data_5LSP
#
_model_server_result.job_id            cqtscK1HjFC_46YBos1nUA 
_model_server_result.datetime_utc      '2024-11-28 03:20:31' 
_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          5lsp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":1000}' 
#
_entry.id    5LSP 
#
_exptl.entry_id    5LSP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          5 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            5LSP 
_cell.length_a            71.88 
_cell.length_b            82.279 
_cell.length_c            267.304 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5LSP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 2 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_pdbx_struct_assembly.details               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 
_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 I N N 
? 5 J 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 2 A CYS 520 1_555 A SG CYS 20 A CYS 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf2 A SG CYS 8 A CYS 526 1_555 A SG CYS 43 A CYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf3 A SG CYS 11 A CYS 529 1_555 A SG CYS 27 A CYS 545 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf4 A SG CYS 23 A CYS 541 1_555 A SG CYS 33 A CYS 551 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf5 A SG CYS 66 A CYS 584 1_555 G SG CYS 5 X CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
disulf ? disulf6 A SG CYS 179 A CYS 697 1_555 A SG CYS 191 A CYS 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
disulf ? disulf7 B SG CYS 22 H CYS 22 1_555 B SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf8 B SG CYS 147 H CYS 147 1_555 B SG CYS 203 H CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf9 C SG CYS 25 L CYS 23 1_555 C SG CYS 90 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
disulf ? disulf10 C SG CYS 136 L CYS 134 1_555 C SG CYS 196 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf11 D SG CYS 2 P CYS 520 1_555 D SG CYS 20 P CYS 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf12 D SG CYS 8 P CYS 526 1_555 D SG CYS 43 P CYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf13 D SG CYS 11 P CYS 529 1_555 D SG CYS 27 P CYS 545 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf14 D SG CYS 23 P CYS 541 1_555 D SG CYS 33 P CYS 551 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf15 D SG CYS 66 P CYS 584 1_555 H SG CYS 5 Y CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf16 D SG CYS 179 P CYS 697 1_555 D SG CYS 191 P CYS 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf17 E SG CYS 22 S CYS 22 1_555 E SG CYS 96 S CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf18 E SG CYS 147 S CYS 147 1_555 E SG CYS 203 S CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf19 F SG CYS 25 T CYS 23 1_555 F SG CYS 90 T CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf20 F SG CYS 136 T CYS 134 1_555 F SG CYS 196 T CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
covale ? covale1 A ND2 ASN 117 A ASN 635 1_555 I C1 NAG . A NAG 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale2 D ND2 ASN 117 P ASN 635 1_555 J C1 NAG . P NAG 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? 
#
_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 237 n n 
C1 O1 NAG sing 238 n n 
C1 O5 NAG sing 239 n n 
C1 H1 NAG sing 240 n n 
C2 C3 NAG sing 241 n n 
C2 N2 NAG sing 242 n n 
C2 H2 NAG sing 243 n n 
C3 C4 NAG sing 244 n n 
C3 O3 NAG sing 245 n n 
C3 H3 NAG sing 246 n n 
C4 C5 NAG sing 247 n n 
C4 O4 NAG sing 248 n n 
C4 H4 NAG sing 249 n n 
C5 C6 NAG sing 250 n n 
C5 O5 NAG sing 251 n n 
C5 H5 NAG sing 252 n n 
C6 O6 NAG sing 253 n n 
C6 H61 NAG sing 254 n n 
C6 H62 NAG sing 255 n n 
C7 C8 NAG sing 256 n n 
C7 N2 NAG sing 257 n n 
C7 O7 NAG doub 258 n n 
C8 H81 NAG sing 259 n n 
C8 H82 NAG sing 260 n n 
C8 H83 NAG sing 261 n n 
N2 HN2 NAG sing 262 n n 
O1 HO1 NAG sing 263 n n 
O3 HO3 NAG sing 264 n n 
O4 HO4 NAG sing 265 n n 
O6 HO6 NAG sing 266 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                     5LSP 
_atom_sites.fract_transf_matrix[1][1]    0.013912 
_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]    0.012154 
_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]    0.003741 
_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
I 5 NAG A 1 1000 1000 NAG NAG . 
J 5 NAG P 1 1000 1000 NAG NAG . 
K 6 HOH A 1 1101 18 HOH HOH . 
K 6 HOH A 2 1102 47 HOH HOH . 
K 6 HOH A 3 1103 2 HOH HOH . 
K 6 HOH A 4 1104 73 HOH HOH . 
K 6 HOH A 5 1105 49 HOH HOH . 
K 6 HOH A 6 1106 19 HOH HOH . 
K 6 HOH A 7 1107 53 HOH HOH . 
K 6 HOH A 8 1108 51 HOH HOH . 
K 6 HOH A 9 1109 29 HOH HOH . 
K 6 HOH A 10 1110 32 HOH HOH . 
K 6 HOH A 11 1111 1 HOH HOH . 
K 6 HOH A 12 1112 55 HOH HOH . 
K 6 HOH A 13 1113 63 HOH HOH . 
K 6 HOH A 14 1114 54 HOH HOH . 
K 6 HOH A 15 1115 70 HOH HOH . 
K 6 HOH A 16 1116 74 HOH HOH . 
K 6 HOH A 17 1117 72 HOH HOH . 
K 6 HOH A 18 1118 75 HOH HOH . 
L 6 HOH H 1 301 30 HOH HOH . 
L 6 HOH H 2 302 3 HOH HOH . 
L 6 HOH H 3 303 4 HOH HOH . 
L 6 HOH H 4 304 34 HOH HOH . 
L 6 HOH H 5 305 16 HOH HOH . 
L 6 HOH H 6 306 12 HOH HOH . 
L 6 HOH H 7 307 21 HOH HOH . 
L 6 HOH H 8 308 45 HOH HOH . 
L 6 HOH H 9 309 83 HOH HOH . 
L 6 HOH H 10 310 85 HOH HOH . 
L 6 HOH H 11 311 14 HOH HOH . 
L 6 HOH H 12 312 26 HOH HOH . 
L 6 HOH H 13 313 52 HOH HOH . 
L 6 HOH H 14 314 84 HOH HOH . 
L 6 HOH H 15 315 25 HOH HOH . 
L 6 HOH H 16 316 78 HOH HOH . 
L 6 HOH H 17 317 81 HOH HOH . 
L 6 HOH H 18 318 80 HOH HOH . 
L 6 HOH H 19 319 79 HOH HOH . 
L 6 HOH H 20 320 86 HOH HOH . 
L 6 HOH H 21 321 44 HOH HOH . 
M 6 HOH L 1 301 10 HOH HOH . 
M 6 HOH L 2 302 5 HOH HOH . 
M 6 HOH L 3 303 27 HOH HOH . 
M 6 HOH L 4 304 99 HOH HOH . 
M 6 HOH L 5 305 67 HOH HOH . 
M 6 HOH L 6 306 23 HOH HOH . 
M 6 HOH L 7 307 38 HOH HOH . 
M 6 HOH L 8 308 13 HOH HOH . 
M 6 HOH L 9 309 37 HOH HOH . 
M 6 HOH L 10 310 31 HOH HOH . 
M 6 HOH L 11 311 69 HOH HOH . 
M 6 HOH L 12 312 96 HOH HOH . 
M 6 HOH L 13 313 42 HOH HOH . 
M 6 HOH L 14 314 9 HOH HOH . 
M 6 HOH L 15 315 95 HOH HOH . 
M 6 HOH L 16 316 41 HOH HOH . 
M 6 HOH L 17 317 35 HOH HOH . 
M 6 HOH L 18 318 100 HOH HOH . 
M 6 HOH L 19 319 71 HOH HOH . 
M 6 HOH L 20 320 97 HOH HOH . 
M 6 HOH L 21 321 93 HOH HOH . 
M 6 HOH L 22 322 24 HOH HOH . 
N 6 HOH P 1 1101 77 HOH HOH . 
N 6 HOH P 2 1102 76 HOH HOH . 
N 6 HOH P 3 1103 57 HOH HOH . 
N 6 HOH P 4 1104 56 HOH HOH . 
O 6 HOH S 1 301 92 HOH HOH . 
O 6 HOH S 2 302 6 HOH HOH . 
O 6 HOH S 3 303 46 HOH HOH . 
O 6 HOH S 4 304 43 HOH HOH . 
O 6 HOH S 5 305 98 HOH HOH . 
O 6 HOH S 6 306 61 HOH HOH . 
O 6 HOH S 7 307 33 HOH HOH . 
O 6 HOH S 8 308 87 HOH HOH . 
O 6 HOH S 9 309 48 HOH HOH . 
O 6 HOH S 10 310 88 HOH HOH . 
O 6 HOH S 11 311 94 HOH HOH . 
O 6 HOH S 12 312 58 HOH HOH . 
O 6 HOH S 13 313 62 HOH HOH . 
P 6 HOH T 1 301 59 HOH HOH . 
P 6 HOH T 2 302 91 HOH HOH . 
P 6 HOH T 3 303 7 HOH HOH . 
P 6 HOH T 4 304 60 HOH HOH . 
P 6 HOH T 5 305 82 HOH HOH . 
P 6 HOH T 6 306 68 HOH HOH . 
P 6 HOH T 7 307 89 HOH HOH . 
P 6 HOH T 8 308 22 HOH HOH . 
P 6 HOH T 9 309 90 HOH HOH . 
P 6 HOH T 10 310 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 NAG . . . J 5 -56.533 -0.149 -79.746 1 104.46 ? C1 NAG 1000 P 1 
HETATM 2 C C2 NAG . . . J 5 -56.886 0.488 -81.108 1 103.72 ? C2 NAG 1000 P 1 
HETATM 3 C C3 NAG . . . J 5 -58.178 -0.105 -81.666 1 96.87 ? C3 NAG 1000 P 1 
HETATM 4 C C4 NAG . . . J 5 -58.093 -1.633 -81.707 1 97.21 ? C4 NAG 1000 P 1 
HETATM 5 C C5 NAG . . . J 5 -57.724 -2.173 -80.331 1 100.89 ? C5 NAG 1000 P 1 
HETATM 6 C C6 NAG . . . J 5 -57.467 -3.662 -80.34 1 95.1 ? C6 NAG 1000 P 1 
HETATM 7 C C7 NAG . . . J 5 -56.694 2.808 -81.949 1 99.33 ? C7 NAG 1000 P 1 
HETATM 8 C C8 NAG . . . J 5 -56.932 4.253 -81.638 1 86.93 ? C8 NAG 1000 P 1 
HETATM 9 N N2 NAG . . . J 5 -57.027 1.941 -80.975 1 103.61 ? N2 NAG 1000 P 1 
HETATM 10 O O3 NAG . . . J 5 -58.425 0.396 -82.971 1 93.4 ? O3 NAG 1000 P 1 
HETATM 11 O O4 NAG . . . J 5 -59.342 -2.181 -82.102 1 88.35 ? O4 NAG 1000 P 1 
HETATM 12 O O5 NAG . . . J 5 -56.509 -1.566 -79.901 1 104 ? O5 NAG 1000 P 1 
HETATM 13 O O6 NAG . . . J 5 -58.501 -4.384 -79.688 1 87.46 ? O6 NAG 1000 P 1 
HETATM 14 O O7 NAG . . . J 5 -56.223 2.434 -83.014 1 91.17 ? O7 NAG 1000 P 1 
#
_model_server_stats.io_time_ms              67 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           297 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           14 
#