data_4NGV
#
_model_server_result.job_id            rFf7rY4O29jCYtrWjqTnpg 
_model_server_result.datetime_utc      '2024-11-15 03:38:11' 
_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          4ngv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":203}' 
#
_entry.id    4NGV 
#
_exptl.entry_id    4NGV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              173.04 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'YTTERBIUM (III) ION' 
_entity.pdbx_number_of_molecules    3 
_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            4NGV 
_cell.length_a            78.906 
_cell.length_b            78.906 
_cell.length_c            37.699 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4NGV 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 B N N 
? 2 C N N 
? 2 D 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 6 A CYS 6 1_555 A SG CYS 127 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
disulf ? disulf2 A SG CYS 30 A CYS 30 1_555 A SG CYS 115 A CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf3 A SG CYS 64 A CYS 64 1_555 A SG CYS 80 A CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf4 A SG CYS 76 A CYS 76 1_555 A SG CYS 94 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? 
metalc ? metalc1 A NZ LYS 13 A LYS 13 1_555 C YB YB . A YB 202 1_555 ? A ? ? ? ? ? ? ? ? ? ? 3.482 ? 
metalc ? metalc2 A OE1 GLU 35 A GLU 35 1_555 D YB YB . A YB 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.737 ? 
metalc ? metalc3 A OD1 ASN 46 A ASN 46 1_555 B YB YB . A YB 201 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.349 ? 
metalc ? metalc4 A OD2 ASP 52 A ASP 52 1_555 B YB YB . A YB 201 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc5 A OD2 ASP 52 A ASP 52 1_555 B YB YB . A YB 201 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.528 ? 
metalc ? metalc6 A OXT LEU 129 A LEU 129 1_555 C YB YB . A YB 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? 
metalc ? metalc7 A O LEU 129 A LEU 129 1_555 C YB YB . A YB 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.168 ? 
metalc ? metalc8 B YB YB . A YB 201 1_555 F O HOH . A HOH 301 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.356 ? 
metalc ? metalc9 B YB YB . A YB 201 1_555 F O HOH . A HOH 301 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.999 ? 
metalc ? metalc10 B YB YB . A YB 201 1_555 F O HOH . A HOH 302 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.682 ? 
metalc ? metalc11 B YB YB . A YB 201 1_555 F O HOH . A HOH 303 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.353 ? 
metalc ? metalc12 B YB YB . A YB 201 1_555 F O HOH . A HOH 303 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.653 ? 
metalc ? metalc13 B YB YB . A YB 201 1_555 F O HOH . A HOH 304 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.33 ? 
metalc ? metalc14 B YB YB . A YB 201 1_555 F O HOH . A HOH 307 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.655 ? 
metalc ? metalc15 B YB YB . A YB 201 1_555 F O HOH . A HOH 307 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.767 ? 
metalc ? metalc16 C YB YB . A YB 202 1_555 F O HOH . A HOH 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? 
metalc ? metalc17 C YB YB . A YB 202 1_555 F O HOH . A HOH 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? 
metalc ? metalc18 D YB YB . A YB 203 1_555 F O HOH . A HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? 
metalc ? metalc19 D YB YB . A YB 203 1_555 F O HOH . A HOH 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.705 ? 
metalc ? metalc20 D YB YB . A YB 203 1_555 F O HOH . A HOH 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? 
metalc ? metalc21 D YB YB . A YB 203 1_555 F O HOH . A HOH 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.423 ? 
#
_chem_comp.formula           'Yb 3' 
_chem_comp.formula_weight    173.04 
_chem_comp.id                YB 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'YTTERBIUM (III) ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     4NGV 
_atom_sites.fract_transf_matrix[1][1]    0.012673 
_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]    0.012673 
_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]    0.026526 
_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
B 2 YB A 1 201 201 YB YB . 
C 2 YB A 1 202 202 YB YB . 
D 2 YB A 1 203 203 YB YB . 
E 3 CL A 1 204 204 CL CL . 
F 4 HOH A 1 301 301 HOH HOH . 
F 4 HOH A 2 302 302 HOH HOH . 
F 4 HOH A 3 303 303 HOH HOH . 
F 4 HOH A 4 304 304 HOH HOH . 
F 4 HOH A 5 305 305 HOH HOH . 
F 4 HOH A 6 306 306 HOH HOH . 
F 4 HOH A 7 307 308 HOH HOH . 
F 4 HOH A 8 308 309 HOH HOH . 
F 4 HOH A 9 309 310 HOH HOH . 
F 4 HOH A 10 310 312 HOH HOH . 
F 4 HOH A 11 311 313 HOH HOH . 
F 4 HOH A 12 312 314 HOH HOH . 
F 4 HOH A 13 313 315 HOH HOH . 
F 4 HOH A 14 314 316 HOH HOH . 
F 4 HOH A 15 315 317 HOH HOH . 
F 4 HOH A 16 316 318 HOH HOH . 
F 4 HOH A 17 317 319 HOH HOH . 
F 4 HOH A 18 318 320 HOH HOH . 
F 4 HOH A 19 319 321 HOH HOH . 
F 4 HOH A 20 320 322 HOH HOH . 
F 4 HOH A 21 321 323 HOH HOH . 
F 4 HOH A 22 322 324 HOH HOH . 
F 4 HOH A 23 323 325 HOH HOH . 
F 4 HOH A 24 324 326 HOH HOH . 
F 4 HOH A 25 325 327 HOH HOH . 
F 4 HOH A 26 326 328 HOH HOH . 
F 4 HOH A 27 327 329 HOH HOH . 
F 4 HOH A 28 328 330 HOH HOH . 
F 4 HOH A 29 329 331 HOH HOH . 
F 4 HOH A 30 330 332 HOH HOH . 
F 4 HOH A 31 331 333 HOH HOH . 
F 4 HOH A 32 332 334 HOH HOH . 
F 4 HOH A 33 333 335 HOH HOH . 
F 4 HOH A 34 334 336 HOH HOH . 
F 4 HOH A 35 335 337 HOH HOH . 
F 4 HOH A 36 336 338 HOH HOH . 
F 4 HOH A 37 337 339 HOH HOH . 
F 4 HOH A 38 338 340 HOH HOH . 
F 4 HOH A 39 339 341 HOH HOH . 
F 4 HOH A 40 340 342 HOH HOH . 
F 4 HOH A 41 341 343 HOH HOH . 
F 4 HOH A 42 342 344 HOH HOH . 
F 4 HOH A 43 343 345 HOH HOH . 
F 4 HOH A 44 344 346 HOH HOH . 
F 4 HOH A 45 345 347 HOH HOH . 
F 4 HOH A 46 346 348 HOH HOH . 
F 4 HOH A 47 347 349 HOH HOH . 
F 4 HOH A 48 348 350 HOH HOH . 
F 4 HOH A 49 349 351 HOH HOH . 
F 4 HOH A 50 350 352 HOH HOH . 
F 4 HOH A 51 351 353 HOH HOH . 
F 4 HOH A 52 352 355 HOH HOH . 
F 4 HOH A 53 353 357 HOH HOH . 
F 4 HOH A 54 354 358 HOH HOH . 
F 4 HOH A 55 355 359 HOH HOH . 
F 4 HOH A 56 356 360 HOH HOH . 
F 4 HOH A 57 357 361 HOH HOH . 
F 4 HOH A 58 358 362 HOH HOH . 
F 4 HOH A 59 359 363 HOH HOH . 
F 4 HOH A 60 360 364 HOH HOH . 
F 4 HOH A 61 361 365 HOH HOH . 
F 4 HOH A 62 362 366 HOH HOH . 
F 4 HOH A 63 363 367 HOH HOH . 
F 4 HOH A 64 364 368 HOH HOH . 
F 4 HOH A 65 365 369 HOH HOH . 
F 4 HOH A 66 366 371 HOH HOH . 
F 4 HOH A 67 367 372 HOH HOH . 
F 4 HOH A 68 368 373 HOH HOH . 
F 4 HOH A 69 369 374 HOH HOH . 
F 4 HOH A 70 370 379 HOH HOH . 
F 4 HOH A 71 371 381 HOH HOH . 
F 4 HOH A 72 372 388 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           YB 
_atom_site.label_atom_id         YB 
_atom_site.label_comp_id         YB 
_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       2 
_atom_site.Cartn_x               -8.232 
_atom_site.Cartn_y               54.355 
_atom_site.Cartn_z               -0.609 
_atom_site.occupancy             0.1 
_atom_site.B_iso_or_equiv        19.98 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          YB 
_atom_site.auth_comp_id          YB 
_atom_site.auth_seq_id           203 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           253 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           1 
#