data_6PF9 # _model_server_result.job_id ZTrrzfk7-AAA4iLmYUpIQg _model_server_result.datetime_utc '2024-11-25 08:37:40' _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 6pf9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":603}' # _entry.id 6PF9 # _exptl.entry_id 6PF9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 417.417 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[2-({4-[(2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-5-yl)methyl]benzene-1-carbonyl}amino)phenyl]acetic acid' _entity.pdbx_number_of_molecules 5 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 94.87 _cell.angle_gamma 90 _cell.entry_id 6PF9 _cell.length_a 214.201 _cell.length_b 116.51 _cell.length_c 221.439 _cell.Z_PDB 20 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PF9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # 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 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,F,G,H,I,J 1 1,2 B,C,K,L,M,N,O,P,Q,R,S,T,EA,FA 2 1 D,U,V,W,X,Y,GA 3 1 E,Z,AA,BA,CA,DA,HA 3 3 # 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' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 3 'crystal symmetry operation' 3_555 x+1/2,y+1/2,z 1 0 0 0 1 0 0 0 1 107.1005 58.255 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 H N N ? 4 M N N ? 4 R N N ? 4 W N N ? 4 BA N N # _chem_comp.formula 'C22 H19 N5 O4' _chem_comp.formula_weight 417.417 _chem_comp.id OF7 _chem_comp.mon_nstd_flag . _chem_comp.name '[2-({4-[(2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-5-yl)methyl]benzene-1-carbonyl}amino)phenyl]acetic 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 C6 N3 OF7 sing 376 n y C6 C5 OF7 doub 377 n y C7 C5 OF7 sing 378 n n C7 C8 OF7 sing 379 n n N3 C1 OF7 sing 380 n y C5 C2 OF7 sing 381 n y C1 C2 OF7 doub 382 n y C1 N1 OF7 sing 383 n n C2 C3 OF7 sing 384 n n C8 C9 OF7 doub 385 n y C8 C13 OF7 sing 386 n y N1 C4 OF7 doub 387 n n C9 C10 OF7 sing 388 n y C3 O1 OF7 doub 389 n n C3 N2 OF7 sing 390 n n C4 N2 OF7 sing 391 n n C4 N4 OF7 sing 392 n n C13 C12 OF7 doub 393 n y C10 C11 OF7 doub 394 n y C12 C11 OF7 sing 395 n y C11 C14 OF7 sing 396 n n C14 O2 OF7 doub 397 n n C14 N5 OF7 sing 398 n n N5 C15 OF7 sing 399 n n O3 C22 OF7 doub 400 n n C22 O4 OF7 sing 401 n n C22 C21 OF7 sing 402 n n C15 C20 OF7 doub 403 n y C15 C16 OF7 sing 404 n y C20 C19 OF7 sing 405 n y C21 C16 OF7 sing 406 n n C16 C17 OF7 doub 407 n y C19 C18 OF7 doub 408 n y C17 C18 OF7 sing 409 n y N2 H1 OF7 sing 410 n n N3 H2 OF7 sing 411 n n C10 H3 OF7 sing 412 n n C12 H4 OF7 sing 413 n n C13 H5 OF7 sing 414 n n C17 H6 OF7 sing 415 n n C18 H7 OF7 sing 416 n n C19 H8 OF7 sing 417 n n C20 H9 OF7 sing 418 n n C21 H10 OF7 sing 419 n n C21 H11 OF7 sing 420 n n C6 H12 OF7 sing 421 n n C7 H13 OF7 sing 422 n n C7 H14 OF7 sing 423 n n C9 H15 OF7 sing 424 n n N4 H16 OF7 sing 425 n n N4 H17 OF7 sing 426 n n N5 H18 OF7 sing 427 n n O4 H19 OF7 sing 428 n n # _atom_sites.entry_id 6PF9 _atom_sites.fract_transf_matrix[1][1] 0.004669 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000398 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008583 _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] 0.004532 _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 F 2 NDP A 1 601 601 NDP NDP . G 3 UFP A 1 602 602 UFP UFP . H 4 OF7 A 1 603 603 OF7 M80 . I 5 MTX A 1 604 604 MTX MTX . J 6 SO4 A 1 605 5 SO4 SO4 . K 2 NDP B 1 601 601 NDP NDP . L 3 UFP B 1 602 602 UFP UFP . M 4 OF7 B 1 603 603 OF7 M80 . N 5 MTX B 1 604 604 MTX MTX . O 6 SO4 B 1 605 1 SO4 SO4 . P 2 NDP C 1 601 601 NDP NDP . Q 3 UFP C 1 602 602 UFP UFP . R 4 OF7 C 1 603 603 OF7 M80 . S 5 MTX C 1 604 604 MTX MTX . T 6 SO4 C 1 605 4 SO4 SO4 . U 2 NDP D 1 601 601 NDP NDP . V 3 UFP D 1 602 602 UFP UFP . W 4 OF7 D 1 603 603 OF7 M80 . X 5 MTX D 1 604 604 MTX MTX . Y 6 SO4 D 1 605 2 SO4 SO4 . Z 2 NDP E 1 601 601 NDP NDP . AA 3 UFP E 1 602 602 UFP UFP . BA 4 OF7 E 1 603 603 OF7 M80 . CA 5 MTX E 1 604 604 MTX MTX . DA 6 SO4 E 1 605 3 SO4 SO4 . EA 7 HOH B 1 701 3 HOH HOH . FA 7 HOH C 1 701 9 HOH HOH . FA 7 HOH C 2 702 7 HOH HOH . FA 7 HOH C 3 703 6 HOH HOH . FA 7 HOH C 4 704 12 HOH HOH . GA 7 HOH D 1 701 5 HOH HOH . GA 7 HOH D 2 702 10 HOH HOH . GA 7 HOH D 3 703 4 HOH HOH . GA 7 HOH D 4 704 1 HOH HOH . GA 7 HOH D 5 705 11 HOH HOH . HA 7 HOH E 1 701 8 HOH HOH . HA 7 HOH E 2 702 2 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 N1 OF7 . . . M 4 3.358 15.044 65.833 1 116.23 ? N1 OF7 603 B 1 HETATM 2 C C1 OF7 . . . M 4 4.11 15.225 66.981 1 104.27 ? C1 OF7 603 B 1 HETATM 3 O O1 OF7 . . . M 4 7.141 16.609 65.695 1 108.97 ? O1 OF7 603 B 1 HETATM 4 N N2 OF7 . . . M 4 5.249 15.948 64.669 1 102.07 ? N2 OF7 603 B 1 HETATM 5 C C2 OF7 . . . M 4 5.379 15.74 67.046 1 122.35 ? C2 OF7 603 B 1 HETATM 6 O O2 OF7 . . . M 4 7.053 22.674 67.834 1 101.86 ? O2 OF7 603 B 1 HETATM 7 N N3 OF7 . . . M 4 3.705 14.917 68.256 1 105.11 ? N3 OF7 603 B 1 HETATM 8 C C3 OF7 . . . M 4 6.008 16.137 65.765 1 110.53 ? C3 OF7 603 B 1 HETATM 9 O O3 OF7 . . . M 4 9.882 25.949 71.389 1 119.12 ? O3 OF7 603 B 1 HETATM 10 C C10 OF7 . . . M 4 8.884 19.558 68.367 1 88.13 ? C10 OF7 603 B 1 HETATM 11 C C11 OF7 . . . M 4 7.798 20.457 68.237 1 104.31 ? C11 OF7 603 B 1 HETATM 12 C C12 OF7 . . . M 4 6.482 19.959 68.368 1 97.46 ? C12 OF7 603 B 1 HETATM 13 C C13 OF7 . . . M 4 6.255 18.592 68.618 1 98.68 ? C13 OF7 603 B 1 HETATM 14 C C14 OF7 . . . M 4 8.019 21.923 67.976 1 111.13 ? C14 OF7 603 B 1 HETATM 15 C C15 OF7 . . . M 4 9.891 23.598 67.708 1 120.51 ? C15 OF7 603 B 1 HETATM 16 C C16 OF7 . . . M 4 9.6 24.711 68.554 1 124.01 ? C16 OF7 603 B 1 HETATM 17 C C17 OF7 . . . M 4 10.205 25.96 68.283 1 125.7 ? C17 OF7 603 B 1 HETATM 18 C C18 OF7 . . . M 4 11.093 26.123 67.205 1 129.24 ? C18 OF7 603 B 1 HETATM 19 C C19 OF7 . . . M 4 11.388 25.031 66.373 1 113.06 ? C19 OF7 603 B 1 HETATM 20 C C20 OF7 . . . M 4 10.795 23.78 66.628 1 108.75 ? C20 OF7 603 B 1 HETATM 21 C C21 OF7 . . . M 4 8.645 24.637 69.75 1 123.94 ? C21 OF7 603 B 1 HETATM 22 C C22 OF7 . . . M 4 9.348 24.882 71.089 1 128.37 ? C22 OF7 603 B 1 HETATM 23 C C4 OF7 . . . M 4 3.952 15.411 64.729 1 114.39 ? C4 OF7 603 B 1 HETATM 24 C C5 OF7 . . . M 4 5.777 15.746 68.425 1 119.18 ? C5 OF7 603 B 1 HETATM 25 C C6 OF7 . . . M 4 4.716 15.235 69.14 1 110.44 ? C6 OF7 603 B 1 HETATM 26 C C7 OF7 . . . M 4 7.085 16.224 69.009 1 96.01 ? C7 OF7 603 B 1 HETATM 27 C C8 OF7 . . . M 4 7.339 17.698 68.738 1 91.98 ? C8 OF7 603 B 1 HETATM 28 C C9 OF7 . . . M 4 8.655 18.189 68.613 1 84.55 ? C9 OF7 603 B 1 HETATM 29 N N4 OF7 . . . M 4 3.386 15.316 63.475 1 99.59 ? N4 OF7 603 B 1 HETATM 30 N N5 OF7 . . . M 4 9.312 22.311 67.934 1 113.12 ? N5 OF7 603 B 1 HETATM 31 O O4 OF7 . . . M 4 9.294 23.783 71.897 1 104 -1 O4 OF7 603 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #