data_5VCN
#
_model_server_result.job_id            lMw9ORDieilRzmyy-gvEVw 
_model_server_result.datetime_utc      '2024-11-16 11:43:57' 
_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          5vcn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":303}' 
#
_entry.id    5VCN 
#
_exptl.entry_id    5VCN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_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          91.09 
_cell.angle_gamma         90 
_cell.entry_id            5VCN 
_cell.length_a            47.743 
_cell.length_b            73.263 
_cell.length_c            200.34 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VCN 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? trimeric 3 author_defined_assembly 1 
? trimeric 3 author_defined_assembly 2 
#
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,O,S,T 1 1 
B,C,D,K,L,M,N,P,Q,R 2 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
? 6 I N N 
? 6 M 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 4 A CYS 4 1_555 A SG CYS 117 A CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
disulf ? disulf2 A SG CYS 31 A CYS 31 1_555 A SG CYS 71 A CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf3 A SG CYS 65 A CYS 65 1_555 A SG CYS 103 A CYS 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
disulf ? disulf4 B SG CYS 4 B CYS 4 1_555 B SG CYS 117 B CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
disulf ? disulf5 B SG CYS 31 B CYS 31 1_555 B SG CYS 71 B CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? 
disulf ? disulf6 B SG CYS 65 B CYS 65 1_555 B SG CYS 103 B CYS 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf7 C SG CYS 23 C CYS 23 1_555 C SG CYS 88 C CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? 
disulf ? disulf8 C SG CYS 133 C CYS 133 1_555 C SG CYS 193 C CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
disulf ? disulf9 D SG CYS 22 D CYS 22 1_555 D SG CYS 95 D CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf10 D SG CYS 147 D CYS 147 1_555 D SG CYS 202 D CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf11 E SG CYS 23 E CYS 23 1_555 E SG CYS 88 E CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
disulf ? disulf12 E SG CYS 133 E CYS 133 1_555 E SG CYS 193 E CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf13 F SG CYS 22 F CYS 22 1_555 F SG CYS 95 F CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? 
disulf ? disulf14 F SG CYS 147 F CYS 147 1_555 F SG CYS 202 F CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
covale ? covale1 A ND2 ASN 52 A ASN 52 1_555 J C1 NAG . A NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale2 B ND2 ASN 52 B ASN 52 1_555 N C1 NAG . B NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? 
metalc ? metalc1 A OD1 ASP 56 A ASP 56 1_555 G CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? 
metalc ? metalc2 A O LEU 57 A LEU 57 1_555 G CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.658 ? 
metalc ? metalc3 A OE1 GLU 59 A GLU 59 1_555 G CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.129 ? 
metalc ? metalc4 A OE2 GLU 59 A GLU 59 1_555 G CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.695 ? 
metalc ? metalc5 A OE1 GLU 91 A GLU 91 1_555 G CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? 
metalc ? metalc6 B OD1 ASP 56 B ASP 56 1_555 K CA CA . B CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? 
metalc ? metalc7 B O LEU 57 B LEU 57 1_555 K CA CA . B CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? 
metalc ? metalc8 B OE1 GLU 59 B GLU 59 1_555 K CA CA . B CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.138 ? 
metalc ? metalc9 B OE2 GLU 59 B GLU 59 1_555 K CA CA . B CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? 
metalc ? metalc10 B OE1 GLU 91 B GLU 91 1_555 K CA CA . B CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? 
#
_chem_comp.formula           'C2 H6 O2' 
_chem_comp.formula_weight    62.068 
_chem_comp.id                EDO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,2-ETHANEDIOL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'ETHYLENE GLYCOL' 
#
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 EDO sing 83 n n 
C1 C2 EDO sing 84 n n 
C1 H11 EDO sing 85 n n 
C1 H12 EDO sing 86 n n 
O1 HO1 EDO sing 87 n n 
C2 O2 EDO sing 88 n n 
C2 H21 EDO sing 89 n n 
C2 H22 EDO sing 90 n n 
O2 HO2 EDO sing 91 n n 
#
_atom_sites.entry_id                     5VCN 
_atom_sites.fract_transf_matrix[1][1]    0.020945 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000399 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013649 
_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]    0.004992 
_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
G 4 CA A 1 301 301 CA CA . 
H 5 PO4 A 1 302 302 PO4 PO4 . 
I 6 EDO A 1 303 303 EDO EDO . 
J 7 NAG A 1 304 304 NAG NAG . 
K 4 CA B 1 301 301 CA CA . 
L 5 PO4 B 1 302 302 PO4 PO4 . 
M 6 EDO B 1 303 303 EDO EDO . 
N 7 NAG B 1 304 304 NAG NAG . 
O 8 HOH A 1 401 411 HOH HOH . 
O 8 HOH A 2 402 406 HOH HOH . 
O 8 HOH A 3 403 404 HOH HOH . 
O 8 HOH A 4 404 416 HOH HOH . 
O 8 HOH A 5 405 405 HOH HOH . 
O 8 HOH A 6 406 414 HOH HOH . 
O 8 HOH A 7 407 401 HOH HOH . 
O 8 HOH A 8 408 412 HOH HOH . 
O 8 HOH A 9 409 415 HOH HOH . 
O 8 HOH A 10 410 409 HOH HOH . 
O 8 HOH A 11 411 408 HOH HOH . 
O 8 HOH A 12 412 410 HOH HOH . 
O 8 HOH A 13 413 407 HOH HOH . 
O 8 HOH A 14 414 402 HOH HOH . 
O 8 HOH A 15 415 413 HOH HOH . 
P 8 HOH B 1 401 413 HOH HOH . 
P 8 HOH B 2 402 411 HOH HOH . 
P 8 HOH B 3 403 414 HOH HOH . 
P 8 HOH B 4 404 401 HOH HOH . 
P 8 HOH B 5 405 410 HOH HOH . 
P 8 HOH B 6 406 409 HOH HOH . 
P 8 HOH B 7 407 407 HOH HOH . 
P 8 HOH B 8 408 404 HOH HOH . 
P 8 HOH B 9 409 406 HOH HOH . 
P 8 HOH B 10 410 412 HOH HOH . 
P 8 HOH B 11 411 402 HOH HOH . 
P 8 HOH B 12 412 405 HOH HOH . 
P 8 HOH B 13 413 408 HOH HOH . 
Q 8 HOH C 1 301 306 HOH HOH . 
Q 8 HOH C 2 302 305 HOH HOH . 
Q 8 HOH C 3 303 301 HOH HOH . 
Q 8 HOH C 4 304 304 HOH HOH . 
Q 8 HOH C 5 305 303 HOH HOH . 
Q 8 HOH C 6 306 307 HOH HOH . 
Q 8 HOH C 7 307 303 HOH HOH . 
Q 8 HOH C 8 308 302 HOH HOH . 
Q 8 HOH C 9 309 308 HOH HOH . 
Q 8 HOH C 10 310 403 HOH HOH . 
R 8 HOH D 1 301 306 HOH HOH . 
R 8 HOH D 2 302 302 HOH HOH . 
R 8 HOH D 3 303 311 HOH HOH . 
R 8 HOH D 4 304 305 HOH HOH . 
R 8 HOH D 5 305 310 HOH HOH . 
R 8 HOH D 6 306 307 HOH HOH . 
R 8 HOH D 7 307 313 HOH HOH . 
R 8 HOH D 8 308 312 HOH HOH . 
R 8 HOH D 9 309 304 HOH HOH . 
R 8 HOH D 10 310 301 HOH HOH . 
R 8 HOH D 11 311 309 HOH HOH . 
R 8 HOH D 12 312 301 HOH HOH . 
R 8 HOH D 13 313 308 HOH HOH . 
S 8 HOH E 1 301 302 HOH HOH . 
S 8 HOH E 2 302 303 HOH HOH . 
S 8 HOH E 3 303 304 HOH HOH . 
S 8 HOH E 4 304 301 HOH HOH . 
S 8 HOH E 5 305 305 HOH HOH . 
S 8 HOH E 6 306 403 HOH HOH . 
T 8 HOH F 1 301 307 HOH HOH . 
T 8 HOH F 2 302 306 HOH HOH . 
T 8 HOH F 3 303 317 HOH HOH . 
T 8 HOH F 4 304 310 HOH HOH . 
T 8 HOH F 5 305 311 HOH HOH . 
T 8 HOH F 6 306 308 HOH HOH . 
T 8 HOH F 7 307 309 HOH HOH . 
T 8 HOH F 8 308 318 HOH HOH . 
T 8 HOH F 9 309 302 HOH HOH . 
T 8 HOH F 10 310 315 HOH HOH . 
T 8 HOH F 11 311 314 HOH HOH . 
T 8 HOH F 12 312 312 HOH HOH . 
T 8 HOH F 13 313 304 HOH HOH . 
T 8 HOH F 14 314 313 HOH HOH . 
T 8 HOH F 15 315 305 HOH HOH . 
T 8 HOH F 16 316 316 HOH HOH . 
T 8 HOH F 17 317 303 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 EDO . . . M 6 14.994 48.237 125.656 1 64.98 ? C1 EDO 303 B 1 
HETATM 2 O O1 EDO . . . M 6 14.97 48.317 127.085 1 63.36 ? O1 EDO 303 B 1 
HETATM 3 C C2 EDO . . . M 6 15.338 46.804 125.24 1 64.01 ? C2 EDO 303 B 1 
HETATM 4 O O2 EDO . . . M 6 14.227 45.919 125.465 1 65.19 ? O2 EDO 303 B 1 
#
_model_server_stats.io_time_ms              27 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    35 
_model_server_stats.query_time_ms           302 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           4 
#