data_1MKV
#
_model_server_result.job_id            vJZ6ZjeKnzqXXjTa_nhbew 
_model_server_result.datetime_utc      '2024-11-09 02:26:09' 
_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          1mkv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":150}' 
#
_entry.id    1MKV 
#
_exptl.entry_id    1MKV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              489.521 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-O-OCTYL-2-HEPTYLPHOSPHONYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE 
_entity.pdbx_number_of_molecules    1 
_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         120 
_cell.entry_id            1MKV 
_cell.length_a            46.58 
_cell.length_b            46.58 
_cell.length_c            102.91 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1MKV 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_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 
#
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' 5_556 x-y,-y,-z+5/3 1 0 0 0 -1 0 0 0 -1 0 0 171.516667 
#
_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 
#
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
disulf ? disulf1 A SG CYS 11 A CYS 11 1_555 A SG CYS 77 A CYS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf2 A SG CYS 27 A CYS 27 1_555 A SG CYS 123 A CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
disulf ? disulf3 A SG CYS 29 A CYS 29 1_555 A SG CYS 45 A CYS 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf4 A SG CYS 44 A CYS 44 1_555 A SG CYS 105 A CYS 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf5 A SG CYS 51 A CYS 51 1_555 A SG CYS 98 A CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf6 A SG CYS 61 A CYS 61 1_555 A SG CYS 91 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf7 A SG CYS 84 A CYS 84 1_555 A SG CYS 96 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
metalc ? metalc1 A O TYR 28 A TYR 28 1_555 B CA CA . A CA 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? 
metalc ? metalc2 A O GLY 30 A GLY 30 1_555 B CA CA . A CA 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? 
metalc ? metalc3 A O GLY 32 A GLY 32 1_555 B CA CA . A CA 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? 
metalc ? metalc4 A OD2 ASP 49 A ASP 49 1_555 B CA CA . A CA 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? 
metalc ? metalc5 A OD1 ASP 49 A ASP 49 1_555 B CA CA . A CA 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? 
metalc ? metalc6 B CA CA . A CA 124 1_555 C O2P GEL . A GEL 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? 
metalc ? metalc7 B CA CA . A CA 124 1_555 C O3P GEL . A GEL 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? 
#
_chem_comp.formula           'C20 H45 N O8 P2' 
_chem_comp.formula_weight    489.521 
_chem_comp.id                GEL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-O-OCTYL-2-HEPTYLPHOSPHONYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE 
_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
C1 O1 GEL sing 83 n n 
C1 C2 GEL sing 84 n n 
C1 H11 GEL sing 85 n n 
C1 H12 GEL sing 86 n n 
O1 C11 GEL sing 87 n n 
C11 C12 GEL sing 88 n n 
C11 H111 GEL sing 89 n n 
C11 H112 GEL sing 90 n n 
C12 C13 GEL sing 91 n n 
C12 H121 GEL sing 92 n n 
C12 H122 GEL sing 93 n n 
C13 C14 GEL sing 94 n n 
C13 H131 GEL sing 95 n n 
C13 H132 GEL sing 96 n n 
C14 C15 GEL sing 97 n n 
C14 H141 GEL sing 98 n n 
C14 H142 GEL sing 99 n n 
C15 C16 GEL sing 100 n n 
C15 H151 GEL sing 101 n n 
C15 H152 GEL sing 102 n n 
C16 C17 GEL sing 103 n n 
C16 H161 GEL sing 104 n n 
C16 H162 GEL sing 105 n n 
C17 C18 GEL sing 106 n n 
C17 H171 GEL sing 107 n n 
C17 H172 GEL sing 108 n n 
C18 H181 GEL sing 109 n n 
C18 H182 GEL sing 110 n n 
C18 H183 GEL sing 111 n n 
C2 O2 GEL sing 112 n n 
C2 C3 GEL sing 113 n n 
C2 H2 GEL sing 114 n n 
O2 P2 GEL sing 115 n n 
P2 O1P GEL doub 116 n n 
P2 O2P GEL sing 117 n n 
P2 C22 GEL sing 118 n n 
O2P HOP2 GEL sing 119 n n 
C22 C23 GEL sing 120 n n 
C22 H221 GEL sing 121 n n 
C22 H222 GEL sing 122 n n 
C23 C24 GEL sing 123 n n 
C23 H231 GEL sing 124 n n 
C23 H232 GEL sing 125 n n 
C24 C25 GEL sing 126 n n 
C24 H241 GEL sing 127 n n 
C24 H242 GEL sing 128 n n 
C25 C26 GEL sing 129 n n 
C25 H251 GEL sing 130 n n 
C25 H252 GEL sing 131 n n 
C26 C27 GEL sing 132 n n 
C26 H261 GEL sing 133 n n 
C26 H262 GEL sing 134 n n 
C27 C28 GEL sing 135 n n 
C27 H271 GEL sing 136 n n 
C27 H272 GEL sing 137 n n 
C28 H281 GEL sing 138 n n 
C28 H282 GEL sing 139 n n 
C28 H283 GEL sing 140 n n 
C3 O3 GEL sing 141 n n 
C3 H31 GEL sing 142 n n 
C3 H32 GEL sing 143 n n 
O3 P3 GEL sing 144 n n 
P3 O3P GEL doub 145 n n 
P3 O4P GEL sing 146 n n 
P3 O5P GEL sing 147 n n 
O4P HOP4 GEL sing 148 n n 
O5P C31 GEL sing 149 n n 
C31 C32 GEL sing 150 n n 
C31 H311 GEL sing 151 n n 
C31 H312 GEL sing 152 n n 
C32 N3 GEL sing 153 n n 
C32 H321 GEL sing 154 n n 
C32 H322 GEL sing 155 n n 
N3 HN31 GEL sing 156 n n 
N3 HN32 GEL sing 157 n n 
#
_atom_sites.entry_id                     1MKV 
_atom_sites.fract_transf_matrix[1][1]    0.021468 
_atom_sites.fract_transf_matrix[1][2]    0.012395 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.02479 
_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]    0.009717 
_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 CA A 1 124 124 CA CA . 
C 3 GEL A 1 150 150 GEL GEL . 
D 4 HOH A 1 201 201 HOH HOH . 
D 4 HOH A 2 202 202 HOH HOH . 
D 4 HOH A 3 203 203 HOH HOH . 
D 4 HOH A 4 204 204 HOH HOH . 
D 4 HOH A 5 205 205 HOH HOH . 
D 4 HOH A 6 206 206 HOH HOH . 
D 4 HOH A 7 207 207 HOH HOH . 
D 4 HOH A 8 208 208 HOH HOH . 
D 4 HOH A 9 209 209 HOH HOH . 
D 4 HOH A 10 210 210 HOH HOH . 
D 4 HOH A 11 211 211 HOH HOH . 
D 4 HOH A 12 212 212 HOH HOH . 
D 4 HOH A 13 213 213 HOH HOH . 
D 4 HOH A 14 214 214 HOH HOH . 
D 4 HOH A 15 215 215 HOH HOH . 
D 4 HOH A 16 216 216 HOH HOH . 
D 4 HOH A 17 217 217 HOH HOH . 
D 4 HOH A 18 218 218 HOH HOH . 
D 4 HOH A 19 219 219 HOH HOH . 
D 4 HOH A 20 220 220 HOH HOH . 
D 4 HOH A 21 221 221 HOH HOH . 
D 4 HOH A 22 222 222 HOH HOH . 
D 4 HOH A 23 223 223 HOH HOH . 
D 4 HOH A 24 224 224 HOH HOH . 
D 4 HOH A 25 225 225 HOH HOH . 
D 4 HOH A 26 226 226 HOH HOH . 
D 4 HOH A 27 227 227 HOH HOH . 
D 4 HOH A 28 228 228 HOH HOH . 
D 4 HOH A 29 229 229 HOH HOH . 
D 4 HOH A 30 230 230 HOH HOH . 
D 4 HOH A 31 231 231 HOH HOH . 
D 4 HOH A 32 232 232 HOH HOH . 
D 4 HOH A 33 233 233 HOH HOH . 
D 4 HOH A 34 234 234 HOH HOH . 
D 4 HOH A 35 235 235 HOH HOH . 
D 4 HOH A 36 236 236 HOH HOH . 
D 4 HOH A 37 237 237 HOH HOH . 
D 4 HOH A 38 238 238 HOH HOH . 
D 4 HOH A 39 239 239 HOH HOH . 
D 4 HOH A 40 240 240 HOH HOH . 
D 4 HOH A 41 241 241 HOH HOH . 
D 4 HOH A 42 242 242 HOH HOH . 
D 4 HOH A 43 243 243 HOH HOH . 
D 4 HOH A 44 244 244 HOH HOH . 
D 4 HOH A 45 245 245 HOH HOH . 
D 4 HOH A 46 246 246 HOH HOH . 
D 4 HOH A 47 247 247 HOH HOH . 
D 4 HOH A 48 248 248 HOH HOH . 
D 4 HOH A 49 249 249 HOH HOH . 
D 4 HOH A 50 250 250 HOH HOH . 
D 4 HOH A 51 251 251 HOH HOH . 
D 4 HOH A 52 252 252 HOH HOH . 
D 4 HOH A 53 253 253 HOH HOH . 
D 4 HOH A 54 254 254 HOH HOH . 
D 4 HOH A 55 255 255 HOH HOH . 
D 4 HOH A 56 256 256 HOH HOH . 
D 4 HOH A 57 257 257 HOH HOH . 
D 4 HOH A 58 258 258 HOH HOH . 
D 4 HOH A 59 259 259 HOH HOH . 
D 4 HOH A 60 260 260 HOH HOH . 
D 4 HOH A 61 261 261 HOH HOH . 
D 4 HOH A 62 262 262 HOH HOH . 
D 4 HOH A 63 263 263 HOH HOH . 
D 4 HOH A 64 264 264 HOH HOH . 
D 4 HOH A 65 265 265 HOH HOH . 
D 4 HOH A 66 266 266 HOH HOH . 
D 4 HOH A 67 267 267 HOH HOH . 
D 4 HOH A 68 268 268 HOH HOH . 
D 4 HOH A 69 269 269 HOH HOH . 
D 4 HOH A 70 270 270 HOH HOH . 
D 4 HOH A 71 271 271 HOH HOH . 
D 4 HOH A 72 272 272 HOH HOH . 
D 4 HOH A 73 273 273 HOH HOH . 
D 4 HOH A 74 274 274 HOH HOH . 
D 4 HOH A 75 275 275 HOH HOH . 
D 4 HOH A 76 276 276 HOH HOH . 
D 4 HOH A 77 277 277 HOH HOH . 
D 4 HOH A 78 278 278 HOH HOH . 
D 4 HOH A 79 279 279 HOH HOH . 
D 4 HOH A 80 280 280 HOH HOH . 
D 4 HOH A 81 281 281 HOH HOH . 
D 4 HOH A 82 282 282 HOH HOH . 
D 4 HOH A 83 283 283 HOH HOH . 
D 4 HOH A 84 284 284 HOH HOH . 
D 4 HOH A 85 285 285 HOH HOH . 
D 4 HOH A 86 286 286 HOH HOH . 
D 4 HOH A 87 287 287 HOH HOH . 
D 4 HOH A 88 288 288 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 C C1 GEL . . . C 3 32.728 5.162 68.424 1 29.62 ? C1 GEL 150 A 1 
HETATM 2 O O1 GEL . . . C 3 32.995 3.823 67.924 1 32.08 ? O1 GEL 150 A 1 
HETATM 3 C C11 GEL . . . C 3 34.243 3.781 67.174 1 32.86 ? C11 GEL 150 A 1 
HETATM 4 C C12 GEL . . . C 3 34.431 2.532 66.281 1 32.35 ? C12 GEL 150 A 1 
HETATM 5 C C13 GEL . . . C 3 34.379 1.243 67.101 1 32.51 ? C13 GEL 150 A 1 
HETATM 6 C C14 GEL . . . C 3 35.471 0.249 66.667 1 33.46 ? C14 GEL 150 A 1 
HETATM 7 C C15 GEL . . . C 3 36.851 0.735 67.096 1 34.37 ? C15 GEL 150 A 1 
HETATM 8 C C16 GEL . . . C 3 37.36 -0.006 68.344 1 35.49 ? C16 GEL 150 A 1 
HETATM 9 C C17 GEL . . . C 3 38.916 -0.135 68.322 1 36.35 ? C17 GEL 150 A 1 
HETATM 10 C C18 GEL . . . C 3 39.647 0.383 69.606 1 37.68 ? C18 GEL 150 A 1 
HETATM 11 C C2 GEL . . . C 3 31.559 5.808 67.638 1 28.69 ? C2 GEL 150 A 1 
HETATM 12 O O2 GEL . . . C 3 30.331 5.006 67.299 1 27.61 ? O2 GEL 150 A 1 
HETATM 13 P P2 GEL . . . C 3 29.719 4.788 65.788 1 26.84 ? P2 GEL 150 A 1 
HETATM 14 O O1P GEL . . . C 3 28.33 5.567 65.868 1 24.38 ? O1P GEL 150 A 1 
HETATM 15 O O2P GEL . . . C 3 30.6 5.419 64.719 1 20.99 ? O2P GEL 150 A 1 
HETATM 16 C C22 GEL . . . C 3 29.407 3.097 65.592 1 26.97 ? C22 GEL 150 A 1 
HETATM 17 C C23 GEL . . . C 3 30.141 2.112 66.491 1 25.36 ? C23 GEL 150 A 1 
HETATM 18 C C24 GEL . . . C 3 29.598 0.766 66.286 1 26.73 ? C24 GEL 150 A 1 
HETATM 19 C C25 GEL . . . C 3 30.653 -0.255 66.201 1 28.43 ? C25 GEL 150 A 1 
HETATM 20 C C26 GEL . . . C 3 30.57 -1.164 67.383 1 28.94 ? C26 GEL 150 A 1 
HETATM 21 C C27 GEL . . . C 3 31.298 -0.556 68.59 1 27.01 ? C27 GEL 150 A 1 
HETATM 22 C C28 GEL . . . C 3 30.777 -1.153 69.891 1 28.43 ? C28 GEL 150 A 1 
HETATM 23 C C3 GEL . . . C 3 31.488 7.299 67.292 1 26.83 ? C3 GEL 150 A 1 
HETATM 24 O O3 GEL . . . C 3 32.658 8.064 67.596 1 29.42 ? O3 GEL 150 A 1 
HETATM 25 P P3 GEL . . . C 3 33.292 8.71 66.22 1 28.93 ? P3 GEL 150 A 1 
HETATM 26 O O3P GEL . . . C 3 32.943 7.999 64.964 1 31.03 ? O3P GEL 150 A 1 
HETATM 27 O O4P GEL . . . C 3 34.862 8.488 66.4 1 31.32 ? O4P GEL 150 A 1 
HETATM 28 O O5P GEL . . . C 3 32.984 10.249 65.967 1 32.35 ? O5P GEL 150 A 1 
HETATM 29 C C31 GEL . . . C 3 32.425 10.77 67.116 1 31.56 ? C31 GEL 150 A 1 
HETATM 30 C C32 GEL . . . C 3 32.364 12.251 66.855 1 32.3 ? C32 GEL 150 A 1 
HETATM 31 N N3 GEL . . . C 3 31.504 12.436 65.699 1 37.23 ? N3 GEL 150 A 1 
#
_model_server_stats.io_time_ms              28 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    1 
_model_server_stats.query_time_ms           272 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           31 
#