data_1CMA # _model_server_result.job_id g2vCSHIqPm-XEYVIqYJ9wA _model_server_result.datetime_utc '2024-11-16 05:05:18' _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 1cma # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":105}' # _entry.id 1CMA # _exptl.entry_id 1CMA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 4 _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 120 _cell.entry_id 1CMA _cell.length_a 121.35 _cell.length_b 121.35 _cell.length_c 84.81 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1CMA _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 62 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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' 4_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 60.675 105.092183 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 E N N ? 4 F 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 hydrog WATSON-CRICK hydrog1 A N3 DT 2 C DT 2 1_555 B N1 DA 9 D DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A O4 DT 2 C DT 2 1_555 B N6 DA 9 D DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A N1 DA 3 C DA 3 1_555 B N3 DT 8 D DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N6 DA 3 C DA 3 1_555 B O4 DT 8 D DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N1 DG 4 C DG 4 1_555 B N3 DC 7 D DC 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N2 DG 4 C DG 4 1_555 B O2 DC 7 D DC 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A O6 DG 4 C DG 4 1_555 B N4 DC 7 D DC 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N1 DA 5 C DA 5 1_555 B N3 DT 6 D DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N6 DA 5 C DA 5 1_555 B O4 DT 6 D DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N3 DC 6 C DC 6 1_555 B N1 DG 5 D DG 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N4 DC 6 C DC 6 1_555 B O6 DG 5 D DG 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O2 DC 6 C DC 6 1_555 B N2 DG 5 D DG 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DG 7 C DG 7 1_555 B N3 DC 4 D DC 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N2 DG 7 C DG 7 1_555 B O2 DC 4 D DC 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A O6 DG 7 C DG 7 1_555 B N4 DC 4 D DC 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N3 DT 8 C DT 8 1_555 B N1 DA 3 D DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A O4 DT 8 C DT 8 1_555 B N6 DA 3 D DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N3 DC 9 C DC 9 1_555 B N1 DG 2 D DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N4 DC 9 C DC 9 1_555 B O6 DG 2 D DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A O2 DC 9 C DC 9 1_555 B N2 DG 2 D DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N3 DT 10 C DT 10 1_555 B N1 DA 1 D DA 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A O4 DT 10 C DT 10 1_555 B N6 DA 1 D DA 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 426 n n N HN1 SAM sing 427 n n N HN2 SAM sing 428 n n CA C SAM sing 429 n n CA CB SAM sing 430 n n CA HA SAM sing 431 n n C O SAM doub 432 n n C OXT SAM sing 433 n n CB CG SAM sing 434 n n CB HB1 SAM sing 435 n n CB HB2 SAM sing 436 n n CG SD SAM sing 437 n n CG HG1 SAM sing 438 n n CG HG2 SAM sing 439 n n SD CE SAM sing 440 n n SD C5' SAM sing 441 n n CE HE1 SAM sing 442 n n CE HE2 SAM sing 443 n n CE HE3 SAM sing 444 n n C5' C4' SAM sing 445 n n C5' "H5'1" SAM sing 446 n n C5' "H5'2" SAM sing 447 n n C4' O4' SAM sing 448 n n C4' C3' SAM sing 449 n n C4' H4' SAM sing 450 n n O4' C1' SAM sing 451 n n C3' O3' SAM sing 452 n n C3' C2' SAM sing 453 n n C3' H3' SAM sing 454 n n O3' HO3' SAM sing 455 n n C2' O2' SAM sing 456 n n C2' C1' SAM sing 457 n n C2' H2' SAM sing 458 n n O2' HO2' SAM sing 459 n n C1' N9 SAM sing 460 n n C1' H1' SAM sing 461 n n N9 C8 SAM sing 462 n y N9 C4 SAM sing 463 n y C8 N7 SAM doub 464 n y C8 H8 SAM sing 465 n n N7 C5 SAM sing 466 n y C5 C6 SAM sing 467 n y C5 C4 SAM doub 468 n y C6 N6 SAM sing 469 n n C6 N1 SAM doub 470 n y N6 HN61 SAM sing 471 n n N6 HN62 SAM sing 472 n n N1 C2 SAM sing 473 n y C2 N3 SAM doub 474 n y C2 H2 SAM sing 475 n n N3 C4 SAM sing 476 n y # _atom_sites.entry_id 1CMA _atom_sites.fract_transf_matrix[1][1] 0.008241 _atom_sites.fract_transf_matrix[1][2] 0.004758 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009515 _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] 0.011791 _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 4 SAM A 1 105 105 SAM SAM . F 4 SAM B 1 105 105 SAM SAM . G 5 HOH C 1 11 4 HOH HOH . G 5 HOH C 2 12 5 HOH HOH . G 5 HOH C 3 13 12 HOH HOH . G 5 HOH C 4 14 13 HOH HOH . G 5 HOH C 5 15 14 HOH HOH . G 5 HOH C 6 16 15 HOH HOH . G 5 HOH C 7 17 16 HOH HOH . G 5 HOH C 8 18 32 HOH HOH . H 5 HOH D 1 6 6 HOH HOH . H 5 HOH D 2 9 9 HOH HOH . H 5 HOH D 3 30 30 HOH HOH . H 5 HOH D 4 33 33 HOH HOH . H 5 HOH D 5 34 34 HOH HOH . I 5 HOH A 1 106 1 HOH HOH . I 5 HOH A 2 107 2 HOH HOH . I 5 HOH A 3 108 8 HOH HOH . I 5 HOH A 4 109 10 HOH HOH . I 5 HOH A 5 110 11 HOH HOH . I 5 HOH A 6 111 17 HOH HOH . I 5 HOH A 7 112 19 HOH HOH . I 5 HOH A 8 113 20 HOH HOH . I 5 HOH A 9 114 21 HOH HOH . I 5 HOH A 10 115 22 HOH HOH . I 5 HOH A 11 116 23 HOH HOH . I 5 HOH A 12 117 27 HOH HOH . I 5 HOH A 13 118 35 HOH HOH . I 5 HOH A 14 119 36 HOH HOH . J 5 HOH B 1 106 3 HOH HOH . J 5 HOH B 2 107 7 HOH HOH . J 5 HOH B 3 108 18 HOH HOH . J 5 HOH B 4 109 24 HOH HOH . J 5 HOH B 5 110 25 HOH HOH . J 5 HOH B 6 111 26 HOH HOH . J 5 HOH B 7 112 28 HOH HOH . J 5 HOH B 8 113 29 HOH HOH . J 5 HOH B 9 114 31 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 SAM . . . F 4 34.778 83.958 -5.637 1 71.62 ? N SAM 105 B 1 HETATM 2 C CA SAM . . . F 4 34.256 85.306 -5.668 1 70.54 ? CA SAM 105 B 1 HETATM 3 C C SAM . . . F 4 33.708 85.612 -7.031 1 71.74 ? C SAM 105 B 1 HETATM 4 O O SAM . . . F 4 34.263 85.068 -8.025 1 68.88 ? O SAM 105 B 1 HETATM 5 O OXT SAM . . . F 4 32.691 86.333 -7.093 1 76.41 ? OXT SAM 105 B 1 HETATM 6 C CB SAM . . . F 4 35.352 86.361 -5.314 1 71.1 ? CB SAM 105 B 1 HETATM 7 C CG SAM . . . F 4 34.942 87.499 -4.349 1 73.15 ? CG SAM 105 B 1 HETATM 8 S SD SAM . . . F 4 33.206 87.566 -3.821 1 77.67 ? SD SAM 105 B 1 HETATM 9 C CE SAM . . . F 4 32.66 89.123 -4.51 1 79.73 ? CE SAM 105 B 1 HETATM 10 C C5' SAM . . . F 4 33.362 87.957 -2.039 1 79.08 ? C5' SAM 105 B 1 HETATM 11 C C4' SAM . . . F 4 32.171 88.728 -1.419 1 75.34 ? C4' SAM 105 B 1 HETATM 12 O O4' SAM . . . F 4 30.927 88.072 -1.709 1 69.24 ? O4' SAM 105 B 1 HETATM 13 C C3' SAM . . . F 4 32.206 88.851 0.123 1 75.34 ? C3' SAM 105 B 1 HETATM 14 O O3' SAM . . . F 4 32.432 90.187 0.512 1 79.09 ? O3' SAM 105 B 1 HETATM 15 C C2' SAM . . . F 4 30.825 88.373 0.615 1 68.84 ? C2' SAM 105 B 1 HETATM 16 O O2' SAM . . . F 4 30.25 89.318 1.545 1 67.25 ? O2' SAM 105 B 1 HETATM 17 C C1' SAM . . . F 4 30.006 88.319 -0.662 1 60.5 ? C1' SAM 105 B 1 HETATM 18 N N9 SAM . . . F 4 29.064 87.228 -0.718 1 43.52 ? N9 SAM 105 B 1 HETATM 19 C C8 SAM . . . F 4 27.785 87.259 -1.191 1 41.41 ? C8 SAM 105 B 1 HETATM 20 N N7 SAM . . . F 4 27.193 86.088 -1.163 1 38.96 ? N7 SAM 105 B 1 HETATM 21 C C5 SAM . . . F 4 28.159 85.245 -0.653 1 29.91 ? C5 SAM 105 B 1 HETATM 22 C C6 SAM . . . F 4 28.152 83.9 -0.391 1 27.48 ? C6 SAM 105 B 1 HETATM 23 N N6 SAM . . . F 4 27.086 83.123 -0.608 1 33.13 ? N6 SAM 105 B 1 HETATM 24 N N1 SAM . . . F 4 29.277 83.362 0.116 1 27.14 ? N1 SAM 105 B 1 HETATM 25 C C2 SAM . . . F 4 30.335 84.135 0.347 1 22.2 ? C2 SAM 105 B 1 HETATM 26 N N3 SAM . . . F 4 30.456 85.422 0.131 1 23.86 ? N3 SAM 105 B 1 HETATM 27 C C4 SAM . . . F 4 29.318 85.924 -0.378 1 31.39 ? C4 SAM 105 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 444 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #