data_4UM1
#
_model_server_result.job_id            IvbipdWvS-XXdY3hqPUTmg 
_model_server_result.datetime_utc      '2025-02-05 11:55:04' 
_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          4um1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":211}' 
#
_entry.id    4UM1 
#
_exptl.entry_id    4UM1 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.299 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-(5-ethoxypyridin-3-yl)-1,4-diazepane 
_entity.pdbx_number_of_molecules    5 
_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            4UM1 
_cell.length_a            77.328 
_cell.length_b            123.104 
_cell.length_c            127.45 
_cell.Z_PDB               20 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4UM1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    pentameric 
_pdbx_struct_assembly.oligomeric_count      5 
_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,N,O,P 
_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 F N N 
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 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
disulf ? disulf1 A SG CYS 142 A CYS 123 1_555 A SG CYS 155 A CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf2 A SG CYS 206 A CYS 187 1_555 A SG CYS 207 A CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
disulf ? disulf3 B SG CYS 142 B CYS 123 1_555 B SG CYS 155 B CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf4 B SG CYS 206 B CYS 187 1_555 B SG CYS 207 B CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? 
disulf ? disulf5 C SG CYS 142 C CYS 123 1_555 C SG CYS 155 C CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf6 C SG CYS 206 C CYS 187 1_555 C SG CYS 207 C CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
disulf ? disulf7 D SG CYS 142 D CYS 123 1_555 D SG CYS 155 D CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf8 D SG CYS 206 D CYS 187 1_555 D SG CYS 207 D CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
disulf ? disulf9 E SG CYS 142 E CYS 123 1_555 E SG CYS 155 E CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf10 E SG CYS 206 E CYS 187 1_555 E SG CYS 207 E CYS 188 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.042 ? 
covale ? covale1 D ND2 ASN 85 D ASN 66 1_555 J C1 NAG . D NAG 1206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? 
#
_chem_comp.formula           'C12 H19 N3 O' 
_chem_comp.formula_weight    221.299 
_chem_comp.id                09P 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-(5-ethoxypyridin-3-yl)-1,4-diazepane 
_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
C2 C3 09P sing 1 n n 
C2 N1 09P sing 2 n n 
C3 C4 09P sing 3 n n 
N1 C1 09P sing 4 n n 
C4 N2 09P sing 5 n n 
C1 C5 09P sing 6 n n 
C11 C12 09P sing 7 n n 
C11 O1 09P sing 8 n n 
N2 C5 09P sing 9 n n 
N2 C9 09P sing 10 n n 
C8 C9 09P doub 11 n y 
C8 C7 09P sing 12 n y 
O1 C7 09P sing 13 n n 
C9 C10 09P sing 14 n y 
C7 C6 09P doub 15 n y 
C10 N3 09P doub 16 n y 
C6 N3 09P sing 17 n y 
C1 H1 09P sing 18 n n 
C1 H2 09P sing 19 n n 
N1 H3 09P sing 20 n n 
C2 H5 09P sing 21 n n 
C2 H6 09P sing 22 n n 
C3 H7 09P sing 23 n n 
C3 H8 09P sing 24 n n 
C4 H9 09P sing 25 n n 
C4 H10 09P sing 26 n n 
C5 H11 09P sing 27 n n 
C5 H12 09P sing 28 n n 
C6 H13 09P sing 29 n n 
C8 H14 09P sing 30 n n 
C10 H15 09P sing 31 n n 
C11 H16 09P sing 32 n n 
C11 H17 09P sing 33 n n 
C12 H18 09P sing 34 n n 
C12 H19 09P sing 35 n n 
C12 H20 09P sing 36 n n 
#
_atom_sites.entry_id                     4UM1 
_atom_sites.fract_transf_matrix[1][1]    0.012932 
_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]    0.008123 
_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]    0.007846 
_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
F 2 09P A 1 211 211 09P 09P . 
G 2 09P B 1 211 211 09P 09P . 
H 2 09P C 1 211 211 09P 09P . 
I 2 09P D 1 211 211 09P 09P . 
J 3 NAG D 1 1206 1206 NAG NAG . 
K 2 09P E 1 211 211 09P 09P . 
L 4 HOH A 1 2001 2001 HOH HOH . 
L 4 HOH A 2 2002 2002 HOH HOH . 
L 4 HOH A 3 2003 2003 HOH HOH . 
L 4 HOH A 4 2004 2004 HOH HOH . 
L 4 HOH A 5 2005 2005 HOH HOH . 
L 4 HOH A 6 2006 2006 HOH HOH . 
L 4 HOH A 7 2007 2007 HOH HOH . 
L 4 HOH A 8 2008 2008 HOH HOH . 
L 4 HOH A 9 2009 2009 HOH HOH . 
L 4 HOH A 10 2010 2010 HOH HOH . 
L 4 HOH A 11 2011 2011 HOH HOH . 
L 4 HOH A 12 2012 2012 HOH HOH . 
L 4 HOH A 13 2013 2013 HOH HOH . 
L 4 HOH A 14 2014 2014 HOH HOH . 
L 4 HOH A 15 2015 2015 HOH HOH . 
L 4 HOH A 16 2016 2016 HOH HOH . 
L 4 HOH A 17 2017 2017 HOH HOH . 
L 4 HOH A 18 2018 2018 HOH HOH . 
L 4 HOH A 19 2019 2019 HOH HOH . 
L 4 HOH A 20 2020 2020 HOH HOH . 
L 4 HOH A 21 2021 2021 HOH HOH . 
L 4 HOH A 22 2022 2022 HOH HOH . 
L 4 HOH A 23 2023 2023 HOH HOH . 
L 4 HOH A 24 2024 2024 HOH HOH . 
L 4 HOH A 25 2025 2025 HOH HOH . 
L 4 HOH A 26 2026 2026 HOH HOH . 
L 4 HOH A 27 2027 2027 HOH HOH . 
M 4 HOH B 1 2001 2001 HOH HOH . 
M 4 HOH B 2 2002 2002 HOH HOH . 
M 4 HOH B 3 2003 2003 HOH HOH . 
M 4 HOH B 4 2004 2004 HOH HOH . 
M 4 HOH B 5 2005 2005 HOH HOH . 
M 4 HOH B 6 2006 2006 HOH HOH . 
M 4 HOH B 7 2007 2007 HOH HOH . 
M 4 HOH B 8 2008 2008 HOH HOH . 
M 4 HOH B 9 2009 2009 HOH HOH . 
M 4 HOH B 10 2010 2010 HOH HOH . 
M 4 HOH B 11 2011 2011 HOH HOH . 
M 4 HOH B 12 2012 2012 HOH HOH . 
M 4 HOH B 13 2013 2013 HOH HOH . 
M 4 HOH B 14 2014 2014 HOH HOH . 
M 4 HOH B 15 2015 2015 HOH HOH . 
M 4 HOH B 16 2016 2016 HOH HOH . 
M 4 HOH B 17 2017 2017 HOH HOH . 
M 4 HOH B 18 2018 2018 HOH HOH . 
M 4 HOH B 19 2019 2019 HOH HOH . 
M 4 HOH B 20 2020 2020 HOH HOH . 
M 4 HOH B 21 2021 2021 HOH HOH . 
M 4 HOH B 22 2022 2022 HOH HOH . 
M 4 HOH B 23 2023 2023 HOH HOH . 
M 4 HOH B 24 2024 2024 HOH HOH . 
N 4 HOH C 1 2001 2001 HOH HOH . 
N 4 HOH C 2 2002 2002 HOH HOH . 
N 4 HOH C 3 2003 2003 HOH HOH . 
N 4 HOH C 4 2004 2004 HOH HOH . 
N 4 HOH C 5 2005 2005 HOH HOH . 
N 4 HOH C 6 2006 2006 HOH HOH . 
N 4 HOH C 7 2007 2007 HOH HOH . 
N 4 HOH C 8 2008 2008 HOH HOH . 
N 4 HOH C 9 2009 2009 HOH HOH . 
N 4 HOH C 10 2010 2010 HOH HOH . 
N 4 HOH C 11 2011 2011 HOH HOH . 
N 4 HOH C 12 2012 2012 HOH HOH . 
N 4 HOH C 13 2013 2013 HOH HOH . 
N 4 HOH C 14 2014 2014 HOH HOH . 
N 4 HOH C 15 2015 2015 HOH HOH . 
N 4 HOH C 16 2016 2016 HOH HOH . 
N 4 HOH C 17 2017 2017 HOH HOH . 
O 4 HOH D 1 2001 2001 HOH HOH . 
O 4 HOH D 2 2002 2002 HOH HOH . 
O 4 HOH D 3 2003 2003 HOH HOH . 
O 4 HOH D 4 2004 2004 HOH HOH . 
O 4 HOH D 5 2005 2005 HOH HOH . 
O 4 HOH D 6 2006 2006 HOH HOH . 
O 4 HOH D 7 2007 2007 HOH HOH . 
O 4 HOH D 8 2008 2008 HOH HOH . 
O 4 HOH D 9 2009 2009 HOH HOH . 
O 4 HOH D 10 2010 2010 HOH HOH . 
O 4 HOH D 11 2011 2011 HOH HOH . 
O 4 HOH D 12 2012 2012 HOH HOH . 
O 4 HOH D 13 2013 2013 HOH HOH . 
O 4 HOH D 14 2014 2014 HOH HOH . 
O 4 HOH D 15 2015 2015 HOH HOH . 
O 4 HOH D 16 2016 2016 HOH HOH . 
O 4 HOH D 17 2017 2017 HOH HOH . 
O 4 HOH D 18 2018 2018 HOH HOH . 
O 4 HOH D 19 2019 2019 HOH HOH . 
O 4 HOH D 20 2020 2020 HOH HOH . 
O 4 HOH D 21 2021 2021 HOH HOH . 
O 4 HOH D 22 2022 2022 HOH HOH . 
O 4 HOH D 23 2023 2023 HOH HOH . 
O 4 HOH D 24 2024 2024 HOH HOH . 
O 4 HOH D 25 2025 2025 HOH HOH . 
O 4 HOH D 26 2026 2026 HOH HOH . 
P 4 HOH E 1 2001 2001 HOH HOH . 
P 4 HOH E 2 2002 2002 HOH HOH . 
P 4 HOH E 3 2003 2003 HOH HOH . 
P 4 HOH E 4 2004 2004 HOH HOH . 
P 4 HOH E 5 2005 2005 HOH HOH . 
P 4 HOH E 6 2006 2006 HOH HOH . 
P 4 HOH E 7 2007 2007 HOH HOH . 
P 4 HOH E 8 2008 2008 HOH HOH . 
P 4 HOH E 9 2009 2009 HOH HOH . 
P 4 HOH E 10 2010 2010 HOH HOH . 
P 4 HOH E 11 2011 2011 HOH HOH . 
P 4 HOH E 12 2012 2012 HOH HOH . 
P 4 HOH E 13 2013 2013 HOH HOH . 
P 4 HOH E 14 2014 2014 HOH HOH . 
P 4 HOH E 15 2015 2015 HOH HOH . 
P 4 HOH E 16 2016 2016 HOH HOH . 
P 4 HOH E 17 2017 2017 HOH HOH . 
P 4 HOH E 18 2018 2018 HOH HOH . 
P 4 HOH E 19 2019 2019 HOH HOH . 
P 4 HOH E 20 2020 2020 HOH HOH . 
P 4 HOH E 21 2021 2021 HOH HOH . 
P 4 HOH E 22 2022 2022 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 C1 09P . . . G 2 15.241 30.417 -44.505 1 24.26 ? C1 09P 211 B 1 
HETATM 2 N N1 09P . . . G 2 16.495 30.942 -43.909 1 25.54 ? N1 09P 211 B 1 
HETATM 3 C C2 09P . . . G 2 17.753 30.815 -44.694 1 30.21 ? C2 09P 211 B 1 
HETATM 4 C C3 09P . . . G 2 17.82 31.837 -45.849 1 29.22 ? C3 09P 211 B 1 
HETATM 5 C C4 09P . . . G 2 16.603 31.809 -46.785 1 22.28 ? C4 09P 211 B 1 
HETATM 6 N N2 09P . . . G 2 15.434 32.392 -46.109 1 27.2 ? N2 09P 211 B 1 
HETATM 7 C C5 09P . . . G 2 14.546 31.356 -45.525 1 24.52 ? C5 09P 211 B 1 
HETATM 8 C C6 09P . . . G 2 13.98 36.145 -47.028 1 37.31 ? C6 09P 211 B 1 
HETATM 9 C C7 09P . . . G 2 15.27 35.827 -47.518 1 38.95 ? C7 09P 211 B 1 
HETATM 10 C C8 09P . . . G 2 15.772 34.533 -47.196 1 33.69 ? C8 09P 211 B 1 
HETATM 11 C C9 09P . . . G 2 14.986 33.638 -46.417 1 33.51 ? C9 09P 211 B 1 
HETATM 12 C C10 09P . . . G 2 13.714 34.109 -45.994 1 31.69 ? C10 09P 211 B 1 
HETATM 13 N N3 09P . . . G 2 13.21 35.329 -46.291 1 30.52 ? N3 09P 211 B 1 
HETATM 14 O O1 09P . . . G 2 15.935 36.801 -48.273 1 50.51 ? O1 09P 211 B 1 
HETATM 15 C C11 09P . . . G 2 17.175 36.523 -48.934 1 44 ? C11 09P 211 B 1 
HETATM 16 C C12 09P . . . G 2 16.926 36.57 -50.439 1 38.14 ? C12 09P 211 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    25 
_model_server_stats.query_time_ms           313 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           16 
#