data_3RVI
#
_model_server_result.job_id            Wl-qcYp6o7W4HkH8IsIw3A 
_model_server_result.datetime_utc      '2024-12-21 17:16:02' 
_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          3rvi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":400}' 
#
_entry.id    3RVI 
#
_exptl.entry_id    3RVI 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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          90 
_cell.angle_gamma         120 
_cell.entry_id            3RVI 
_cell.length_a            103.124 
_cell.length_b            103.124 
_cell.length_c            170.326 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3RVI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 61 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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
? 3 I N N 
? 3 J 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
disulf ? disulf1 A SG CYS 174 A CYS 155 1_555 A SG CYS 378 A CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf2 A SG CYS 236 A CYS 217 1_555 A SG CYS 401 A CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf3 A SG CYS 288 A CYS 269 1_555 A SG CYS 338 A CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
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 GOL sing 129 n n 
C1 C2 GOL sing 130 n n 
C1 H11 GOL sing 131 n n 
C1 H12 GOL sing 132 n n 
O1 HO1 GOL sing 133 n n 
C2 O2 GOL sing 134 n n 
C2 C3 GOL sing 135 n n 
C2 H2 GOL sing 136 n n 
O2 HO2 GOL sing 137 n n 
C3 O3 GOL sing 138 n n 
C3 H31 GOL sing 139 n n 
C3 H32 GOL sing 140 n n 
O3 HO3 GOL sing 141 n n 
#
_atom_sites.entry_id                     3RVI 
_atom_sites.fract_transf_matrix[1][1]    0.009697 
_atom_sites.fract_transf_matrix[1][2]    0.005599 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011197 
_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]    0.005871 
_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 IOD A 1 393 1 IOD IOD . 
C 2 IOD A 1 394 2 IOD IOD . 
D 2 IOD A 1 395 3 IOD IOD . 
E 2 IOD A 1 396 4 IOD IOD . 
F 2 IOD A 1 397 5 IOD IOD . 
G 2 IOD A 1 398 6 IOD IOD . 
H 2 IOD A 1 399 7 IOD IOD . 
I 3 GOL A 1 400 1 GOL GOL . 
J 3 GOL A 1 401 2 GOL GOL . 
K 4 RVI A 1 402 1 RVI RVI . 
L 5 HOH A 1 403 1 HOH HOH . 
L 5 HOH A 2 404 2 HOH HOH . 
L 5 HOH A 3 405 3 HOH HOH . 
L 5 HOH A 4 406 4 HOH HOH . 
L 5 HOH A 5 407 5 HOH HOH . 
L 5 HOH A 6 408 6 HOH HOH . 
L 5 HOH A 7 409 7 HOH HOH . 
L 5 HOH A 8 410 8 HOH HOH . 
L 5 HOH A 9 411 9 HOH HOH . 
L 5 HOH A 10 412 10 HOH HOH . 
L 5 HOH A 11 413 11 HOH HOH . 
L 5 HOH A 12 414 12 HOH HOH . 
L 5 HOH A 13 415 13 HOH HOH . 
L 5 HOH A 14 416 14 HOH HOH . 
L 5 HOH A 15 417 15 HOH HOH . 
L 5 HOH A 16 418 16 HOH HOH . 
L 5 HOH A 17 419 17 HOH HOH . 
L 5 HOH A 18 420 18 HOH HOH . 
L 5 HOH A 19 421 19 HOH HOH . 
L 5 HOH A 20 422 20 HOH HOH . 
L 5 HOH A 21 423 21 HOH HOH . 
L 5 HOH A 22 424 22 HOH HOH . 
L 5 HOH A 23 425 23 HOH HOH . 
L 5 HOH A 24 426 24 HOH HOH . 
L 5 HOH A 25 427 25 HOH HOH . 
L 5 HOH A 26 428 26 HOH HOH . 
L 5 HOH A 27 429 27 HOH HOH . 
L 5 HOH A 28 430 28 HOH HOH . 
L 5 HOH A 29 431 29 HOH HOH . 
L 5 HOH A 30 432 30 HOH HOH . 
L 5 HOH A 31 433 31 HOH HOH . 
L 5 HOH A 32 434 32 HOH HOH . 
L 5 HOH A 33 435 33 HOH HOH . 
L 5 HOH A 34 436 34 HOH HOH . 
L 5 HOH A 35 437 35 HOH HOH . 
L 5 HOH A 36 438 36 HOH HOH . 
L 5 HOH A 37 439 37 HOH HOH . 
L 5 HOH A 38 440 38 HOH HOH . 
L 5 HOH A 39 441 39 HOH HOH . 
L 5 HOH A 40 442 40 HOH HOH . 
L 5 HOH A 41 443 41 HOH HOH . 
L 5 HOH A 42 444 42 HOH HOH . 
L 5 HOH A 43 445 43 HOH HOH . 
L 5 HOH A 44 446 44 HOH HOH . 
L 5 HOH A 45 447 45 HOH HOH . 
L 5 HOH A 46 448 46 HOH HOH . 
L 5 HOH A 47 449 47 HOH HOH . 
L 5 HOH A 48 450 48 HOH HOH . 
L 5 HOH A 49 451 49 HOH HOH . 
L 5 HOH A 50 452 50 HOH HOH . 
L 5 HOH A 51 453 51 HOH HOH . 
L 5 HOH A 52 454 52 HOH HOH . 
L 5 HOH A 53 455 53 HOH HOH . 
L 5 HOH A 54 456 54 HOH HOH . 
L 5 HOH A 55 457 55 HOH HOH . 
L 5 HOH A 56 458 56 HOH HOH . 
L 5 HOH A 57 459 57 HOH HOH . 
L 5 HOH A 58 460 58 HOH HOH . 
L 5 HOH A 59 461 59 HOH HOH . 
L 5 HOH A 60 462 60 HOH HOH . 
L 5 HOH A 61 463 61 HOH HOH . 
L 5 HOH A 62 464 62 HOH HOH . 
L 5 HOH A 63 465 63 HOH HOH . 
L 5 HOH A 64 466 64 HOH HOH . 
L 5 HOH A 65 467 65 HOH HOH . 
L 5 HOH A 66 468 66 HOH HOH . 
L 5 HOH A 67 469 67 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 GOL . . . I 3 72.86 43.959 -2.715 1 41.41 ? C1 GOL 400 A 1 
HETATM 2 O O1 GOL . . . I 3 73.111 42.59 -2.935 1 41.61 ? O1 GOL 400 A 1 
HETATM 3 C C2 GOL . . . I 3 73.807 44.503 -1.651 1 41.17 ? C2 GOL 400 A 1 
HETATM 4 O O2 GOL . . . I 3 74.293 45.774 -2.02 1 40.2 ? O2 GOL 400 A 1 
HETATM 5 C C3 GOL . . . I 3 73.173 44.507 -0.258 1 41.4 ? C3 GOL 400 A 1 
HETATM 6 O O3 GOL . . . I 3 71.909 45.134 -0.259 1 41.58 ? O3 GOL 400 A 1 
#
_model_server_stats.io_time_ms              29 
_model_server_stats.parse_time_ms           51 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           967 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           6 
#