data_2EFY
#
_model_server_result.job_id            SFgRWCDecioMJEYe98TQ9A 
_model_server_result.datetime_utc      '2024-12-27 00:40:29' 
_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          2efy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":913}' 
#
_entry.id    2EFY 
#
_exptl.entry_id    2EFY 
_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    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            2EFY 
_cell.length_a            100.76 
_cell.length_b            100.76 
_cell.length_c            65.22 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2EFY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        78 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43' 
#
_pdbx_struct_assembly.method_details        PISA,PQS 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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
? 2 C N N 
? 2 E 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
covale ? covale1 A NZ LYS 40 A LYS 40 1_555 C C4A PLP . A PLP 413 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale2 B NZ LYS 40 B LYS 40 1_555 E C4A PLP . B PLP 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? 
#
_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 278 n y 
N1 C6 PLP sing 279 n y 
C2 C2A PLP sing 280 n n 
C2 C3 PLP sing 281 n y 
C2A H2A1 PLP sing 282 n n 
C2A H2A2 PLP sing 283 n n 
C2A H2A3 PLP sing 284 n n 
C3 O3 PLP sing 285 n n 
C3 C4 PLP doub 286 n y 
O3 HO3 PLP sing 287 n n 
C4 C4A PLP sing 288 n n 
C4 C5 PLP sing 289 n y 
C4A O4A PLP doub 290 n n 
C4A H4A PLP sing 291 n n 
C5 C6 PLP doub 292 n y 
C5 C5A PLP sing 293 n n 
C6 H6 PLP sing 294 n n 
C5A O4P PLP sing 295 n n 
C5A H5A1 PLP sing 296 n n 
C5A H5A2 PLP sing 297 n n 
O4P P PLP sing 298 n n 
P O1P PLP doub 299 n n 
P O2P PLP sing 300 n n 
P O3P PLP sing 301 n n 
O2P HOP2 PLP sing 302 n n 
O3P HOP3 PLP sing 303 n n 
#
_atom_sites.entry_id                     2EFY 
_atom_sites.fract_transf_matrix[1][1]    0.009925 
_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]    0.009925 
_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]    0.015333 
_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
C 2 PLP A 1 413 413 PLP PLP . 
D 3 4AT A 1 414 414 4AT 4AB . 
E 2 PLP B 1 913 913 PLP PLP . 
F 3 4AT B 1 914 914 4AT 4AB . 
G 4 HOH A 1 415 1 HOH HOH . 
G 4 HOH A 2 416 3 HOH HOH . 
G 4 HOH A 3 417 4 HOH HOH . 
G 4 HOH A 4 418 5 HOH HOH . 
G 4 HOH A 5 419 6 HOH HOH . 
G 4 HOH A 6 420 7 HOH HOH . 
G 4 HOH A 7 421 8 HOH HOH . 
G 4 HOH A 8 422 9 HOH HOH . 
G 4 HOH A 9 423 10 HOH HOH . 
G 4 HOH A 10 424 12 HOH HOH . 
G 4 HOH A 11 425 14 HOH HOH . 
G 4 HOH A 12 426 16 HOH HOH . 
G 4 HOH A 13 427 18 HOH HOH . 
G 4 HOH A 14 428 19 HOH HOH . 
G 4 HOH A 15 429 21 HOH HOH . 
G 4 HOH A 16 430 24 HOH HOH . 
G 4 HOH A 17 431 27 HOH HOH . 
G 4 HOH A 18 432 29 HOH HOH . 
G 4 HOH A 19 433 33 HOH HOH . 
G 4 HOH A 20 434 36 HOH HOH . 
G 4 HOH A 21 435 37 HOH HOH . 
G 4 HOH A 22 436 41 HOH HOH . 
G 4 HOH A 23 437 42 HOH HOH . 
G 4 HOH A 24 438 45 HOH HOH . 
G 4 HOH A 25 439 46 HOH HOH . 
G 4 HOH A 26 440 47 HOH HOH . 
G 4 HOH A 27 441 52 HOH HOH . 
G 4 HOH A 28 442 58 HOH HOH . 
G 4 HOH A 29 443 59 HOH HOH . 
G 4 HOH A 30 444 61 HOH HOH . 
G 4 HOH A 31 445 62 HOH HOH . 
G 4 HOH A 32 446 63 HOH HOH . 
G 4 HOH A 33 447 64 HOH HOH . 
G 4 HOH A 34 448 65 HOH HOH . 
G 4 HOH A 35 449 67 HOH HOH . 
G 4 HOH A 36 450 74 HOH HOH . 
G 4 HOH A 37 451 75 HOH HOH . 
G 4 HOH A 38 452 76 HOH HOH . 
G 4 HOH A 39 453 77 HOH HOH . 
G 4 HOH A 40 454 78 HOH HOH . 
G 4 HOH A 41 455 79 HOH HOH . 
G 4 HOH A 42 456 80 HOH HOH . 
G 4 HOH A 43 457 81 HOH HOH . 
G 4 HOH A 44 458 82 HOH HOH . 
G 4 HOH A 45 459 83 HOH HOH . 
G 4 HOH A 46 460 84 HOH HOH . 
G 4 HOH A 47 461 87 HOH HOH . 
G 4 HOH A 48 462 88 HOH HOH . 
G 4 HOH A 49 463 90 HOH HOH . 
G 4 HOH A 50 464 91 HOH HOH . 
G 4 HOH A 51 465 92 HOH HOH . 
G 4 HOH A 52 466 94 HOH HOH . 
G 4 HOH A 53 467 98 HOH HOH . 
G 4 HOH A 54 468 100 HOH HOH . 
G 4 HOH A 55 469 101 HOH HOH . 
G 4 HOH A 56 470 102 HOH HOH . 
G 4 HOH A 57 471 103 HOH HOH . 
G 4 HOH A 58 472 104 HOH HOH . 
G 4 HOH A 59 473 105 HOH HOH . 
G 4 HOH A 60 474 107 HOH HOH . 
G 4 HOH A 61 475 108 HOH HOH . 
G 4 HOH A 62 476 114 HOH HOH . 
G 4 HOH A 63 477 115 HOH HOH . 
G 4 HOH A 64 478 118 HOH HOH . 
G 4 HOH A 65 479 120 HOH HOH . 
G 4 HOH A 66 480 121 HOH HOH . 
G 4 HOH A 67 481 124 HOH HOH . 
G 4 HOH A 68 482 129 HOH HOH . 
G 4 HOH A 69 483 130 HOH HOH . 
G 4 HOH A 70 484 133 HOH HOH . 
G 4 HOH A 71 485 137 HOH HOH . 
G 4 HOH A 72 486 140 HOH HOH . 
G 4 HOH A 73 487 141 HOH HOH . 
G 4 HOH A 74 488 143 HOH HOH . 
G 4 HOH A 75 489 146 HOH HOH . 
G 4 HOH A 76 490 149 HOH HOH . 
G 4 HOH A 77 491 150 HOH HOH . 
G 4 HOH A 78 492 153 HOH HOH . 
G 4 HOH A 79 493 156 HOH HOH . 
G 4 HOH A 80 494 159 HOH HOH . 
H 4 HOH B 1 915 2 HOH HOH . 
H 4 HOH B 2 916 11 HOH HOH . 
H 4 HOH B 3 917 13 HOH HOH . 
H 4 HOH B 4 918 15 HOH HOH . 
H 4 HOH B 5 919 17 HOH HOH . 
H 4 HOH B 6 920 20 HOH HOH . 
H 4 HOH B 7 921 22 HOH HOH . 
H 4 HOH B 8 922 23 HOH HOH . 
H 4 HOH B 9 923 25 HOH HOH . 
H 4 HOH B 10 924 26 HOH HOH . 
H 4 HOH B 11 925 28 HOH HOH . 
H 4 HOH B 12 926 30 HOH HOH . 
H 4 HOH B 13 927 31 HOH HOH . 
H 4 HOH B 14 928 32 HOH HOH . 
H 4 HOH B 15 929 34 HOH HOH . 
H 4 HOH B 16 930 35 HOH HOH . 
H 4 HOH B 17 931 38 HOH HOH . 
H 4 HOH B 18 932 39 HOH HOH . 
H 4 HOH B 19 933 40 HOH HOH . 
H 4 HOH B 20 934 43 HOH HOH . 
H 4 HOH B 21 935 44 HOH HOH . 
H 4 HOH B 22 936 48 HOH HOH . 
H 4 HOH B 23 937 49 HOH HOH . 
H 4 HOH B 24 938 50 HOH HOH . 
H 4 HOH B 25 939 51 HOH HOH . 
H 4 HOH B 26 940 53 HOH HOH . 
H 4 HOH B 27 941 54 HOH HOH . 
H 4 HOH B 28 942 55 HOH HOH . 
H 4 HOH B 29 943 56 HOH HOH . 
H 4 HOH B 30 944 57 HOH HOH . 
H 4 HOH B 31 945 60 HOH HOH . 
H 4 HOH B 32 946 66 HOH HOH . 
H 4 HOH B 33 947 68 HOH HOH . 
H 4 HOH B 34 948 69 HOH HOH . 
H 4 HOH B 35 949 70 HOH HOH . 
H 4 HOH B 36 950 71 HOH HOH . 
H 4 HOH B 37 951 72 HOH HOH . 
H 4 HOH B 38 952 73 HOH HOH . 
H 4 HOH B 39 953 85 HOH HOH . 
H 4 HOH B 40 954 86 HOH HOH . 
H 4 HOH B 41 955 89 HOH HOH . 
H 4 HOH B 42 956 93 HOH HOH . 
H 4 HOH B 43 957 95 HOH HOH . 
H 4 HOH B 44 958 96 HOH HOH . 
H 4 HOH B 45 959 97 HOH HOH . 
H 4 HOH B 46 960 99 HOH HOH . 
H 4 HOH B 47 961 106 HOH HOH . 
H 4 HOH B 48 962 109 HOH HOH . 
H 4 HOH B 49 963 110 HOH HOH . 
H 4 HOH B 50 964 111 HOH HOH . 
H 4 HOH B 51 965 112 HOH HOH . 
H 4 HOH B 52 966 113 HOH HOH . 
H 4 HOH B 53 967 116 HOH HOH . 
H 4 HOH B 54 968 117 HOH HOH . 
H 4 HOH B 55 969 119 HOH HOH . 
H 4 HOH B 56 970 122 HOH HOH . 
H 4 HOH B 57 971 123 HOH HOH . 
H 4 HOH B 58 972 125 HOH HOH . 
H 4 HOH B 59 973 126 HOH HOH . 
H 4 HOH B 60 974 127 HOH HOH . 
H 4 HOH B 61 975 128 HOH HOH . 
H 4 HOH B 62 976 131 HOH HOH . 
H 4 HOH B 63 977 132 HOH HOH . 
H 4 HOH B 64 978 134 HOH HOH . 
H 4 HOH B 65 979 135 HOH HOH . 
H 4 HOH B 66 980 136 HOH HOH . 
H 4 HOH B 67 981 138 HOH HOH . 
H 4 HOH B 68 982 139 HOH HOH . 
H 4 HOH B 69 983 142 HOH HOH . 
H 4 HOH B 70 984 144 HOH HOH . 
H 4 HOH B 71 985 145 HOH HOH . 
H 4 HOH B 72 986 147 HOH HOH . 
H 4 HOH B 73 987 148 HOH HOH . 
H 4 HOH B 74 988 151 HOH HOH . 
H 4 HOH B 75 989 152 HOH HOH . 
H 4 HOH B 76 990 154 HOH HOH . 
H 4 HOH B 77 991 155 HOH HOH . 
H 4 HOH B 78 992 157 HOH HOH . 
H 4 HOH B 79 993 158 HOH HOH . 
H 4 HOH B 80 994 160 HOH HOH . 
H 4 HOH B 81 995 161 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 . . . E 2 22.495 25.225 5.385 1 20.16 ? N1 PLP 913 B 1 
HETATM 2 C C2 PLP . . . E 2 22.697 26.463 5.934 1 22.05 ? C2 PLP 913 B 1 
HETATM 3 C C2A PLP . . . E 2 23.548 27.531 5.142 1 16.6 ? C2A PLP 913 B 1 
HETATM 4 C C3 PLP . . . E 2 22.157 26.748 7.175 1 20.65 ? C3 PLP 913 B 1 
HETATM 5 O O3 PLP . . . E 2 22.365 27.988 7.712 1 22.85 ? O3 PLP 913 B 1 
HETATM 6 C C4 PLP . . . E 2 21.41 25.782 7.867 1 22.1 ? C4 PLP 913 B 1 
HETATM 7 C C4A PLP . . . E 2 20.827 26.096 9.254 1 21.14 ? C4A PLP 913 B 1 
HETATM 8 C C5 PLP . . . E 2 21.216 24.517 7.282 1 23.42 ? C5 PLP 913 B 1 
HETATM 9 C C6 PLP . . . E 2 21.768 24.271 6.043 1 23.8 ? C6 PLP 913 B 1 
HETATM 10 C C5A PLP . . . E 2 20.41 23.34 7.949 1 25.92 ? C5A PLP 913 B 1 
HETATM 11 O O4P PLP . . . E 2 19.024 23.552 8.459 1 27.24 ? O4P PLP 913 B 1 
HETATM 12 P P PLP . . . E 2 18.608 23.014 9.947 1 26.85 ? P PLP 913 B 1 
HETATM 13 O O1P PLP . . . E 2 19.47 23.66 10.955 1 23.1 ? O1P PLP 913 B 1 
HETATM 14 O O2P PLP . . . E 2 17.128 23.621 10.001 1 28.22 ? O2P PLP 913 B 1 
HETATM 15 O O3P PLP . . . E 2 18.496 21.54 9.895 1 26.17 ? O3P PLP 913 B 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           5 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           261 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           15 
#