data_2RD5
#
_model_server_result.job_id            12QaoSbhM_BQH3qxEtYJUQ 
_model_server_result.datetime_utc      '2024-12-21 15:57:21' 
_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          2rd5 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":2001}' 
#
_entry.id    2RD5 
#
_exptl.entry_id    2RD5 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              189.166 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-ACETYL-L-GLUTAMATE 
_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         90 
_cell.entry_id            2RD5 
_cell.length_a            171.133 
_cell.length_b            171.133 
_cell.length_c            171.133 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2RD5 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        198 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 3' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_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,L,M,N,O,P,Q,R,S 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3 
#
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' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 
3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 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 G N N 
? 5 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
metalc ? metalc1 J O1B ADP . B ADP 2000 1_555 H MG MG . B MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
metalc ? metalc2 J O2A ADP . B ADP 2000 1_555 H MG MG . B MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? 
metalc ? metalc3 C O GLY 49 C GLY 48 1_555 L MG MG . C MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? 
metalc ? metalc4 M O3G ATP . C ATP 1000 1_555 L MG MG . C MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? 
metalc ? metalc5 M O2A ATP . C ATP 1000 1_555 L MG MG . C MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? 
metalc ? metalc6 M O2B ATP . C ATP 1000 1_555 L MG MG . C MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc7 M O1A ATP . C ATP 1000 1_555 L MG MG . C MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? 
metalc ? metalc8 D O GLY 49 D GLY 48 1_555 N MG MG . D MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? 
metalc ? metalc9 O O3G ATP . D ATP 1000 1_555 N MG MG . D MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? 
metalc ? metalc10 O O2B ATP . D ATP 1000 1_555 N MG MG . D MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? 
metalc ? metalc11 O O2A ATP . D ATP 1000 1_555 N MG MG . D MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? 
metalc ? metalc12 O O1A ATP . D ATP 1000 1_555 N MG MG . D MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? 
#
_chem_comp.formula           'C7 H11 N O5' 
_chem_comp.formula_weight    189.166 
_chem_comp.id                NLG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-ACETYL-L-GLUTAMATE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
CA C NLG sing 330 n n 
CA CB NLG sing 331 n n 
CA N2 NLG sing 332 n n 
CA HA NLG sing 333 n n 
C OXT NLG sing 334 n n 
C O NLG doub 335 n n 
OXT HXT NLG sing 336 n n 
CB CG NLG sing 337 n n 
CB HBC1 NLG sing 338 n n 
CB HBC2 NLG sing 339 n n 
CG CD NLG sing 340 n n 
CG HGC1 NLG sing 341 n n 
CG HGC2 NLG sing 342 n n 
CD OE1 NLG doub 343 n n 
CD OE2 NLG sing 344 n n 
OE2 HE2 NLG sing 345 n n 
C7 C8 NLG sing 346 n n 
C7 O7 NLG doub 347 n n 
C7 N2 NLG sing 348 n n 
C8 H8C1 NLG sing 349 n n 
C8 H8C2 NLG sing 350 n n 
C8 H8C3 NLG sing 351 n n 
N2 H2 NLG sing 352 n n 
#
_atom_sites.entry_id                     2RD5 
_atom_sites.fract_transf_matrix[1][1]    0.005843 
_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]    0.005843 
_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]    0.005843 
_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 ARG A 1 1000 1000 ARG ARG . 
F 4 ADP A 1 2000 2000 ADP ADP . 
G 5 NLG A 1 2001 2001 NLG NLG . 
H 6 MG B 1 2002 2002 MG MG . 
I 3 ARG B 1 1000 1000 ARG ARG . 
J 4 ADP B 1 2000 2000 ADP ADP . 
K 5 NLG B 1 2001 2001 NLG NLG . 
L 6 MG C 1 1001 1001 MG MG . 
M 7 ATP C 1 1000 1000 ATP ATP . 
N 6 MG D 1 1001 1001 MG MG . 
O 7 ATP D 1 1000 1000 ATP ATP . 
P 8 HOH A 1 2002 10 HOH HOH . 
P 8 HOH A 2 2003 11 HOH HOH . 
P 8 HOH A 3 2004 12 HOH HOH . 
P 8 HOH A 4 2005 19 HOH HOH . 
P 8 HOH A 5 2006 20 HOH HOH . 
P 8 HOH A 6 2007 40 HOH HOH . 
P 8 HOH A 7 2008 41 HOH HOH . 
P 8 HOH A 8 2009 42 HOH HOH . 
P 8 HOH A 9 2010 43 HOH HOH . 
P 8 HOH A 10 2011 44 HOH HOH . 
P 8 HOH A 11 2012 45 HOH HOH . 
P 8 HOH A 12 2013 46 HOH HOH . 
P 8 HOH A 13 2014 47 HOH HOH . 
P 8 HOH A 14 2015 48 HOH HOH . 
P 8 HOH A 15 2016 49 HOH HOH . 
P 8 HOH A 16 2017 53 HOH HOH . 
P 8 HOH A 17 2018 54 HOH HOH . 
P 8 HOH A 18 2019 55 HOH HOH . 
P 8 HOH A 19 2020 56 HOH HOH . 
P 8 HOH A 20 2021 57 HOH HOH . 
P 8 HOH A 21 2022 58 HOH HOH . 
P 8 HOH A 22 2023 62 HOH HOH . 
P 8 HOH A 23 2024 63 HOH HOH . 
P 8 HOH A 24 2025 64 HOH HOH . 
Q 8 HOH B 1 2003 13 HOH HOH . 
Q 8 HOH B 2 2004 14 HOH HOH . 
Q 8 HOH B 3 2005 15 HOH HOH . 
Q 8 HOH B 4 2006 16 HOH HOH . 
Q 8 HOH B 5 2007 17 HOH HOH . 
Q 8 HOH B 6 2008 18 HOH HOH . 
Q 8 HOH B 7 2009 21 HOH HOH . 
Q 8 HOH B 8 2010 22 HOH HOH . 
Q 8 HOH B 9 2011 23 HOH HOH . 
Q 8 HOH B 10 2012 24 HOH HOH . 
Q 8 HOH B 11 2013 25 HOH HOH . 
Q 8 HOH B 12 2014 26 HOH HOH . 
Q 8 HOH B 13 2015 27 HOH HOH . 
Q 8 HOH B 14 2016 28 HOH HOH . 
Q 8 HOH B 15 2017 29 HOH HOH . 
Q 8 HOH B 16 2018 32 HOH HOH . 
Q 8 HOH B 17 2019 33 HOH HOH . 
Q 8 HOH B 18 2020 35 HOH HOH . 
Q 8 HOH B 19 2021 36 HOH HOH . 
Q 8 HOH B 20 2022 37 HOH HOH . 
Q 8 HOH B 21 2023 38 HOH HOH . 
Q 8 HOH B 22 2024 39 HOH HOH . 
Q 8 HOH B 23 2025 59 HOH HOH . 
Q 8 HOH B 24 2026 60 HOH HOH . 
Q 8 HOH B 25 2027 61 HOH HOH . 
R 8 HOH C 1 1002 2 HOH HOH . 
R 8 HOH C 2 1003 30 HOH HOH . 
R 8 HOH C 3 1004 31 HOH HOH . 
R 8 HOH C 4 1005 34 HOH HOH . 
S 8 HOH D 1 1002 1 HOH HOH . 
S 8 HOH D 2 1003 3 HOH HOH . 
S 8 HOH D 3 1004 4 HOH HOH . 
S 8 HOH D 4 1005 5 HOH HOH . 
S 8 HOH D 5 1006 6 HOH HOH . 
S 8 HOH D 6 1007 7 HOH HOH . 
S 8 HOH D 7 1008 8 HOH HOH . 
S 8 HOH D 8 1009 9 HOH HOH . 
S 8 HOH D 9 1010 50 HOH HOH . 
S 8 HOH D 10 1011 51 HOH HOH . 
S 8 HOH D 11 1012 52 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 CA NLG . . . G 5 91.484 37.811 49.366 1 58.98 ? CA NLG 2001 A 1 
HETATM 2 C C NLG . . . G 5 92.725 37.297 49.566 1 59.14 ? C NLG 2001 A 1 
HETATM 3 O OXT NLG . . . G 5 93.676 37.65 48.824 1 57.07 ? OXT NLG 2001 A 1 
HETATM 4 O O NLG . . . G 5 92.927 36.468 50.493 1 55.26 ? O NLG 2001 A 1 
HETATM 5 C CB NLG . . . G 5 91.209 39.248 49.793 1 61.24 ? CB NLG 2001 A 1 
HETATM 6 C CG NLG . . . G 5 92.004 40.284 49.01 1 61.69 ? CG NLG 2001 A 1 
HETATM 7 C CD NLG . . . G 5 91.24 40.842 47.828 1 64.46 ? CD NLG 2001 A 1 
HETATM 8 O OE1 NLG . . . G 5 90.048 40.516 47.614 1 62.19 ? OE1 NLG 2001 A 1 
HETATM 9 O OE2 NLG . . . G 5 91.862 41.638 47.093 1 71.57 ? OE2 NLG 2001 A 1 
HETATM 10 C C7 NLG . . . G 5 90.236 35.969 48.772 1 54.15 ? C7 NLG 2001 A 1 
HETATM 11 C C8 NLG . . . G 5 89.313 35.09 49.107 1 53.43 ? C8 NLG 2001 A 1 
HETATM 12 O O7 NLG . . . G 5 90.907 35.796 47.767 1 58.99 ? O7 NLG 2001 A 1 
HETATM 13 N N2 NLG . . . G 5 90.401 37.03 49.572 1 55.46 ? N2 NLG 2001 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    30 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           13 
#