data_2PMS
#
_model_server_result.job_id            '_Kb4J8sy7j9G0ddMJg-fdg' 
_model_server_result.datetime_utc      '2025-02-05 15:52:34' 
_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          2pms 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":345}' 
#
_entry.id    2PMS 
#
_exptl.entry_id    2PMS 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          3 
_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         120 
_cell.entry_id            2PMS 
_cell.length_a            130.18 
_cell.length_b            130.18 
_cell.length_c            80.8 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2PMS 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        145 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? dimeric 2 author_defined_assembly 1 
? dimeric 2 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,C,E,F,G,H,I,J,Q,S,U 1 1 
B,D,K,L,M,N,O,P,R,T,V 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
? 3 E N N 
? 3 K 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 10 A CYS 10 1_555 A SG CYS 46 A CYS 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? 
disulf ? disulf2 A SG CYS 20 A CYS 20 1_555 A SG CYS 37 A CYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf3 A SG CYS 116 A CYS 116 1_555 A SG CYS 199 A CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? 
disulf ? disulf4 A SG CYS 158 A CYS 158 1_555 A SG CYS 174 A CYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
disulf ? disulf5 A SG CYS 171 A CYS 171 1_555 A SG CYS 182 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
disulf ? disulf6 A SG CYS 232 A CYS 232 1_555 A SG CYS 246 A CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
disulf ? disulf7 B SG CYS 10 B CYS 10 1_555 B SG CYS 46 B CYS 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
disulf ? disulf8 B SG CYS 20 B CYS 20 1_555 B SG CYS 37 B CYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf9 B SG CYS 116 B CYS 116 1_555 B SG CYS 199 B CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
disulf ? disulf10 B SG CYS 158 B CYS 158 1_555 B SG CYS 174 B CYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? 
disulf ? disulf11 B SG CYS 171 B CYS 171 1_555 B SG CYS 182 B CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? 
disulf ? disulf12 B SG CYS 232 B CYS 232 1_555 B SG CYS 246 B CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? 
covale ? covale1 A ND2 ASN 138 A ASN 138 1_555 E C1 NAG . A NAG 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? 
covale ? covale2 B ND2 ASN 138 B ASN 138 1_555 K C1 NAG . B NAG 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? 
metalc ? metalc1 A OD1 ASP 61 A ASP 61 1_555 G FE FE . A FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? 
metalc ? metalc2 A OH TYR 93 A TYR 93 1_555 G FE FE . A FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? 
metalc ? metalc3 A OH TYR 193 A TYR 193 1_555 G FE FE . A FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.879 ? 
metalc ? metalc4 A NE2 HIS 247 A HIS 247 1_555 R ZN ZN . D ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.9 ? 
metalc ? metalc5 A NE2 HIS 254 A HIS 254 1_555 G FE FE . A FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? 
metalc ? metalc6 F O1 CO3 . A CO3 346 1_555 G FE FE . A FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.805 ? 
metalc ? metalc7 F O2 CO3 . A CO3 346 1_555 G FE FE . A FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.651 ? 
metalc ? metalc8 B OD1 ASP 61 B ASP 61 1_555 M FE FE . B FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.929 ? 
metalc ? metalc9 B OH TYR 93 B TYR 93 1_555 M FE FE . B FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? 
metalc ? metalc10 B OH TYR 193 B TYR 193 1_555 M FE FE . B FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.83 ? 
metalc ? metalc11 B NE2 HIS 247 B HIS 247 1_554 Q ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? 
metalc ? metalc12 B NE2 HIS 254 B HIS 254 1_555 M FE FE . B FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? 
metalc ? metalc13 L O1 CO3 . B CO3 346 1_555 M FE FE . B FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.865 ? 
metalc ? metalc14 L O2 CO3 . B CO3 346 1_555 M FE FE . B FE 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? 
metalc ? metalc15 C NE2 HIS 3 C HIS 166 1_555 Q ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
metalc ? metalc16 C OD1 ASP 5 C ASP 168 1_555 Q ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? 
metalc ? metalc17 C OD2 ASP 5 C ASP 168 1_555 Q ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? 
metalc ? metalc18 C OE2 GLU 99 C GLU 262 3_565 R ZN ZN . D ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
metalc ? metalc19 Q ZN ZN . C ZN 502 1_555 D OE1 GLU 99 D GLU 262 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.755 ? 
metalc ? metalc20 Q ZN ZN . C ZN 502 1_555 D OE2 GLU 99 D GLU 262 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 1.914 ? 
metalc ? metalc21 D NE2 HIS 3 D HIS 166 1_555 R ZN ZN . D ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? 
metalc ? metalc22 D OD1 ASP 5 D ASP 168 1_555 R ZN ZN . D ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? 
metalc ? metalc23 D OD2 ASP 5 D ASP 168 1_555 R ZN ZN . D ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? 
#
_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 240 n n 
C1 O1 NAG sing 241 n n 
C1 O5 NAG sing 242 n n 
C1 H1 NAG sing 243 n n 
C2 C3 NAG sing 244 n n 
C2 N2 NAG sing 245 n n 
C2 H2 NAG sing 246 n n 
C3 C4 NAG sing 247 n n 
C3 O3 NAG sing 248 n n 
C3 H3 NAG sing 249 n n 
C4 C5 NAG sing 250 n n 
C4 O4 NAG sing 251 n n 
C4 H4 NAG sing 252 n n 
C5 C6 NAG sing 253 n n 
C5 O5 NAG sing 254 n n 
C5 H5 NAG sing 255 n n 
C6 O6 NAG sing 256 n n 
C6 H61 NAG sing 257 n n 
C6 H62 NAG sing 258 n n 
C7 C8 NAG sing 259 n n 
C7 N2 NAG sing 260 n n 
C7 O7 NAG doub 261 n n 
C8 H81 NAG sing 262 n n 
C8 H82 NAG sing 263 n n 
C8 H83 NAG sing 264 n n 
N2 HN2 NAG sing 265 n n 
O1 HO1 NAG sing 266 n n 
O3 HO3 NAG sing 267 n n 
O4 HO4 NAG sing 268 n n 
O6 HO6 NAG sing 269 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                     2PMS 
_atom_sites.fract_transf_matrix[1][1]    0.007682 
_atom_sites.fract_transf_matrix[1][2]    0.004435 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00887 
_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]    0.012376 
_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 3 NAG A 1 345 340 NAG NAG . 
F 4 CO3 A 1 346 339 CO3 CO3 . 
G 5 FE A 1 347 334 FE FE . 
H 6 SO4 A 1 348 335 SO4 SO4 . 
I 6 SO4 A 1 349 336 SO4 SO4 . 
J 6 SO4 A 1 350 337 SO4 SO4 . 
K 3 NAG B 1 345 340 NAG NAG . 
L 4 CO3 B 1 346 339 CO3 CO3 . 
M 5 FE B 1 347 334 FE FE . 
N 6 SO4 B 1 348 335 SO4 SO4 . 
O 6 SO4 B 1 349 336 SO4 SO4 . 
P 6 SO4 B 1 350 337 SO4 SO4 . 
Q 7 ZN C 1 502 502 ZN ZN . 
R 7 ZN D 1 501 501 ZN ZN . 
S 8 HOH A 1 406 406 HOH HOH . 
S 8 HOH A 2 407 407 HOH HOH . 
S 8 HOH A 3 410 410 HOH HOH . 
S 8 HOH A 4 414 414 HOH HOH . 
S 8 HOH A 5 416 416 HOH HOH . 
S 8 HOH A 6 417 417 HOH HOH . 
S 8 HOH A 7 418 418 HOH HOH . 
S 8 HOH A 8 421 421 HOH HOH . 
T 8 HOH B 1 405 405 HOH HOH . 
T 8 HOH B 2 408 408 HOH HOH . 
T 8 HOH B 3 409 409 HOH HOH . 
T 8 HOH B 4 413 413 HOH HOH . 
T 8 HOH B 5 415 415 HOH HOH . 
T 8 HOH B 6 419 419 HOH HOH . 
T 8 HOH B 7 422 422 HOH HOH . 
T 8 HOH B 8 423 423 HOH HOH . 
T 8 HOH B 9 424 424 HOH HOH . 
T 8 HOH B 10 425 425 HOH HOH . 
U 8 HOH C 1 402 402 HOH HOH . 
U 8 HOH C 2 404 404 HOH HOH . 
U 8 HOH C 3 412 412 HOH HOH . 
V 8 HOH D 1 401 401 HOH HOH . 
V 8 HOH D 2 403 403 HOH HOH . 
V 8 HOH D 3 411 411 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 . . . E 3 -17.884 14.452 52.179 1 57.28 ? C1 NAG 345 A 1 
HETATM 2 C C2 NAG . . . E 3 -18.191 13.91 50.766 1 59.32 ? C2 NAG 345 A 1 
HETATM 3 C C3 NAG . . . E 3 -19.669 14.047 50.319 1 59.59 ? C3 NAG 345 A 1 
HETATM 4 C C4 NAG . . . E 3 -20.676 13.735 51.429 1 59.62 ? C4 NAG 345 A 1 
HETATM 5 C C5 NAG . . . E 3 -20.241 14.405 52.743 1 59.97 ? C5 NAG 345 A 1 
HETATM 6 C C6 NAG . . . E 3 -21.163 14.002 53.892 1 60.98 ? C6 NAG 345 A 1 
HETATM 7 C C7 NAG . . . E 3 -16.372 13.949 49.107 1 62.13 ? C7 NAG 345 A 1 
HETATM 8 C C8 NAG . . . E 3 -15.06 14.662 48.921 1 62.27 ? C8 NAG 345 A 1 
HETATM 9 N N2 NAG . . . E 3 -17.312 14.583 49.821 1 60.62 ? N2 NAG 345 A 1 
HETATM 10 O O3 NAG . . . E 3 -19.991 13.222 49.211 1 59.06 ? O3 NAG 345 A 1 
HETATM 11 O O4 NAG . . . E 3 -21.98 14.121 51.017 1 58 ? O4 NAG 345 A 1 
HETATM 12 O O5 NAG . . . E 3 -18.9 14.054 53.092 1 58.86 ? O5 NAG 345 A 1 
HETATM 13 O O6 NAG . . . E 3 -20.842 12.693 54.322 1 61.44 ? O6 NAG 345 A 1 
HETATM 14 O O7 NAG . . . E 3 -16.536 12.836 48.597 1 62.59 ? O7 NAG 345 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           274 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           14 
#