data_6BCK
#
_model_server_result.job_id            rSuNEr_Q1vU6fFN-CirGYg 
_model_server_result.datetime_utc      '2025-04-24 06:54:52' 
_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          6bck 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":512}' 
#
_entry.id    6BCK 
#
_exptl.entry_id    6BCK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (4S)-2-METHYL-2,4-PENTANEDIOL 
_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         90 
_cell.entry_id            6BCK 
_cell.length_a            61.436 
_cell.length_b            63.867 
_cell.length_c            255.285 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6BCK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_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 O N N 
? 5 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
disulf ? disulf1 A SG CYS 11 G CYS 54 1_555 A SG CYS 31 G CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
disulf ? disulf2 A SG CYS 76 G CYS 119 1_555 A SG CYS 89 G CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf3 A SG CYS 102 G CYS 218 1_555 A SG CYS 131 G CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.694 ? 
disulf ? disulf4 A SG CYS 112 G CYS 228 1_555 A SG CYS 123 G CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf5 A SG CYS 180 G CYS 296 1_555 A SG CYS 199 G CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? 
disulf ? disulf6 A SG CYS 245 G CYS 378 1_555 A SG CYS 306 G CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.907 ? 
disulf ? disulf7 A SG CYS 252 G CYS 385 1_555 A SG CYS 279 G CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf8 A SG CYS 262 G CYS 395 1_555 A SG CYS 271 G CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf9 B SG CYS 154 H CYS 140 1_555 B SG CYS 210 H CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? 
disulf ? disulf10 C SG CYS 22 L CYS 23 1_555 C SG CYS 84 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf11 C SG CYS 127 L CYS 134 1_555 C SG CYS 186 L CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? 
covale ? covale1 A ND2 ASN 118 G ASN 234 1_555 D C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? 
covale ? covale2 A ND2 ASN 125 G ASN 241 1_555 E C1 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale3 A ND2 ASN 146 G ASN 262 1_555 F C1 NAG . G NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? 
covale ? covale4 A ND2 ASN 173 G ASN 289 1_555 H C1 NAG . G NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.459 ? 
covale ? covale5 A ND2 ASN 179 G ASN 295 1_555 I C1 NAG . G NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale6 A ND2 ASN 202 G ASN 334 1_555 J C1 NAG . G NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale7 A ND2 ASN 223 G ASN 355 1_555 N C1 NAG . G NAG 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? 
covale ? covale8 A ND2 ASN 253 G ASN 386 1_555 K C1 NAG . G NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale9 A ND2 ASN 259 G ASN 392 1_555 L C1 NAG . G NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.471 ? 
covale ? covale10 A ND2 ASN 309 G ASN 448 1_555 M C1 NAG . G NAG 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? 
#
_chem_comp.formula           'C6 H14 O2' 
_chem_comp.formula_weight    118.174 
_chem_comp.id                MPD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (4S)-2-METHYL-2,4-PENTANEDIOL 
_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 C2 MPD sing 237 n n 
C1 H11 MPD sing 238 n n 
C1 H12 MPD sing 239 n n 
C1 H13 MPD sing 240 n n 
C2 O2 MPD sing 241 n n 
C2 CM MPD sing 242 n n 
C2 C3 MPD sing 243 n n 
O2 HO2 MPD sing 244 n n 
CM HM1 MPD sing 245 n n 
CM HM2 MPD sing 246 n n 
CM HM3 MPD sing 247 n n 
C3 C4 MPD sing 248 n n 
C3 H31 MPD sing 249 n n 
C3 H32 MPD sing 250 n n 
C4 O4 MPD sing 251 n n 
C4 C5 MPD sing 252 n n 
C4 H4 MPD sing 253 n n 
O4 HO4 MPD sing 254 n n 
C5 H51 MPD sing 255 n n 
C5 H52 MPD sing 256 n n 
C5 H53 MPD sing 257 n n 
#
_atom_sites.entry_id                     6BCK 
_atom_sites.fract_transf_matrix[1][1]    0.016277 
_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]    0.015658 
_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]    0.003917 
_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
D 4 NAG G 1 501 501 NAG NAG . 
E 4 NAG G 1 502 502 NAG NAG . 
F 4 NAG G 1 503 503 NAG NAG . 
G 4 NAG G 1 504 504 NAG NAG . 
H 4 NAG G 1 505 505 NAG NAG . 
I 4 NAG G 1 506 506 NAG NAG . 
J 4 NAG G 1 507 507 NAG NAG . 
K 4 NAG G 1 508 508 NAG NAG . 
L 4 NAG G 1 509 509 NAG NAG . 
M 4 NAG G 1 510 510 NAG NAG . 
N 4 NAG G 1 511 511 NAG NAG . 
O 5 MPD G 1 512 1 MPD MPD . 
P 5 MPD H 1 301 2 MPD MPD . 
Q 6 HOH G 1 601 16 HOH HOH . 
Q 6 HOH G 2 602 2 HOH HOH . 
Q 6 HOH G 3 603 22 HOH HOH . 
Q 6 HOH G 4 604 6 HOH HOH . 
Q 6 HOH G 5 605 8 HOH HOH . 
Q 6 HOH G 6 606 12 HOH HOH . 
Q 6 HOH G 7 607 5 HOH HOH . 
Q 6 HOH G 8 608 13 HOH HOH . 
Q 6 HOH G 9 609 24 HOH HOH . 
Q 6 HOH G 10 610 21 HOH HOH . 
Q 6 HOH G 11 611 14 HOH HOH . 
R 6 HOH H 1 401 18 HOH HOH . 
R 6 HOH H 2 402 19 HOH HOH . 
R 6 HOH H 3 403 25 HOH HOH . 
R 6 HOH H 4 404 15 HOH HOH . 
R 6 HOH H 5 405 3 HOH HOH . 
R 6 HOH H 6 406 7 HOH HOH . 
R 6 HOH H 7 407 11 HOH HOH . 
R 6 HOH H 8 408 10 HOH HOH . 
R 6 HOH H 9 409 4 HOH HOH . 
R 6 HOH H 10 410 23 HOH HOH . 
R 6 HOH H 11 411 26 HOH HOH . 
R 6 HOH H 12 412 9 HOH HOH . 
S 6 HOH L 1 301 20 HOH HOH . 
S 6 HOH L 2 302 1 HOH HOH . 
S 6 HOH L 3 303 27 HOH HOH . 
S 6 HOH L 4 304 17 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 MPD . . . O 5 -32.716 -7.703 -68.732 1 56.45 ? C1 MPD 512 G 1 
HETATM 2 C C2 MPD . . . O 5 -34.081 -7.943 -68.105 1 62.31 ? C2 MPD 512 G 1 
HETATM 3 O O2 MPD . . . O 5 -34.072 -9.27 -67.515 1 85.78 ? O2 MPD 512 G 1 
HETATM 4 C CM MPD . . . O 5 -34.303 -6.92 -66.998 1 32.09 ? CM MPD 512 G 1 
HETATM 5 C C3 MPD . . . O 5 -35.16 -7.854 -69.19 1 68.36 ? C3 MPD 512 G 1 
HETATM 6 C C4 MPD . . . O 5 -36.573 -8.141 -68.686 1 62.15 ? C4 MPD 512 G 1 
HETATM 7 O O4 MPD . . . O 5 -37.163 -6.931 -68.261 1 64.08 ? O4 MPD 512 G 1 
HETATM 8 C C5 MPD . . . O 5 -37.452 -8.738 -69.782 1 43.68 ? C5 MPD 512 G 1 
#
_model_server_stats.io_time_ms              83 
_model_server_stats.parse_time_ms           32 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          13 
_model_server_stats.element_count           8 
#