data_4AVK
#
_model_server_result.job_id            u1_zjxOxVmy48oxi4CkCPA 
_model_server_result.datetime_utc      '2024-11-25 09:36:14' 
_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          4avk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1159}' 
#
_entry.id    4AVK 
#
_exptl.entry_id    4AVK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              58.693 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NICKEL (II) ION' 
_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            4AVK 
_cell.length_a            90.46 
_cell.length_b            90.46 
_cell.length_c            79.54 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4AVK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,K 1 1 
B,E,F,G,H,I,J,L 2 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
? 3 D N N 
? 3 I 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 3 A CYS 3 1_555 A SG CYS 44 A CYS 44 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf2 B SG CYS 3 B CYS 3 1_555 B SG CYS 44 B CYS 44 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.026 ? 
metalc ? metalc1 A NE2 HIS 45 A HIS 45 1_555 D NI NI . A NI 1159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
metalc ? metalc2 A OD1 ASP 47 A ASP 47 1_555 D NI NI . A NI 1159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.958 ? 
metalc ? metalc3 D NI NI . A NI 1159 1_555 K O HOH . A HOH 2034 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? 
metalc ? metalc4 D NI NI . A NI 1159 1_555 K O HOH . A HOH 2035 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? 
metalc ? metalc5 B NE2 HIS 45 B HIS 45 1_555 I NI NI . B NI 1162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? 
metalc ? metalc6 B OD1 ASP 47 B ASP 47 1_555 I NI NI . B NI 1162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.948 ? 
metalc ? metalc7 I NI NI . B NI 1162 1_555 L O HOH . B HOH 2042 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? 
#
_chem_comp.formula           'Ni 2' 
_chem_comp.formula_weight    58.693 
_chem_comp.id                NI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'NICKEL (II) ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     4AVK 
_atom_sites.fract_transf_matrix[1][1]    0.011055 
_atom_sites.fract_transf_matrix[1][2]    0.006382 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012765 
_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]    0.012572 
_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 FVQ A 1 201 201 FVQ FVQ . 
D 3 NI A 1 1159 1159 NI NI . 
E 2 FVQ B 1 201 201 FVQ FVQ . 
F 4 SO4 B 1 1159 1159 SO4 SO4 . 
G 4 SO4 B 1 1160 1160 SO4 SO4 . 
H 4 SO4 B 1 1161 1161 SO4 SO4 . 
I 3 NI B 1 1162 1162 NI NI . 
J 4 SO4 B 1 1163 1163 SO4 SO4 . 
K 5 HOH A 1 2001 2001 HOH HOH . 
K 5 HOH A 2 2002 2002 HOH HOH . 
K 5 HOH A 3 2003 2003 HOH HOH . 
K 5 HOH A 4 2004 2004 HOH HOH . 
K 5 HOH A 5 2005 2005 HOH HOH . 
K 5 HOH A 6 2006 2006 HOH HOH . 
K 5 HOH A 7 2007 2007 HOH HOH . 
K 5 HOH A 8 2008 2008 HOH HOH . 
K 5 HOH A 9 2009 2009 HOH HOH . 
K 5 HOH A 10 2010 2010 HOH HOH . 
K 5 HOH A 11 2011 2011 HOH HOH . 
K 5 HOH A 12 2012 2012 HOH HOH . 
K 5 HOH A 13 2013 2013 HOH HOH . 
K 5 HOH A 14 2014 2014 HOH HOH . 
K 5 HOH A 15 2015 2015 HOH HOH . 
K 5 HOH A 16 2016 2016 HOH HOH . 
K 5 HOH A 17 2017 2017 HOH HOH . 
K 5 HOH A 18 2018 2018 HOH HOH . 
K 5 HOH A 19 2019 2019 HOH HOH . 
K 5 HOH A 20 2020 2020 HOH HOH . 
K 5 HOH A 21 2021 2021 HOH HOH . 
K 5 HOH A 22 2022 2022 HOH HOH . 
K 5 HOH A 23 2023 2023 HOH HOH . 
K 5 HOH A 24 2024 2024 HOH HOH . 
K 5 HOH A 25 2025 2025 HOH HOH . 
K 5 HOH A 26 2026 2026 HOH HOH . 
K 5 HOH A 27 2027 2027 HOH HOH . 
K 5 HOH A 28 2028 2028 HOH HOH . 
K 5 HOH A 29 2029 2029 HOH HOH . 
K 5 HOH A 30 2030 2030 HOH HOH . 
K 5 HOH A 31 2031 2031 HOH HOH . 
K 5 HOH A 32 2032 2032 HOH HOH . 
K 5 HOH A 33 2033 2033 HOH HOH . 
K 5 HOH A 34 2034 2034 HOH HOH . 
K 5 HOH A 35 2035 2035 HOH HOH . 
K 5 HOH A 36 2036 2036 HOH HOH . 
K 5 HOH A 37 2037 2037 HOH HOH . 
K 5 HOH A 38 2038 2038 HOH HOH . 
K 5 HOH A 39 2039 2039 HOH HOH . 
K 5 HOH A 40 2040 2040 HOH HOH . 
K 5 HOH A 41 2041 2041 HOH HOH . 
K 5 HOH A 42 2042 2042 HOH HOH . 
K 5 HOH A 43 2043 2043 HOH HOH . 
K 5 HOH A 44 2044 2044 HOH HOH . 
K 5 HOH A 45 2045 2045 HOH HOH . 
K 5 HOH A 46 2046 2046 HOH HOH . 
K 5 HOH A 47 2047 2047 HOH HOH . 
K 5 HOH A 48 2048 2048 HOH HOH . 
K 5 HOH A 49 2049 2049 HOH HOH . 
K 5 HOH A 50 2050 2050 HOH HOH . 
K 5 HOH A 51 2051 2051 HOH HOH . 
K 5 HOH A 52 2052 2052 HOH HOH . 
K 5 HOH A 53 2053 2053 HOH HOH . 
K 5 HOH A 54 2054 2054 HOH HOH . 
K 5 HOH A 55 2055 2055 HOH HOH . 
K 5 HOH A 56 2056 2056 HOH HOH . 
K 5 HOH A 57 2057 2057 HOH HOH . 
K 5 HOH A 58 2058 2058 HOH HOH . 
K 5 HOH A 59 2059 2059 HOH HOH . 
K 5 HOH A 60 2060 2060 HOH HOH . 
K 5 HOH A 61 2061 2061 HOH HOH . 
K 5 HOH A 62 2062 2062 HOH HOH . 
K 5 HOH A 63 2063 2063 HOH HOH . 
K 5 HOH A 64 2064 2064 HOH HOH . 
K 5 HOH A 65 2065 2065 HOH HOH . 
K 5 HOH A 66 2066 2066 HOH HOH . 
K 5 HOH A 67 2067 2067 HOH HOH . 
K 5 HOH A 68 2068 2068 HOH HOH . 
K 5 HOH A 69 2069 2069 HOH HOH . 
K 5 HOH A 70 2070 2070 HOH HOH . 
K 5 HOH A 71 2071 2071 HOH HOH . 
K 5 HOH A 72 2072 2072 HOH HOH . 
K 5 HOH A 73 2073 2073 HOH HOH . 
K 5 HOH A 74 2074 2074 HOH HOH . 
K 5 HOH A 75 2075 2075 HOH HOH . 
K 5 HOH A 76 2076 2076 HOH HOH . 
K 5 HOH A 77 2077 2077 HOH HOH . 
K 5 HOH A 78 2078 2078 HOH HOH . 
K 5 HOH A 79 2079 2079 HOH HOH . 
K 5 HOH A 80 2080 2080 HOH HOH . 
K 5 HOH A 81 2081 2081 HOH HOH . 
K 5 HOH A 82 2082 2082 HOH HOH . 
K 5 HOH A 83 2083 2083 HOH HOH . 
K 5 HOH A 84 2084 2084 HOH HOH . 
K 5 HOH A 85 2085 2085 HOH HOH . 
K 5 HOH A 86 2086 2086 HOH HOH . 
K 5 HOH A 87 2087 2087 HOH HOH . 
K 5 HOH A 88 2088 2088 HOH HOH . 
K 5 HOH A 89 2089 2089 HOH HOH . 
K 5 HOH A 90 2090 2090 HOH HOH . 
K 5 HOH A 91 2091 2091 HOH HOH . 
L 5 HOH B 1 2001 2001 HOH HOH . 
L 5 HOH B 2 2002 2002 HOH HOH . 
L 5 HOH B 3 2003 2003 HOH HOH . 
L 5 HOH B 4 2004 2004 HOH HOH . 
L 5 HOH B 5 2005 2005 HOH HOH . 
L 5 HOH B 6 2006 2006 HOH HOH . 
L 5 HOH B 7 2007 2007 HOH HOH . 
L 5 HOH B 8 2008 2008 HOH HOH . 
L 5 HOH B 9 2009 2009 HOH HOH . 
L 5 HOH B 10 2010 2010 HOH HOH . 
L 5 HOH B 11 2011 2011 HOH HOH . 
L 5 HOH B 12 2012 2012 HOH HOH . 
L 5 HOH B 13 2013 2013 HOH HOH . 
L 5 HOH B 14 2014 2014 HOH HOH . 
L 5 HOH B 15 2015 2015 HOH HOH . 
L 5 HOH B 16 2016 2016 HOH HOH . 
L 5 HOH B 17 2017 2017 HOH HOH . 
L 5 HOH B 18 2018 2018 HOH HOH . 
L 5 HOH B 19 2019 2019 HOH HOH . 
L 5 HOH B 20 2020 2020 HOH HOH . 
L 5 HOH B 21 2021 2021 HOH HOH . 
L 5 HOH B 22 2022 2022 HOH HOH . 
L 5 HOH B 23 2023 2023 HOH HOH . 
L 5 HOH B 24 2024 2024 HOH HOH . 
L 5 HOH B 25 2025 2025 HOH HOH . 
L 5 HOH B 26 2026 2026 HOH HOH . 
L 5 HOH B 27 2027 2027 HOH HOH . 
L 5 HOH B 28 2028 2028 HOH HOH . 
L 5 HOH B 29 2029 2029 HOH HOH . 
L 5 HOH B 30 2030 2030 HOH HOH . 
L 5 HOH B 31 2031 2031 HOH HOH . 
L 5 HOH B 32 2032 2032 HOH HOH . 
L 5 HOH B 33 2033 2033 HOH HOH . 
L 5 HOH B 34 2034 2034 HOH HOH . 
L 5 HOH B 35 2035 2035 HOH HOH . 
L 5 HOH B 36 2036 2036 HOH HOH . 
L 5 HOH B 37 2037 2037 HOH HOH . 
L 5 HOH B 38 2038 2038 HOH HOH . 
L 5 HOH B 39 2039 2039 HOH HOH . 
L 5 HOH B 40 2040 2040 HOH HOH . 
L 5 HOH B 41 2041 2041 HOH HOH . 
L 5 HOH B 42 2042 2042 HOH HOH . 
L 5 HOH B 43 2043 2043 HOH HOH . 
L 5 HOH B 44 2044 2044 HOH HOH . 
L 5 HOH B 45 2045 2045 HOH HOH . 
L 5 HOH B 46 2046 2046 HOH HOH . 
L 5 HOH B 47 2047 2047 HOH HOH . 
L 5 HOH B 48 2048 2048 HOH HOH . 
L 5 HOH B 49 2049 2049 HOH HOH . 
L 5 HOH B 50 2050 2050 HOH HOH . 
L 5 HOH B 51 2051 2051 HOH HOH . 
L 5 HOH B 52 2052 2052 HOH HOH . 
L 5 HOH B 53 2053 2053 HOH HOH . 
L 5 HOH B 54 2054 2054 HOH HOH . 
L 5 HOH B 55 2055 2055 HOH HOH . 
L 5 HOH B 56 2056 2056 HOH HOH . 
L 5 HOH B 57 2057 2057 HOH HOH . 
L 5 HOH B 58 2058 2058 HOH HOH . 
L 5 HOH B 59 2059 2059 HOH HOH . 
L 5 HOH B 60 2060 2060 HOH HOH . 
L 5 HOH B 61 2061 2061 HOH HOH . 
L 5 HOH B 62 2062 2062 HOH HOH . 
L 5 HOH B 63 2063 2063 HOH HOH . 
L 5 HOH B 64 2064 2064 HOH HOH . 
L 5 HOH B 65 2065 2065 HOH HOH . 
L 5 HOH B 66 2066 2066 HOH HOH . 
L 5 HOH B 67 2067 2067 HOH HOH . 
L 5 HOH B 68 2068 2068 HOH HOH . 
L 5 HOH B 69 2069 2069 HOH HOH . 
L 5 HOH B 70 2070 2070 HOH HOH . 
L 5 HOH B 71 2071 2071 HOH HOH . 
L 5 HOH B 72 2072 2072 HOH HOH . 
L 5 HOH B 73 2073 2073 HOH HOH . 
L 5 HOH B 74 2074 2074 HOH HOH . 
L 5 HOH B 75 2075 2075 HOH HOH . 
L 5 HOH B 76 2076 2076 HOH HOH . 
L 5 HOH B 77 2077 2077 HOH HOH . 
L 5 HOH B 78 2078 2078 HOH HOH . 
L 5 HOH B 79 2079 2079 HOH HOH . 
L 5 HOH B 80 2080 2080 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           NI 
_atom_site.label_atom_id         NI 
_atom_site.label_comp_id         NI 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         D 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               15.942 
_atom_site.Cartn_y               -56.356 
_atom_site.Cartn_z               27.726 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        32.73 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NI 
_atom_site.auth_comp_id          NI 
_atom_site.auth_seq_id           1159 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           260 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           1 
#