data_6JCJ # _model_server_result.job_id h_oq_LutaQM9sOKGEz4qzA _model_server_result.datetime_utc '2024-11-23 15:57:25' _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 6jcj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":501}' # _entry.id 6JCJ # _exptl.entry_id 6JCJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _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 6JCJ _cell.length_a 105.544 _cell.length_b 157.329 _cell.length_c 184.031 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JCJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_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,Q,R,S,T,U,V,W _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 ? 5 G N N ? 5 M N N ? 5 P 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 OD1 ASP 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? metalc ? metalc2 A OD2 ASP 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.419 ? metalc ? metalc3 A O THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc4 A OG1 THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.479 ? metalc ? metalc5 A O GLY 44 A GLY 44 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc6 A OE1 GLU 55 A GLU 55 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.013 ? metalc ? metalc7 A OE2 GLU 55 A GLU 55 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc8 G O1G GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc9 G O1B GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc10 H MG MG . A MG 502 1_555 S O HOH . A HOH 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc11 H MG MG . A MG 502 1_555 S O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc12 H MG MG . A MG 502 1_555 S O HOH . A HOH 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc13 H MG MG . A MG 502 1_555 S O HOH . A HOH 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc14 B OE1 GLN 11 B GLN 11 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc15 B OD2 ASP 177 B ASP 177 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? metalc ? metalc16 J O1A GDP . B GDP 501 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.707 ? metalc ? metalc17 C OD1 ASP 39 C ASP 39 1_555 O CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? metalc ? metalc18 C OD2 ASP 39 C ASP 39 1_555 O CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? metalc ? metalc19 C O THR 41 C THR 41 1_555 O CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc20 C OG1 THR 41 C THR 41 1_555 O CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc21 C O GLY 44 C GLY 44 1_555 O CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? metalc ? metalc22 C OE1 GLU 55 C GLU 55 1_555 O CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc23 C OE2 GLU 55 C GLU 55 1_555 O CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc24 M O1G GTP . C GTP 501 1_555 N MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.922 ? metalc ? metalc25 M O1B GTP . C GTP 501 1_555 N MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? metalc ? metalc26 N MG MG . C MG 502 1_555 U O HOH . C HOH 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? metalc ? metalc27 N MG MG . C MG 502 1_555 U O HOH . C HOH 617 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.942 ? metalc ? metalc28 N MG MG . C MG 502 1_555 U O HOH . C HOH 625 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc29 N MG MG . C MG 502 1_555 U O HOH . C HOH 633 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? # _chem_comp.formula 'C10 H16 N5 O14 P3' _chem_comp.formula_weight 523.18 _chem_comp.id GTP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-5'-TRIPHOSPHATE" _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 PG O1G GTP doub 270 n n PG O2G GTP sing 271 n n PG O3G GTP sing 272 n n PG O3B GTP sing 273 n n O2G HOG2 GTP sing 274 n n O3G HOG3 GTP sing 275 n n O3B PB GTP sing 276 n n PB O1B GTP doub 277 n n PB O2B GTP sing 278 n n PB O3A GTP sing 279 n n O2B HOB2 GTP sing 280 n n O3A PA GTP sing 281 n n PA O1A GTP doub 282 n n PA O2A GTP sing 283 n n PA O5' GTP sing 284 n n O2A HOA2 GTP sing 285 n n O5' C5' GTP sing 286 n n C5' C4' GTP sing 287 n n C5' H5' GTP sing 288 n n C5' "H5''" GTP sing 289 n n C4' O4' GTP sing 290 n n C4' C3' GTP sing 291 n n C4' H4' GTP sing 292 n n O4' C1' GTP sing 293 n n C3' O3' GTP sing 294 n n C3' C2' GTP sing 295 n n C3' H3' GTP sing 296 n n O3' HO3' GTP sing 297 n n C2' O2' GTP sing 298 n n C2' C1' GTP sing 299 n n C2' H2' GTP sing 300 n n O2' HO2' GTP sing 301 n n C1' N9 GTP sing 302 n n C1' H1' GTP sing 303 n n N9 C8 GTP sing 304 n y N9 C4 GTP sing 305 n y C8 N7 GTP doub 306 n y C8 H8 GTP sing 307 n n N7 C5 GTP sing 308 n y C5 C6 GTP sing 309 n n C5 C4 GTP doub 310 n y C6 O6 GTP doub 311 n n C6 N1 GTP sing 312 n n N1 C2 GTP sing 313 n n N1 HN1 GTP sing 314 n n C2 N2 GTP sing 315 n n C2 N3 GTP doub 316 n n N2 HN21 GTP sing 317 n n N2 HN22 GTP sing 318 n n N3 C4 GTP sing 319 n n # _atom_sites.entry_id 6JCJ _atom_sites.fract_transf_matrix[1][1] 0.009475 _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] 0.006356 _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] 0.005434 _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 G 5 GTP A 1 501 501 GTP GTP . H 6 MG A 1 502 502 MG MG . I 7 CA A 1 503 503 CA CA . J 8 GDP B 1 501 501 GDP GDP . K 6 MG B 1 502 502 MG MG . L 9 BG0 B 1 503 1 BG0 CRO . M 5 GTP C 1 501 501 GTP GTP . N 6 MG C 1 502 502 MG MG . O 7 CA C 1 503 1 CA CA . P 5 GTP D 1 501 501 GTP GTP . Q 9 BG0 D 1 502 2 BG0 CRO . R 10 ACP F 1 401 401 ACP ACP . S 11 HOH A 1 601 24 HOH HOH . S 11 HOH A 2 602 70 HOH HOH . S 11 HOH A 3 603 74 HOH HOH . S 11 HOH A 4 604 39 HOH HOH . S 11 HOH A 5 605 32 HOH HOH . S 11 HOH A 6 606 52 HOH HOH . S 11 HOH A 7 607 73 HOH HOH . S 11 HOH A 8 608 46 HOH HOH . S 11 HOH A 9 609 33 HOH HOH . S 11 HOH A 10 610 72 HOH HOH . S 11 HOH A 11 611 71 HOH HOH . S 11 HOH A 12 612 23 HOH HOH . S 11 HOH A 13 613 29 HOH HOH . S 11 HOH A 14 614 57 HOH HOH . S 11 HOH A 15 615 45 HOH HOH . S 11 HOH A 16 616 63 HOH HOH . T 11 HOH B 1 601 85 HOH HOH . T 11 HOH B 2 602 58 HOH HOH . T 11 HOH B 3 603 67 HOH HOH . T 11 HOH B 4 604 41 HOH HOH . T 11 HOH B 5 605 55 HOH HOH . T 11 HOH B 6 606 26 HOH HOH . T 11 HOH B 7 607 60 HOH HOH . T 11 HOH B 8 608 16 HOH HOH . T 11 HOH B 9 609 1 HOH HOH . T 11 HOH B 10 610 36 HOH HOH . T 11 HOH B 11 611 2 HOH HOH . T 11 HOH B 12 612 25 HOH HOH . T 11 HOH B 13 613 86 HOH HOH . T 11 HOH B 14 614 80 HOH HOH . T 11 HOH B 15 615 10 HOH HOH . T 11 HOH B 16 616 78 HOH HOH . U 11 HOH C 1 601 37 HOH HOH . U 11 HOH C 2 602 15 HOH HOH . U 11 HOH C 3 603 48 HOH HOH . U 11 HOH C 4 604 40 HOH HOH . U 11 HOH C 5 605 22 HOH HOH . U 11 HOH C 6 606 44 HOH HOH . U 11 HOH C 7 607 49 HOH HOH . U 11 HOH C 8 608 35 HOH HOH . U 11 HOH C 9 609 30 HOH HOH . U 11 HOH C 10 610 50 HOH HOH . U 11 HOH C 11 611 9 HOH HOH . U 11 HOH C 12 612 59 HOH HOH . U 11 HOH C 13 613 4 HOH HOH . U 11 HOH C 14 614 11 HOH HOH . U 11 HOH C 15 615 6 HOH HOH . U 11 HOH C 16 616 77 HOH HOH . U 11 HOH C 17 617 76 HOH HOH . U 11 HOH C 18 618 34 HOH HOH . U 11 HOH C 19 619 17 HOH HOH . U 11 HOH C 20 620 12 HOH HOH . U 11 HOH C 21 621 47 HOH HOH . U 11 HOH C 22 622 84 HOH HOH . U 11 HOH C 23 623 28 HOH HOH . U 11 HOH C 24 624 5 HOH HOH . U 11 HOH C 25 625 75 HOH HOH . U 11 HOH C 26 626 8 HOH HOH . U 11 HOH C 27 627 38 HOH HOH . U 11 HOH C 28 628 20 HOH HOH . U 11 HOH C 29 629 65 HOH HOH . U 11 HOH C 30 630 21 HOH HOH . U 11 HOH C 31 631 19 HOH HOH . U 11 HOH C 32 632 31 HOH HOH . U 11 HOH C 33 633 54 HOH HOH . U 11 HOH C 34 634 56 HOH HOH . U 11 HOH C 35 635 14 HOH HOH . U 11 HOH C 36 636 43 HOH HOH . U 11 HOH C 37 637 42 HOH HOH . U 11 HOH C 38 638 66 HOH HOH . U 11 HOH C 39 639 53 HOH HOH . U 11 HOH C 40 640 27 HOH HOH . U 11 HOH C 41 641 51 HOH HOH . U 11 HOH C 42 642 13 HOH HOH . U 11 HOH C 43 643 7 HOH HOH . U 11 HOH C 44 644 18 HOH HOH . U 11 HOH C 45 645 69 HOH HOH . U 11 HOH C 46 646 68 HOH HOH . V 11 HOH D 1 601 81 HOH HOH . V 11 HOH D 2 602 62 HOH HOH . V 11 HOH D 3 603 79 HOH HOH . V 11 HOH D 4 604 82 HOH HOH . W 11 HOH E 1 201 61 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 PG GTP . . . M 5 -19.938 -18.228 -16.623 1 13.59 ? PG GTP 501 C 1 HETATM 2 O O1G GTP . . . M 5 -18.8 -18.415 -17.574 1 13.08 ? O1G GTP 501 C 1 HETATM 3 O O2G GTP . . . M 5 -21.225 -18.802 -17.153 1 13.8 ? O2G GTP 501 C 1 HETATM 4 O O3G GTP . . . M 5 -20.091 -16.827 -16.097 1 12.21 ? O3G GTP 501 C 1 HETATM 5 O O3B GTP . . . M 5 -19.567 -19.126 -15.333 1 14.41 ? O3B GTP 501 C 1 HETATM 6 P PB GTP . . . M 5 -18.467 -20.263 -15.148 1 15.75 ? PB GTP 501 C 1 HETATM 7 O O1B GTP . . . M 5 -18.195 -20.958 -16.447 1 15.51 ? O1B GTP 501 C 1 HETATM 8 O O2B GTP . . . M 5 -18.816 -21.119 -13.95 1 16.27 ? O2B GTP 501 C 1 HETATM 9 O O3A GTP . . . M 5 -17.21 -19.344 -14.789 1 14.59 ? O3A GTP 501 C 1 HETATM 10 P PA GTP . . . M 5 -15.757 -19.672 -14.189 1 14.91 ? PA GTP 501 C 1 HETATM 11 O O1A GTP . . . M 5 -14.715 -19.487 -15.225 1 15.98 ? O1A GTP 501 C 1 HETATM 12 O O2A GTP . . . M 5 -15.698 -20.976 -13.455 1 15.09 ? O2A GTP 501 C 1 HETATM 13 O O5' GTP . . . M 5 -15.722 -18.481 -13.122 1 14.91 ? O5' GTP 501 C 1 HETATM 14 C C5' GTP . . . M 5 -14.584 -17.609 -13.041 1 14.58 ? C5' GTP 501 C 1 HETATM 15 C C4' GTP . . . M 5 -13.829 -17.866 -11.765 1 14.79 ? C4' GTP 501 C 1 HETATM 16 O O4' GTP . . . M 5 -13.296 -19.216 -11.781 1 14.8 ? O4' GTP 501 C 1 HETATM 17 C C3' GTP . . . M 5 -12.596 -16.984 -11.538 1 14.84 ? C3' GTP 501 C 1 HETATM 18 O O3' GTP . . . M 5 -12.306 -16.909 -10.15 1 15.22 ? O3' GTP 501 C 1 HETATM 19 C C2' GTP . . . M 5 -11.531 -17.77 -12.307 1 14.55 ? C2' GTP 501 C 1 HETATM 20 O O2' GTP . . . M 5 -10.22 -17.431 -11.928 1 14.16 ? O2' GTP 501 C 1 HETATM 21 C C1' GTP . . . M 5 -11.882 -19.186 -11.874 1 14.41 ? C1' GTP 501 C 1 HETATM 22 N N9 GTP . . . M 5 -11.438 -20.257 -12.766 1 13.7 ? N9 GTP 501 C 1 HETATM 23 C C8 GTP . . . M 5 -11.88 -20.542 -14.034 1 14.17 ? C8 GTP 501 C 1 HETATM 24 N N7 GTP . . . M 5 -11.34 -21.627 -14.548 1 13.91 ? N7 GTP 501 C 1 HETATM 25 C C5 GTP . . . M 5 -10.498 -22.089 -13.545 1 13.64 ? C5 GTP 501 C 1 HETATM 26 C C6 GTP . . . M 5 -9.658 -23.23 -13.513 1 14.16 ? C6 GTP 501 C 1 HETATM 27 O O6 GTP . . . M 5 -9.505 -24.102 -14.392 1 15.61 ? O6 GTP 501 C 1 HETATM 28 N N1 GTP . . . M 5 -9.002 -23.338 -12.287 1 13.17 ? N1 GTP 501 C 1 HETATM 29 C C2 GTP . . . M 5 -9.102 -22.453 -11.246 1 13.51 ? C2 GTP 501 C 1 HETATM 30 N N2 GTP . . . M 5 -8.363 -22.706 -10.151 1 13.16 ? N2 GTP 501 C 1 HETATM 31 N N3 GTP . . . M 5 -9.905 -21.392 -11.271 1 13.69 ? N3 GTP 501 C 1 HETATM 32 C C4 GTP . . . M 5 -10.564 -21.268 -12.445 1 13.53 ? C4 GTP 501 C 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 32 #