data_5M3D
#
_model_server_result.job_id            2n0B2nlFHvb495xnTzbEbQ 
_model_server_result.datetime_utc      '2025-03-12 04:24:18' 
_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          5m3d 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":602}' 
#
_entry.id    5M3D 
#
_exptl.entry_id    5M3D 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              94.971 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHATE ION' 
_entity.pdbx_number_of_molecules    6 
_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            5M3D 
_cell.length_a            97.948 
_cell.length_b            97.948 
_cell.length_c            34.409 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5M3D 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        144 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 31' 
#
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 dimeric 2 software_defined_assembly 1 
PISA dimeric 2 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,D,E,F,M,N,O,P,Q,R 1 1 
B,C,G,H,I,J,K,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 G N N 
? 3 H N N 
? 3 J N N 
? 3 K N N 
? 3 M N N 
? 3 N 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 47 A CYS 156 1_555 A SG CYS 81 A CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
disulf ? disulf2 A SG CYS 48 A CYS 157 1_555 A SG CYS 66 A CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? 
disulf ? disulf3 B SG CYS 47 B CYS 156 1_555 B SG CYS 81 B CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? 
disulf ? disulf4 B SG CYS 48 B CYS 157 1_555 B SG CYS 66 B CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
disulf ? disulf5 C SG CYS 47 C CYS 156 1_555 C SG CYS 81 C CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf6 C SG CYS 48 C CYS 157 1_555 C SG CYS 66 C CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf7 D SG CYS 47 D CYS 156 1_555 D SG CYS 81 D CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? 
disulf ? disulf8 D SG CYS 48 D CYS 157 1_555 D SG CYS 66 D CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
#
_chem_comp.formula           'O4 P -3' 
_chem_comp.formula_weight    94.971 
_chem_comp.id                PO4 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHATE ION' 
_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
P O1 PO4 doub 224 n n 
P O2 PO4 sing 225 n n 
P O3 PO4 sing 226 n n 
P O4 PO4 sing 227 n n 
#
_atom_sites.entry_id                     5M3D 
_atom_sites.fract_transf_matrix[1][1]    0.010209 
_atom_sites.fract_transf_matrix[1][2]    0.005894 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011789 
_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]    0.029062 
_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
E 2 EDO A 1 301 1 EDO EDO . 
F 2 EDO A 1 302 5 EDO EDO . 
G 3 PO4 B 1 301 600 PO4 PO4 . 
H 3 PO4 B 1 302 604 PO4 PO4 . 
I 2 EDO B 1 303 8 EDO EDO . 
J 3 PO4 C 1 301 602 PO4 PO4 . 
K 3 PO4 C 1 302 605 PO4 PO4 . 
L 2 EDO C 1 303 4 EDO EDO . 
M 3 PO4 D 1 601 601 PO4 PO4 . 
N 3 PO4 D 1 602 603 PO4 PO4 . 
O 2 EDO D 1 603 2 EDO EDO . 
P 2 EDO D 1 604 6 EDO EDO . 
Q 4 HOH A 1 401 2 HOH HOH . 
Q 4 HOH A 2 402 7 HOH HOH . 
Q 4 HOH A 3 403 9 HOH HOH . 
Q 4 HOH A 4 404 6 HOH HOH . 
Q 4 HOH A 5 405 8 HOH HOH . 
Q 4 HOH A 6 406 11 HOH HOH . 
R 4 HOH D 1 701 1 HOH HOH . 
R 4 HOH D 2 702 3 HOH HOH . 
R 4 HOH D 3 703 10 HOH HOH . 
R 4 HOH D 4 704 5 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 P P PO4 . . . N 3 -43.304 -17.219 -15.232 1 129.59 ? P PO4 602 D 1 
HETATM 2 O O1 PO4 . . . N 3 -42.341 -17.199 -16.396 1 144.38 ? O1 PO4 602 D 1 
HETATM 3 O O2 PO4 . . . N 3 -42.919 -18.34 -14.296 1 136.88 ? O2 PO4 602 D 1 
HETATM 4 O O3 PO4 . . . N 3 -44.708 -17.444 -15.746 1 112.58 ? O3 PO4 602 D 1 
HETATM 5 O O4 PO4 . . . N 3 -43.242 -15.899 -14.493 1 118.26 ? O4 PO4 602 D 1 
#
_model_server_stats.io_time_ms              49 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           325 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           5 
#