data_3VAS # _model_server_result.job_id j2986U3ECW6YwR6eKU4zXw _model_server_result.datetime_utc '2024-11-22 19:56:45' _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 3vas # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 3VAS # _exptl.entry_id 3VAS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 267.241 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENOSINE _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 90 _cell.angle_gamma 90 _cell.entry_id 3VAS _cell.length_a 58.97 _cell.length_b 180.12 _cell.length_c 79.27 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VAS _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 C N N ? 2 E N N # _chem_comp.formula 'C10 H13 N5 O4' _chem_comp.formula_weight 267.241 _chem_comp.id ADN _chem_comp.mon_nstd_flag . _chem_comp.name ADENOSINE _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 O5' C5' ADN sing 1 n n O5' HO5' ADN sing 2 n n C5' C4' ADN sing 3 n n C5' "H5'1" ADN sing 4 n n C5' "H5'2" ADN sing 5 n n C4' O4' ADN sing 6 n n C4' C3' ADN sing 7 n n C4' H4' ADN sing 8 n n O4' C1' ADN sing 9 n n C3' O3' ADN sing 10 n n C3' C2' ADN sing 11 n n C3' H3' ADN sing 12 n n O3' HO3' ADN sing 13 n n C2' O2' ADN sing 14 n n C2' C1' ADN sing 15 n n C2' H2' ADN sing 16 n n O2' HO2' ADN sing 17 n n C1' N9 ADN sing 18 n n C1' H1' ADN sing 19 n n N9 C8 ADN sing 20 n y N9 C4 ADN sing 21 n y C8 N7 ADN doub 22 n y C8 H8 ADN sing 23 n n N7 C5 ADN sing 24 n y C5 C6 ADN sing 25 n y C5 C4 ADN doub 26 n y C6 N6 ADN sing 27 n n C6 N1 ADN doub 28 n y N6 HN61 ADN sing 29 n n N6 HN62 ADN sing 30 n n N1 C2 ADN sing 31 n y C2 N3 ADN doub 32 n y C2 H2 ADN sing 33 n n N3 C4 ADN sing 34 n y # _atom_sites.entry_id 3VAS _atom_sites.fract_transf_matrix[1][1] 0.016958 _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] 0.005552 _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] 0.012615 _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 ADN A 1 401 401 ADN ADN . D 3 CL A 1 402 402 CL CL . E 2 ADN B 1 401 401 ADN ADN . F 3 CL B 1 402 402 CL CL . G 4 HOH A 1 501 501 HOH HOH . G 4 HOH A 2 502 502 HOH HOH . G 4 HOH A 3 503 503 HOH HOH . G 4 HOH A 4 504 504 HOH HOH . G 4 HOH A 5 505 505 HOH HOH . G 4 HOH A 6 506 506 HOH HOH . G 4 HOH A 7 507 507 HOH HOH . G 4 HOH A 8 508 508 HOH HOH . G 4 HOH A 9 509 509 HOH HOH . G 4 HOH A 10 510 510 HOH HOH . G 4 HOH A 11 511 511 HOH HOH . G 4 HOH A 12 512 512 HOH HOH . G 4 HOH A 13 513 513 HOH HOH . G 4 HOH A 14 514 514 HOH HOH . G 4 HOH A 15 515 515 HOH HOH . G 4 HOH A 16 516 516 HOH HOH . G 4 HOH A 17 517 517 HOH HOH . G 4 HOH A 18 518 518 HOH HOH . G 4 HOH A 19 519 519 HOH HOH . G 4 HOH A 20 520 520 HOH HOH . G 4 HOH A 21 521 521 HOH HOH . G 4 HOH A 22 522 522 HOH HOH . G 4 HOH A 23 523 523 HOH HOH . G 4 HOH A 24 524 524 HOH HOH . G 4 HOH A 25 525 525 HOH HOH . G 4 HOH A 26 526 526 HOH HOH . G 4 HOH A 27 527 527 HOH HOH . G 4 HOH A 28 528 528 HOH HOH . G 4 HOH A 29 529 529 HOH HOH . G 4 HOH A 30 530 530 HOH HOH . G 4 HOH A 31 531 531 HOH HOH . G 4 HOH A 32 532 532 HOH HOH . G 4 HOH A 33 533 533 HOH HOH . G 4 HOH A 34 534 534 HOH HOH . G 4 HOH A 35 535 535 HOH HOH . G 4 HOH A 36 536 536 HOH HOH . G 4 HOH A 37 537 537 HOH HOH . G 4 HOH A 38 538 538 HOH HOH . G 4 HOH A 39 539 539 HOH HOH . G 4 HOH A 40 540 540 HOH HOH . G 4 HOH A 41 541 541 HOH HOH . G 4 HOH A 42 542 542 HOH HOH . G 4 HOH A 43 543 543 HOH HOH . G 4 HOH A 44 544 544 HOH HOH . G 4 HOH A 45 545 546 HOH HOH . G 4 HOH A 46 546 547 HOH HOH . G 4 HOH A 47 547 548 HOH HOH . G 4 HOH A 48 548 549 HOH HOH . G 4 HOH A 49 549 550 HOH HOH . G 4 HOH A 50 550 551 HOH HOH . G 4 HOH A 51 551 552 HOH HOH . G 4 HOH A 52 552 553 HOH HOH . G 4 HOH A 53 553 554 HOH HOH . G 4 HOH A 54 554 555 HOH HOH . G 4 HOH A 55 555 556 HOH HOH . G 4 HOH A 56 556 557 HOH HOH . G 4 HOH A 57 557 558 HOH HOH . G 4 HOH A 58 558 559 HOH HOH . G 4 HOH A 59 559 560 HOH HOH . G 4 HOH A 60 560 561 HOH HOH . G 4 HOH A 61 561 562 HOH HOH . G 4 HOH A 62 562 563 HOH HOH . G 4 HOH A 63 563 564 HOH HOH . G 4 HOH A 64 564 565 HOH HOH . G 4 HOH A 65 565 566 HOH HOH . G 4 HOH A 66 566 567 HOH HOH . G 4 HOH A 67 567 568 HOH HOH . G 4 HOH A 68 568 569 HOH HOH . G 4 HOH A 69 569 570 HOH HOH . G 4 HOH A 70 570 571 HOH HOH . G 4 HOH A 71 571 572 HOH HOH . G 4 HOH A 72 572 573 HOH HOH . G 4 HOH A 73 573 574 HOH HOH . G 4 HOH A 74 574 575 HOH HOH . G 4 HOH A 75 575 576 HOH HOH . G 4 HOH A 76 576 577 HOH HOH . G 4 HOH A 77 577 578 HOH HOH . G 4 HOH A 78 578 579 HOH HOH . G 4 HOH A 79 579 580 HOH HOH . G 4 HOH A 80 580 581 HOH HOH . G 4 HOH A 81 581 582 HOH HOH . G 4 HOH A 82 582 583 HOH HOH . G 4 HOH A 83 583 584 HOH HOH . G 4 HOH A 84 584 585 HOH HOH . G 4 HOH A 85 585 586 HOH HOH . G 4 HOH A 86 586 587 HOH HOH . G 4 HOH A 87 587 588 HOH HOH . G 4 HOH A 88 588 589 HOH HOH . G 4 HOH A 89 589 590 HOH HOH . G 4 HOH A 90 590 591 HOH HOH . G 4 HOH A 91 591 592 HOH HOH . G 4 HOH A 92 592 593 HOH HOH . G 4 HOH A 93 593 594 HOH HOH . G 4 HOH A 94 594 595 HOH HOH . G 4 HOH A 95 595 596 HOH HOH . G 4 HOH A 96 596 597 HOH HOH . G 4 HOH A 97 597 598 HOH HOH . G 4 HOH A 98 598 599 HOH HOH . G 4 HOH A 99 599 600 HOH HOH . G 4 HOH A 100 600 601 HOH HOH . G 4 HOH A 101 601 602 HOH HOH . G 4 HOH A 102 602 603 HOH HOH . G 4 HOH A 103 603 604 HOH HOH . G 4 HOH A 104 604 605 HOH HOH . G 4 HOH A 105 605 606 HOH HOH . G 4 HOH A 106 606 607 HOH HOH . G 4 HOH A 107 607 608 HOH HOH . G 4 HOH A 108 608 609 HOH HOH . G 4 HOH A 109 609 610 HOH HOH . G 4 HOH A 110 610 611 HOH HOH . G 4 HOH A 111 611 612 HOH HOH . G 4 HOH A 112 612 613 HOH HOH . G 4 HOH A 113 613 614 HOH HOH . G 4 HOH A 114 614 615 HOH HOH . G 4 HOH A 115 615 616 HOH HOH . G 4 HOH A 116 616 617 HOH HOH . G 4 HOH A 117 617 618 HOH HOH . G 4 HOH A 118 618 619 HOH HOH . G 4 HOH A 119 619 620 HOH HOH . G 4 HOH A 120 620 621 HOH HOH . G 4 HOH A 121 621 622 HOH HOH . G 4 HOH A 122 622 623 HOH HOH . G 4 HOH A 123 623 624 HOH HOH . G 4 HOH A 124 624 625 HOH HOH . G 4 HOH A 125 625 626 HOH HOH . G 4 HOH A 126 626 627 HOH HOH . G 4 HOH A 127 627 628 HOH HOH . G 4 HOH A 128 628 629 HOH HOH . G 4 HOH A 129 629 630 HOH HOH . G 4 HOH A 130 630 631 HOH HOH . G 4 HOH A 131 631 632 HOH HOH . G 4 HOH A 132 632 633 HOH HOH . G 4 HOH A 133 633 634 HOH HOH . G 4 HOH A 134 634 635 HOH HOH . G 4 HOH A 135 635 636 HOH HOH . G 4 HOH A 136 636 637 HOH HOH . G 4 HOH A 137 637 638 HOH HOH . G 4 HOH A 138 638 639 HOH HOH . G 4 HOH A 139 639 640 HOH HOH . G 4 HOH A 140 640 641 HOH HOH . G 4 HOH A 141 641 642 HOH HOH . G 4 HOH A 142 642 643 HOH HOH . G 4 HOH A 143 643 644 HOH HOH . G 4 HOH A 144 644 645 HOH HOH . H 4 HOH B 1 501 545 HOH HOH . H 4 HOH B 2 502 501 HOH HOH . H 4 HOH B 3 503 502 HOH HOH . H 4 HOH B 4 504 503 HOH HOH . H 4 HOH B 5 505 504 HOH HOH . H 4 HOH B 6 506 505 HOH HOH . H 4 HOH B 7 507 506 HOH HOH . H 4 HOH B 8 508 507 HOH HOH . H 4 HOH B 9 509 508 HOH HOH . H 4 HOH B 10 510 509 HOH HOH . H 4 HOH B 11 511 510 HOH HOH . H 4 HOH B 12 512 511 HOH HOH . H 4 HOH B 13 513 512 HOH HOH . H 4 HOH B 14 514 513 HOH HOH . H 4 HOH B 15 515 514 HOH HOH . H 4 HOH B 16 516 515 HOH HOH . H 4 HOH B 17 517 516 HOH HOH . H 4 HOH B 18 518 517 HOH HOH . H 4 HOH B 19 519 518 HOH HOH . H 4 HOH B 20 520 519 HOH HOH . H 4 HOH B 21 521 520 HOH HOH . H 4 HOH B 22 522 521 HOH HOH . H 4 HOH B 23 523 522 HOH HOH . H 4 HOH B 24 524 523 HOH HOH . H 4 HOH B 25 525 524 HOH HOH . H 4 HOH B 26 526 525 HOH HOH . H 4 HOH B 27 527 526 HOH HOH . H 4 HOH B 28 528 527 HOH HOH . H 4 HOH B 29 529 528 HOH HOH . H 4 HOH B 30 530 529 HOH HOH . H 4 HOH B 31 531 530 HOH HOH . H 4 HOH B 32 532 531 HOH HOH . H 4 HOH B 33 533 532 HOH HOH . H 4 HOH B 34 534 533 HOH HOH . H 4 HOH B 35 535 534 HOH HOH . H 4 HOH B 36 536 535 HOH HOH . H 4 HOH B 37 537 536 HOH HOH . H 4 HOH B 38 538 537 HOH HOH . H 4 HOH B 39 539 538 HOH HOH . H 4 HOH B 40 540 539 HOH HOH . H 4 HOH B 41 541 540 HOH HOH . H 4 HOH B 42 542 541 HOH HOH . H 4 HOH B 43 543 542 HOH HOH . H 4 HOH B 44 544 543 HOH HOH . H 4 HOH B 45 545 544 HOH HOH . H 4 HOH B 46 546 545 HOH HOH . H 4 HOH B 47 547 546 HOH HOH . H 4 HOH B 48 548 547 HOH HOH . H 4 HOH B 49 549 548 HOH HOH . H 4 HOH B 50 550 549 HOH HOH . H 4 HOH B 51 551 550 HOH HOH . H 4 HOH B 52 552 551 HOH HOH . H 4 HOH B 53 553 552 HOH HOH . H 4 HOH B 54 554 553 HOH HOH . H 4 HOH B 55 555 554 HOH HOH . H 4 HOH B 56 556 555 HOH HOH . H 4 HOH B 57 557 556 HOH HOH . H 4 HOH B 58 558 557 HOH HOH . H 4 HOH B 59 559 558 HOH HOH . H 4 HOH B 60 560 559 HOH HOH . H 4 HOH B 61 561 560 HOH HOH . H 4 HOH B 62 562 561 HOH HOH . H 4 HOH B 63 563 562 HOH HOH . H 4 HOH B 64 564 563 HOH HOH . H 4 HOH B 65 565 564 HOH HOH . H 4 HOH B 66 566 565 HOH HOH . H 4 HOH B 67 567 566 HOH HOH . H 4 HOH B 68 568 567 HOH HOH . H 4 HOH B 69 569 568 HOH HOH . H 4 HOH B 70 570 569 HOH HOH . H 4 HOH B 71 571 570 HOH HOH . H 4 HOH B 72 572 571 HOH HOH . H 4 HOH B 73 573 572 HOH HOH . H 4 HOH B 74 574 573 HOH HOH . H 4 HOH B 75 575 574 HOH HOH . H 4 HOH B 76 576 575 HOH HOH . H 4 HOH B 77 577 576 HOH HOH . H 4 HOH B 78 578 577 HOH HOH . H 4 HOH B 79 579 578 HOH HOH . H 4 HOH B 80 580 579 HOH HOH . H 4 HOH B 81 581 580 HOH HOH . H 4 HOH B 82 582 581 HOH HOH . H 4 HOH B 83 583 582 HOH HOH . H 4 HOH B 84 584 583 HOH HOH . H 4 HOH B 85 585 584 HOH HOH . H 4 HOH B 86 586 585 HOH HOH . H 4 HOH B 87 587 586 HOH HOH . H 4 HOH B 88 588 587 HOH HOH . H 4 HOH B 89 589 588 HOH HOH . H 4 HOH B 90 590 589 HOH HOH . H 4 HOH B 91 591 590 HOH HOH . H 4 HOH B 92 592 591 HOH HOH . H 4 HOH B 93 593 592 HOH HOH . H 4 HOH B 94 594 593 HOH HOH . H 4 HOH B 95 595 594 HOH HOH . H 4 HOH B 96 596 595 HOH HOH . H 4 HOH B 97 597 596 HOH HOH . H 4 HOH B 98 598 597 HOH HOH . H 4 HOH B 99 599 598 HOH HOH . H 4 HOH B 100 600 599 HOH HOH . H 4 HOH B 101 601 600 HOH HOH . H 4 HOH B 102 602 601 HOH HOH . H 4 HOH B 103 603 602 HOH HOH . H 4 HOH B 104 604 603 HOH HOH . H 4 HOH B 105 605 604 HOH HOH . H 4 HOH B 106 606 605 HOH HOH . H 4 HOH B 107 607 606 HOH HOH . H 4 HOH B 108 608 607 HOH HOH . H 4 HOH B 109 609 608 HOH HOH . H 4 HOH B 110 610 609 HOH HOH . H 4 HOH B 111 611 610 HOH HOH . H 4 HOH B 112 612 611 HOH HOH . H 4 HOH B 113 613 612 HOH HOH . H 4 HOH B 114 614 613 HOH HOH . H 4 HOH B 115 615 614 HOH HOH . H 4 HOH B 116 616 615 HOH HOH . H 4 HOH B 117 617 616 HOH HOH . H 4 HOH B 118 618 617 HOH HOH . H 4 HOH B 119 619 618 HOH HOH . H 4 HOH B 120 620 619 HOH HOH . H 4 HOH B 121 621 620 HOH HOH . H 4 HOH B 122 622 621 HOH HOH . H 4 HOH B 123 623 622 HOH HOH . H 4 HOH B 124 624 623 HOH HOH . H 4 HOH B 125 625 624 HOH HOH . H 4 HOH B 126 626 625 HOH HOH . H 4 HOH B 127 627 626 HOH HOH . H 4 HOH B 128 628 627 HOH HOH . H 4 HOH B 129 629 628 HOH HOH . H 4 HOH B 130 630 629 HOH HOH . H 4 HOH B 131 631 630 HOH HOH . H 4 HOH B 132 632 631 HOH HOH . H 4 HOH B 133 633 632 HOH HOH . H 4 HOH B 134 634 633 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 O O5' ADN . . . C 2 13.365 -18.076 10.858 1 27.17 ? O5' ADN 401 A 1 HETATM 2 C C5' ADN . . . C 2 14.47 -17.771 10.009 1 25.47 ? C5' ADN 401 A 1 HETATM 3 C C4' ADN . . . C 2 14.013 -17.119 8.727 1 23.3 ? C4' ADN 401 A 1 HETATM 4 O O4' ADN . . . C 2 13.393 -15.857 9.019 1 17.99 ? O4' ADN 401 A 1 HETATM 5 C C3' ADN . . . C 2 15.103 -16.813 7.693 1 22.74 ? C3' ADN 401 A 1 HETATM 6 O O3' ADN . . . C 2 14.989 -17.72 6.595 1 20.24 ? O3' ADN 401 A 1 HETATM 7 C C2' ADN . . . C 2 14.777 -15.382 7.208 1 23.49 ? C2' ADN 401 A 1 HETATM 8 O O2' ADN . . . C 2 14.719 -15.235 5.806 1 25.17 ? O2' ADN 401 A 1 HETATM 9 C C1' ADN . . . C 2 13.417 -15.098 7.848 1 21.13 ? C1' ADN 401 A 1 HETATM 10 N N9 ADN . . . C 2 13.179 -13.691 8.171 1 17.71 ? N9 ADN 401 A 1 HETATM 11 C C8 ADN . . . C 2 14.019 -12.857 8.754 1 18.02 ? C8 ADN 401 A 1 HETATM 12 N N7 ADN . . . C 2 13.352 -11.547 8.839 1 19.53 ? N7 ADN 401 A 1 HETATM 13 C C5 ADN . . . C 2 12.056 -11.672 8.255 1 15.85 ? C5 ADN 401 A 1 HETATM 14 C C6 ADN . . . C 2 11.023 -10.758 8.07 1 14.75 ? C6 ADN 401 A 1 HETATM 15 N N6 ADN . . . C 2 11.181 -9.398 8.511 1 15.22 ? N6 ADN 401 A 1 HETATM 16 N N1 ADN . . . C 2 9.847 -11.163 7.452 1 15.86 ? N1 ADN 401 A 1 HETATM 17 C C2 ADN . . . C 2 9.692 -12.459 7.029 1 16.76 ? C2 ADN 401 A 1 HETATM 18 N N3 ADN . . . C 2 10.707 -13.361 7.214 1 17.32 ? N3 ADN 401 A 1 HETATM 19 C C4 ADN . . . C 2 11.907 -12.937 7.839 1 16.3 ? C4 ADN 401 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 45 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 19 #