data_5B2V # _model_server_result.job_id 7u65hZfzXuqJRt8eAkJX6Q _model_server_result.datetime_utc '2024-11-25 10:40:27' _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 5b2v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 5B2V # _exptl.entry_id 5B2V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 500.263 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2~{S})-3-(1~{H}-indol-3-yl)-2-[2,2,3,3,4,4,5,5,6,6,6-undecakis(fluoranyl)hexanoylamino]propanoic acid' _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 98.23 _cell.angle_gamma 90 _cell.entry_id 5B2V _cell.length_a 58.881 _cell.length_b 147.491 _cell.length_c 64.247 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5B2V _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,G,H _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 ? 3 D N N ? 3 F 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 SG CYS 401 A CYS 400 1_555 C FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? metalc ? metalc2 B SG CYS 401 B CYS 400 1_555 E FE HEM . B HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? # _chem_comp.formula 'C17 H11 F11 N2 O3' _chem_comp.formula_weight 500.263 _chem_comp.id W06 _chem_comp.mon_nstd_flag . _chem_comp.name '(2~{S})-3-(1~{H}-indol-3-yl)-2-[2,2,3,3,4,4,5,5,6,6,6-undecakis(fluoranyl)hexanoylamino]propanoic acid' _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 FAY CAV W06 sing 458 n n FAW CAV W06 sing 459 n n CAV FAX W06 sing 460 n n CAV CAU W06 sing 461 n n FAZ CAU W06 sing 462 n n CAU FBA W06 sing 463 n n CAU CAT W06 sing 464 n n FBB CAT W06 sing 465 n n CAT FBC W06 sing 466 n n CAT CAS W06 sing 467 n n FBG CAR W06 sing 468 n n FBE CAS W06 sing 469 n n CAS CAR W06 sing 470 n n CAS FBD W06 sing 471 n n OAQ CAP W06 doub 472 n n CAR CAP W06 sing 473 n n CAR FBF W06 sing 474 n n CAP N W06 sing 475 n n N CA W06 sing 476 n n CA C W06 sing 477 n n CA CB W06 sing 478 n n O C W06 doub 479 n n C OXT W06 sing 480 n n CB CG W06 sing 481 n n CG CD1 W06 doub 482 n y CG CD2 W06 sing 483 n y CD1 NE1 W06 sing 484 n y CE3 CD2 W06 sing 485 n y CE3 CZ3 W06 doub 486 n y CD2 CE2 W06 doub 487 n y NE1 CE2 W06 sing 488 n y CZ3 CH2 W06 sing 489 n y CE2 CZ2 W06 sing 490 n y CH2 CZ2 W06 doub 491 n y N H1 W06 sing 492 n n CA H2 W06 sing 493 n n OXT H3 W06 sing 494 n n CB H4 W06 sing 495 n n CB H5 W06 sing 496 n n CE3 H6 W06 sing 497 n n CZ3 H7 W06 sing 498 n n CH2 H8 W06 sing 499 n n CZ2 H9 W06 sing 500 n n NE1 H10 W06 sing 501 n n CD1 H11 W06 sing 502 n n # _atom_sites.entry_id 5B2V _atom_sites.fract_transf_matrix[1][1] 0.016983 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002457 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00678 _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] 0.015727 _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 HEM A 1 501 501 HEM HEM . D 3 W06 A 1 502 502 W06 W06 . E 2 HEM B 1 501 501 HEM HEM . F 3 W06 B 1 502 502 W06 W06 . G 4 HOH A 1 601 75 HOH HOH . G 4 HOH A 2 602 72 HOH HOH . G 4 HOH A 3 603 63 HOH HOH . G 4 HOH A 4 604 24 HOH HOH . G 4 HOH A 5 605 90 HOH HOH . G 4 HOH A 6 606 12 HOH HOH . G 4 HOH A 7 607 61 HOH HOH . G 4 HOH A 8 608 40 HOH HOH . G 4 HOH A 9 609 128 HOH HOH . G 4 HOH A 10 610 83 HOH HOH . G 4 HOH A 11 611 78 HOH HOH . G 4 HOH A 12 612 67 HOH HOH . G 4 HOH A 13 613 39 HOH HOH . G 4 HOH A 14 614 68 HOH HOH . G 4 HOH A 15 615 47 HOH HOH . G 4 HOH A 16 616 36 HOH HOH . G 4 HOH A 17 617 99 HOH HOH . G 4 HOH A 18 618 30 HOH HOH . G 4 HOH A 19 619 88 HOH HOH . G 4 HOH A 20 620 8 HOH HOH . G 4 HOH A 21 621 22 HOH HOH . G 4 HOH A 22 622 56 HOH HOH . G 4 HOH A 23 623 34 HOH HOH . G 4 HOH A 24 624 48 HOH HOH . G 4 HOH A 25 625 71 HOH HOH . G 4 HOH A 26 626 1 HOH HOH . G 4 HOH A 27 627 9 HOH HOH . G 4 HOH A 28 628 50 HOH HOH . G 4 HOH A 29 629 62 HOH HOH . G 4 HOH A 30 630 116 HOH HOH . G 4 HOH A 31 631 110 HOH HOH . G 4 HOH A 32 632 15 HOH HOH . G 4 HOH A 33 633 4 HOH HOH . G 4 HOH A 34 634 87 HOH HOH . G 4 HOH A 35 635 5 HOH HOH . G 4 HOH A 36 636 38 HOH HOH . G 4 HOH A 37 637 20 HOH HOH . G 4 HOH A 38 638 23 HOH HOH . G 4 HOH A 39 639 112 HOH HOH . G 4 HOH A 40 640 121 HOH HOH . G 4 HOH A 41 641 51 HOH HOH . G 4 HOH A 42 642 122 HOH HOH . G 4 HOH A 43 643 104 HOH HOH . G 4 HOH A 44 644 45 HOH HOH . G 4 HOH A 45 645 113 HOH HOH . G 4 HOH A 46 646 69 HOH HOH . G 4 HOH A 47 647 19 HOH HOH . G 4 HOH A 48 648 59 HOH HOH . G 4 HOH A 49 649 100 HOH HOH . G 4 HOH A 50 650 25 HOH HOH . G 4 HOH A 51 651 106 HOH HOH . G 4 HOH A 52 652 95 HOH HOH . G 4 HOH A 53 653 43 HOH HOH . G 4 HOH A 54 654 10 HOH HOH . G 4 HOH A 55 655 13 HOH HOH . G 4 HOH A 56 656 16 HOH HOH . G 4 HOH A 57 657 74 HOH HOH . G 4 HOH A 58 658 102 HOH HOH . G 4 HOH A 59 659 28 HOH HOH . G 4 HOH A 60 660 2 HOH HOH . G 4 HOH A 61 661 21 HOH HOH . G 4 HOH A 62 662 129 HOH HOH . G 4 HOH A 63 663 97 HOH HOH . G 4 HOH A 64 664 117 HOH HOH . G 4 HOH A 65 665 64 HOH HOH . G 4 HOH A 66 666 98 HOH HOH . G 4 HOH A 67 667 11 HOH HOH . G 4 HOH A 68 668 80 HOH HOH . G 4 HOH A 69 669 105 HOH HOH . G 4 HOH A 70 670 70 HOH HOH . H 4 HOH B 1 601 27 HOH HOH . H 4 HOH B 2 602 89 HOH HOH . H 4 HOH B 3 603 7 HOH HOH . H 4 HOH B 4 604 65 HOH HOH . H 4 HOH B 5 605 115 HOH HOH . H 4 HOH B 6 606 86 HOH HOH . H 4 HOH B 7 607 3 HOH HOH . H 4 HOH B 8 608 109 HOH HOH . H 4 HOH B 9 609 18 HOH HOH . H 4 HOH B 10 610 58 HOH HOH . H 4 HOH B 11 611 76 HOH HOH . H 4 HOH B 12 612 111 HOH HOH . H 4 HOH B 13 613 6 HOH HOH . H 4 HOH B 14 614 52 HOH HOH . H 4 HOH B 15 615 114 HOH HOH . H 4 HOH B 16 616 26 HOH HOH . H 4 HOH B 17 617 49 HOH HOH . H 4 HOH B 18 618 53 HOH HOH . H 4 HOH B 19 619 84 HOH HOH . H 4 HOH B 20 620 85 HOH HOH . H 4 HOH B 21 621 60 HOH HOH . H 4 HOH B 22 622 94 HOH HOH . H 4 HOH B 23 623 96 HOH HOH . H 4 HOH B 24 624 44 HOH HOH . H 4 HOH B 25 625 42 HOH HOH . H 4 HOH B 26 626 124 HOH HOH . H 4 HOH B 27 627 118 HOH HOH . H 4 HOH B 28 628 35 HOH HOH . H 4 HOH B 29 629 103 HOH HOH . H 4 HOH B 30 630 119 HOH HOH . H 4 HOH B 31 631 91 HOH HOH . H 4 HOH B 32 632 41 HOH HOH . H 4 HOH B 33 633 123 HOH HOH . H 4 HOH B 34 634 14 HOH HOH . H 4 HOH B 35 635 107 HOH HOH . H 4 HOH B 36 636 66 HOH HOH . H 4 HOH B 37 637 73 HOH HOH . H 4 HOH B 38 638 126 HOH HOH . H 4 HOH B 39 639 57 HOH HOH . H 4 HOH B 40 640 32 HOH HOH . H 4 HOH B 41 641 125 HOH HOH . H 4 HOH B 42 642 82 HOH HOH . H 4 HOH B 43 643 37 HOH HOH . H 4 HOH B 44 644 54 HOH HOH . H 4 HOH B 45 645 101 HOH HOH . H 4 HOH B 46 646 92 HOH HOH . H 4 HOH B 47 647 81 HOH HOH . H 4 HOH B 48 648 108 HOH HOH . H 4 HOH B 49 649 17 HOH HOH . H 4 HOH B 50 650 79 HOH HOH . H 4 HOH B 51 651 33 HOH HOH . H 4 HOH B 52 652 55 HOH HOH . H 4 HOH B 53 653 93 HOH HOH . H 4 HOH B 54 654 77 HOH HOH . H 4 HOH B 55 655 127 HOH HOH . H 4 HOH B 56 656 31 HOH HOH . H 4 HOH B 57 657 29 HOH HOH . H 4 HOH B 58 658 46 HOH HOH . H 4 HOH B 59 659 120 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 F FAW W06 . . . D 3 1.768 -3.707 23.201 1 72.65 ? FAW W06 502 A 1 HETATM 2 C CAV W06 . . . D 3 1.857 -4.669 24.126 1 70.42 ? CAV W06 502 A 1 HETATM 3 F FAX W06 . . . D 3 1.873 -5.855 23.523 1 70.88 ? FAX W06 502 A 1 HETATM 4 F FAY W06 . . . D 3 0.803 -4.595 24.93 1 71.7 ? FAY W06 502 A 1 HETATM 5 C CAU W06 . . . D 3 3.153 -4.47 24.933 1 68.87 ? CAU W06 502 A 1 HETATM 6 F FAZ W06 . . . D 3 3.124 -3.258 25.469 1 68.15 ? FAZ W06 502 A 1 HETATM 7 F FBA W06 . . . D 3 4.166 -4.531 24.106 1 68.64 ? FBA W06 502 A 1 HETATM 8 C CAT W06 . . . D 3 3.34 -5.557 26.028 1 68.32 ? CAT W06 502 A 1 HETATM 9 F FBB W06 . . . D 3 4.484 -6.206 25.805 1 67.15 ? FBB W06 502 A 1 HETATM 10 F FBC W06 . . . D 3 2.318 -6.444 25.983 1 67.83 ? FBC W06 502 A 1 HETATM 11 C CAS W06 . . . D 3 3.392 -4.942 27.445 1 68.4 ? CAS W06 502 A 1 HETATM 12 F FBD W06 . . . D 3 2.146 -4.574 27.814 1 67.6 ? FBD W06 502 A 1 HETATM 13 F FBE W06 . . . D 3 4.224 -3.852 27.456 1 68.92 ? FBE W06 502 A 1 HETATM 14 C CAR W06 . . . D 3 3.946 -5.929 28.487 1 67.14 ? CAR W06 502 A 1 HETATM 15 F FBF W06 . . . D 3 3.978 -5.317 29.659 1 66.18 ? FBF W06 502 A 1 HETATM 16 F FBG W06 . . . D 3 5.172 -6.273 28.164 1 67.52 ? FBG W06 502 A 1 HETATM 17 C CAP W06 . . . D 3 3.083 -7.19 28.637 1 66.03 ? CAP W06 502 A 1 HETATM 18 O OAQ W06 . . . D 3 3.524 -8.296 28.321 1 63.92 ? OAQ W06 502 A 1 HETATM 19 N N W06 . . . D 3 1.859 -6.986 29.161 1 65.88 ? N W06 502 A 1 HETATM 20 C CA W06 . . . D 3 0.941 -8.106 29.437 1 65.55 ? CA W06 502 A 1 HETATM 21 C C W06 . . . D 3 -0.494 -7.559 29.649 1 64.09 ? C W06 502 A 1 HETATM 22 O O W06 . . . D 3 -0.649 -6.322 29.523 1 60.55 ? O W06 502 A 1 HETATM 23 O OXT W06 . . . D 3 -1.406 -8.381 29.892 1 64.13 ? OXT W06 502 A 1 HETATM 24 C CB W06 . . . D 3 1.577 -8.824 30.632 1 66.98 ? CB W06 502 A 1 HETATM 25 C CG W06 . . . D 3 0.946 -8.382 31.963 1 68.84 ? CG W06 502 A 1 HETATM 26 C CD2 W06 . . . D 3 0.575 -9.193 32.951 1 70.94 ? CD2 W06 502 A 1 HETATM 27 C CE3 W06 . . . D 3 0.58 -10.528 33.077 1 71 ? CE3 W06 502 A 1 HETATM 28 C CZ3 W06 . . . D 3 0.102 -11.123 34.239 1 71.09 ? CZ3 W06 502 A 1 HETATM 29 C CH2 W06 . . . D 3 -0.375 -10.302 35.252 1 71.8 ? CH2 W06 502 A 1 HETATM 30 C CZ2 W06 . . . D 3 -0.36 -8.923 35.069 1 71.48 ? CZ2 W06 502 A 1 HETATM 31 C CE2 W06 . . . D 3 0.112 -8.403 33.933 1 71.45 ? CE2 W06 502 A 1 HETATM 32 N NE1 W06 . . . D 3 0.225 -7.133 33.54 1 70.32 ? NE1 W06 502 A 1 HETATM 33 C CD1 W06 . . . D 3 0.759 -7.117 32.323 1 69.07 ? CD1 W06 502 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 259 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 33 #