data_4PL1
#
_model_server_result.job_id            Z_YjelUGZSbOYUEQ_T6NcQ 
_model_server_result.datetime_utc      '2024-11-05 00:11:55' 
_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          4pl1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":401}' 
#
_entry.id    4PL1 
#
_exptl.entry_id    4PL1 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              398.437 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            S-ADENOSYLMETHIONINE 
_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            4PL1 
_cell.length_a            55.627 
_cell.length_b            55.729 
_cell.length_c            254.032 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4PL1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D 1 1 
B,E,F 2 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 C ALA 338 B ALA 354 1_555 A N SMC 339 B SMC 355 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale2 A C SMC 339 B SMC 355 1_555 A N GLY 340 B GLY 356 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
metalc ? metalc1 A SG CYS 109 B CYS 125 1_555 D FE3 SF4 . B SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? 
metalc ? metalc2 A SG CYS 113 B CYS 129 1_555 D FE1 SF4 . B SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc3 A SG CYS 116 B CYS 132 1_555 D FE2 SF4 . B SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? 
metalc ? metalc4 C N SAM . B SAM 401 1_555 D FE4 SF4 . B SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? 
metalc ? metalc5 C OXT SAM . B SAM 401 1_555 D FE4 SF4 . B SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? 
metalc ? metalc6 B SG CYS 109 A CYS 125 1_555 F FE1 SF4 . A SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? 
metalc ? metalc7 B SG CYS 113 A CYS 129 1_555 F FE2 SF4 . A SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? 
metalc ? metalc8 B SG CYS 116 A CYS 132 1_555 F FE3 SF4 . A SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? 
metalc ? metalc9 E N SAM . A SAM 401 1_555 F FE4 SF4 . A SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? 
metalc ? metalc10 E OXT SAM . A SAM 401 1_555 F FE4 SF4 . A SF4 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? 
#
_chem_comp.formula           'C15 H22 N6 O5 S' 
_chem_comp.formula_weight    398.437 
_chem_comp.id                SAM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              S-ADENOSYLMETHIONINE 
_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
N CA SAM sing 275 n n 
N HN1 SAM sing 276 n n 
N HN2 SAM sing 277 n n 
CA C SAM sing 278 n n 
CA CB SAM sing 279 n n 
CA HA SAM sing 280 n n 
C O SAM doub 281 n n 
C OXT SAM sing 282 n n 
CB CG SAM sing 283 n n 
CB HB1 SAM sing 284 n n 
CB HB2 SAM sing 285 n n 
CG SD SAM sing 286 n n 
CG HG1 SAM sing 287 n n 
CG HG2 SAM sing 288 n n 
SD CE SAM sing 289 n n 
SD C5' SAM sing 290 n n 
CE HE1 SAM sing 291 n n 
CE HE2 SAM sing 292 n n 
CE HE3 SAM sing 293 n n 
C5' C4' SAM sing 294 n n 
C5' "H5'1" SAM sing 295 n n 
C5' "H5'2" SAM sing 296 n n 
C4' O4' SAM sing 297 n n 
C4' C3' SAM sing 298 n n 
C4' H4' SAM sing 299 n n 
O4' C1' SAM sing 300 n n 
C3' O3' SAM sing 301 n n 
C3' C2' SAM sing 302 n n 
C3' H3' SAM sing 303 n n 
O3' HO3' SAM sing 304 n n 
C2' O2' SAM sing 305 n n 
C2' C1' SAM sing 306 n n 
C2' H2' SAM sing 307 n n 
O2' HO2' SAM sing 308 n n 
C1' N9 SAM sing 309 n n 
C1' H1' SAM sing 310 n n 
N9 C8 SAM sing 311 n y 
N9 C4 SAM sing 312 n y 
C8 N7 SAM doub 313 n y 
C8 H8 SAM sing 314 n n 
N7 C5 SAM sing 315 n y 
C5 C6 SAM sing 316 n y 
C5 C4 SAM doub 317 n y 
C6 N6 SAM sing 318 n n 
C6 N1 SAM doub 319 n y 
N6 HN61 SAM sing 320 n n 
N6 HN62 SAM sing 321 n n 
N1 C2 SAM sing 322 n y 
C2 N3 SAM doub 323 n y 
C2 H2 SAM sing 324 n n 
N3 C4 SAM sing 325 n y 
#
_atom_sites.entry_id                     4PL1 
_atom_sites.fract_transf_matrix[1][1]    0.017977 
_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]    0.017944 
_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]    0.003937 
_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 SAM B 1 401 406 SAM SAM . 
D 3 SF4 B 1 402 2 SF4 SF4 . 
E 2 SAM A 1 401 406 SAM SAM . 
F 3 SF4 A 1 402 1 SF4 SF4 . 
#
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 SAM . . . C 2 -13.761 6.841 45.697 1 55.31 ? N SAM 401 B 1 
HETATM 2 C CA SAM . . . C 2 -13.874 6.137 47.01 1 55.59 ? CA SAM 401 B 1 
HETATM 3 C C SAM . . . C 2 -14.279 7.093 48.124 1 55.21 ? C SAM 401 B 1 
HETATM 4 O O SAM . . . C 2 -14.696 6.653 49.191 1 55.79 ? O SAM 401 B 1 
HETATM 5 O OXT SAM . . . C 2 -14.202 8.315 47.983 1 54.36 ? OXT SAM 401 B 1 
HETATM 6 C CB SAM . . . C 2 -12.604 5.368 47.403 1 55.35 ? CB SAM 401 B 1 
HETATM 7 C CG SAM . . . C 2 -11.26 6.099 47.432 1 55.57 ? CG SAM 401 B 1 
HETATM 8 S SD SAM . . . C 2 -11.159 7.545 48.514 1 56.31 ? SD SAM 401 B 1 
HETATM 9 C CE SAM . . . C 2 -9.4 7.939 48.37 1 56.43 ? CE SAM 401 B 1 
HETATM 10 C C5' SAM . . . C 2 -11.275 6.727 50.122 1 57.7 ? C5' SAM 401 B 1 
HETATM 11 C C4' SAM . . . C 2 -11.321 7.674 51.312 1 58.76 ? C4' SAM 401 B 1 
HETATM 12 O O4' SAM . . . C 2 -10.12 8.408 51.411 1 58.56 ? O4' SAM 401 B 1 
HETATM 13 C C3' SAM . . . C 2 -12.459 8.687 51.257 1 59.44 ? C3' SAM 401 B 1 
HETATM 14 O O3' SAM . . . C 2 -13.535 8.27 52.066 1 58.2 ? O3' SAM 401 B 1 
HETATM 15 C C2' SAM . . . C 2 -11.836 9.982 51.748 1 60.41 ? C2' SAM 401 B 1 
HETATM 16 O O2' SAM . . . C 2 -12.485 10.486 52.895 1 62.67 ? O2' SAM 401 B 1 
HETATM 17 C C1' SAM . . . C 2 -10.391 9.624 52.071 1 60.05 ? C1' SAM 401 B 1 
HETATM 18 N N9 SAM . . . C 2 -9.457 10.674 51.63 1 60.58 ? N9 SAM 401 B 1 
HETATM 19 C C8 SAM . . . C 2 -9.125 11.005 50.34 1 59.94 ? C8 SAM 401 B 1 
HETATM 20 N N7 SAM . . . C 2 -8.234 12.021 50.39 1 60.02 ? N7 SAM 401 B 1 
HETATM 21 C C5 SAM . . . C 2 -7.997 12.343 51.682 1 59.75 ? C5 SAM 401 B 1 
HETATM 22 C C6 SAM . . . C 2 -7.182 13.294 52.29 1 60.2 ? C6 SAM 401 B 1 
HETATM 23 N N6 SAM . . . C 2 -6.432 14.121 51.566 1 60.43 ? N6 SAM 401 B 1 
HETATM 24 N N1 SAM . . . C 2 -7.156 13.378 53.668 1 61.61 ? N1 SAM 401 B 1 
HETATM 25 C C2 SAM . . . C 2 -7.931 12.526 54.436 1 60.8 ? C2 SAM 401 B 1 
HETATM 26 N N3 SAM . . . C 2 -8.734 11.585 53.825 1 59.76 ? N3 SAM 401 B 1 
HETATM 27 C C4 SAM . . . C 2 -8.764 11.498 52.473 1 59.6 ? C4 SAM 401 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           291 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           27 
#