data_1RV3 # _model_server_result.job_id ElaVSE0xWcNKrJvqDLWj7Q _model_server_result.datetime_utc '2024-10-10 01:15:07' _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 1rv3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":602}' # _entry.id 1RV3 # _exptl.entry_id 1RV3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 75.067 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCINE _entity.pdbx_number_of_molecules 1 _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 1RV3 _cell.length_a 114.92 _cell.length_b 114.92 _cell.length_c 158.29 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RV3 _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 ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_556 y,x,-z+1 0 1 0 1 0 0 0 0 -1 0 0 158.29 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 covale ? covale1 A NZ LYS 256 A LYS 257 1_555 D C4A PLP . A PLP 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.51 ? covale ? covale2 B NZ LYS 256 B LYS 257 1_555 G C4A PLP . B PLP 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.508 ? covale ? covale3 G C4A PLP . B PLP 600 1_555 F N GLY . B GLY 602 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.434 ? covale ? covale4 G C4A PLP . B PLP 600 1_555 F N GLY . B GLY 602 1_555 ? ? ? ? C ? ? ? ? ? ? ? 1.485 ? # _chem_comp.formula 'C2 H5 N O2' _chem_comp.formula_weight 75.067 _chem_comp.id GLY _chem_comp.mon_nstd_flag y _chem_comp.name GLYCINE _chem_comp.type 'peptide linking' _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 N CA GLY sing 120 n n N H GLY sing 121 n n N H2 GLY sing 122 n n CA C GLY sing 123 n n CA HA2 GLY sing 124 n n CA HA3 GLY sing 125 n n C O GLY doub 126 n n C OXT GLY sing 127 n n OXT HXT GLY sing 128 n n # _atom_sites.entry_id 1RV3 _atom_sites.fract_transf_matrix[1][1] 0.008702 _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] 0.008702 _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] 0.006318 _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 PO4 A 1 501 501 PO4 PO4 . D 3 PLP A 1 500 500 PLP PLP . E 2 PO4 B 1 601 601 PO4 PO4 . F 4 GLY B 1 602 602 GLY GLY . G 3 PLP B 1 600 600 PLP PLP . H 5 HOH A 1 511 511 HOH HOH . H 5 HOH A 2 512 512 HOH HOH . H 5 HOH A 3 514 514 HOH HOH . H 5 HOH A 4 515 515 HOH HOH . H 5 HOH A 5 516 516 HOH HOH . H 5 HOH A 6 517 517 HOH HOH . H 5 HOH A 7 518 518 HOH HOH . H 5 HOH A 8 519 519 HOH HOH . H 5 HOH A 9 520 520 HOH HOH . H 5 HOH A 10 521 521 HOH HOH . H 5 HOH A 11 522 522 HOH HOH . H 5 HOH A 12 523 523 HOH HOH . H 5 HOH A 13 524 524 HOH HOH . H 5 HOH A 14 526 526 HOH HOH . H 5 HOH A 15 527 527 HOH HOH . H 5 HOH A 16 528 528 HOH HOH . H 5 HOH A 17 529 529 HOH HOH . H 5 HOH A 18 530 530 HOH HOH . H 5 HOH A 19 531 531 HOH HOH . H 5 HOH A 20 532 532 HOH HOH . H 5 HOH A 21 533 533 HOH HOH . H 5 HOH A 22 534 534 HOH HOH . H 5 HOH A 23 535 535 HOH HOH . H 5 HOH A 24 536 536 HOH HOH . H 5 HOH A 25 537 537 HOH HOH . H 5 HOH A 26 538 538 HOH HOH . H 5 HOH A 27 539 539 HOH HOH . H 5 HOH A 28 541 541 HOH HOH . H 5 HOH A 29 542 542 HOH HOH . H 5 HOH A 30 543 543 HOH HOH . H 5 HOH A 31 544 544 HOH HOH . H 5 HOH A 32 545 545 HOH HOH . H 5 HOH A 33 546 546 HOH HOH . H 5 HOH A 34 547 547 HOH HOH . H 5 HOH A 35 548 548 HOH HOH . H 5 HOH A 36 549 549 HOH HOH . H 5 HOH A 37 550 550 HOH HOH . H 5 HOH A 38 551 551 HOH HOH . H 5 HOH A 39 552 552 HOH HOH . H 5 HOH A 40 613 613 HOH HOH . H 5 HOH A 41 625 625 HOH HOH . H 5 HOH A 42 640 640 HOH HOH . H 5 HOH A 43 655 655 HOH HOH . I 5 HOH B 1 513 513 HOH HOH . I 5 HOH B 2 525 525 HOH HOH . I 5 HOH B 3 540 540 HOH HOH . I 5 HOH B 4 612 612 HOH HOH . I 5 HOH B 5 614 614 HOH HOH . I 5 HOH B 6 615 615 HOH HOH . I 5 HOH B 7 616 616 HOH HOH . I 5 HOH B 8 617 617 HOH HOH . I 5 HOH B 9 618 618 HOH HOH . I 5 HOH B 10 619 619 HOH HOH . I 5 HOH B 11 620 620 HOH HOH . I 5 HOH B 12 621 621 HOH HOH . I 5 HOH B 13 622 622 HOH HOH . I 5 HOH B 14 623 623 HOH HOH . I 5 HOH B 15 624 624 HOH HOH . I 5 HOH B 16 626 626 HOH HOH . I 5 HOH B 17 627 627 HOH HOH . I 5 HOH B 18 628 628 HOH HOH . I 5 HOH B 19 629 629 HOH HOH . I 5 HOH B 20 630 630 HOH HOH . I 5 HOH B 21 631 631 HOH HOH . I 5 HOH B 22 632 632 HOH HOH . I 5 HOH B 23 633 633 HOH HOH . I 5 HOH B 24 634 634 HOH HOH . I 5 HOH B 25 635 635 HOH HOH . I 5 HOH B 26 636 636 HOH HOH . I 5 HOH B 27 637 637 HOH HOH . I 5 HOH B 28 638 638 HOH HOH . I 5 HOH B 29 639 639 HOH HOH . I 5 HOH B 30 641 641 HOH HOH . I 5 HOH B 31 642 642 HOH HOH . I 5 HOH B 32 643 643 HOH HOH . I 5 HOH B 33 644 644 HOH HOH . I 5 HOH B 34 645 645 HOH HOH . I 5 HOH B 35 646 646 HOH HOH . I 5 HOH B 36 647 647 HOH HOH . I 5 HOH B 37 648 648 HOH HOH . I 5 HOH B 38 649 649 HOH HOH . I 5 HOH B 39 650 650 HOH HOH . I 5 HOH B 40 651 651 HOH HOH . I 5 HOH B 41 652 652 HOH HOH . I 5 HOH B 42 653 653 HOH HOH . I 5 HOH B 43 654 654 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 N N GLY . B . F 4 31.508 61.974 66.448 0.25 34.45 ? N GLY 602 B 1 HETATM 2 N N GLY . C . F 4 31.934 62.08 66.136 0.25 44.68 ? N GLY 602 B 1 HETATM 3 C CA GLY . B . F 4 31.057 62.111 65.101 0.25 34.45 ? CA GLY 602 B 1 HETATM 4 C CA GLY . C . F 4 30.717 61.992 65.248 0.25 44.68 ? CA GLY 602 B 1 HETATM 5 C C GLY . B . F 4 30.435 60.805 64.396 0.25 34.45 ? C GLY 602 B 1 HETATM 6 C C GLY . C . F 4 31.167 61.695 63.745 0.25 44.68 ? C GLY 602 B 1 HETATM 7 O O GLY . B . F 4 30.332 60.723 63.175 0.25 34.45 ? O GLY 602 B 1 HETATM 8 O O GLY . C . F 4 30.558 60.918 63.073 0.25 44.68 ? O GLY 602 B 1 HETATM 9 O OXT GLY . B . F 4 30.031 59.841 65.062 0.25 34.45 ? OXT GLY 602 B 1 HETATM 10 O OXT GLY . C . F 4 32.161 62.274 63.216 0.25 44.68 ? OXT GLY 602 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 10 #