data_3G6W
#
_model_server_result.job_id            eiFZgzdBsr2fJsbEViBkQw 
_model_server_result.datetime_utc      '2024-10-14 05:21:53' 
_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          3g6w 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":306}' 
#
_entry.id    3G6W 
#
_exptl.entry_id    3G6W 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              230.11 
_entity.id                          5 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            5-O-phosphono-alpha-D-ribofuranose 
_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          92.8 
_cell.angle_gamma         90 
_cell.entry_id            3G6W 
_cell.length_a            60.038 
_cell.length_b            98.758 
_cell.length_c            73.528 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3G6W 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,N,O,P,Q,R,S,T,U,V,W 
_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
? 5 K N N 
? 5 M N N 
? 5 R 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 T O HOH . A HOH 217 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? 
metalc ? metalc2 T O HOH . A HOH 218 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? 
metalc ? metalc3 T O HOH . A HOH 229 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
metalc ? metalc4 E O1B GTP . A GTP 301 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.95 ? 
metalc ? metalc5 E O1A GTP . A GTP 301 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? 
metalc ? metalc6 F MG MG . A MG 302 1_555 P O1B GTP . D GTP 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc7 F MG MG . A MG 302 1_555 P O1A GTP . D GTP 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.974 ? 
metalc ? metalc8 G O3A PRP . A PRP 303 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? 
metalc ? metalc9 G O1B PRP . A PRP 303 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? 
metalc ? metalc10 G O2B PRP . A PRP 303 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? 
metalc ? metalc11 U O HOH . B HOH 218 1_555 J MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? 
metalc ? metalc12 I O1B GTP . B GTP 301 1_555 J MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? 
metalc ? metalc13 I O1A GTP . B GTP 301 1_555 J MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? 
metalc ? metalc14 J MG MG . B MG 302 1_555 W O HOH . D HOH 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? 
metalc ? metalc15 J MG MG . B MG 302 1_555 O O1A GTP . D GTP 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
metalc ? metalc16 J MG MG . B MG 302 1_555 O O1B GTP . D GTP 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
metalc ? metalc17 W O HOH . D HOH 219 1_555 S MG MG . D MG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? 
metalc ? metalc18 W O HOH . D HOH 220 1_555 S MG MG . D MG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? 
metalc ? metalc19 Q O1B PRP . D PRP 303 1_555 S MG MG . D MG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.875 ? 
metalc ? metalc20 Q O3B PRP . D PRP 303 1_555 S MG MG . D MG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? 
#
_chem_comp.formula           'C5 H11 O8 P' 
_chem_comp.formula_weight    230.11 
_chem_comp.id                HSX 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              5-O-phosphono-alpha-D-ribofuranose 
_chem_comp.type              'd-saccharide, alpha linking' 
_chem_comp.pdbx_synonyms     5-O-phosphono-alpha-D-ribose;5-O-phosphono-D-ribose;5-O-phosphono-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
O4 C1 HSX sing 189 n n 
C1 O1 HSX sing 190 n n 
C1 C2 HSX sing 191 n n 
C1 H1 HSX sing 192 n n 
O4 C4 HSX sing 193 n n 
C3 C2 HSX sing 194 n n 
C2 O2 HSX sing 195 n n 
C2 H2 HSX sing 196 n n 
O2 HO2 HSX sing 197 n n 
C4 C3 HSX sing 198 n n 
C3 O3 HSX sing 199 n n 
C3 H3 HSX sing 200 n n 
O3 HO3 HSX sing 201 n n 
C5 C4 HSX sing 202 n n 
C4 H4 HSX sing 203 n n 
O5 C5 HSX sing 204 n n 
C5 H51 HSX sing 205 n n 
C5 H52 HSX sing 206 n n 
P' O5 HSX sing 207 n n 
O1X P' HSX doub 208 n n 
O3X P' HSX sing 209 n n 
P' O2X HSX sing 210 n n 
O2X HO2X HSX sing 211 n n 
O3X HO3X HSX sing 212 n n 
O1 HO1 HSX sing 213 n n 
#
_pdbx_chem_comp_identifier.comp_id            HSX 
_pdbx_chem_comp_identifier.identifier         a-D-Ribf5PO3 
_pdbx_chem_comp_identifier.type               'IUPAC CARBOHYDRATE SYMBOL' 
_pdbx_chem_comp_identifier.program            PDB-CARE 
_pdbx_chem_comp_identifier.program_version    1 
#
_atom_sites.entry_id                     3G6W 
_atom_sites.fract_transf_matrix[1][1]    0.016656 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000815 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010126 
_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]    0.013617 
_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 GTP A 1 301 301 GTP GTP . 
F 3 MG A 1 302 302 MG MG2 . 
G 4 PRP A 1 303 303 PRP PRP . 
H 3 MG A 1 305 305 MG MG2 . 
I 2 GTP B 1 301 301 GTP GTP . 
J 3 MG B 1 302 302 MG MG2 . 
K 5 HSX B 1 306 306 HSX R5P . 
L 6 POP B 1 307 307 POP POP . 
M 5 HSX C 1 306 306 HSX R5P . 
N 6 POP C 1 307 307 POP POP . 
O 2 GTP D 1 301 301 GTP GTP . 
P 2 GTP D 1 217 301 GTP GTP . 
Q 4 PRP D 1 303 303 PRP PRP . 
R 5 HSX D 1 306 306 HSX R5P . 
S 3 MG D 1 304 304 MG MG2 . 
T 7 HOH A 1 217 44 HOH HOH . 
T 7 HOH A 2 218 48 HOH HOH . 
T 7 HOH A 3 219 46 HOH HOH . 
T 7 HOH A 4 220 1 HOH HOH . 
T 7 HOH A 5 221 3 HOH HOH . 
T 7 HOH A 6 222 5 HOH HOH . 
T 7 HOH A 7 223 18 HOH HOH . 
T 7 HOH A 8 224 20 HOH HOH . 
T 7 HOH A 9 225 24 HOH HOH . 
T 7 HOH A 10 226 25 HOH HOH . 
T 7 HOH A 11 227 28 HOH HOH . 
T 7 HOH A 12 228 23 HOH HOH . 
T 7 HOH A 13 229 51 HOH HOH . 
U 7 HOH B 1 218 47 HOH HOH . 
U 7 HOH B 2 219 6 HOH HOH . 
U 7 HOH B 3 220 17 HOH HOH . 
U 7 HOH B 4 221 19 HOH HOH . 
U 7 HOH B 5 222 26 HOH HOH . 
V 7 HOH C 1 217 10 HOH HOH . 
V 7 HOH C 2 218 11 HOH HOH . 
V 7 HOH C 3 219 12 HOH HOH . 
V 7 HOH C 4 220 13 HOH HOH . 
V 7 HOH C 5 221 14 HOH HOH . 
V 7 HOH C 6 222 15 HOH HOH . 
V 7 HOH C 7 223 22 HOH HOH . 
V 7 HOH C 8 225 27 HOH HOH . 
W 7 HOH D 1 218 50 HOH HOH . 
W 7 HOH D 2 219 49 HOH HOH . 
W 7 HOH D 3 220 45 HOH HOH . 
W 7 HOH D 4 221 2 HOH HOH . 
W 7 HOH D 5 222 4 HOH HOH . 
W 7 HOH D 6 223 8 HOH HOH . 
W 7 HOH D 7 224 16 HOH HOH . 
W 7 HOH D 8 225 21 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 HSX . . . K 5 1.595 0.962 -16.414 1 57.54 ? C1 HSX 306 B 1 
HETATM 2 O O4 HSX . . . K 5 2.139 1.151 -17.697 1 55.09 ? O4 HSX 306 B 1 
HETATM 3 C C2 HSX . . . K 5 1.959 2.22 -15.621 1 58.24 ? C2 HSX 306 B 1 
HETATM 4 O O2 HSX . . . K 5 1.09 2.354 -14.501 1 59.41 ? O2 HSX 306 B 1 
HETATM 5 C C3 HSX . . . K 5 1.772 3.311 -16.705 1 56.44 ? C3 HSX 306 B 1 
HETATM 6 O O3 HSX . . . K 5 0.38 3.635 -16.917 1 56.42 ? O3 HSX 306 B 1 
HETATM 7 C C4 HSX . . . K 5 2.258 2.545 -17.917 1 54.45 ? C4 HSX 306 B 1 
HETATM 8 C C5 HSX . . . K 5 3.645 2.91 -18.352 1 51.67 ? C5 HSX 306 B 1 
HETATM 9 O O5 HSX . . . K 5 4.355 1.86 -18.979 1 49.09 ? O5 HSX 306 B 1 
HETATM 10 P P' HSX . . . K 5 5.564 2.381 -19.91 1 49.58 ? P' HSX 306 B 1 
HETATM 11 O O1X HSX . . . K 5 6.252 1.177 -20.532 1 48.88 ? O1X HSX 306 B 1 
HETATM 12 O O2X HSX . . . K 5 4.886 3.184 -21.026 1 50.75 ? O2X HSX 306 B 1 
HETATM 13 O O3X HSX . . . K 5 6.525 3.272 -19.133 1 48.17 ? O3X HSX 306 B 1 
HETATM 14 O O1 HSX . . . K 5 0.188 0.866 -16.568 1 58.57 ? O1 HSX 306 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           304 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#