data_2YCB
#
_model_server_result.job_id            0BwRcRkdnjLpj1rR4GMrcg 
_model_server_result.datetime_utc      '2025-01-03 04:34:30' 
_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          2ycb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":1642}' 
#
_entry.id    2YCB 
#
_exptl.entry_id    2YCB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              65.409 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ZINC ION' 
_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            2YCB 
_cell.length_a            112.027 
_cell.length_b            112.027 
_cell.length_c            400.608 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2YCB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_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,N,O 
_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 C N N 
? 2 D N N 
? 2 H N N 
? 2 J 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
metalc ? metalc1 A O LEU 225 A LEU 225 1_555 I K K . A K 1643 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.129 ? 
metalc ? metalc2 A O VAL 227 A VAL 227 1_555 I K K . A K 1643 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.979 ? 
metalc ? metalc3 A O PHE 230 A PHE 230 1_555 I K K . A K 1643 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? 
metalc ? metalc4 A NE2 HIS 242 A HIS 242 1_555 D ZN ZN . A ZN 1638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? 
metalc ? metalc5 A ND1 HIS 244 A HIS 244 1_555 D ZN ZN . A ZN 1638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? 
metalc ? metalc6 A NE2 HIS 247 A HIS 247 1_555 C ZN ZN . A ZN 1637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
metalc ? metalc7 A NE2 HIS 329 A HIS 329 1_555 D ZN ZN . A ZN 1638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? 
metalc ? metalc8 A OD2 ASP 352 A ASP 352 1_555 C ZN ZN . A ZN 1637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? 
metalc ? metalc9 A OD2 ASP 352 A ASP 352 1_555 D ZN ZN . A ZN 1638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? 
metalc ? metalc10 A OD1 ASP 468 A ASP 468 1_555 H ZN ZN . A ZN 1642 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? 
metalc ? metalc11 A NE2 HIS 603 A HIS 603 1_555 C ZN ZN . A ZN 1637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
metalc ? metalc12 C ZN ZN . A ZN 1637 1_555 E O2 PO4 . A PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
metalc ? metalc13 C ZN ZN . A ZN 1637 1_555 E O3 PO4 . A PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? 
metalc ? metalc14 C ZN ZN . A ZN 1637 1_555 E P PO4 . A PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? 
metalc ? metalc15 D ZN ZN . A ZN 1638 1_555 E O1 PO4 . A PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? 
metalc ? metalc16 D ZN ZN . A ZN 1638 1_555 E O3 PO4 . A PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? 
metalc ? metalc17 D ZN ZN . A ZN 1638 1_555 E P PO4 . A PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? 
metalc ? metalc18 F P PO4 . A PO4 1640 1_555 H ZN ZN . A ZN 1642 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? 
metalc ? metalc19 F O2 PO4 . A PO4 1640 1_555 H ZN ZN . A ZN 1642 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.965 ? 
metalc ? metalc20 G P PO4 . A PO4 1641 1_555 H ZN ZN . A ZN 1642 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.689 ? 
metalc ? metalc21 G O4 PO4 . A PO4 1641 1_555 H ZN ZN . A ZN 1642 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? 
metalc ? metalc22 G O3 PO4 . A PO4 1641 1_555 H ZN ZN . A ZN 1642 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? 
metalc ? metalc23 B O LEU 225 B LEU 225 1_555 M K K . B K 1640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.217 ? 
metalc ? metalc24 B O VAL 227 B VAL 227 1_555 M K K . B K 1640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.032 ? 
metalc ? metalc25 B O PHE 230 B PHE 230 1_555 M K K . B K 1640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? 
metalc ? metalc26 B NE2 HIS 242 B HIS 242 1_555 K ZN ZN . B ZN 1638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc27 B ND1 HIS 244 B HIS 244 1_555 K ZN ZN . B ZN 1638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? 
metalc ? metalc28 B OD2 ASP 246 B ASP 246 1_555 J ZN ZN . B ZN 1637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? 
metalc ? metalc29 B NE2 HIS 247 B HIS 247 1_555 J ZN ZN . B ZN 1637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? 
metalc ? metalc30 B NE2 HIS 329 B HIS 329 1_555 K ZN ZN . B ZN 1638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? 
metalc ? metalc31 B OD2 ASP 352 B ASP 352 1_555 J ZN ZN . B ZN 1637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? 
metalc ? metalc32 B OD2 ASP 352 B ASP 352 1_555 K ZN ZN . B ZN 1638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? 
metalc ? metalc33 B NE2 HIS 603 B HIS 603 1_555 J ZN ZN . B ZN 1637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? 
metalc ? metalc34 J ZN ZN . B ZN 1637 1_555 L P PO4 . B PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? 
metalc ? metalc35 J ZN ZN . B ZN 1637 1_555 L O4 PO4 . B PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? 
metalc ? metalc36 J ZN ZN . B ZN 1637 1_555 L O1 PO4 . B PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.504 ? 
metalc ? metalc37 K ZN ZN . B ZN 1638 1_555 L P PO4 . B PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.626 ? 
metalc ? metalc38 K ZN ZN . B ZN 1638 1_555 L O1 PO4 . B PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? 
metalc ? metalc39 K ZN ZN . B ZN 1638 1_555 L O3 PO4 . B PO4 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
#
_chem_comp.formula           'Zn 2' 
_chem_comp.formula_weight    65.409 
_chem_comp.id                ZN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'ZINC ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     2YCB 
_atom_sites.fract_transf_matrix[1][1]    0.008926 
_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]    0.008926 
_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]    0.002496 
_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 ZN A 1 1637 1637 ZN ZN . 
D 2 ZN A 1 1638 1638 ZN ZN . 
E 3 PO4 A 1 1639 1639 PO4 PO4 . 
F 3 PO4 A 1 1640 1640 PO4 PO4 . 
G 3 PO4 A 1 1641 1641 PO4 PO4 . 
H 2 ZN A 1 1642 1642 ZN ZN . 
I 4 K A 1 1643 1643 K K . 
J 2 ZN B 1 1637 1637 ZN ZN . 
K 2 ZN B 1 1638 1638 ZN ZN . 
L 3 PO4 B 1 1639 1639 PO4 PO4 . 
M 4 K B 1 1640 1640 K K . 
N 5 HOH A 1 2001 2001 HOH HOH . 
N 5 HOH A 2 2002 2002 HOH HOH . 
N 5 HOH A 3 2003 2003 HOH HOH . 
N 5 HOH A 4 2004 2004 HOH HOH . 
N 5 HOH A 5 2005 2005 HOH HOH . 
N 5 HOH A 6 2006 2006 HOH HOH . 
N 5 HOH A 7 2007 2007 HOH HOH . 
N 5 HOH A 8 2008 2008 HOH HOH . 
N 5 HOH A 9 2009 2009 HOH HOH . 
N 5 HOH A 10 2010 2010 HOH HOH . 
N 5 HOH A 11 2011 2011 HOH HOH . 
N 5 HOH A 12 2012 2012 HOH HOH . 
N 5 HOH A 13 2013 2013 HOH HOH . 
N 5 HOH A 14 2014 2014 HOH HOH . 
N 5 HOH A 15 2015 2015 HOH HOH . 
N 5 HOH A 16 2016 2016 HOH HOH . 
N 5 HOH A 17 2017 2017 HOH HOH . 
N 5 HOH A 18 2018 2018 HOH HOH . 
N 5 HOH A 19 2019 2019 HOH HOH . 
N 5 HOH A 20 2020 2020 HOH HOH . 
N 5 HOH A 21 2021 2021 HOH HOH . 
N 5 HOH A 22 2022 2022 HOH HOH . 
N 5 HOH A 23 2023 2023 HOH HOH . 
O 5 HOH B 1 2001 2001 HOH HOH . 
O 5 HOH B 2 2002 2002 HOH HOH . 
O 5 HOH B 3 2003 2003 HOH HOH . 
O 5 HOH B 4 2004 2004 HOH HOH . 
O 5 HOH B 5 2005 2005 HOH HOH . 
O 5 HOH B 6 2006 2006 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           ZN 
_atom_site.label_atom_id         ZN 
_atom_site.label_comp_id         ZN 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         H 
_atom_site.label_entity_id       2 
_atom_site.Cartn_x               59.984 
_atom_site.Cartn_y               -14.288 
_atom_site.Cartn_z               -13.436 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        93.38 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          ZN 
_atom_site.auth_comp_id          ZN 
_atom_site.auth_seq_id           1642 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              26 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    37 
_model_server_stats.query_time_ms           332 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           1 
#