data_3N6D
#
_model_server_result.job_id            IDSchCxLIjQyS-KmSmU4Lw 
_model_server_result.datetime_utc      '2024-11-13 15:33:47' 
_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          3n6d 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":800}' 
#
_entry.id    3N6D 
#
_exptl.entry_id    3N6D 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              361.483 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "6,6'-[(5-aminobenzene-1,3-diyl)diethane-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            3N6D 
_cell.length_a            57.224 
_cell.length_b            106.669 
_cell.length_c            156.785 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3N6D 
_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 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? 
metalc ? metalc2 A SG CYS 63 A CYS 101 1_555 G ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? 
metalc ? metalc3 A SG CYS 148 A CYS 186 1_555 C FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? 
metalc ? metalc4 G ZN ZN . A ZN 900 1_555 B SG CYS 58 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? 
#
_chem_comp.formula           'C22 H27 N5' 
_chem_comp.formula_weight    361.483 
_chem_comp.id                XFN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "6,6'-[(5-aminobenzene-1,3-diyl)diethane-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
C06 C01 XFN doub 502 n y 
C01 C02 XFN sing 503 n y 
C01 H01 XFN sing 504 n n 
C02 C03 XFN doub 505 n y 
C02 N02 XFN sing 506 n n 
N02 HN02 XFN sing 507 n n 
N02 HN0A XFN sing 508 n n 
C04 C03 XFN sing 509 n y 
C03 H03 XFN sing 510 n n 
C05 C04 XFN doub 511 n y 
C04 C07 XFN sing 512 n n 
C06 C05 XFN sing 513 n y 
C05 H05 XFN sing 514 n n 
C08 C06 XFN sing 515 n n 
C34 C07 XFN sing 516 n n 
C07 H07 XFN sing 517 n n 
C07 H07A XFN sing 518 n n 
C09 C08 XFN sing 519 n n 
C08 H08 XFN sing 520 n n 
C08 H08A XFN sing 521 n n 
C09 C13 XFN sing 522 n n 
C09 H09 XFN sing 523 n n 
C09 H09A XFN sing 524 n n 
N12 C11 XFN doub 525 n y 
N17 C11 XFN sing 526 n n 
C11 C16 XFN sing 527 n y 
N12 C13 XFN sing 528 n y 
C13 C14 XFN doub 529 n y 
C14 C15 XFN sing 530 n y 
C14 H14 XFN sing 531 n n 
C16 C15 XFN doub 532 n y 
C15 C18 XFN sing 533 n n 
C16 H16 XFN sing 534 n n 
N17 HN17 XFN sing 535 n n 
N17 HN1A XFN sing 536 n n 
C18 H18 XFN sing 537 n n 
C18 H18A XFN sing 538 n n 
C18 H18B XFN sing 539 n n 
C34 C35 XFN sing 540 n n 
C34 H34 XFN sing 541 n n 
C34 H34A XFN sing 542 n n 
N40 C35 XFN doub 543 n y 
C35 C36 XFN sing 544 n y 
C36 C37 XFN doub 545 n y 
C36 H36 XFN sing 546 n n 
C38 C37 XFN sing 547 n y 
C37 C42 XFN sing 548 n n 
C39 C38 XFN doub 549 n y 
C38 H38 XFN sing 550 n n 
N40 C39 XFN sing 551 n y 
N41 C39 XFN sing 552 n n 
N41 HN41 XFN sing 553 n n 
N41 HN4A XFN sing 554 n n 
C42 H42 XFN sing 555 n n 
C42 H42A XFN sing 556 n n 
C42 H42B XFN sing 557 n n 
#
_atom_sites.entry_id                     3N6D 
_atom_sites.fract_transf_matrix[1][1]    0.017475 
_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]    0.009375 
_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]    0.006378 
_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 XFN A 1 800 800 XFN XFN . 
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 XFN B 1 800 800 XFN XFN . 
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 . 
L 7 HOH A 6 1006 1006 HOH HOH . 
L 7 HOH A 7 1007 1007 HOH HOH . 
L 7 HOH A 8 1008 1008 HOH HOH . 
L 7 HOH A 9 1009 1009 HOH HOH . 
L 7 HOH A 10 1010 1010 HOH HOH . 
L 7 HOH A 11 1011 1011 HOH HOH . 
L 7 HOH A 12 1012 1012 HOH HOH . 
L 7 HOH A 13 1013 1013 HOH HOH . 
M 7 HOH B 1 1014 1014 HOH HOH . 
M 7 HOH B 2 1015 1015 HOH HOH . 
M 7 HOH B 3 1016 1016 HOH HOH . 
M 7 HOH B 4 1017 1017 HOH HOH . 
M 7 HOH B 5 1018 1018 HOH HOH . 
M 7 HOH B 6 1019 1019 HOH HOH . 
M 7 HOH B 7 1020 1020 HOH HOH . 
M 7 HOH B 8 1021 1021 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 C C01 XFN . . . F 5 13.543 15.985 35.517 1 86.75 ? C01 XFN 800 A 1 
HETATM 2 C C02 XFN . . . F 5 13.253 15.693 34.175 1 85.17 ? C02 XFN 800 A 1 
HETATM 3 N N02 XFN . . . F 5 13.978 16.239 33.154 1 83.99 ? N02 XFN 800 A 1 
HETATM 4 C C03 XFN . . . F 5 12.201 14.823 33.891 1 82.64 ? C03 XFN 800 A 1 
HETATM 5 C C04 XFN . . . F 5 11.431 14.241 34.896 1 80.53 ? C04 XFN 800 A 1 
HETATM 6 C C05 XFN . . . F 5 11.735 14.535 36.239 1 84.19 ? C05 XFN 800 A 1 
HETATM 7 C C06 XFN . . . F 5 12.803 15.404 36.559 1 88.03 ? C06 XFN 800 A 1 
HETATM 8 C C07 XFN . . . F 5 10.294 13.301 34.484 1 78.09 ? C07 XFN 800 A 1 
HETATM 9 C C08 XFN . . . F 5 13.149 15.771 38.005 1 92.07 ? C08 XFN 800 A 1 
HETATM 10 C C09 XFN . . . F 5 14.398 15.121 38.621 1 96.84 ? C09 XFN 800 A 1 
HETATM 11 C C11 XFN . . . F 5 17.547 15.825 36.687 1 104.44 ? C11 XFN 800 A 1 
HETATM 12 N N12 XFN . . . F 5 16.359 15.305 37.125 1 103.25 ? N12 XFN 800 A 1 
HETATM 13 C C13 XFN . . . F 5 15.715 15.78 38.233 1 101.01 ? C13 XFN 800 A 1 
HETATM 14 C C14 XFN . . . F 5 16.295 16.836 38.975 1 102.33 ? C14 XFN 800 A 1 
HETATM 15 C C15 XFN . . . F 5 17.525 17.392 38.546 1 103.66 ? C15 XFN 800 A 1 
HETATM 16 C C16 XFN . . . F 5 18.149 16.879 37.397 1 104.59 ? C16 XFN 800 A 1 
HETATM 17 N N17 XFN . . . F 5 18.133 15.32 35.564 1 104 ? N17 XFN 800 A 1 
HETATM 18 C C18 XFN . . . F 5 18.205 18.525 39.28 1 102.79 ? C18 XFN 800 A 1 
HETATM 19 C C34 XFN . . . F 5 9.149 13.96 33.649 1 72.46 ? C34 XFN 800 A 1 
HETATM 20 C C35 XFN . . . F 5 8.303 13.058 32.728 1 67.49 ? C35 XFN 800 A 1 
HETATM 21 C C36 XFN . . . F 5 8.853 12.265 31.703 1 64.56 ? C36 XFN 800 A 1 
HETATM 22 C C37 XFN . . . F 5 8.026 11.477 30.892 1 62.69 ? C37 XFN 800 A 1 
HETATM 23 C C38 XFN . . . F 5 6.654 11.468 31.084 1 62.94 ? C38 XFN 800 A 1 
HETATM 24 C C39 XFN . . . F 5 6.138 12.266 32.095 1 64.79 ? C39 XFN 800 A 1 
HETATM 25 N N40 XFN . . . F 5 6.953 13.033 32.878 1 65.93 ? N40 XFN 800 A 1 
HETATM 26 N N41 XFN . . . F 5 4.804 12.282 32.305 1 65.36 ? N41 XFN 800 A 1 
HETATM 27 C C42 XFN . . . F 5 8.602 10.633 29.807 1 60.41 ? C42 XFN 800 A 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          19 
_model_server_stats.element_count           27 
#