data_5KC9 # _model_server_result.job_id e60PZ-gPJdppoq8xFo2UdA _model_server_result.datetime_utc '2024-11-21 18:42:35' _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 5kc9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"PA","auth_seq_id":502}' # _entry.id 5KC9 # _exptl.entry_id 5KC9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 29 _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 120 _cell.entry_id 5KC9 _cell.length_a 128.42 _cell.length_b 128.42 _cell.length_c 153.23 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KC9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,AB,BB 1 1 C,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,CB 2 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' 6_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 102.153333 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P N N ? 2 Q N N ? 2 AA N N ? 2 BA N N ? 2 CA N N ? 2 DA N N ? 2 EA N N ? 2 FA N N ? 2 GA N N ? 2 HA N N ? 2 IA N N ? 2 OA N N ? 2 PA N N ? 2 QA N N ? 2 RA N N ? 2 SA N N ? 2 TA 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 disulf ? disulf1 A SG CYS 63 A CYS 80 1_555 A SG CYS 334 A CYS 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 79 A CYS 96 1_555 A SG CYS 111 A CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf3 A SG CYS 277 A CYS 294 1_555 A SG CYS 289 A CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 B SG CYS 63 B CYS 80 1_555 B SG CYS 334 B CYS 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf5 B SG CYS 79 B CYS 96 1_555 B SG CYS 111 B CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf6 C SG CYS 63 C CYS 80 1_555 C SG CYS 334 C CYS 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 C SG CYS 79 C CYS 96 1_555 C SG CYS 111 C CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf8 C SG CYS 277 C CYS 294 1_555 C SG CYS 289 C CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 183 A ASN 200 1_555 X C1 NAG . A NAG 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 405 A ASN 422 1_555 Y C1 NAG . A NAG 522 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 B ND2 ASN 183 B ASN 200 1_555 NA C1 NAG . B NAG 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # 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 C1 O1 EDO sing 98 n n C1 C2 EDO sing 99 n n C1 H11 EDO sing 100 n n C1 H12 EDO sing 101 n n O1 HO1 EDO sing 102 n n C2 O2 EDO sing 103 n n C2 H21 EDO sing 104 n n C2 H22 EDO sing 105 n n O2 HO2 EDO sing 106 n n # _atom_sites.entry_id 5KC9 _atom_sites.fract_transf_matrix[1][1] 0.007787 _atom_sites.fract_transf_matrix[1][2] 0.004496 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008992 _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] 0.006526 _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 D 2 EDO A 1 501 426 EDO EDO . E 2 EDO A 1 502 427 EDO EDO . F 2 EDO A 1 503 428 EDO EDO . G 2 EDO A 1 504 429 EDO EDO . H 2 EDO A 1 505 430 EDO EDO . I 2 EDO A 1 506 431 EDO EDO . J 2 EDO A 1 507 432 EDO EDO . K 2 EDO A 1 508 433 EDO EDO . L 2 EDO A 1 509 434 EDO EDO . M 2 EDO A 1 510 435 EDO EDO . N 2 EDO A 1 511 436 EDO EDO . O 2 EDO A 1 512 437 EDO EDO . P 2 EDO A 1 513 438 EDO EDO . Q 2 EDO A 1 514 439 EDO EDO . R 3 CL A 1 515 440 CL CL . S 3 CL A 1 516 441 CL CL . T 3 CL A 1 517 442 CL CL . U 3 CL A 1 518 443 CL CL . V 3 CL A 1 519 444 CL CL . W 4 BU1 A 1 520 445 BU1 BU1 . X 5 NAG A 1 521 550 NAG NAG . Y 5 NAG A 1 522 551 NAG NAG . Z 6 PG4 A 1 523 425 PG4 PG4 . AA 2 EDO B 1 501 426 EDO EDO . BA 2 EDO B 1 502 427 EDO EDO . CA 2 EDO B 1 503 428 EDO EDO . DA 2 EDO B 1 504 429 EDO EDO . EA 2 EDO B 1 505 430 EDO EDO . FA 2 EDO B 1 506 431 EDO EDO . GA 2 EDO B 1 507 432 EDO EDO . HA 2 EDO B 1 508 433 EDO EDO . IA 2 EDO B 1 509 434 EDO EDO . JA 3 CL B 1 510 435 CL CL . KA 3 CL B 1 511 436 CL CL . LA 3 CL B 1 512 437 CL CL . MA 3 CL B 1 513 438 CL CL . NA 5 NAG B 1 514 550 NAG NAG . OA 2 EDO C 1 501 425 EDO EDO . PA 2 EDO C 1 502 426 EDO EDO . QA 2 EDO C 1 503 427 EDO EDO . RA 2 EDO C 1 504 428 EDO EDO . SA 2 EDO C 1 505 429 EDO EDO . TA 2 EDO C 1 506 430 EDO EDO . UA 3 CL C 1 507 431 CL CL . VA 3 CL C 1 508 432 CL CL . WA 3 CL C 1 509 433 CL CL . XA 3 CL C 1 510 434 CL CL . YA 3 CL C 1 511 435 CL CL . ZA 4 BU1 C 1 512 436 BU1 BU1 . AB 7 HOH A 1 601 488 HOH HOH . AB 7 HOH A 2 602 503 HOH HOH . AB 7 HOH A 3 603 479 HOH HOH . AB 7 HOH A 4 604 472 HOH HOH . AB 7 HOH A 5 605 530 HOH HOH . AB 7 HOH A 6 606 464 HOH HOH . AB 7 HOH A 7 607 450 HOH HOH . AB 7 HOH A 8 608 496 HOH HOH . AB 7 HOH A 9 609 513 HOH HOH . AB 7 HOH A 10 610 491 HOH HOH . AB 7 HOH A 11 611 469 HOH HOH . AB 7 HOH A 12 612 470 HOH HOH . AB 7 HOH A 13 613 461 HOH HOH . AB 7 HOH A 14 614 512 HOH HOH . AB 7 HOH A 15 615 490 HOH HOH . AB 7 HOH A 16 616 484 HOH HOH . AB 7 HOH A 17 617 457 HOH HOH . AB 7 HOH A 18 618 449 HOH HOH . AB 7 HOH A 19 619 505 HOH HOH . AB 7 HOH A 20 620 494 HOH HOH . AB 7 HOH A 21 621 480 HOH HOH . AB 7 HOH A 22 622 452 HOH HOH . AB 7 HOH A 23 623 471 HOH HOH . AB 7 HOH A 24 624 476 HOH HOH . AB 7 HOH A 25 625 458 HOH HOH . AB 7 HOH A 26 626 477 HOH HOH . AB 7 HOH A 27 627 511 HOH HOH . AB 7 HOH A 28 628 451 HOH HOH . AB 7 HOH A 29 629 466 HOH HOH . AB 7 HOH A 30 630 456 HOH HOH . AB 7 HOH A 31 631 497 HOH HOH . AB 7 HOH A 32 632 448 HOH HOH . AB 7 HOH A 33 633 522 HOH HOH . AB 7 HOH A 34 634 468 HOH HOH . AB 7 HOH A 35 635 506 HOH HOH . AB 7 HOH A 36 636 446 HOH HOH . AB 7 HOH A 37 637 516 HOH HOH . AB 7 HOH A 38 638 498 HOH HOH . AB 7 HOH A 39 639 453 HOH HOH . AB 7 HOH A 40 640 507 HOH HOH . AB 7 HOH A 41 641 487 HOH HOH . AB 7 HOH A 42 642 502 HOH HOH . AB 7 HOH A 43 643 528 HOH HOH . AB 7 HOH A 44 644 455 HOH HOH . AB 7 HOH A 45 645 465 HOH HOH . AB 7 HOH A 46 646 532 HOH HOH . AB 7 HOH A 47 647 504 HOH HOH . AB 7 HOH A 48 648 447 HOH HOH . AB 7 HOH A 49 649 514 HOH HOH . AB 7 HOH A 50 650 527 HOH HOH . AB 7 HOH A 51 651 485 HOH HOH . AB 7 HOH A 52 652 459 HOH HOH . AB 7 HOH A 53 653 473 HOH HOH . AB 7 HOH A 54 654 499 HOH HOH . AB 7 HOH A 55 655 462 HOH HOH . AB 7 HOH A 56 656 460 HOH HOH . AB 7 HOH A 57 657 481 HOH HOH . AB 7 HOH A 58 658 493 HOH HOH . AB 7 HOH A 59 659 531 HOH HOH . AB 7 HOH A 60 660 525 HOH HOH . AB 7 HOH A 61 661 508 HOH HOH . AB 7 HOH A 62 662 482 HOH HOH . AB 7 HOH A 63 663 489 HOH HOH . AB 7 HOH A 64 664 486 HOH HOH . AB 7 HOH A 65 665 467 HOH HOH . AB 7 HOH A 66 666 510 HOH HOH . AB 7 HOH A 67 667 518 HOH HOH . AB 7 HOH A 68 668 463 HOH HOH . AB 7 HOH A 69 669 529 HOH HOH . AB 7 HOH A 70 670 524 HOH HOH . AB 7 HOH A 71 671 475 HOH HOH . AB 7 HOH A 72 672 523 HOH HOH . AB 7 HOH A 73 673 534 HOH HOH . AB 7 HOH A 74 674 521 HOH HOH . AB 7 HOH A 75 675 454 HOH HOH . AB 7 HOH A 76 676 520 HOH HOH . AB 7 HOH A 77 677 509 HOH HOH . AB 7 HOH A 78 678 515 HOH HOH . AB 7 HOH A 79 679 517 HOH HOH . AB 7 HOH A 80 680 526 HOH HOH . AB 7 HOH A 81 681 519 HOH HOH . AB 7 HOH A 82 682 533 HOH HOH . AB 7 HOH A 83 683 483 HOH HOH . AB 7 HOH A 84 684 495 HOH HOH . AB 7 HOH A 85 685 501 HOH HOH . AB 7 HOH A 86 686 478 HOH HOH . AB 7 HOH A 87 687 500 HOH HOH . AB 7 HOH A 88 688 474 HOH HOH . AB 7 HOH A 89 689 492 HOH HOH . BB 7 HOH B 1 601 471 HOH HOH . BB 7 HOH B 2 602 456 HOH HOH . BB 7 HOH B 3 603 468 HOH HOH . BB 7 HOH B 4 604 494 HOH HOH . BB 7 HOH B 5 605 475 HOH HOH . BB 7 HOH B 6 606 489 HOH HOH . BB 7 HOH B 7 607 464 HOH HOH . BB 7 HOH B 8 608 486 HOH HOH . BB 7 HOH B 9 609 441 HOH HOH . BB 7 HOH B 10 610 488 HOH HOH . BB 7 HOH B 11 611 439 HOH HOH . BB 7 HOH B 12 612 472 HOH HOH . BB 7 HOH B 13 613 478 HOH HOH . BB 7 HOH B 14 614 480 HOH HOH . BB 7 HOH B 15 615 467 HOH HOH . BB 7 HOH B 16 616 453 HOH HOH . BB 7 HOH B 17 617 448 HOH HOH . BB 7 HOH B 18 618 440 HOH HOH . BB 7 HOH B 19 619 459 HOH HOH . BB 7 HOH B 20 620 483 HOH HOH . BB 7 HOH B 21 621 487 HOH HOH . BB 7 HOH B 22 622 454 HOH HOH . BB 7 HOH B 23 623 442 HOH HOH . BB 7 HOH B 24 624 458 HOH HOH . BB 7 HOH B 25 625 447 HOH HOH . BB 7 HOH B 26 626 460 HOH HOH . BB 7 HOH B 27 627 449 HOH HOH . BB 7 HOH B 28 628 457 HOH HOH . BB 7 HOH B 29 629 476 HOH HOH . BB 7 HOH B 30 630 490 HOH HOH . BB 7 HOH B 31 631 455 HOH HOH . BB 7 HOH B 32 632 463 HOH HOH . BB 7 HOH B 33 633 451 HOH HOH . BB 7 HOH B 34 634 474 HOH HOH . BB 7 HOH B 35 635 462 HOH HOH . BB 7 HOH B 36 636 485 HOH HOH . BB 7 HOH B 37 637 492 HOH HOH . BB 7 HOH B 38 638 465 HOH HOH . BB 7 HOH B 39 639 481 HOH HOH . BB 7 HOH B 40 640 443 HOH HOH . BB 7 HOH B 41 641 466 HOH HOH . BB 7 HOH B 42 642 446 HOH HOH . BB 7 HOH B 43 643 493 HOH HOH . BB 7 HOH B 44 644 477 HOH HOH . BB 7 HOH B 45 645 482 HOH HOH . BB 7 HOH B 46 646 444 HOH HOH . BB 7 HOH B 47 647 495 HOH HOH . BB 7 HOH B 48 648 445 HOH HOH . BB 7 HOH B 49 649 469 HOH HOH . BB 7 HOH B 50 650 491 HOH HOH . BB 7 HOH B 51 651 484 HOH HOH . BB 7 HOH B 52 652 473 HOH HOH . BB 7 HOH B 53 653 470 HOH HOH . BB 7 HOH B 54 654 461 HOH HOH . BB 7 HOH B 55 655 479 HOH HOH . BB 7 HOH B 56 656 496 HOH HOH . BB 7 HOH B 57 657 452 HOH HOH . BB 7 HOH B 58 658 450 HOH HOH . CB 7 HOH C 1 601 440 HOH HOH . CB 7 HOH C 2 602 438 HOH HOH . CB 7 HOH C 3 603 446 HOH HOH . CB 7 HOH C 4 604 437 HOH HOH . CB 7 HOH C 5 605 445 HOH HOH . CB 7 HOH C 6 606 448 HOH HOH . CB 7 HOH C 7 607 441 HOH HOH . CB 7 HOH C 8 608 450 HOH HOH . CB 7 HOH C 9 609 460 HOH HOH . CB 7 HOH C 10 610 452 HOH HOH . CB 7 HOH C 11 611 439 HOH HOH . CB 7 HOH C 12 612 442 HOH HOH . CB 7 HOH C 13 613 444 HOH HOH . CB 7 HOH C 14 614 447 HOH HOH . CB 7 HOH C 15 615 443 HOH HOH . CB 7 HOH C 16 616 449 HOH HOH . CB 7 HOH C 17 617 454 HOH HOH . CB 7 HOH C 18 618 463 HOH HOH . CB 7 HOH C 19 619 458 HOH HOH . CB 7 HOH C 20 620 461 HOH HOH . CB 7 HOH C 21 621 457 HOH HOH . CB 7 HOH C 22 622 456 HOH HOH . CB 7 HOH C 23 623 467 HOH HOH . CB 7 HOH C 24 624 459 HOH HOH . CB 7 HOH C 25 625 451 HOH HOH . CB 7 HOH C 26 626 465 HOH HOH . CB 7 HOH C 27 627 462 HOH HOH . CB 7 HOH C 28 628 453 HOH HOH . CB 7 HOH C 29 629 464 HOH HOH . CB 7 HOH C 30 630 466 HOH HOH . CB 7 HOH C 31 631 468 HOH HOH . CB 7 HOH C 32 632 455 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 C C1 EDO . . . PA 2 10.803 -58.029 29.298 1 89.64 ? C1 EDO 502 C 1 HETATM 2 O O1 EDO . . . PA 2 9.592 -58.4 29.969 1 91.18 ? O1 EDO 502 C 1 HETATM 3 C C2 EDO . . . PA 2 11.562 -59.265 28.831 1 87.18 ? C2 EDO 502 C 1 HETATM 4 O O2 EDO . . . PA 2 11.644 -60.226 29.889 1 85.39 ? O2 EDO 502 C 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 4 #