data_1J90
#
_model_server_result.job_id            qSovSMyxNHHDoW9qYcqpww 
_model_server_result.datetime_utc      '2024-11-16 09:44:47' 
_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          1j90 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":400}' 
#
_entry.id    1J90 
#
_exptl.entry_id    1J90 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              227.217 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2'-DEOXYCYTIDINE" 
_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            1J90 
_cell.length_a            119.456 
_cell.length_b            60.749 
_cell.length_c            67.269 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1J90 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_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 
#
_chem_comp.formula           'C9 H13 N3 O4' 
_chem_comp.formula_weight    227.217 
_chem_comp.id                DCZ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2'-DEOXYCYTIDINE" 
_chem_comp.type              'dna oh 5 prime terminus' 
_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
N1 C2 DCZ sing 83 n n 
N1 C6 DCZ sing 84 n n 
N1 C1' DCZ sing 85 n n 
C2 N3 DCZ sing 86 n n 
C2 O2 DCZ doub 87 n n 
N3 C4 DCZ doub 88 n n 
C4 C5 DCZ sing 89 n n 
C4 N4 DCZ sing 90 n n 
C5 C6 DCZ doub 91 n n 
C5 H5 DCZ sing 92 n n 
C6 H6 DCZ sing 93 n n 
N4 HN41 DCZ sing 94 n n 
N4 HN42 DCZ sing 95 n n 
C1' C2' DCZ sing 96 n n 
C1' O4' DCZ sing 97 n n 
C1' H1' DCZ sing 98 n n 
C2' C3' DCZ sing 99 n n 
C2' "H2'1" DCZ sing 100 n n 
C2' "H2'2" DCZ sing 101 n n 
C3' C4' DCZ sing 102 n n 
C3' O3' DCZ sing 103 n n 
C3' H3' DCZ sing 104 n n 
C4' O4' DCZ sing 105 n n 
C4' C5' DCZ sing 106 n n 
C4' H4' DCZ sing 107 n n 
O3' HO3' DCZ sing 108 n n 
C5' O5' DCZ sing 109 n n 
C5' "H5'1" DCZ sing 110 n n 
C5' "H5'2" DCZ sing 111 n n 
O5' HO51 DCZ sing 112 n n 
#
_atom_sites.entry_id                     1J90 
_atom_sites.fract_transf_matrix[1][1]    0.008371 
_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]    0.016461 
_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]    0.014866 
_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 SO4 A 1 300 300 SO4 SO4 . 
D 3 DCZ A 1 400 400 DCZ DCY . 
E 2 SO4 B 1 301 300 SO4 SO4 . 
F 3 DCZ B 1 401 400 DCZ DCY . 
G 4 HOH A 1 502 502 HOH HOH . 
G 4 HOH A 2 503 503 HOH HOH . 
G 4 HOH A 3 504 504 HOH HOH . 
G 4 HOH A 4 505 505 HOH HOH . 
G 4 HOH A 5 507 507 HOH HOH . 
G 4 HOH A 6 508 508 HOH HOH . 
G 4 HOH A 7 509 509 HOH HOH . 
G 4 HOH A 8 510 510 HOH HOH . 
G 4 HOH A 9 511 511 HOH HOH . 
G 4 HOH A 10 512 512 HOH HOH . 
G 4 HOH A 11 513 513 HOH HOH . 
G 4 HOH A 12 514 514 HOH HOH . 
G 4 HOH A 13 515 515 HOH HOH . 
G 4 HOH A 14 516 516 HOH HOH . 
G 4 HOH A 15 517 517 HOH HOH . 
G 4 HOH A 16 518 518 HOH HOH . 
G 4 HOH A 17 519 519 HOH HOH . 
G 4 HOH A 18 520 520 HOH HOH . 
G 4 HOH A 19 521 521 HOH HOH . 
G 4 HOH A 20 522 522 HOH HOH . 
G 4 HOH A 21 523 523 HOH HOH . 
G 4 HOH A 22 524 524 HOH HOH . 
G 4 HOH A 23 525 525 HOH HOH . 
G 4 HOH A 24 526 526 HOH HOH . 
G 4 HOH A 25 536 536 HOH HOH . 
G 4 HOH A 26 537 537 HOH HOH . 
G 4 HOH A 27 538 538 HOH HOH . 
G 4 HOH A 28 539 539 HOH HOH . 
G 4 HOH A 29 541 541 HOH HOH . 
G 4 HOH A 30 542 542 HOH HOH . 
G 4 HOH A 31 543 543 HOH HOH . 
G 4 HOH A 32 569 569 HOH HOH . 
G 4 HOH A 33 572 572 HOH HOH . 
G 4 HOH A 34 573 573 HOH HOH . 
G 4 HOH A 35 578 578 HOH HOH . 
G 4 HOH A 36 579 579 HOH HOH . 
G 4 HOH A 37 586 586 HOH HOH . 
G 4 HOH A 38 587 587 HOH HOH . 
G 4 HOH A 39 588 588 HOH HOH . 
G 4 HOH A 40 603 603 HOH HOH . 
G 4 HOH A 41 605 605 HOH HOH . 
G 4 HOH A 42 606 606 HOH HOH . 
G 4 HOH A 43 607 607 HOH HOH . 
G 4 HOH A 44 608 608 HOH HOH . 
G 4 HOH A 45 609 609 HOH HOH . 
G 4 HOH A 46 610 610 HOH HOH . 
G 4 HOH A 47 611 611 HOH HOH . 
G 4 HOH A 48 612 612 HOH HOH . 
G 4 HOH A 49 613 613 HOH HOH . 
G 4 HOH A 50 614 614 HOH HOH . 
G 4 HOH A 51 615 615 HOH HOH . 
G 4 HOH A 52 616 616 HOH HOH . 
G 4 HOH A 53 617 617 HOH HOH . 
G 4 HOH A 54 618 618 HOH HOH . 
G 4 HOH A 55 619 619 HOH HOH . 
G 4 HOH A 56 620 620 HOH HOH . 
G 4 HOH A 57 621 621 HOH HOH . 
G 4 HOH A 58 622 622 HOH HOH . 
G 4 HOH A 59 623 623 HOH HOH . 
G 4 HOH A 60 624 624 HOH HOH . 
G 4 HOH A 61 625 625 HOH HOH . 
G 4 HOH A 62 626 626 HOH HOH . 
G 4 HOH A 63 628 628 HOH HOH . 
G 4 HOH A 64 629 629 HOH HOH . 
G 4 HOH A 65 630 630 HOH HOH . 
G 4 HOH A 66 631 631 HOH HOH . 
G 4 HOH A 67 632 632 HOH HOH . 
G 4 HOH A 68 633 633 HOH HOH . 
G 4 HOH A 69 634 634 HOH HOH . 
G 4 HOH A 70 635 635 HOH HOH . 
G 4 HOH A 71 636 636 HOH HOH . 
G 4 HOH A 72 637 637 HOH HOH . 
G 4 HOH A 73 638 638 HOH HOH . 
G 4 HOH A 74 639 639 HOH HOH . 
G 4 HOH A 75 640 640 HOH HOH . 
G 4 HOH A 76 641 641 HOH HOH . 
G 4 HOH A 77 644 644 HOH HOH . 
G 4 HOH A 78 645 645 HOH HOH . 
H 4 HOH B 1 527 527 HOH HOH . 
H 4 HOH B 2 528 528 HOH HOH . 
H 4 HOH B 3 529 529 HOH HOH . 
H 4 HOH B 4 530 530 HOH HOH . 
H 4 HOH B 5 531 531 HOH HOH . 
H 4 HOH B 6 532 532 HOH HOH . 
H 4 HOH B 7 533 533 HOH HOH . 
H 4 HOH B 8 534 534 HOH HOH . 
H 4 HOH B 9 535 535 HOH HOH . 
H 4 HOH B 10 540 540 HOH HOH . 
H 4 HOH B 11 544 544 HOH HOH . 
H 4 HOH B 12 545 545 HOH HOH . 
H 4 HOH B 13 546 546 HOH HOH . 
H 4 HOH B 14 547 547 HOH HOH . 
H 4 HOH B 15 548 548 HOH HOH . 
H 4 HOH B 16 549 549 HOH HOH . 
H 4 HOH B 17 550 550 HOH HOH . 
H 4 HOH B 18 551 551 HOH HOH . 
H 4 HOH B 19 552 552 HOH HOH . 
H 4 HOH B 20 553 553 HOH HOH . 
H 4 HOH B 21 554 554 HOH HOH . 
H 4 HOH B 22 555 555 HOH HOH . 
H 4 HOH B 23 556 556 HOH HOH . 
H 4 HOH B 24 557 557 HOH HOH . 
H 4 HOH B 25 558 558 HOH HOH . 
H 4 HOH B 26 559 559 HOH HOH . 
H 4 HOH B 27 560 560 HOH HOH . 
H 4 HOH B 28 561 561 HOH HOH . 
H 4 HOH B 29 562 562 HOH HOH . 
H 4 HOH B 30 563 563 HOH HOH . 
H 4 HOH B 31 564 564 HOH HOH . 
H 4 HOH B 32 565 565 HOH HOH . 
H 4 HOH B 33 566 566 HOH HOH . 
H 4 HOH B 34 567 567 HOH HOH . 
H 4 HOH B 35 568 568 HOH HOH . 
H 4 HOH B 36 570 570 HOH HOH . 
H 4 HOH B 37 571 571 HOH HOH . 
H 4 HOH B 38 574 574 HOH HOH . 
H 4 HOH B 39 575 575 HOH HOH . 
H 4 HOH B 40 576 576 HOH HOH . 
H 4 HOH B 41 577 577 HOH HOH . 
H 4 HOH B 42 580 580 HOH HOH . 
H 4 HOH B 43 581 581 HOH HOH . 
H 4 HOH B 44 582 582 HOH HOH . 
H 4 HOH B 45 583 583 HOH HOH . 
H 4 HOH B 46 584 584 HOH HOH . 
H 4 HOH B 47 585 585 HOH HOH . 
H 4 HOH B 48 589 589 HOH HOH . 
H 4 HOH B 49 590 590 HOH HOH . 
H 4 HOH B 50 591 591 HOH HOH . 
H 4 HOH B 51 592 592 HOH HOH . 
H 4 HOH B 52 593 593 HOH HOH . 
H 4 HOH B 53 594 594 HOH HOH . 
H 4 HOH B 54 595 595 HOH HOH . 
H 4 HOH B 55 596 596 HOH HOH . 
H 4 HOH B 56 597 597 HOH HOH . 
H 4 HOH B 57 598 598 HOH HOH . 
H 4 HOH B 58 599 599 HOH HOH . 
H 4 HOH B 59 600 600 HOH HOH . 
H 4 HOH B 60 601 601 HOH HOH . 
H 4 HOH B 61 602 602 HOH HOH . 
H 4 HOH B 62 627 627 HOH HOH . 
H 4 HOH B 63 642 642 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 DCZ . . . D 3 61.282 17.906 9.67 1 30.4 ? N1 DCZ 400 A 1 
HETATM 2 C C2 DCZ . . . D 3 62.091 16.913 9.251 1 29.95 ? C2 DCZ 400 A 1 
HETATM 3 N N3 DCZ . . . D 3 62.616 16.046 10.117 1 29.98 ? N3 DCZ 400 A 1 
HETATM 4 C C4 DCZ . . . D 3 62.361 16.147 11.42 1 29.77 ? C4 DCZ 400 A 1 
HETATM 5 C C5 DCZ . . . D 3 61.535 17.158 11.88 1 30.45 ? C5 DCZ 400 A 1 
HETATM 6 C C6 DCZ . . . D 3 60.994 18.047 10.964 1 30.48 ? C6 DCZ 400 A 1 
HETATM 7 O O2 DCZ . . . D 3 62.369 16.787 7.96 1 30.36 ? O2 DCZ 400 A 1 
HETATM 8 N N4 DCZ . . . D 3 62.918 15.232 12.316 1 29.59 ? N4 DCZ 400 A 1 
HETATM 9 C C1' DCZ . . . D 3 60.738 18.841 8.689 1 31.47 ? C1' DCZ 400 A 1 
HETATM 10 C C2' DCZ . . . D 3 59.292 18.529 8.349 1 31.92 ? C2' DCZ 400 A 1 
HETATM 11 C C3' DCZ . . . D 3 58.782 19.899 7.967 1 33 ? C3' DCZ 400 A 1 
HETATM 12 C C4' DCZ . . . D 3 59.557 20.858 8.862 1 33.13 ? C4' DCZ 400 A 1 
HETATM 13 O O4' DCZ . . . D 3 60.774 20.186 9.192 1 31.89 ? O4' DCZ 400 A 1 
HETATM 14 O O3' DCZ . . . D 3 59.153 20.114 6.618 1 34.13 ? O3' DCZ 400 A 1 
HETATM 15 C C5' DCZ . . . D 3 58.772 21.107 10.125 1 34 ? C5' DCZ 400 A 1 
HETATM 16 O O5' DCZ . . . D 3 57.622 21.779 10.066 1 38.03 ? O5' DCZ 400 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           290 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           16 
#