data_5VCN
#
_model_server_result.job_id            PSYqaWHQlsl7y7e0Mgw1XQ 
_model_server_result.datetime_utc      '2024-11-16 11:46:09' 
_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":"N","auth_seq_id":304}' 
#
_entry.id    5VCN 
#
_exptl.entry_id    5VCN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          7 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_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
? 7 J N N 
? 7 N 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           'C8 H15 N O6' 
_chem_comp.formula_weight    221.208 
_chem_comp.id                NAG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-acetamido-2-deoxy-beta-D-glucopyranose 
_chem_comp.type              'd-saccharide, beta linking' 
_chem_comp.pdbx_synonyms     N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE 
#
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 NAG sing 246 n n 
C1 O1 NAG sing 247 n n 
C1 O5 NAG sing 248 n n 
C1 H1 NAG sing 249 n n 
C2 C3 NAG sing 250 n n 
C2 N2 NAG sing 251 n n 
C2 H2 NAG sing 252 n n 
C3 C4 NAG sing 253 n n 
C3 O3 NAG sing 254 n n 
C3 H3 NAG sing 255 n n 
C4 C5 NAG sing 256 n n 
C4 O4 NAG sing 257 n n 
C4 H4 NAG sing 258 n n 
C5 C6 NAG sing 259 n n 
C5 O5 NAG sing 260 n n 
C5 H5 NAG sing 261 n n 
C6 O6 NAG sing 262 n n 
C6 H61 NAG sing 263 n n 
C6 H62 NAG sing 264 n n 
C7 C8 NAG sing 265 n n 
C7 N2 NAG sing 266 n n 
C7 O7 NAG doub 267 n n 
C8 H81 NAG sing 268 n n 
C8 H82 NAG sing 269 n n 
C8 H83 NAG sing 270 n n 
N2 HN2 NAG sing 271 n n 
O1 HO1 NAG sing 272 n n 
O3 HO3 NAG sing 273 n n 
O4 HO4 NAG sing 274 n n 
O6 HO6 NAG sing 275 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
NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 
NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 
NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 
NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 
#
_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 NAG . . . N 7 7.951 15.14 114.227 1 55.42 ? C1 NAG 304 B 1 
HETATM 2 C C2 NAG . . . N 7 6.675 14.368 113.821 1 69.61 ? C2 NAG 304 B 1 
HETATM 3 C C3 NAG . . . N 7 6.713 12.903 114.235 1 72.6 ? C3 NAG 304 B 1 
HETATM 4 C C4 NAG . . . N 7 7.976 12.273 113.652 1 76.12 ? C4 NAG 304 B 1 
HETATM 5 C C5 NAG . . . N 7 9.205 13.037 114.14 1 72.11 ? C5 NAG 304 B 1 
HETATM 6 C C6 NAG . . . N 7 10.46 12.455 113.491 1 71.32 ? C6 NAG 304 B 1 
HETATM 7 C C7 NAG . . . N 7 4.803 15.931 113.657 1 76.63 ? C7 NAG 304 B 1 
HETATM 8 C C8 NAG . . . N 7 3.789 16.754 114.421 1 74.71 ? C8 NAG 304 B 1 
HETATM 9 N N2 NAG . . . N 7 5.546 15.084 114.382 1 73.05 ? N2 NAG 304 B 1 
HETATM 10 O O3 NAG . . . N 7 5.562 12.265 113.721 1 71.29 ? O3 NAG 304 B 1 
HETATM 11 O O4 NAG . . . N 7 8.089 10.908 114.028 1 73.57 ? O4 NAG 304 B 1 
HETATM 12 O O5 NAG . . . N 7 9.127 14.433 113.856 1 65.4 ? O5 NAG 304 B 1 
HETATM 13 O O6 NAG . . . N 7 11.588 12.836 114.249 1 70.57 ? O6 NAG 304 B 1 
HETATM 14 O O7 NAG . . . N 7 4.92 16.059 112.429 1 70.18 ? O7 NAG 304 B 1 
#
_model_server_stats.io_time_ms              27 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           281 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#