data_4EDA
#
_model_server_result.job_id            L_OIHW04IXbGNMc0Q2qxcg 
_model_server_result.datetime_utc      '2024-12-18 04:22:48' 
_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          4eda 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":404}' 
#
_entry.id    4EDA 
#
_exptl.entry_id    4EDA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          4 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_entity.pdbx_number_of_molecules    4 
_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         120 
_cell.entry_id            4EDA 
_cell.length_a            208.126 
_cell.length_b            208.126 
_cell.length_c            65.765 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4EDA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        168 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 6' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,G,H,K,L 1 1 
C,D,F,I,J,M,N 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
? 4 G N N 
? 4 H N N 
? 4 I N N 
? 4 J N N 
#
_pdbx_entity_branch.entity_id    3 
_pdbx_entity_branch.type         oligosaccharide 
#
_pdbx_entity_branch_link.link_id                     1 
_pdbx_entity_branch_link.details                     ? 
_pdbx_entity_branch_link.entity_id                   3 
_pdbx_entity_branch_link.entity_branch_list_num_1    2 
_pdbx_entity_branch_link.entity_branch_list_num_2    1 
_pdbx_entity_branch_link.comp_id_1                   NAG 
_pdbx_entity_branch_link.comp_id_2                   NAG 
_pdbx_entity_branch_link.atom_id_1                   C1 
_pdbx_entity_branch_link.leaving_atom_id_1           O1 
_pdbx_entity_branch_link.atom_stereo_config_1        . 
_pdbx_entity_branch_link.atom_id_2                   O4 
_pdbx_entity_branch_link.leaving_atom_id_2           HO4 
_pdbx_entity_branch_link.atom_stereo_config_2        . 
_pdbx_entity_branch_link.value_order                 sing 
#
loop_
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.hetero
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.auth_mon_id
3 n E NAG 1 E 1 NAG A 330 NAG 
3 n E NAG 2 E 2 NAG A 331 NAG 
3 n F NAG 1 F 1 NAG C 330 NAG 
3 n F NAG 2 F 2 NAG C 331 NAG 
#
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 13 A CYS 4 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
disulf ? disulf2 A SG CYS 51 A CYS 42 1_555 A SG CYS 284 A CYS 275 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
disulf ? disulf3 A SG CYS 64 A CYS 55 1_555 A SG CYS 76 A CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf4 A SG CYS 99 A CYS 90 1_555 A SG CYS 145 A CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? 
disulf ? disulf5 A SG CYS 288 A CYS 279 1_555 A SG CYS 312 A CYS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf7 C SG CYS 51 C CYS 42 1_555 C SG CYS 284 C CYS 275 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
disulf ? disulf8 C SG CYS 64 C CYS 55 1_555 C SG CYS 76 C CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf9 C SG CYS 99 C CYS 90 1_555 C SG CYS 145 C CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
disulf ? disulf10 C SG CYS 288 C CYS 279 1_555 C SG CYS 312 C CYS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf11 D SG CYS 144 D CYS 144 1_555 D SG CYS 148 D CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale1 A ND2 ASN 96 A ASN 87 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.404 ? 
covale ? covale2 A ND2 ASN 285 A ASN 276 1_555 G C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale3 A ND2 ASN 296 A ASN 287 1_555 H C1 NAG . A NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.404 ? 
covale ? covale4 C ND2 ASN 96 C ASN 87 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.419 ? 
covale ? covale5 C ND2 ASN 285 C ASN 276 1_555 I C1 NAG . C NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale6 C ND2 ASN 296 C ASN 287 1_555 J C1 NAG . C NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.411 ? 
covale ? covale7 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.481 ? 
covale ? covale8 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.624 ? 
#
_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                     4EDA 
_atom_sites.fract_transf_matrix[1][1]    0.004805 
_atom_sites.fract_transf_matrix[1][2]    0.002774 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.005548 
_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]    0.015206 
_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 NAG A 1 403 403 NAG NAG . 
H 4 NAG A 1 404 335 NAG NAG . 
I 4 NAG C 1 403 403 NAG NAG . 
J 4 NAG C 1 404 335 NAG NAG . 
K 5 HOH A 1 501 2 HOH HOH . 
K 5 HOH A 2 502 3 HOH HOH . 
K 5 HOH A 3 503 8 HOH HOH . 
K 5 HOH A 4 504 9 HOH HOH . 
K 5 HOH A 5 505 11 HOH HOH . 
K 5 HOH A 6 506 14 HOH HOH . 
K 5 HOH A 7 507 16 HOH HOH . 
K 5 HOH A 8 508 17 HOH HOH . 
K 5 HOH A 9 509 18 HOH HOH . 
K 5 HOH A 10 510 19 HOH HOH . 
K 5 HOH A 11 511 21 HOH HOH . 
K 5 HOH A 12 512 25 HOH HOH . 
K 5 HOH A 13 513 26 HOH HOH . 
K 5 HOH A 14 514 27 HOH HOH . 
K 5 HOH A 15 515 28 HOH HOH . 
K 5 HOH A 16 516 29 HOH HOH . 
K 5 HOH A 17 517 34 HOH HOH . 
K 5 HOH A 18 518 35 HOH HOH . 
K 5 HOH A 19 519 36 HOH HOH . 
K 5 HOH A 20 520 37 HOH HOH . 
K 5 HOH A 21 521 38 HOH HOH . 
K 5 HOH A 22 522 42 HOH HOH . 
K 5 HOH A 23 523 49 HOH HOH . 
K 5 HOH A 24 524 50 HOH HOH . 
K 5 HOH A 25 525 51 HOH HOH . 
K 5 HOH A 26 526 52 HOH HOH . 
K 5 HOH A 27 527 53 HOH HOH . 
K 5 HOH A 28 528 54 HOH HOH . 
K 5 HOH A 29 529 55 HOH HOH . 
K 5 HOH A 30 530 56 HOH HOH . 
L 5 HOH B 1 201 39 HOH HOH . 
L 5 HOH B 2 202 41 HOH HOH . 
L 5 HOH B 3 203 63 HOH HOH . 
M 5 HOH C 1 501 1 HOH HOH . 
M 5 HOH C 2 502 4 HOH HOH . 
M 5 HOH C 3 503 5 HOH HOH . 
M 5 HOH C 4 504 6 HOH HOH . 
M 5 HOH C 5 505 10 HOH HOH . 
M 5 HOH C 6 506 12 HOH HOH . 
M 5 HOH C 7 507 13 HOH HOH . 
M 5 HOH C 8 508 15 HOH HOH . 
M 5 HOH C 9 509 20 HOH HOH . 
M 5 HOH C 10 510 22 HOH HOH . 
M 5 HOH C 11 511 23 HOH HOH . 
M 5 HOH C 12 512 24 HOH HOH . 
M 5 HOH C 13 513 30 HOH HOH . 
M 5 HOH C 14 514 43 HOH HOH . 
M 5 HOH C 15 515 44 HOH HOH . 
M 5 HOH C 16 516 45 HOH HOH . 
M 5 HOH C 17 517 46 HOH HOH . 
M 5 HOH C 18 518 47 HOH HOH . 
M 5 HOH C 19 519 48 HOH HOH . 
M 5 HOH C 20 520 57 HOH HOH . 
M 5 HOH C 21 521 58 HOH HOH . 
M 5 HOH C 22 522 59 HOH HOH . 
M 5 HOH C 23 523 60 HOH HOH . 
M 5 HOH C 24 524 61 HOH HOH . 
M 5 HOH C 25 525 62 HOH HOH . 
N 5 HOH D 1 201 7 HOH HOH . 
N 5 HOH D 2 202 31 HOH HOH . 
N 5 HOH D 3 203 32 HOH HOH . 
N 5 HOH D 4 204 33 HOH HOH . 
N 5 HOH D 5 205 40 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 4 43.373 -67.603 44.008 1 135.99 ? C1 NAG 404 C 1 
HETATM 2 C C2 NAG . . . J 4 44.624 -68.483 44.105 1 139.11 ? C2 NAG 404 C 1 
HETATM 3 C C3 NAG . . . J 4 44.798 -69.068 45.504 1 136.53 ? C3 NAG 404 C 1 
HETATM 4 C C4 NAG . . . J 4 44.689 -67.963 46.544 1 133.92 ? C4 NAG 404 C 1 
HETATM 5 C C5 NAG . . . J 4 43.368 -67.215 46.363 1 134.3 ? C5 NAG 404 C 1 
HETATM 6 C C6 NAG . . . J 4 43.197 -66.134 47.432 1 132.15 ? C6 NAG 404 C 1 
HETATM 7 C C7 NAG . . . J 4 43.484 -70.25 42.839 1 137.34 ? C7 NAG 404 C 1 
HETATM 8 C C8 NAG . . . J 4 43.155 -71.422 43.72 1 131.15 ? C8 NAG 404 C 1 
HETATM 9 N N2 NAG . . . J 4 44.591 -69.565 43.132 1 139.93 ? N2 NAG 404 C 1 
HETATM 10 O O3 NAG . . . J 4 46.036 -69.743 45.613 1 135.28 ? O3 NAG 404 C 1 
HETATM 11 O O4 NAG . . . J 4 44.772 -68.52 47.836 1 132.28 ? O4 NAG 404 C 1 
HETATM 12 O O5 NAG . . . J 4 43.298 -66.654 45.061 1 133.05 ? O5 NAG 404 C 1 
HETATM 13 O O6 NAG . . . J 4 41.828 -65.891 47.688 1 129.15 ? O6 NAG 404 C 1 
HETATM 14 O O7 NAG . . . J 4 42.751 -69.968 41.891 1 136.66 ? O7 NAG 404 C 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    23 
_model_server_stats.query_time_ms           465 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           14 
#