data_4PGZ
#
_model_server_result.job_id            TMyc8L_uV-1x5lsNPwUfJA 
_model_server_result.datetime_utc      '2025-03-21 08:39:07' 
_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          4pgz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":601}' 
#
_entry.id    4PGZ 
#
_exptl.entry_id    4PGZ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          2 
_entity.src_method                  nat 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_entity.pdbx_number_of_molecules    3 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          117.46 
_cell.angle_gamma         90 
_cell.entry_id            4PGZ 
_cell.length_a            163.592 
_cell.length_b            63.548 
_cell.length_c            81.547 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4PGZ 
_symmetry.cell_setting             . 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
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,D,E,F,L 1 1,2 
B,C,G,H,I,J,K,M,N 2 1 
#
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_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -37.603707 0 72.359342 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 D N N 
? 2 G N N 
? 2 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 122 C CYS 428 1_555 A SG CYS 185 C CYS 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf2 B SG CYS 122 A CYS 428 1_555 B SG CYS 185 A CYS 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf3 B SG CYS 137 A CYS 443 1_555 B SG CYS 144 A CYS 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf4 C SG CYS 122 B CYS 428 1_555 C SG CYS 185 B CYS 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf5 C SG CYS 137 B CYS 443 1_555 C SG CYS 144 B CYS 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
covale ? covale1 A ND2 ASN 16 C ASN 320 1_555 D C1 NAG . C NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? 
covale ? covale2 B ND2 ASN 16 A ASN 320 1_555 G C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
covale ? covale3 C ND2 ASN 16 B ASN 320 1_555 K C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
metalc ? metalc1 A NE2 HIS 41 C HIS 345 1_555 H CO CO . A CO 602 1_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? 
metalc ? metalc2 A OE2 GLU 56 C GLU 360 1_555 E CO CO . C CO 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? 
metalc ? metalc3 A OE2 GLU 129 C GLU 435 1_555 F CO CO . C CO 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? 
metalc ? metalc4 E CO CO . C CO 602 1_555 L O HOH . C HOH 717 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? 
metalc ? metalc5 E CO CO . C CO 602 1_555 N O HOH . B HOH 703 3_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? 
metalc ? metalc6 F CO CO . C CO 603 1_555 L O HOH . C HOH 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? 
metalc ? metalc7 F CO CO . C CO 603 1_554 B NE2 HIS 41 A HIS 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? 
metalc ? metalc8 L O HOH . C HOH 708 1_554 H CO CO . A CO 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.57 ? 
metalc ? metalc9 L O HOH . C HOH 716 4_556 I CO CO . A CO 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? 
metalc ? metalc10 B OE2 GLU 56 A GLU 360 1_555 I CO CO . A CO 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? 
metalc ? metalc11 B OE1 GLU 72 A GLU 376 1_555 J CO CO . A CO 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.773 ? 
metalc ? metalc12 B OE1 GLU 129 A GLU 435 1_555 H CO CO . A CO 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? 
metalc ? metalc13 I CO CO . A CO 603 1_555 M O HOH . A HOH 712 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? 
#
_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                     4PGZ 
_atom_sites.fract_transf_matrix[1][1]    0.006113 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003177 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015736 
_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]    0.013821 
_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
D 2 NAG C 1 601 1 NAG NAG . 
E 3 CO C 1 602 2 CO CO . 
F 3 CO C 1 603 4 CO CO . 
G 2 NAG A 1 601 1 NAG NAG . 
H 3 CO A 1 602 1 CO CO . 
I 3 CO A 1 603 3 CO CO . 
J 3 CO A 1 604 5 CO CO . 
K 2 NAG B 1 601 1 NAG NAG . 
L 4 HOH C 1 701 53 HOH HOH . 
L 4 HOH C 2 702 62 HOH HOH . 
L 4 HOH C 3 703 34 HOH HOH . 
L 4 HOH C 4 704 8 HOH HOH . 
L 4 HOH C 5 705 67 HOH HOH . 
L 4 HOH C 6 706 37 HOH HOH . 
L 4 HOH C 7 707 35 HOH HOH . 
L 4 HOH C 8 708 66 HOH HOH . 
L 4 HOH C 9 709 58 HOH HOH . 
L 4 HOH C 10 710 1 HOH HOH . 
L 4 HOH C 11 711 68 HOH HOH . 
L 4 HOH C 12 712 20 HOH HOH . 
L 4 HOH C 13 713 7 HOH HOH . 
L 4 HOH C 14 714 10 HOH HOH . 
L 4 HOH C 15 715 51 HOH HOH . 
L 4 HOH C 16 716 50 HOH HOH . 
L 4 HOH C 17 717 19 HOH HOH . 
L 4 HOH C 18 718 42 HOH HOH . 
L 4 HOH C 19 719 65 HOH HOH . 
L 4 HOH C 20 720 15 HOH HOH . 
L 4 HOH C 21 721 55 HOH HOH . 
L 4 HOH C 22 722 77 HOH HOH . 
L 4 HOH C 23 723 4 HOH HOH . 
L 4 HOH C 24 724 9 HOH HOH . 
L 4 HOH C 25 725 11 HOH HOH . 
L 4 HOH C 26 726 12 HOH HOH . 
L 4 HOH C 27 727 16 HOH HOH . 
L 4 HOH C 28 728 17 HOH HOH . 
L 4 HOH C 29 729 24 HOH HOH . 
L 4 HOH C 30 730 25 HOH HOH . 
L 4 HOH C 31 731 26 HOH HOH . 
L 4 HOH C 32 732 28 HOH HOH . 
L 4 HOH C 33 733 30 HOH HOH . 
L 4 HOH C 34 734 49 HOH HOH . 
L 4 HOH C 35 735 52 HOH HOH . 
L 4 HOH C 36 736 54 HOH HOH . 
L 4 HOH C 37 737 61 HOH HOH . 
L 4 HOH C 38 738 69 HOH HOH . 
M 4 HOH A 1 701 59 HOH HOH . 
M 4 HOH A 2 702 2 HOH HOH . 
M 4 HOH A 3 703 43 HOH HOH . 
M 4 HOH A 4 704 18 HOH HOH . 
M 4 HOH A 5 705 79 HOH HOH . 
M 4 HOH A 6 706 57 HOH HOH . 
M 4 HOH A 7 707 38 HOH HOH . 
M 4 HOH A 8 708 5 HOH HOH . 
M 4 HOH A 9 709 3 HOH HOH . 
M 4 HOH A 10 710 63 HOH HOH . 
M 4 HOH A 11 711 73 HOH HOH . 
M 4 HOH A 12 712 56 HOH HOH . 
M 4 HOH A 13 713 76 HOH HOH . 
M 4 HOH A 14 714 75 HOH HOH . 
M 4 HOH A 15 715 6 HOH HOH . 
M 4 HOH A 16 716 13 HOH HOH . 
M 4 HOH A 17 717 22 HOH HOH . 
M 4 HOH A 18 718 23 HOH HOH . 
M 4 HOH A 19 719 27 HOH HOH . 
M 4 HOH A 20 720 31 HOH HOH . 
M 4 HOH A 21 721 32 HOH HOH . 
M 4 HOH A 22 722 39 HOH HOH . 
M 4 HOH A 23 723 40 HOH HOH . 
M 4 HOH A 24 724 41 HOH HOH . 
M 4 HOH A 25 725 46 HOH HOH . 
M 4 HOH A 26 726 64 HOH HOH . 
M 4 HOH A 27 727 70 HOH HOH . 
M 4 HOH A 28 728 71 HOH HOH . 
M 4 HOH A 29 729 74 HOH HOH . 
M 4 HOH A 30 730 78 HOH HOH . 
M 4 HOH A 31 731 81 HOH HOH . 
M 4 HOH A 32 732 82 HOH HOH . 
N 4 HOH B 1 701 29 HOH HOH . 
N 4 HOH B 2 702 48 HOH HOH . 
N 4 HOH B 3 703 45 HOH HOH . 
N 4 HOH B 4 704 72 HOH HOH . 
N 4 HOH B 5 705 36 HOH HOH . 
N 4 HOH B 6 706 21 HOH HOH . 
N 4 HOH B 7 707 14 HOH HOH . 
N 4 HOH B 8 708 33 HOH HOH . 
N 4 HOH B 9 709 44 HOH HOH . 
N 4 HOH B 10 710 47 HOH HOH . 
N 4 HOH B 11 711 60 HOH HOH . 
N 4 HOH B 12 712 80 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 . . . K 2 48.108 10.938 43.971 1 116.48 ? C1 NAG 601 B 1 
HETATM 2 C C2 NAG . . . K 2 47.61 12.012 43.012 1 123.31 ? C2 NAG 601 B 1 
HETATM 3 C C3 NAG . . . K 2 47.95 11.626 41.576 1 125.16 ? C3 NAG 601 B 1 
HETATM 4 C C4 NAG . . . K 2 49.439 11.323 41.444 1 125.39 ? C4 NAG 601 B 1 
HETATM 5 C C5 NAG . . . K 2 49.874 10.304 42.495 1 127.47 ? C5 NAG 601 B 1 
HETATM 6 C C6 NAG . . . K 2 51.368 10.071 42.508 1 129.33 ? C6 NAG 601 B 1 
HETATM 7 C C7 NAG . . . K 2 45.664 13.156 43.976 1 121.47 ? C7 NAG 601 B 1 
HETATM 8 C C8 NAG . . . K 2 44.168 13.246 44.004 1 119.91 ? C8 NAG 601 B 1 
HETATM 9 N N2 NAG . . . K 2 46.181 12.23 43.16 1 124.53 ? N2 NAG 601 B 1 
HETATM 10 O O3 NAG . . . K 2 47.59 12.688 40.7 1 124.45 ? O3 NAG 601 B 1 
HETATM 11 O O4 NAG . . . K 2 49.715 10.803 40.15 1 120.5 ? O4 NAG 601 B 1 
HETATM 12 O O5 NAG . . . K 2 49.516 10.764 43.807 1 123.26 ? O5 NAG 601 B 1 
HETATM 13 O O6 NAG . . . K 2 51.752 9.219 43.579 1 130.96 ? O6 NAG 601 B 1 
HETATM 14 O O7 NAG . . . K 2 46.372 13.886 44.662 1 117.18 ? O7 NAG 601 B 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           609 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#