data_3W3M
#
_model_server_result.job_id            kYmtqKNDsC1KqUnN3eZJFw 
_model_server_result.datetime_utc      '2024-11-16 20:56:35' 
_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          3w3m 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":917}' 
#
_entry.id    3W3M 
#
_exptl.entry_id    3W3M 
_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    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          106.94 
_cell.angle_gamma         90 
_cell.entry_id            3W3M 
_cell.length_a            136.77 
_cell.length_b            106 
_cell.length_c            72.32 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3W3M 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 F N N 
? 5 G N N 
? 5 H N N 
? 5 I N N 
#
loop_
_pdbx_entity_branch.entity_id
_pdbx_entity_branch.type
2 oligosaccharide 
3 oligosaccharide 
#
loop_
_pdbx_entity_branch_link.link_id
_pdbx_entity_branch_link.details
_pdbx_entity_branch_link.entity_id
_pdbx_entity_branch_link.entity_branch_list_num_1
_pdbx_entity_branch_link.entity_branch_list_num_2
_pdbx_entity_branch_link.comp_id_1
_pdbx_entity_branch_link.comp_id_2
_pdbx_entity_branch_link.atom_id_1
_pdbx_entity_branch_link.leaving_atom_id_1
_pdbx_entity_branch_link.atom_stereo_config_1
_pdbx_entity_branch_link.atom_id_2
_pdbx_entity_branch_link.leaving_atom_id_2
_pdbx_entity_branch_link.atom_stereo_config_2
_pdbx_entity_branch_link.value_order
1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 
3 ? 2 4 3 MAN BMA C1 O1 . O3 HO3 . sing 
4 ? 2 5 3 MAN BMA C1 O1 . O6 HO6 . sing 
5 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
6 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . 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
2 n B NAG 1 B 1 NAG A 1001 NAG 
2 n B NAG 2 B 2 NAG A 1002 NAG 
2 n B BMA 3 B 3 BMA A 1003 BMA 
2 n B MAN 4 B 4 MAN A 1004 MAN 
2 n B MAN 5 B 5 MAN A 1005 MAN 
3 n C NAG 1 C 1 NAG A 1011 NAG 
3 n C NAG 2 C 2 NAG A 1012 NAG 
3 n C BMA 3 C 3 BMA A 1013 BMA 
2 n D NAG 1 D 1 NAG A 911 NAG 
2 n D NAG 2 D 2 NAG A 912 NAG 
2 n D BMA 3 D 3 BMA A 913 BMA 
2 n D MAN 4 D 4 MAN A 1024 MAN 
2 n D MAN 5 D 5 MAN A 1023 MAN 
#
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 14 A CYS 36 1_555 A SG CYS 27 A CYS 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf2 A SG CYS 159 A CYS 181 1_555 A SG CYS 165 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf3 A SG CYS 235 A CYS 257 1_555 A SG CYS 248 A CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf4 A SG CYS 238 A CYS 260 1_555 A SG CYS 245 A CYS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf5 A SG CYS 457 A CYS 479 1_555 A SG CYS 487 A CYS 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf6 A SG CYS 754 A CYS 776 1_555 A SG CYS 781 A CYS 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? 
covale ? covale1 A ND2 ASN 271 A ASN 293 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale2 A ND2 ASN 373 A ASN 395 1_555 H C1 NAG . A NAG 917 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale3 A ND2 ASN 489 A ASN 511 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale4 A ND2 ASN 524 A ASN 546 1_555 F C1 NAG . A NAG 910 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale5 A ND2 ASN 568 A ASN 590 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? 
covale ? covale6 A ND2 ASN 618 A ASN 640 1_555 I C1 NAG . A NAG 918 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale7 A ND2 ASN 658 A ASN 680 1_555 G C1 NAG . A NAG 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale8 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale9 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale10 B O3 BMA . B BMA 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale11 B O6 BMA . B BMA 3 1_555 B C1 MAN . B MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale12 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale13 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale14 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? 
covale ? covale15 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.398 ? 
covale ? covale16 D O3 BMA . D BMA 3 1_555 D C1 MAN . D MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? 
covale ? covale17 D O6 BMA . D BMA 3 1_555 D C1 MAN . D MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
#
_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     ? 
#
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                     3W3M 
_atom_sites.fract_transf_matrix[1][1]    0.007312 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002227 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009434 
_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]    0.014455 
_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
E 4 RX8 A 1 901 900 RX8 RX8 . 
F 5 NAG A 1 910 1018 NAG NAG . 
G 5 NAG A 1 916 1025 NAG NAG . 
H 5 NAG A 1 917 1027 NAG NAG . 
I 5 NAG A 1 918 1032 NAG NAG . 
J 6 SO4 A 1 919 1 SO4 SO4 . 
K 7 HOH A 1 1001 1 HOH HOH . 
K 7 HOH A 2 1002 2 HOH HOH . 
K 7 HOH A 3 1003 3 HOH HOH . 
K 7 HOH A 4 1004 4 HOH HOH . 
K 7 HOH A 5 1005 5 HOH HOH . 
K 7 HOH A 6 1006 7 HOH HOH . 
K 7 HOH A 7 1007 8 HOH HOH . 
K 7 HOH A 8 1008 9 HOH HOH . 
K 7 HOH A 9 1009 10 HOH HOH . 
K 7 HOH A 10 1010 11 HOH HOH . 
K 7 HOH A 11 1011 12 HOH HOH . 
K 7 HOH A 12 1012 13 HOH HOH . 
K 7 HOH A 13 1013 14 HOH HOH . 
K 7 HOH A 14 1014 15 HOH HOH . 
K 7 HOH A 15 1015 16 HOH HOH . 
K 7 HOH A 16 1016 17 HOH HOH . 
K 7 HOH A 17 1017 18 HOH HOH . 
K 7 HOH A 18 1018 19 HOH HOH . 
K 7 HOH A 19 1019 20 HOH HOH . 
K 7 HOH A 20 1020 21 HOH HOH . 
K 7 HOH A 21 1021 22 HOH HOH . 
K 7 HOH A 22 1022 23 HOH HOH . 
K 7 HOH A 23 1023 24 HOH HOH . 
K 7 HOH A 24 1024 25 HOH HOH . 
K 7 HOH A 25 1025 26 HOH HOH . 
K 7 HOH A 26 1026 27 HOH HOH . 
K 7 HOH A 27 1027 28 HOH HOH . 
K 7 HOH A 28 1028 29 HOH HOH . 
K 7 HOH A 29 1029 30 HOH HOH . 
K 7 HOH A 30 1030 31 HOH HOH . 
K 7 HOH A 31 1031 32 HOH HOH . 
K 7 HOH A 32 1032 33 HOH HOH . 
K 7 HOH A 33 1033 34 HOH HOH . 
K 7 HOH A 34 1034 35 HOH HOH . 
K 7 HOH A 35 1035 36 HOH HOH . 
K 7 HOH A 36 1036 37 HOH HOH . 
K 7 HOH A 37 1037 38 HOH HOH . 
K 7 HOH A 38 1038 39 HOH HOH . 
K 7 HOH A 39 1039 40 HOH HOH . 
K 7 HOH A 40 1040 41 HOH HOH . 
K 7 HOH A 41 1041 42 HOH HOH . 
K 7 HOH A 42 1042 43 HOH HOH . 
K 7 HOH A 43 1043 44 HOH HOH . 
K 7 HOH A 44 1044 46 HOH HOH . 
K 7 HOH A 45 1045 47 HOH HOH . 
K 7 HOH A 46 1046 49 HOH HOH . 
K 7 HOH A 47 1047 50 HOH HOH . 
K 7 HOH A 48 1048 51 HOH HOH . 
K 7 HOH A 49 1049 52 HOH HOH . 
K 7 HOH A 50 1050 53 HOH HOH . 
K 7 HOH A 51 1051 54 HOH HOH . 
K 7 HOH A 52 1052 55 HOH HOH . 
K 7 HOH A 53 1053 56 HOH HOH . 
K 7 HOH A 54 1054 57 HOH HOH . 
K 7 HOH A 55 1055 58 HOH HOH . 
K 7 HOH A 56 1056 59 HOH HOH . 
K 7 HOH A 57 1057 60 HOH HOH . 
K 7 HOH A 58 1058 61 HOH HOH . 
K 7 HOH A 59 1059 62 HOH HOH . 
K 7 HOH A 60 1060 63 HOH HOH . 
K 7 HOH A 61 1061 64 HOH HOH . 
K 7 HOH A 62 1062 65 HOH HOH . 
K 7 HOH A 63 1063 66 HOH HOH . 
K 7 HOH A 64 1064 67 HOH HOH . 
K 7 HOH A 65 1065 68 HOH HOH . 
K 7 HOH A 66 1066 69 HOH HOH . 
K 7 HOH A 67 1067 70 HOH HOH . 
K 7 HOH A 68 1068 71 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 . . . H 5 -19.981 -33.751 35.76 1 58.56 ? C1 NAG 917 A 1 
HETATM 2 C C2 NAG . . . H 5 -21.245 -33.627 36.598 1 61.41 ? C2 NAG 917 A 1 
HETATM 3 C C3 NAG . . . H 5 -20.921 -33.932 38.051 1 65.85 ? C3 NAG 917 A 1 
HETATM 4 C C4 NAG . . . H 5 -20.251 -35.296 38.13 1 60.73 ? C4 NAG 917 A 1 
HETATM 5 C C5 NAG . . . H 5 -19.04 -35.379 37.2 1 55.08 ? C5 NAG 917 A 1 
HETATM 6 C C6 NAG . . . H 5 -18.435 -36.779 37.209 1 48.19 ? C6 NAG 917 A 1 
HETATM 7 C C7 NAG . . . H 5 -22.924 -32.122 35.736 1 70.15 ? C7 NAG 917 A 1 
HETATM 8 C C8 NAG . . . H 5 -23.385 -30.707 35.542 1 71.4 ? C8 NAG 917 A 1 
HETATM 9 N N2 NAG . . . H 5 -21.818 -32.303 36.454 1 65.48 ? N2 NAG 917 A 1 
HETATM 10 O O3 NAG . . . H 5 -22.098 -33.925 38.827 1 72.41 ? O3 NAG 917 A 1 
HETATM 11 O O4 NAG . . . H 5 -19.85 -35.532 39.46 1 57.18 ? O4 NAG 917 A 1 
HETATM 12 O O5 NAG . . . H 5 -19.405 -35.039 35.875 1 54.08 ? O5 NAG 917 A 1 
HETATM 13 O O6 NAG . . . H 5 -17.148 -36.757 36.634 1 45.89 ? O6 NAG 917 A 1 
HETATM 14 O O7 NAG . . . H 5 -23.555 -33.055 35.242 1 69.91 ? O7 NAG 917 A 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           14 
#