data_6RVM
#
_model_server_result.job_id            5jvnjrMqn1mRo5lkVy2tyQ 
_model_server_result.datetime_utc      '2024-10-19 06:35:24' 
_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          6rvm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":403}' 
#
_entry.id    6RVM 
#
_exptl.entry_id    6RVM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_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    6 
_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            6RVM 
_cell.length_a            72.564 
_cell.length_b            78.805 
_cell.length_c            225.639 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6RVM 
_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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,G,H,I,J,K,Z 1 1 
B,L,AA 2 1 
C,M,N,O,P,Q,R,S,BA 3 1 
D,T,U,V,W,X,Y,CA 4 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 F N N 
? 3 G N N 
? 3 H N N 
? 3 L N N 
? 3 O N N 
? 3 U 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
metalc ? metalc1 C O GLY 99 C GLY 107 1_555 S MG MG . C MG 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.366 ? 
metalc ? metalc2 D O GLY 99 D GLY 107 1_555 Y MG MG . D MG 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? 
#
_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 116 n n 
C1 C2 GOL sing 117 n n 
C1 H11 GOL sing 118 n n 
C1 H12 GOL sing 119 n n 
O1 HO1 GOL sing 120 n n 
C2 O2 GOL sing 121 n n 
C2 C3 GOL sing 122 n n 
C2 H2 GOL sing 123 n n 
O2 HO2 GOL sing 124 n n 
C3 O3 GOL sing 125 n n 
C3 H31 GOL sing 126 n n 
C3 H32 GOL sing 127 n n 
O3 HO3 GOL sing 128 n n 
#
_atom_sites.entry_id                     6RVM 
_atom_sites.fract_transf_matrix[1][1]    0.013781 
_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]    0.01269 
_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]    0.004432 
_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 SO4 A 1 401 1 SO4 SO4 . 
F 3 GOL A 1 402 3 GOL GOL . 
G 3 GOL A 1 403 4 GOL GOL . 
H 3 GOL A 1 404 5 GOL GOL . 
I 4 CL A 1 405 1 CL CL . 
J 4 CL A 1 406 3 CL CL . 
K 4 CL A 1 407 9 CL CL . 
L 3 GOL B 1 401 6 GOL GOL . 
M 2 SO4 C 1 401 2 SO4 SO4 . 
N 2 SO4 C 1 402 4 SO4 SO4 . 
O 3 GOL C 1 403 1 GOL GOL . 
P 4 CL C 1 404 2 CL CL . 
Q 4 CL C 1 405 8 CL CL . 
R 4 CL C 1 406 10 CL CL . 
S 5 MG C 1 407 2 MG MG . 
T 2 SO4 D 1 401 3 SO4 SO4 . 
U 3 GOL D 1 402 2 GOL GOL . 
V 4 CL D 1 403 4 CL CL . 
W 4 CL D 1 404 6 CL CL . 
X 4 CL D 1 405 7 CL CL . 
Y 5 MG D 1 406 1 MG MG . 
Z 6 HOH A 1 501 84 HOH HOH . 
Z 6 HOH A 2 502 41 HOH HOH . 
Z 6 HOH A 3 503 16 HOH HOH . 
Z 6 HOH A 4 504 42 HOH HOH . 
Z 6 HOH A 5 505 82 HOH HOH . 
Z 6 HOH A 6 506 61 HOH HOH . 
Z 6 HOH A 7 507 9 HOH HOH . 
Z 6 HOH A 8 508 17 HOH HOH . 
Z 6 HOH A 9 509 31 HOH HOH . 
Z 6 HOH A 10 510 15 HOH HOH . 
Z 6 HOH A 11 511 58 HOH HOH . 
Z 6 HOH A 12 512 48 HOH HOH . 
Z 6 HOH A 13 513 24 HOH HOH . 
Z 6 HOH A 14 514 35 HOH HOH . 
Z 6 HOH A 15 515 66 HOH HOH . 
Z 6 HOH A 16 516 49 HOH HOH . 
Z 6 HOH A 17 517 81 HOH HOH . 
Z 6 HOH A 18 518 68 HOH HOH . 
AA 6 HOH B 1 501 5 HOH HOH . 
AA 6 HOH B 2 502 18 HOH HOH . 
AA 6 HOH B 3 503 14 HOH HOH . 
AA 6 HOH B 4 504 47 HOH HOH . 
AA 6 HOH B 5 505 72 HOH HOH . 
AA 6 HOH B 6 506 56 HOH HOH . 
AA 6 HOH B 7 507 46 HOH HOH . 
AA 6 HOH B 8 508 69 HOH HOH . 
AA 6 HOH B 9 509 39 HOH HOH . 
AA 6 HOH B 10 510 59 HOH HOH . 
AA 6 HOH B 11 511 33 HOH HOH . 
AA 6 HOH B 12 512 64 HOH HOH . 
BA 6 HOH C 1 501 87 HOH HOH . 
BA 6 HOH C 2 502 55 HOH HOH . 
BA 6 HOH C 3 503 30 HOH HOH . 
BA 6 HOH C 4 504 8 HOH HOH . 
BA 6 HOH C 5 505 83 HOH HOH . 
BA 6 HOH C 6 506 27 HOH HOH . 
BA 6 HOH C 7 507 4 HOH HOH . 
BA 6 HOH C 8 508 20 HOH HOH . 
BA 6 HOH C 9 509 10 HOH HOH . 
BA 6 HOH C 10 510 7 HOH HOH . 
BA 6 HOH C 11 511 38 HOH HOH . 
BA 6 HOH C 12 512 40 HOH HOH . 
BA 6 HOH C 13 513 50 HOH HOH . 
BA 6 HOH C 14 514 12 HOH HOH . 
BA 6 HOH C 15 515 21 HOH HOH . 
BA 6 HOH C 16 516 37 HOH HOH . 
BA 6 HOH C 17 517 22 HOH HOH . 
BA 6 HOH C 18 518 57 HOH HOH . 
BA 6 HOH C 19 519 2 HOH HOH . 
BA 6 HOH C 20 520 32 HOH HOH . 
BA 6 HOH C 21 521 85 HOH HOH . 
CA 6 HOH D 1 501 54 HOH HOH . 
CA 6 HOH D 2 502 29 HOH HOH . 
CA 6 HOH D 3 503 75 HOH HOH . 
CA 6 HOH D 4 504 6 HOH HOH . 
CA 6 HOH D 5 505 51 HOH HOH . 
CA 6 HOH D 6 506 3 HOH HOH . 
CA 6 HOH D 7 507 89 HOH HOH . 
CA 6 HOH D 8 508 53 HOH HOH . 
CA 6 HOH D 9 509 23 HOH HOH . 
CA 6 HOH D 10 510 13 HOH HOH . 
CA 6 HOH D 11 511 1 HOH HOH . 
CA 6 HOH D 12 512 19 HOH HOH . 
CA 6 HOH D 13 513 73 HOH HOH . 
CA 6 HOH D 14 514 70 HOH HOH . 
CA 6 HOH D 15 515 93 HOH HOH . 
CA 6 HOH D 16 516 11 HOH HOH . 
CA 6 HOH D 17 517 45 HOH HOH . 
CA 6 HOH D 18 518 34 HOH HOH . 
CA 6 HOH D 19 519 90 HOH HOH . 
CA 6 HOH D 20 520 26 HOH HOH . 
CA 6 HOH D 21 521 28 HOH HOH . 
CA 6 HOH D 22 522 79 HOH HOH . 
CA 6 HOH D 23 523 36 HOH HOH . 
CA 6 HOH D 24 524 43 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 . . . O 3 -8.425 12.566 -19.148 1 73.97 ? C1 GOL 403 C 1 
HETATM 2 O O1 GOL . . . O 3 -7.82 13.595 -18.419 1 67.44 ? O1 GOL 403 C 1 
HETATM 3 C C2 GOL . . . O 3 -9.652 13.188 -19.87 1 77.18 ? C2 GOL 403 C 1 
HETATM 4 O O2 GOL . . . O 3 -9.279 14.112 -20.842 1 65.89 ? O2 GOL 403 C 1 
HETATM 5 C C3 GOL . . . O 3 -10.414 12 -20.494 1 61.42 ? C3 GOL 403 C 1 
HETATM 6 O O3 GOL . . . O 3 -10.854 11.189 -19.444 1 76.89 ? O3 GOL 403 C 1 
HETATM 7 H H11 GOL . . . O 3 -8.72 11.833 -18.585 1 88.77 ? H11 GOL 403 C 1 
HETATM 8 H H12 GOL . . . O 3 -7.829 12.173 -19.805 1 88.77 ? H12 GOL 403 C 1 
HETATM 9 H HO1 GOL . . . O 3 -7.156 13.248 -18.017 1 80.93 ? HO1 GOL 403 C 1 
HETATM 10 H H2 GOL . . . O 3 -10.202 13.663 -19.227 1 92.61 ? H2 GOL 403 C 1 
HETATM 11 H HO2 GOL . . . O 3 -9.674 13.904 -21.565 1 79.06 ? HO2 GOL 403 C 1 
HETATM 12 H H31 GOL . . . O 3 -9.824 11.541 -21.112 1 73.71 ? H31 GOL 403 C 1 
HETATM 13 H H32 GOL . . . O 3 -11.138 12.346 -21.039 1 73.71 ? H32 GOL 403 C 1 
HETATM 14 H HO3 GOL . . . O 3 -11.376 10.61 -19.784 1 92.27 ? HO3 GOL 403 C 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    19 
_model_server_stats.query_time_ms           316 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           14 
#