data_8OIA
#
_model_server_result.job_id            CdqLiGJlXRqCEobf0D3OMA 
_model_server_result.datetime_utc      '2024-11-17 13:54:55' 
_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          8oia 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"P","auth_seq_id":402}' 
#
_entry.id    8OIA 
#
_exptl.entry_id    8OIA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              150.13 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            alpha-D-ribofuranose 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          104.691 
_cell.angle_gamma         90 
_cell.entry_id            8OIA 
_cell.length_a            116.995 
_cell.length_b            135.622 
_cell.length_c            94.075 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8OIA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_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,N,O,P,Q,R,S,T 
_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 F N N 
? 3 I N N 
? 3 L N N 
? 3 P 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 A OD1 ASP 10 A ASP 10 1_555 E CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? 
metalc ? metalc2 A OD1 ASP 15 A ASP 15 1_555 E CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? 
metalc ? metalc3 A OD2 ASP 15 A ASP 15 1_555 E CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? 
metalc ? metalc4 A O THR 142 A THR 142 1_555 E CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? 
metalc ? metalc5 A OD2 ASP 263 A ASP 263 1_555 E CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? 
metalc ? metalc6 E CA CA . A CA 401 1_555 F O2 RIB . A RIB 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? 
metalc ? metalc7 E CA CA . A CA 401 1_555 F O3 RIB . A RIB 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? 
metalc ? metalc8 E CA CA . A CA 401 1_555 Q O HOH . A HOH 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.72 ? 
metalc ? metalc9 B OD1 ASP 10 B ASP 10 1_555 H CA CA . B CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? 
metalc ? metalc10 B OD1 ASP 15 B ASP 15 1_555 H CA CA . B CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? 
metalc ? metalc11 B OD2 ASP 15 B ASP 15 1_555 H CA CA . B CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? 
metalc ? metalc12 B O THR 142 B THR 142 1_555 H CA CA . B CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? 
metalc ? metalc13 B OD2 ASP 263 B ASP 263 1_555 H CA CA . B CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? 
metalc ? metalc14 H CA CA . B CA 401 1_555 I O3 RIB . B RIB 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? 
metalc ? metalc15 H CA CA . B CA 401 1_555 I O2 RIB . B RIB 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? 
metalc ? metalc16 H CA CA . B CA 401 1_555 R O HOH . B HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? 
metalc ? metalc17 C OD1 ASP 10 C ASP 10 1_555 K CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? 
metalc ? metalc18 C OD1 ASP 15 C ASP 15 1_555 K CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? 
metalc ? metalc19 C OD2 ASP 15 C ASP 15 1_555 K CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? 
metalc ? metalc20 C O THR 142 C THR 142 1_555 K CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? 
metalc ? metalc21 C OD2 ASP 263 C ASP 263 1_555 K CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? 
metalc ? metalc22 K CA CA . C CA 401 1_555 L O3 RIB . C RIB 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.415 ? 
metalc ? metalc23 K CA CA . C CA 401 1_555 L O2 RIB . C RIB 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? 
metalc ? metalc24 K CA CA . C CA 401 1_555 S O HOH . C HOH 518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? 
metalc ? metalc25 D OD1 ASP 10 D ASP 10 1_555 O CA CA . D CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? 
metalc ? metalc26 D OD1 ASP 15 D ASP 15 1_555 O CA CA . D CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? 
metalc ? metalc27 D OD2 ASP 15 D ASP 15 1_555 O CA CA . D CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? 
metalc ? metalc28 D O THR 142 D THR 142 1_555 O CA CA . D CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? 
metalc ? metalc29 D OD2 ASP 263 D ASP 263 1_555 O CA CA . D CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? 
metalc ? metalc30 O CA CA . D CA 401 1_555 P O2 RIB . D RIB 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? 
metalc ? metalc31 O CA CA . D CA 401 1_555 P O3 RIB . D RIB 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? 
metalc ? metalc32 O CA CA . D CA 401 1_555 T O HOH . D HOH 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.561 ? 
#
_chem_comp.formula           'C5 H10 O5' 
_chem_comp.formula_weight    150.13 
_chem_comp.id                RIB 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              alpha-D-ribofuranose 
_chem_comp.type              'd-saccharide, alpha linking' 
_chem_comp.pdbx_synonyms     alpha-D-ribose;D-ribose;ribose 
#
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
O5 C5 RIB sing 313 n n 
O5 HO5 RIB sing 314 n n 
C5 C4 RIB sing 315 n n 
C5 H51 RIB sing 316 n n 
C5 H52 RIB sing 317 n n 
C4 O4 RIB sing 318 n n 
C4 C3 RIB sing 319 n n 
C4 H4 RIB sing 320 n n 
O4 C1 RIB sing 321 n n 
C3 O3 RIB sing 322 n n 
C3 C2 RIB sing 323 n n 
C3 H3 RIB sing 324 n n 
O3 HO3 RIB sing 325 n n 
C2 O2 RIB sing 326 n n 
C2 C1 RIB sing 327 n n 
C2 H2 RIB sing 328 n n 
O2 HO2 RIB sing 329 n n 
C1 O1 RIB sing 330 n n 
C1 H1 RIB sing 331 n n 
O1 HO1 RIB sing 332 n n 
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.identifier
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
RIB DRibfa 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 
RIB a-D-ribofuranose 'COMMON NAME' GMML 1 
RIB a-D-Ribf 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 
RIB Rib 'SNFG CARBOHYDRATE SYMBOL' GMML 1 
#
_atom_sites.entry_id                     8OIA 
_atom_sites.fract_transf_matrix[1][1]    0.008547 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002241 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007373 
_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]    0.010989 
_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 CA A 1 401 400 CA CA . 
F 3 RIB A 1 402 501 RIB RIB . 
G 4 GOL A 1 403 601 GOL GOL . 
H 2 CA B 1 401 400 CA CA . 
I 3 RIB B 1 402 501 RIB RIB . 
J 4 GOL B 1 403 1 GOL GOL . 
K 2 CA C 1 401 400 CA CA . 
L 3 RIB C 1 402 501 RIB RIB . 
M 5 PGE C 1 403 602 PGE PGE . 
N 4 GOL C 1 404 2 GOL GOL . 
O 2 CA D 1 401 400 CA CA . 
P 3 RIB D 1 402 501 RIB RIB . 
Q 6 HOH A 1 501 47 HOH HOH . 
Q 6 HOH A 2 502 17 HOH HOH . 
Q 6 HOH A 3 503 109 HOH HOH . 
Q 6 HOH A 4 504 56 HOH HOH . 
Q 6 HOH A 5 505 40 HOH HOH . 
Q 6 HOH A 6 506 77 HOH HOH . 
Q 6 HOH A 7 507 9 HOH HOH . 
Q 6 HOH A 8 508 69 HOH HOH . 
Q 6 HOH A 9 509 85 HOH HOH . 
Q 6 HOH A 10 510 6 HOH HOH . 
Q 6 HOH A 11 511 52 HOH HOH . 
Q 6 HOH A 12 512 28 HOH HOH . 
Q 6 HOH A 13 513 97 HOH HOH . 
Q 6 HOH A 14 514 61 HOH HOH . 
Q 6 HOH A 15 515 42 HOH HOH . 
Q 6 HOH A 16 516 21 HOH HOH . 
Q 6 HOH A 17 517 92 HOH HOH . 
Q 6 HOH A 18 518 10 HOH HOH . 
Q 6 HOH A 19 519 13 HOH HOH . 
Q 6 HOH A 20 520 66 HOH HOH . 
Q 6 HOH A 21 521 16 HOH HOH . 
Q 6 HOH A 22 522 84 HOH HOH . 
Q 6 HOH A 23 523 100 HOH HOH . 
Q 6 HOH A 24 524 98 HOH HOH . 
R 6 HOH B 1 501 55 HOH HOH . 
R 6 HOH B 2 502 14 HOH HOH . 
R 6 HOH B 3 503 90 HOH HOH . 
R 6 HOH B 4 504 93 HOH HOH . 
R 6 HOH B 5 505 4 HOH HOH . 
R 6 HOH B 6 506 91 HOH HOH . 
R 6 HOH B 7 507 12 HOH HOH . 
R 6 HOH B 8 508 103 HOH HOH . 
R 6 HOH B 9 509 23 HOH HOH . 
R 6 HOH B 10 510 19 HOH HOH . 
R 6 HOH B 11 511 60 HOH HOH . 
R 6 HOH B 12 512 94 HOH HOH . 
R 6 HOH B 13 513 88 HOH HOH . 
R 6 HOH B 14 514 34 HOH HOH . 
R 6 HOH B 15 515 87 HOH HOH . 
R 6 HOH B 16 516 3 HOH HOH . 
R 6 HOH B 17 517 81 HOH HOH . 
R 6 HOH B 18 518 68 HOH HOH . 
R 6 HOH B 19 519 33 HOH HOH . 
R 6 HOH B 20 520 65 HOH HOH . 
R 6 HOH B 21 521 25 HOH HOH . 
R 6 HOH B 22 522 30 HOH HOH . 
R 6 HOH B 23 523 11 HOH HOH . 
R 6 HOH B 24 524 96 HOH HOH . 
R 6 HOH B 25 525 104 HOH HOH . 
R 6 HOH B 26 526 59 HOH HOH . 
R 6 HOH B 27 527 18 HOH HOH . 
R 6 HOH B 28 528 107 HOH HOH . 
S 6 HOH C 1 501 57 HOH HOH . 
S 6 HOH C 2 502 35 HOH HOH . 
S 6 HOH C 3 503 105 HOH HOH . 
S 6 HOH C 4 504 36 HOH HOH . 
S 6 HOH C 5 505 58 HOH HOH . 
S 6 HOH C 6 506 99 HOH HOH . 
S 6 HOH C 7 507 79 HOH HOH . 
S 6 HOH C 8 508 86 HOH HOH . 
S 6 HOH C 9 509 20 HOH HOH . 
S 6 HOH C 10 510 75 HOH HOH . 
S 6 HOH C 11 511 46 HOH HOH . 
S 6 HOH C 12 512 45 HOH HOH . 
S 6 HOH C 13 513 7 HOH HOH . 
S 6 HOH C 14 514 83 HOH HOH . 
S 6 HOH C 15 515 80 HOH HOH . 
S 6 HOH C 16 516 15 HOH HOH . 
S 6 HOH C 17 517 48 HOH HOH . 
S 6 HOH C 18 518 49 HOH HOH . 
S 6 HOH C 19 519 41 HOH HOH . 
S 6 HOH C 20 520 53 HOH HOH . 
S 6 HOH C 21 521 74 HOH HOH . 
S 6 HOH C 22 522 5 HOH HOH . 
S 6 HOH C 23 523 38 HOH HOH . 
S 6 HOH C 24 524 102 HOH HOH . 
S 6 HOH C 25 525 95 HOH HOH . 
S 6 HOH C 26 526 26 HOH HOH . 
S 6 HOH C 27 527 101 HOH HOH . 
S 6 HOH C 28 528 71 HOH HOH . 
S 6 HOH C 29 529 67 HOH HOH . 
T 6 HOH D 1 501 44 HOH HOH . 
T 6 HOH D 2 502 43 HOH HOH . 
T 6 HOH D 3 503 54 HOH HOH . 
T 6 HOH D 4 504 51 HOH HOH . 
T 6 HOH D 5 505 2 HOH HOH . 
T 6 HOH D 6 506 108 HOH HOH . 
T 6 HOH D 7 507 106 HOH HOH . 
T 6 HOH D 8 508 72 HOH HOH . 
T 6 HOH D 9 509 50 HOH HOH . 
T 6 HOH D 10 510 8 HOH HOH . 
T 6 HOH D 11 511 1 HOH HOH . 
T 6 HOH D 12 512 73 HOH HOH . 
T 6 HOH D 13 513 39 HOH HOH . 
T 6 HOH D 14 514 37 HOH HOH . 
T 6 HOH D 15 515 76 HOH HOH . 
T 6 HOH D 16 516 78 HOH HOH . 
T 6 HOH D 17 517 32 HOH HOH . 
T 6 HOH D 18 518 22 HOH HOH . 
T 6 HOH D 19 519 27 HOH HOH . 
T 6 HOH D 20 520 63 HOH HOH . 
T 6 HOH D 21 521 29 HOH HOH . 
T 6 HOH D 22 522 31 HOH HOH . 
T 6 HOH D 23 523 82 HOH HOH . 
T 6 HOH D 24 524 89 HOH HOH . 
T 6 HOH D 25 525 70 HOH HOH . 
T 6 HOH D 26 526 62 HOH HOH . 
T 6 HOH D 27 527 24 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 O O5 RIB . . . P 3 25.277 -53.609 16.777 1 29.33 0 O5 RIB 402 D 1 
HETATM 2 C C5 RIB . . . P 3 25.393 -55.034 16.767 1 30 0 C5 RIB 402 D 1 
HETATM 3 C C4 RIB . . . P 3 23.979 -55.5 16.442 1 28.64 0 C4 RIB 402 D 1 
HETATM 4 O O4 RIB . . . P 3 23.648 -55.085 15.117 1 28.13 0 O4 RIB 402 D 1 
HETATM 5 C C3 RIB . . . P 3 23.744 -56.981 16.446 1 26.09 0 C3 RIB 402 D 1 
HETATM 6 O O3 RIB . . . P 3 22.529 -57.198 17.16 1 23.05 0 O3 RIB 402 D 1 
HETATM 7 C C2 RIB . . . P 3 23.59 -57.371 14.957 1 26.87 0 C2 RIB 402 D 1 
HETATM 8 O O2 RIB . . . P 3 22.265 -57.856 14.658 1 23.17 0 O2 RIB 402 D 1 
HETATM 9 C C1 RIB . . . P 3 23.952 -56.114 14.192 1 27.23 0 C1 RIB 402 D 1 
HETATM 10 O O1 RIB . . . P 3 23.23 -55.896 12.975 1 27.74 0 O1 RIB 402 D 1 
#
_model_server_stats.io_time_ms              25 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    37 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           10 
#