data_7EFR
#
_model_server_result.job_id            yUjq6UAiEMlJpO8tAxKARg 
_model_server_result.datetime_utc      '2024-11-21 10:19:36' 
_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          7efr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1001}' 
#
_entry.id    7EFR 
#
_exptl.entry_id    7EFR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_entity.pdbx_number_of_molecules    5 
_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            7EFR 
_cell.length_a            139.578 
_cell.length_b            139.578 
_cell.length_c            156.062 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7EFR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
_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 
_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
? 3 C N N 
? 3 D N N 
? 3 E N N 
? 3 F N N 
? 3 G 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 117 A CYS 133 1_555 A SG CYS 125 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf2 A SG CYS 328 A CYS 344 1_555 A SG CYS 345 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
disulf ? disulf3 A SG CYS 514 A CYS 530 1_555 A SG CYS 526 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
disulf ? disulf4 B SG CYS 16 B CYS 336 1_555 B SG CYS 41 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? 
disulf ? disulf5 B SG CYS 59 B CYS 379 1_555 B SG CYS 112 B CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? 
disulf ? disulf6 B SG CYS 71 B CYS 391 1_555 B SG CYS 205 B CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? 
disulf ? disulf7 B SG CYS 160 B CYS 480 1_555 B SG CYS 168 B CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? 
covale ? covale1 A ND2 ASN 37 A ASN 53 1_555 C C1 NAG . A NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? 
covale ? covale2 A ND2 ASN 74 A ASN 90 1_555 D C1 NAG . A NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? 
covale ? covale3 A ND2 ASN 87 A ASN 103 1_555 E C1 NAG . A NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? 
covale ? covale4 A ND2 ASN 530 A ASN 546 1_555 F C1 NAG . A NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale5 B ND2 ASN 23 B ASN 343 1_555 G C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? 
#
_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                     7EFR 
_atom_sites.fract_transf_matrix[1][1]    0.007164 
_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]    0.007164 
_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]    0.006408 
_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
C 3 NAG A 1 1001 1001 NAG NAG . 
D 3 NAG A 1 1002 1011 NAG NAG . 
E 3 NAG A 1 1003 1021 NAG NAG . 
F 3 NAG A 1 1004 1031 NAG NAG . 
G 3 NAG B 1 601 629 NAG NAG . 
H 4 HOH A 1 1101 50 HOH HOH . 
H 4 HOH A 2 1102 18 HOH HOH . 
H 4 HOH A 3 1103 98 HOH HOH . 
H 4 HOH A 4 1104 87 HOH HOH . 
H 4 HOH A 5 1105 89 HOH HOH . 
H 4 HOH A 6 1106 101 HOH HOH . 
H 4 HOH A 7 1107 57 HOH HOH . 
H 4 HOH A 8 1108 122 HOH HOH . 
H 4 HOH A 9 1109 7 HOH HOH . 
H 4 HOH A 10 1110 19 HOH HOH . 
H 4 HOH A 11 1111 15 HOH HOH . 
H 4 HOH A 12 1112 11 HOH HOH . 
H 4 HOH A 13 1113 10 HOH HOH . 
H 4 HOH A 14 1114 28 HOH HOH . 
H 4 HOH A 15 1115 35 HOH HOH . 
H 4 HOH A 16 1116 86 HOH HOH . 
H 4 HOH A 17 1117 140 HOH HOH . 
H 4 HOH A 18 1118 80 HOH HOH . 
H 4 HOH A 19 1119 70 HOH HOH . 
H 4 HOH A 20 1120 16 HOH HOH . 
H 4 HOH A 21 1121 34 HOH HOH . 
H 4 HOH A 22 1122 107 HOH HOH . 
H 4 HOH A 23 1123 30 HOH HOH . 
H 4 HOH A 24 1124 40 HOH HOH . 
H 4 HOH A 25 1125 144 HOH HOH . 
H 4 HOH A 26 1126 97 HOH HOH . 
H 4 HOH A 27 1127 75 HOH HOH . 
H 4 HOH A 28 1128 104 HOH HOH . 
H 4 HOH A 29 1129 24 HOH HOH . 
H 4 HOH A 30 1130 132 HOH HOH . 
H 4 HOH A 31 1131 126 HOH HOH . 
H 4 HOH A 32 1132 119 HOH HOH . 
H 4 HOH A 33 1133 139 HOH HOH . 
H 4 HOH A 34 1134 112 HOH HOH . 
H 4 HOH A 35 1135 131 HOH HOH . 
H 4 HOH A 36 1136 46 HOH HOH . 
H 4 HOH A 37 1137 37 HOH HOH . 
H 4 HOH A 38 1138 58 HOH HOH . 
H 4 HOH A 39 1139 54 HOH HOH . 
H 4 HOH A 40 1140 65 HOH HOH . 
H 4 HOH A 41 1141 17 HOH HOH . 
H 4 HOH A 42 1142 20 HOH HOH . 
H 4 HOH A 43 1143 69 HOH HOH . 
H 4 HOH A 44 1144 13 HOH HOH . 
H 4 HOH A 45 1145 83 HOH HOH . 
H 4 HOH A 46 1146 109 HOH HOH . 
H 4 HOH A 47 1147 130 HOH HOH . 
H 4 HOH A 48 1148 116 HOH HOH . 
H 4 HOH A 49 1149 142 HOH HOH . 
H 4 HOH A 50 1150 49 HOH HOH . 
H 4 HOH A 51 1151 61 HOH HOH . 
H 4 HOH A 52 1152 74 HOH HOH . 
H 4 HOH A 53 1153 128 HOH HOH . 
H 4 HOH A 54 1154 8 HOH HOH . 
H 4 HOH A 55 1155 22 HOH HOH . 
H 4 HOH A 56 1156 111 HOH HOH . 
H 4 HOH A 57 1157 79 HOH HOH . 
H 4 HOH A 58 1158 27 HOH HOH . 
H 4 HOH A 59 1159 110 HOH HOH . 
H 4 HOH A 60 1160 138 HOH HOH . 
H 4 HOH A 61 1161 68 HOH HOH . 
H 4 HOH A 62 1162 52 HOH HOH . 
H 4 HOH A 63 1163 64 HOH HOH . 
H 4 HOH A 64 1164 105 HOH HOH . 
H 4 HOH A 65 1165 136 HOH HOH . 
H 4 HOH A 66 1166 42 HOH HOH . 
H 4 HOH A 67 1167 25 HOH HOH . 
H 4 HOH A 68 1168 85 HOH HOH . 
H 4 HOH A 69 1169 59 HOH HOH . 
H 4 HOH A 70 1170 9 HOH HOH . 
H 4 HOH A 71 1171 72 HOH HOH . 
H 4 HOH A 72 1172 33 HOH HOH . 
H 4 HOH A 73 1173 114 HOH HOH . 
H 4 HOH A 74 1174 51 HOH HOH . 
H 4 HOH A 75 1175 84 HOH HOH . 
H 4 HOH A 76 1176 115 HOH HOH . 
H 4 HOH A 77 1177 43 HOH HOH . 
H 4 HOH A 78 1178 103 HOH HOH . 
H 4 HOH A 79 1179 32 HOH HOH . 
H 4 HOH A 80 1180 53 HOH HOH . 
H 4 HOH A 81 1181 121 HOH HOH . 
H 4 HOH A 82 1182 125 HOH HOH . 
H 4 HOH A 83 1183 106 HOH HOH . 
H 4 HOH A 84 1184 88 HOH HOH . 
H 4 HOH A 85 1185 96 HOH HOH . 
H 4 HOH A 86 1186 100 HOH HOH . 
H 4 HOH A 87 1187 38 HOH HOH . 
H 4 HOH A 88 1188 135 HOH HOH . 
H 4 HOH A 89 1189 123 HOH HOH . 
H 4 HOH A 90 1190 81 HOH HOH . 
H 4 HOH A 91 1191 71 HOH HOH . 
H 4 HOH A 92 1192 73 HOH HOH . 
H 4 HOH A 93 1193 5 HOH HOH . 
H 4 HOH A 94 1194 78 HOH HOH . 
H 4 HOH A 95 1195 141 HOH HOH . 
H 4 HOH A 96 1196 82 HOH HOH . 
H 4 HOH A 97 1197 117 HOH HOH . 
H 4 HOH A 98 1198 12 HOH HOH . 
H 4 HOH A 99 1199 93 HOH HOH . 
H 4 HOH A 100 1200 21 HOH HOH . 
H 4 HOH A 101 1201 26 HOH HOH . 
H 4 HOH A 102 1202 60 HOH HOH . 
H 4 HOH A 103 1203 118 HOH HOH . 
H 4 HOH A 104 1204 67 HOH HOH . 
H 4 HOH A 105 1205 133 HOH HOH . 
H 4 HOH A 106 1206 55 HOH HOH . 
H 4 HOH A 107 1207 94 HOH HOH . 
H 4 HOH A 108 1208 113 HOH HOH . 
H 4 HOH A 109 1209 143 HOH HOH . 
I 4 HOH B 1 701 92 HOH HOH . 
I 4 HOH B 2 702 102 HOH HOH . 
I 4 HOH B 3 703 95 HOH HOH . 
I 4 HOH B 4 704 108 HOH HOH . 
I 4 HOH B 5 705 23 HOH HOH . 
I 4 HOH B 6 706 137 HOH HOH . 
I 4 HOH B 7 707 14 HOH HOH . 
I 4 HOH B 8 708 36 HOH HOH . 
I 4 HOH B 9 709 47 HOH HOH . 
I 4 HOH B 10 710 29 HOH HOH . 
I 4 HOH B 11 711 134 HOH HOH . 
I 4 HOH B 12 712 77 HOH HOH . 
I 4 HOH B 13 713 39 HOH HOH . 
I 4 HOH B 14 714 62 HOH HOH . 
I 4 HOH B 15 715 66 HOH HOH . 
I 4 HOH B 16 716 56 HOH HOH . 
I 4 HOH B 17 717 48 HOH HOH . 
I 4 HOH B 18 718 124 HOH HOH . 
I 4 HOH B 19 719 90 HOH HOH . 
I 4 HOH B 20 720 91 HOH HOH . 
I 4 HOH B 21 721 76 HOH HOH . 
I 4 HOH B 22 722 63 HOH HOH . 
I 4 HOH B 23 723 44 HOH HOH . 
I 4 HOH B 24 724 31 HOH HOH . 
I 4 HOH B 25 725 99 HOH HOH . 
I 4 HOH B 26 726 4 HOH HOH . 
I 4 HOH B 27 727 127 HOH HOH . 
I 4 HOH B 28 728 41 HOH HOH . 
I 4 HOH B 29 729 1 HOH HOH . 
I 4 HOH B 30 730 129 HOH HOH . 
I 4 HOH B 31 731 3 HOH HOH . 
I 4 HOH B 32 732 6 HOH HOH . 
I 4 HOH B 33 733 45 HOH HOH . 
I 4 HOH B 34 734 2 HOH HOH . 
I 4 HOH B 35 735 120 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 . . . C 3 17.717 58.102 39.238 1 77.92 ? C1 NAG 1001 A 1 
HETATM 2 C C2 NAG . . . C 3 19.066 58.369 39.943 1 79.39 ? C2 NAG 1001 A 1 
HETATM 3 C C3 NAG . . . C 3 19.633 59.747 39.557 1 90.13 ? C3 NAG 1001 A 1 
HETATM 4 C C4 NAG . . . C 3 19.716 59.879 38.043 1 95.79 ? C4 NAG 1001 A 1 
HETATM 5 C C5 NAG . . . C 3 18.308 59.699 37.482 1 94.13 ? C5 NAG 1001 A 1 
HETATM 6 C C6 NAG . . . C 3 18.23 59.787 35.978 1 91.38 ? C6 NAG 1001 A 1 
HETATM 7 C C7 NAG . . . C 3 19.556 57.391 42.15 1 65.02 ? C7 NAG 1001 A 1 
HETATM 8 C C8 NAG . . . C 3 19.236 57.448 43.618 1 62.1 ? C8 NAG 1001 A 1 
HETATM 9 N N2 NAG . . . C 3 18.9 58.271 41.383 1 69.92 ? N2 NAG 1001 A 1 
HETATM 10 O O3 NAG . . . C 3 20.917 59.962 40.138 1 85.36 ? O3 NAG 1001 A 1 
HETATM 11 O O4 NAG . . . C 3 20.29 61.128 37.663 1 94.11 ? O4 NAG 1001 A 1 
HETATM 12 O O5 NAG . . . C 3 17.832 58.391 37.826 1 86.81 ? O5 NAG 1001 A 1 
HETATM 13 O O6 NAG . . . C 3 17.154 58.988 35.504 1 85.32 ? O6 NAG 1001 A 1 
HETATM 14 O O7 NAG . . . C 3 20.384 56.588 41.683 1 50.35 ? O7 NAG 1001 A 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    26 
_model_server_stats.query_time_ms           233 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           14 
#