data_3ZEI
#
_model_server_result.job_id            fV4os7_QNOlkfOjB6cH-Rw 
_model_server_result.datetime_utc      '2024-11-21 19:05:48' 
_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          3zei 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":1301}' 
#
_entry.id    3ZEI 
#
_exptl.entry_id    3ZEI 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              247.142 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "PYRIDOXAL-5'-PHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_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            3ZEI 
_cell.length_a            71.82 
_cell.length_b            71.82 
_cell.length_c            179.63 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3ZEI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_struct_conn.conn_type_id                   covale 
_struct_conn.details                        ? 
_struct_conn.id                             covale1 
_struct_conn.ptnr1_label_asym_id            A 
_struct_conn.ptnr1_label_atom_id            NZ 
_struct_conn.ptnr1_label_comp_id            LYS 
_struct_conn.ptnr1_label_seq_id             44 
_struct_conn.ptnr1_auth_asym_id             A 
_struct_conn.ptnr1_auth_comp_id             LYS 
_struct_conn.ptnr1_auth_seq_id              44 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            B 
_struct_conn.ptnr2_label_atom_id            C4A 
_struct_conn.ptnr2_label_comp_id            PLP 
_struct_conn.ptnr2_label_seq_id             . 
_struct_conn.ptnr2_auth_asym_id             A 
_struct_conn.ptnr2_auth_comp_id             PLP 
_struct_conn.ptnr2_auth_seq_id              1301 
_struct_conn.ptnr2_symmetry                 1_555 
_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                1.577 
_struct_conn.pdbx_value_order               ? 
#
_chem_comp.formula           'C8 H10 N O6 P' 
_chem_comp.formula_weight    247.142 
_chem_comp.id                PLP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "PYRIDOXAL-5'-PHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'VITAMIN B6 Phosphate' 
#
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
N1 C2 PLP doub 328 n y 
N1 C6 PLP sing 329 n y 
C2 C2A PLP sing 330 n n 
C2 C3 PLP sing 331 n y 
C2A H2A1 PLP sing 332 n n 
C2A H2A2 PLP sing 333 n n 
C2A H2A3 PLP sing 334 n n 
C3 O3 PLP sing 335 n n 
C3 C4 PLP doub 336 n y 
O3 HO3 PLP sing 337 n n 
C4 C4A PLP sing 338 n n 
C4 C5 PLP sing 339 n y 
C4A O4A PLP doub 340 n n 
C4A H4A PLP sing 341 n n 
C5 C6 PLP doub 342 n y 
C5 C5A PLP sing 343 n n 
C6 H6 PLP sing 344 n n 
C5A O4P PLP sing 345 n n 
C5A H5A1 PLP sing 346 n n 
C5A H5A2 PLP sing 347 n n 
O4P P PLP sing 348 n n 
P O1P PLP doub 349 n n 
P O2P PLP sing 350 n n 
P O3P PLP sing 351 n n 
O2P HOP2 PLP sing 352 n n 
O3P HOP3 PLP sing 353 n n 
#
_atom_sites.entry_id                     3ZEI 
_atom_sites.fract_transf_matrix[1][1]    0.013924 
_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]    0.013924 
_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]    0.005567 
_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
B 2 PLP A 1 1301 1301 PLP PLP . 
C 3 AWH A 1 1302 1302 AWH AWH . 
D 4 MPD A 1 1303 1303 MPD MPD . 
E 4 MPD A 1 1304 1304 MPD MPD . 
F 5 HOH A 1 2001 2001 HOH HOH . 
F 5 HOH A 2 2002 2002 HOH HOH . 
F 5 HOH A 3 2003 2003 HOH HOH . 
F 5 HOH A 4 2004 2004 HOH HOH . 
F 5 HOH A 5 2005 2005 HOH HOH . 
F 5 HOH A 6 2006 2006 HOH HOH . 
F 5 HOH A 7 2007 2007 HOH HOH . 
F 5 HOH A 8 2008 2008 HOH HOH . 
F 5 HOH A 9 2009 2009 HOH HOH . 
F 5 HOH A 10 2010 2010 HOH HOH . 
F 5 HOH A 11 2011 2011 HOH HOH . 
F 5 HOH A 12 2012 2012 HOH HOH . 
F 5 HOH A 13 2013 2013 HOH HOH . 
F 5 HOH A 14 2014 2014 HOH HOH . 
F 5 HOH A 15 2015 2015 HOH HOH . 
F 5 HOH A 16 2016 2016 HOH HOH . 
F 5 HOH A 17 2017 2017 HOH HOH . 
F 5 HOH A 18 2018 2018 HOH HOH . 
F 5 HOH A 19 2019 2019 HOH HOH . 
F 5 HOH A 20 2020 2020 HOH HOH . 
F 5 HOH A 21 2021 2021 HOH HOH . 
F 5 HOH A 22 2022 2022 HOH HOH . 
F 5 HOH A 23 2023 2023 HOH HOH . 
F 5 HOH A 24 2024 2024 HOH HOH . 
F 5 HOH A 25 2025 2025 HOH HOH . 
F 5 HOH A 26 2026 2026 HOH HOH . 
F 5 HOH A 27 2027 2027 HOH HOH . 
F 5 HOH A 28 2028 2028 HOH HOH . 
F 5 HOH A 29 2029 2029 HOH HOH . 
F 5 HOH A 30 2030 2030 HOH HOH . 
F 5 HOH A 31 2031 2031 HOH HOH . 
F 5 HOH A 32 2032 2032 HOH HOH . 
F 5 HOH A 33 2033 2033 HOH HOH . 
F 5 HOH A 34 2034 2034 HOH HOH . 
F 5 HOH A 35 2035 2035 HOH HOH . 
F 5 HOH A 36 2036 2036 HOH HOH . 
F 5 HOH A 37 2037 2037 HOH HOH . 
F 5 HOH A 38 2038 2038 HOH HOH . 
F 5 HOH A 39 2039 2039 HOH HOH . 
F 5 HOH A 40 2040 2040 HOH HOH . 
F 5 HOH A 41 2041 2041 HOH HOH . 
F 5 HOH A 42 2042 2042 HOH HOH . 
F 5 HOH A 43 2043 2043 HOH HOH . 
F 5 HOH A 44 2044 2044 HOH HOH . 
F 5 HOH A 45 2045 2045 HOH HOH . 
F 5 HOH A 46 2046 2046 HOH HOH . 
F 5 HOH A 47 2047 2047 HOH HOH . 
F 5 HOH A 48 2048 2048 HOH HOH . 
F 5 HOH A 49 2049 2049 HOH HOH . 
F 5 HOH A 50 2050 2050 HOH HOH . 
F 5 HOH A 51 2051 2051 HOH HOH . 
F 5 HOH A 52 2052 2052 HOH HOH . 
F 5 HOH A 53 2053 2053 HOH HOH . 
F 5 HOH A 54 2054 2054 HOH HOH . 
F 5 HOH A 55 2055 2055 HOH HOH . 
F 5 HOH A 56 2056 2056 HOH HOH . 
F 5 HOH A 57 2057 2057 HOH HOH . 
F 5 HOH A 58 2058 2058 HOH HOH . 
F 5 HOH A 59 2059 2059 HOH HOH . 
F 5 HOH A 60 2060 2060 HOH HOH . 
F 5 HOH A 61 2061 2061 HOH HOH . 
F 5 HOH A 62 2062 2062 HOH HOH . 
F 5 HOH A 63 2063 2063 HOH HOH . 
F 5 HOH A 64 2064 2064 HOH HOH . 
F 5 HOH A 65 2065 2065 HOH HOH . 
F 5 HOH A 66 2066 2066 HOH HOH . 
F 5 HOH A 67 2067 2067 HOH HOH . 
F 5 HOH A 68 2068 2068 HOH HOH . 
F 5 HOH A 69 2069 2069 HOH HOH . 
F 5 HOH A 70 2070 2070 HOH HOH . 
F 5 HOH A 71 2071 2071 HOH HOH . 
F 5 HOH A 72 2072 2072 HOH HOH . 
F 5 HOH A 73 2073 2073 HOH HOH . 
F 5 HOH A 74 2074 2074 HOH HOH . 
F 5 HOH A 75 2075 2075 HOH HOH . 
F 5 HOH A 76 2076 2076 HOH HOH . 
F 5 HOH A 77 2077 2077 HOH HOH . 
F 5 HOH A 78 2078 2078 HOH HOH . 
F 5 HOH A 79 2079 2079 HOH HOH . 
F 5 HOH A 80 2080 2080 HOH HOH . 
F 5 HOH A 81 2081 2081 HOH HOH . 
F 5 HOH A 82 2082 2082 HOH HOH . 
F 5 HOH A 83 2083 2083 HOH HOH . 
F 5 HOH A 84 2084 2084 HOH HOH . 
F 5 HOH A 85 2085 2085 HOH HOH . 
F 5 HOH A 86 2086 2086 HOH HOH . 
F 5 HOH A 87 2087 2087 HOH HOH . 
F 5 HOH A 88 2088 2088 HOH HOH . 
F 5 HOH A 89 2089 2089 HOH HOH . 
F 5 HOH A 90 2090 2090 HOH HOH . 
F 5 HOH A 91 2091 2091 HOH HOH . 
F 5 HOH A 92 2092 2092 HOH HOH . 
F 5 HOH A 93 2093 2093 HOH HOH . 
F 5 HOH A 94 2094 2094 HOH HOH . 
F 5 HOH A 95 2095 2095 HOH HOH . 
F 5 HOH A 96 2096 2096 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 N1 PLP . . . B 2 -20.467 0.647 1.924 1 26.89 ? N1 PLP 1301 A 1 
HETATM 2 C C2 PLP . . . B 2 -19.562 0.391 0.963 1 29.06 ? C2 PLP 1301 A 1 
HETATM 3 C C2A PLP . . . B 2 -18.124 0.148 1.296 1 26.07 ? C2A PLP 1301 A 1 
HETATM 4 C C3 PLP . . . B 2 -20.02 0.346 -0.462 1 28.7 ? C3 PLP 1301 A 1 
HETATM 5 O O3 PLP . . . B 2 -19.139 0.074 -1.464 1 32.15 ? O3 PLP 1301 A 1 
HETATM 6 C C4 PLP . . . B 2 -21.45 0.591 -0.713 1 30.51 ? C4 PLP 1301 A 1 
HETATM 7 C C4A PLP . . . B 2 -21.957 0.598 -2.078 1 29.55 ? C4A PLP 1301 A 1 
HETATM 8 C C5 PLP . . . B 2 -22.367 0.85 0.428 1 30 ? C5 PLP 1301 A 1 
HETATM 9 C C6 PLP . . . B 2 -21.796 0.862 1.71 1 29.54 ? C6 PLP 1301 A 1 
HETATM 10 C C5A PLP . . . B 2 -23.831 1.141 0.233 1 29.95 ? C5A PLP 1301 A 1 
HETATM 11 O O4P PLP . . . B 2 -24.551 0.11 -0.499 1 28.47 ? O4P PLP 1301 A 1 
HETATM 12 P P PLP . . . B 2 -25.736 0.649 -1.465 1 28.67 ? P PLP 1301 A 1 
HETATM 13 O O1P PLP . . . B 2 -26.607 1.619 -0.691 1 27.15 ? O1P PLP 1301 A 1 
HETATM 14 O O2P PLP . . . B 2 -24.965 1.43 -2.55 1 31.29 ? O2P PLP 1301 A 1 
HETATM 15 O O3P PLP . . . B 2 -26.492 -0.63 -1.829 1 26.82 ? O3P PLP 1301 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           303 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           15 
#