HOH HOH . 
M 5 HOH E 23 212 98 HOH HOH . 
M 5 HOH E 24 213 99 HOH HOH . 
M 5 HOH E 25 214 100 HOH HOH . 
M 5 HOH E 26 215 101 HOH HOH . 
M 5 HOH E 27 216 102 HOH HOH . 
M 5 HOH E 28 217 103 HOH HOH . 
M 5 HOH E 29 218 105 HOH HOH . 
M 5 HOH E 30 219 106 HOH HOH . 
M 5 HOH E 31 220 107 HOH HOH . 
M 5 HOH E 32 221 123 HOH HOH . 
M 5 HOH E 33 222 126 HOH HOH . 
M 5 HOH E 34 223 127 HOH HOH . 
M 5 HOH E 35 224 132 HOH HOH . 
M 5 HOH E 36 225 140 HOH HOH . 
M 5 HOH E 37 231 81 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 . . . I 2 -1.345 18.966 -4.213 1 22.79 ? N1A COA 189 E 1 
HETATM 2 C C2A COA . . . I 2 -1.171 17.637 -4.322 1 27.85 ? C2A COA 189 E 1 
HETATM 3 N N3A COA . . . I 2 -1.19 16.827 -3.251 1 29.74 ? N3A COA 189 E 1 
HETATM 4 C C4A COA . . . I 2 -1.396 17.339 -2 1 35.01 ? C4A COA 189 E 1 
HETATM 5 C C5A COA . . . I 2 -1.605 18.707 -1.834 1 31.07 ? C5A COA 189 E 1 
HETATM 6 C C6A COA . . . I 2 -1.571 19.506 -2.988 1 27.12 ? C6A COA 189 E 1 
HETATM 7 N N6A COA . . . I 2 -1.766 20.841 -2.907 1 21.01 ? N6A COA 189 E 1 
HETATM 8 N N7A COA . . . I 2 -1.798 18.918 -0.505 1 32.03 ? N7A COA 189 E 1 
HETATM 9 C C8A COA . . . I 2 -1.713 17.724 0.127 1 34.4 ? C8A COA 189 E 1 
HETATM 10 N N9A COA . . . I 2 -1.47 16.765 -0.783 1 37.99 ? N9A COA 189 E 1 
HETATM 11 C C1B COA . . . I 2 -1.35 15.292 -0.594 1 40.49 ? C1B COA 189 E 1 
HETATM 12 C C2B COA . . . I 2 -0.337 14.872 0.471 1 43.96 ? C2B COA 189 E 1 
HETATM 13 O O2B COA . . . I 2 0.894 14.434 -0.121 1 40.96 ? O2B COA 189 E 1 
HETATM 14 C C3B COA . . . I 2 -1.007 13.717 1.206 1 47.21 ? C3B COA 189 E 1 
HETATM 15 O O3B COA . . . I 2 -0.751 12.578 0.381 1 52.16 ? O3B COA 189 E 1 
HETATM 16 P P3B COA . . . I 2 -0.786 11.062 0.935 1 56.13 ? P3B COA 189 E 1 
HETATM 17 O O7A COA . . . I 2 -1.128 10.263 -0.307 1 51.3 ? O7A COA 189 E 1 
HETATM 18 O O8A COA . . . I 2 -1.8 11.045 2.07 1 54.32 ? O8A COA 189 E 1 
HETATM 19 O O9A COA . . . I 2 0.631 10.96 1.465 1 53.38 ? O9A COA 189 E 1 
HETATM 20 C C4B COA . . . I 2 -2.502 14.012 1.051 1 46.94 ? C4B COA 189 E 1 
HETATM 21 O O4B COA . . . I 2 -2.62 14.775 -0.166 1 45.24 ? O4B COA 189 E 1 
HETATM 22 C C5B COA . . . I 2 -3.064 14.705 2.297 1 43.52 ? C5B COA 189 E 1 
HETATM 23 O O5B COA . . . I 2 -2.275 15.842 2.633 1 42.07 ? O5B COA 189 E 1 
HETATM 24 P P1A COA . . . I 2 -2.195 16.607 4.054 1 43.61 ? P1A COA 189 E 1 
HETATM 25 O O1A COA . . . I 2 -1.133 17.681 3.987 1 42.05 ? O1A COA 189 E 1 
HETATM 26 O O2A COA . . . I 2 -2.014 15.502 5.075 1 43.88 ? O2A COA 189 E 1 
HETATM 27 O O3A COA . . . I 2 -3.685 17.255 4.223 1 44.15 ? O3A COA 189 E 1 
HETATM 28 P P2A COA . . . I 2 -4.154 18.737 4.684 1 42.09 ? P2A COA 189 E 1 
HETATM 29 O O4A COA . . . I 2 -5.653 18.776 4.802 1 42.9 ? O4A COA 189 E 1 
HETATM 30 O O5A COA . . . I 2 -3.298 19.349 5.773 1 41.89 ? O5A COA 189 E 1 
HETATM 31 O O6A COA . . . I 2 -3.806 19.775 3.506 1 43.94 ? O6A COA 189 E 1 
HETATM 32 C CBP COA . . . I 2 -4.618 21.098 1.639 1 38.29 ? CBP COA 189 E 1 
HETATM 33 C CCP COA . . . I 2 -4.579 19.73 2.309 1 40.2 ? CCP COA 189 E 1 
HETATM 34 C CDP COA . . . I 2 -5.098 20.689 0.246 1 38.74 ? CDP COA 189 E 1 
HETATM 35 C CEP COA . . . I 2 -5.601 21.972 2.406 1 39.51 ? CEP COA 189 E 1 
HETATM 36 C CAP COA . . . I 2 -3.273 21.852 1.593 1 35.41 ? CAP COA 189 E 1 
HETATM 37 O OAP COA . . . I 2 -2.22 20.867 1.453 1 36.71 ? OAP COA 189 E 1 
HETATM 38 C C9P COA . . . I 2 -3.237 22.943 0.53 1 31.56 ? C9P COA 189 E 1 
HETATM 39 O O9P COA . . . I 2 -2.904 22.719 -0.63 1 20.47 ? O9P COA 189 E 1 
HETATM 40 N N8P COA . . . I 2 -3.595 24.18 0.867 1 28.11 ? N8P COA 189 E 1 
HETATM 41 C C7P COA . . . I 2 -3.656 25.311 -0.042 1 32.7 ? C7P COA 189 E 1 
HETATM 42 C C6P COA . . . I 2 -3.347 26.635 0.663 1 34.67 ? C6P COA 189 E 1 
HETATM 43 C C5P COA . . . I 2 -3.549 27.83 -0.254 1 34.35 ? C5P COA 189 E 1 
HETATM 44 O O5P COA . . . I 2 -3.544 27.721 -1.473 1 29.28 ? O5P COA 189 E 1 
HETATM 45 N N4P COA . . . I 2 -3.735 28.994 0.366 1 39.2 ? N4P COA 189 E 1 
HETATM 46 C C3P COA . . . I 2 -3.996 30.354 -0.1 1 42.31 ? C3P COA 189 E 1 
HETATM 47 C C2P COA . . . I 2 -3.852 31.281 1.108 1 49.62 ? C2P COA 189 E 1 
HETATM 48 S S1P COA . . . I 2 -5.379 31.714 1.987 1 50.62 ? S1P COA 189 E 1 
#
_model_server_stats.io_time_ms              65 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           276 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           48 
#