data_3N6B # _model_server_result.job_id rVePhjyy0sWwSxs4uZoudQ _model_server_result.datetime_utc '2024-11-15 06:37:06' _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 3n6b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":800}' # _entry.id 3N6B # _exptl.entry_id 3N6B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.457 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "6,6'-(pyridine-3,5-diyldiethane-2,1-diyl)bis(4-methylpyridin-2-amine)" _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 3N6B _cell.length_a 57.764 _cell.length_b 106.549 _cell.length_c 157.823 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3N6B _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _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,I,J,K,L,M _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 ? 5 F N N ? 5 K 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 metalc ? metalc1 A SG CYS 58 A CYS 96 1_555 G ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc2 A SG CYS 63 A CYS 101 1_555 G ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc3 A SG CYS 148 A CYS 186 1_555 C FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc4 G ZN ZN . A ZN 900 1_555 B SG CYS 58 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc5 G ZN ZN . A ZN 900 1_555 B SG CYS 63 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? # _chem_comp.formula 'C21 H25 N5' _chem_comp.formula_weight 347.457 _chem_comp.id XFJ _chem_comp.mon_nstd_flag . _chem_comp.name "6,6'-(pyridine-3,5-diyldiethane-2,1-diyl)bis(4-methylpyridin-2-amine)" _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 N01 C06 XFJ doub 502 n y N01 C02 XFJ sing 503 n y N02 C02 XFJ sing 504 n n C02 C03 XFJ doub 505 n y N02 HN02 XFJ sing 506 n n N02 HN0A XFJ sing 507 n n C03 C04 XFJ sing 508 n y C03 H03 XFJ sing 509 n n C05 C04 XFJ doub 510 n y C04 C07 XFJ sing 511 n n C06 C05 XFJ sing 512 n y C05 H05 XFJ sing 513 n n C08 C06 XFJ sing 514 n n C07 H07 XFJ sing 515 n n C07 H07A XFJ sing 516 n n C07 H07B XFJ sing 517 n n C08 C09 XFJ sing 518 n n C08 H08 XFJ sing 519 n n C08 H08A XFJ sing 520 n n C13 C09 XFJ sing 521 n n C09 H09 XFJ sing 522 n n C09 H09A XFJ sing 523 n n C16 N11 XFJ doub 524 n y N11 C12 XFJ sing 525 n y C12 C13 XFJ doub 526 n y C12 H12 XFJ sing 527 n n C14 C13 XFJ sing 528 n y C15 C14 XFJ doub 529 n y C14 H14 XFJ sing 530 n n C17 C15 XFJ sing 531 n n C16 C15 XFJ sing 532 n y C16 H16 XFJ sing 533 n n C17 C18 XFJ sing 534 n n C17 H17 XFJ sing 535 n n C17 H17A XFJ sing 536 n n C26 C18 XFJ sing 537 n n C18 H18 XFJ sing 538 n n C18 H18A XFJ sing 539 n n C22 N21 XFJ doub 540 n y C26 N21 XFJ sing 541 n y C23 C22 XFJ sing 542 n y C22 N22 XFJ sing 543 n n N22 HN22 XFJ sing 544 n n N22 HN2A XFJ sing 545 n n C24 C23 XFJ doub 546 n y C23 H23 XFJ sing 547 n n C27 C24 XFJ sing 548 n n C24 C25 XFJ sing 549 n y C25 C26 XFJ doub 550 n y C25 H25 XFJ sing 551 n n C27 H27 XFJ sing 552 n n C27 H27A XFJ sing 553 n n C27 H27B XFJ sing 554 n n # _atom_sites.entry_id 3N6B _atom_sites.fract_transf_matrix[1][1] 0.017312 _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] 0.009385 _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] 0.006336 _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 HEM A 1 500 500 HEM HEM . D 3 H4B A 1 600 600 H4B H4B . E 4 CAD A 1 950 950 CAD CAD . F 5 XFJ A 1 800 800 XFJ XFJ . G 6 ZN A 1 900 900 ZN ZN . H 2 HEM B 1 500 500 HEM HEM . I 3 H4B B 1 600 600 H4B H4B . J 4 CAD B 1 950 950 CAD CAD . K 5 XFJ B 1 800 800 XFJ XFJ . L 7 HOH A 1 1001 1001 HOH HOH . L 7 HOH A 2 1002 1002 HOH HOH . L 7 HOH A 3 1003 1003 HOH HOH . L 7 HOH A 4 1004 1004 HOH HOH . L 7 HOH A 5 1005 1005 HOH HOH . M 7 HOH B 1 1006 1006 HOH HOH . M 7 HOH B 2 1007 1007 HOH HOH . M 7 HOH B 3 1008 1008 HOH HOH . M 7 HOH B 4 1009 1009 HOH HOH . M 7 HOH B 5 1010 1010 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 N01 XFJ . . . F 5 6.189 12.624 32.722 1 86.87 ? N01 XFJ 800 A 1 HETATM 2 C C02 XFJ . . . F 5 5.435 11.924 31.843 1 84.75 ? C02 XFJ 800 A 1 HETATM 3 N N02 XFJ . . . F 5 4.081 11.935 31.994 1 81.95 ? N02 XFJ 800 A 1 HETATM 4 C C03 XFJ . . . F 5 6.076 11.22 30.815 1 83.4 ? C03 XFJ 800 A 1 HETATM 5 C C04 XFJ . . . F 5 7.457 11.256 30.714 1 82.8 ? C04 XFJ 800 A 1 HETATM 6 C C05 XFJ . . . F 5 8.207 11.995 31.625 1 85.27 ? C05 XFJ 800 A 1 HETATM 7 C C06 XFJ . . . F 5 7.536 12.686 32.639 1 87.82 ? C06 XFJ 800 A 1 HETATM 8 C C07 XFJ . . . F 5 8.123 10.513 29.608 1 82.56 ? C07 XFJ 800 A 1 HETATM 9 C C08 XFJ . . . F 5 8.207 13.507 33.71 1 91.39 ? C08 XFJ 800 A 1 HETATM 10 C C09 XFJ . . . F 5 9.668 13.823 33.443 1 97.21 ? C09 XFJ 800 A 1 HETATM 11 N N11 XFJ . . . F 5 10.091 17.038 35.408 1 105.75 ? N11 XFJ 800 A 1 HETATM 12 C C12 XFJ . . . F 5 9.649 16.14 34.497 1 104.09 ? C12 XFJ 800 A 1 HETATM 13 C C13 XFJ . . . F 5 10.162 14.829 34.462 1 101.37 ? C13 XFJ 800 A 1 HETATM 14 C C14 XFJ . . . F 5 11.143 14.451 35.374 1 102.72 ? C14 XFJ 800 A 1 HETATM 15 C C15 XFJ . . . F 5 11.572 15.393 36.305 1 104.58 ? C15 XFJ 800 A 1 HETATM 16 C C16 XFJ . . . F 5 11.037 16.687 36.305 1 105.49 ? C16 XFJ 800 A 1 HETATM 17 C C17 XFJ . . . F 5 12.632 15.025 37.3 1 105.63 ? C17 XFJ 800 A 1 HETATM 18 C C18 XFJ . . . F 5 13.934 15.358 36.61 1 106.86 ? C18 XFJ 800 A 1 HETATM 19 N N21 XFJ . . . F 5 15.159 13.296 37.201 1 108.63 ? N21 XFJ 800 A 1 HETATM 20 C C22 XFJ . . . F 5 16.207 12.659 37.769 1 109.94 ? C22 XFJ 800 A 1 HETATM 21 N N22 XFJ . . . F 5 16.311 11.316 37.722 1 110.67 ? N22 XFJ 800 A 1 HETATM 22 C C23 XFJ . . . F 5 17.209 13.374 38.415 1 110.74 ? C23 XFJ 800 A 1 HETATM 23 C C24 XFJ . . . F 5 17.135 14.759 38.479 1 110.69 ? C24 XFJ 800 A 1 HETATM 24 C C25 XFJ . . . F 5 16.058 15.41 37.893 1 109.92 ? C25 XFJ 800 A 1 HETATM 25 C C26 XFJ . . . F 5 15.082 14.645 37.254 1 108.59 ? C26 XFJ 800 A 1 HETATM 26 C C27 XFJ . . . F 5 18.216 15.529 39.18 1 111.05 ? C27 XFJ 800 A 1 # _model_server_stats.io_time_ms 35 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 26 #