data_1Y2X
#
_model_server_result.job_id            XWaL7n_JFiagmixrPaA0nQ 
_model_server_result.datetime_utc      '2025-02-27 01:10:00' 
_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          1y2x 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"P","auth_seq_id":147}' 
#
_entry.id    1Y2X 
#
_exptl.entry_id    1Y2X 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              105.093 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            SERINE 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            1Y2X 
_cell.length_a            85.675 
_cell.length_b            85.675 
_cell.length_c            257.073 
_cell.Z_PDB               32 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1Y2X 
_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    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,T 
_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
? 4 J N N 
? 4 L N N 
? 4 N N N 
? 4 P N N 
#
_pdbx_entity_branch.entity_id    2 
_pdbx_entity_branch.type         oligosaccharide 
#
_pdbx_entity_branch_link.link_id                     1 
_pdbx_entity_branch_link.details                     ? 
_pdbx_entity_branch_link.entity_id                   2 
_pdbx_entity_branch_link.entity_branch_list_num_1    2 
_pdbx_entity_branch_link.entity_branch_list_num_2    1 
_pdbx_entity_branch_link.comp_id_1                   GAL 
_pdbx_entity_branch_link.comp_id_2                   NGA 
_pdbx_entity_branch_link.atom_id_1                   C1 
_pdbx_entity_branch_link.leaving_atom_id_1           O1 
_pdbx_entity_branch_link.atom_stereo_config_1        . 
_pdbx_entity_branch_link.atom_id_2                   O3 
_pdbx_entity_branch_link.leaving_atom_id_2           HO3 
_pdbx_entity_branch_link.atom_stereo_config_2        . 
_pdbx_entity_branch_link.value_order                 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 E NGA 1 E 1 NGA A 145 NGA 
2 n E GAL 2 E 2 GAL A 146 GAL 
2 n F NGA 1 F 1 NGA B 145 NGA 
2 n F GAL 2 F 2 GAL B 146 GAL 
2 n G NGA 1 G 1 NGA C 145 NGA 
2 n G GAL 2 G 2 GAL C 146 GAL 
2 n H NGA 1 H 1 NGA D 145 NGA 
2 n H GAL 2 H 2 GAL D 146 GAL 
#
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
covale ? covale1 J OG SER . A SER 147 1_555 E C1 NGA . E NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.354 ? 
covale ? covale2 J OG SER . A SER 147 1_555 E O5 NGA . E NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? 
covale ? covale3 L OG SER . B SER 147 1_555 F C1 NGA . F NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? 
covale ? covale4 L OG SER . B SER 147 1_555 F O5 NGA . F NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
covale ? covale5 N OG SER . C SER 147 1_555 G C1 NGA . G NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? 
covale ? covale6 N OG SER . C SER 147 1_555 G O5 NGA . G NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.812 ? 
covale ? covale7 P OG SER . D SER 147 1_555 H C1 NGA . H NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? 
covale ? covale8 P OG SER . D SER 147 1_555 H O5 NGA . H NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? 
covale ? covale9 E O3 NGA . E NGA 1 1_555 E C1 GAL . E GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale10 F O3 NGA . F NGA 1 1_555 F C1 GAL . F GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale11 G O3 NGA . G NGA 1 1_555 G C1 GAL . G GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
covale ? covale12 H O3 NGA . H NGA 1 1_555 H C1 GAL . H GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? 
#
_chem_comp.formula           'C3 H7 N O3' 
_chem_comp.formula_weight    105.093 
_chem_comp.id                SER 
_chem_comp.mon_nstd_flag     y 
_chem_comp.name              SERINE 
_chem_comp.type              'l-peptide linking' 
_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
N CA SER sing 361 n n 
N H SER sing 362 n n 
N H2 SER sing 363 n n 
CA C SER sing 364 n n 
CA CB SER sing 365 n n 
CA HA SER sing 366 n n 
C O SER doub 367 n n 
C OXT SER sing 368 n n 
CB OG SER sing 369 n n 
CB HB2 SER sing 370 n n 
CB HB3 SER sing 371 n n 
OG HG SER sing 372 n n 
OXT HXT SER sing 373 n n 
#
_atom_sites.entry_id                     1Y2X 
_atom_sites.fract_transf_matrix[1][1]    0.011672 
_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]    0.011672 
_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]    0.00389 
_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
I 3 NAG A 1 144 144 NAG NAG . 
J 4 SER A 1 147 147 SER SER . 
K 3 NAG B 1 1144 144 NAG NAG . 
L 4 SER B 1 147 147 SER SER . 
M 3 NAG C 1 2144 144 NAG NAG . 
N 4 SER C 1 147 147 SER SER . 
O 3 NAG D 1 3144 144 NAG NAG . 
P 4 SER D 1 147 147 SER SER . 
Q 5 HOH A 1 148 2 HOH HOH . 
Q 5 HOH A 2 149 5 HOH HOH . 
Q 5 HOH A 3 150 8 HOH HOH . 
Q 5 HOH A 4 151 9 HOH HOH . 
Q 5 HOH A 5 152 10 HOH HOH . 
Q 5 HOH A 6 153 12 HOH HOH . 
Q 5 HOH A 7 154 18 HOH HOH . 
Q 5 HOH A 8 155 28 HOH HOH . 
Q 5 HOH A 9 156 34 HOH HOH . 
Q 5 HOH A 10 157 36 HOH HOH . 
Q 5 HOH A 11 158 38 HOH HOH . 
Q 5 HOH A 12 159 41 HOH HOH . 
Q 5 HOH A 13 160 46 HOH HOH . 
Q 5 HOH A 14 161 51 HOH HOH . 
Q 5 HOH A 15 162 54 HOH HOH . 
Q 5 HOH A 16 163 55 HOH HOH . 
Q 5 HOH A 17 164 59 HOH HOH . 
R 5 HOH B 1 1145 4 HOH HOH . 
R 5 HOH B 2 1146 15 HOH HOH . 
R 5 HOH B 3 1147 16 HOH HOH . 
R 5 HOH B 4 1148 17 HOH HOH . 
R 5 HOH B 5 1149 21 HOH HOH . 
R 5 HOH B 6 1150 23 HOH HOH . 
R 5 HOH B 7 1151 26 HOH HOH . 
R 5 HOH B 8 1152 27 HOH HOH . 
R 5 HOH B 9 1153 30 HOH HOH . 
R 5 HOH B 10 1154 39 HOH HOH . 
R 5 HOH B 11 1155 40 HOH HOH . 
R 5 HOH B 12 1156 43 HOH HOH . 
R 5 HOH B 13 1157 44 HOH HOH . 
R 5 HOH B 14 1158 57 HOH HOH . 
R 5 HOH B 15 1159 58 HOH HOH . 
R 5 HOH B 16 1160 60 HOH HOH . 
S 5 HOH C 1 2145 7 HOH HOH . 
S 5 HOH C 2 2146 11 HOH HOH . 
S 5 HOH C 3 2147 14 HOH HOH . 
S 5 HOH C 4 2148 24 HOH HOH . 
S 5 HOH C 5 2149 25 HOH HOH . 
S 5 HOH C 6 2150 29 HOH HOH . 
S 5 HOH C 7 2151 32 HOH HOH . 
S 5 HOH C 8 2152 35 HOH HOH . 
S 5 HOH C 9 2153 45 HOH HOH . 
S 5 HOH C 10 2154 50 HOH HOH . 
S 5 HOH C 11 2155 62 HOH HOH . 
T 5 HOH D 1 3145 1 HOH HOH . 
T 5 HOH D 2 3146 3 HOH HOH . 
T 5 HOH D 3 3147 6 HOH HOH . 
T 5 HOH D 4 3148 13 HOH HOH . 
T 5 HOH D 5 3149 19 HOH HOH . 
T 5 HOH D 6 3150 20 HOH HOH . 
T 5 HOH D 7 3151 22 HOH HOH . 
T 5 HOH D 8 3152 31 HOH HOH . 
T 5 HOH D 9 3153 33 HOH HOH . 
T 5 HOH D 10 3154 37 HOH HOH . 
T 5 HOH D 11 3155 42 HOH HOH . 
T 5 HOH D 12 3156 47 HOH HOH . 
T 5 HOH D 13 3157 48 HOH HOH . 
T 5 HOH D 14 3158 49 HOH HOH . 
T 5 HOH D 15 3159 52 HOH HOH . 
T 5 HOH D 16 3160 53 HOH HOH . 
T 5 HOH D 17 3161 56 HOH HOH . 
T 5 HOH D 18 3162 61 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 N N SER . . . P 4 43.062 -19.102 -26.102 1 45.25 ? N SER 147 D 1 
HETATM 2 C CA SER . . . P 4 44.434 -19.698 -25.989 1 45.25 ? CA SER 147 D 1 
HETATM 3 C C SER . . . P 4 44.435 -20.939 -25.105 1 45.72 ? C SER 147 D 1 
HETATM 4 O O SER . . . P 4 43.363 -21.475 -24.793 1 45.66 ? O SER 147 D 1 
HETATM 5 C CB SER . . . P 4 45.447 -18.675 -25.45 1 45.09 ? CB SER 147 D 1 
HETATM 6 O OG SER . . . P 4 45.336 -18.508 -24.036 1 42.66 ? OG SER 147 D 1 
HETATM 7 O OXT SER . . . P 4 45.52 -21.382 -24.706 1 45.9 ? OXT SER 147 D 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           7 
#