data_4GT1
#
_model_server_result.job_id            1zS63SoqkpqCmq5ycc8LPg 
_model_server_result.datetime_utc      '2024-10-18 04:29:55' 
_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          4gt1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":401}' 
#
_entry.id    4GT1 
#
_exptl.entry_id    4GT1 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2'-DEOXYGUANOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_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            4GT1 
_cell.length_a            65.92 
_cell.length_b            187.82 
_cell.length_c            66.46 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4GT1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -33.23 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                DGI 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "2'-DEOXYGUANOSINE-5'-DIPHOSPHATE" 
_chem_comp.type              'dna linking' 
_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
O1B PB DGI doub 70 n n 
PB O2B DGI sing 71 n n 
PB O3B DGI sing 72 n n 
PB O3A DGI sing 73 n n 
O2B HOB2 DGI sing 74 n n 
O3B HOB3 DGI sing 75 n n 
O3A PA DGI sing 76 n n 
PA O1A DGI doub 77 n n 
PA O2A DGI sing 78 n n 
PA O5' DGI sing 79 n n 
O2A HOA2 DGI sing 80 n n 
O5' C5' DGI sing 81 n n 
C5' C4' DGI sing 82 n n 
C5' H5' DGI sing 83 n n 
C5' "H5''" DGI sing 84 n n 
C4' O4' DGI sing 85 n n 
C4' C3' DGI sing 86 n n 
C4' H4' DGI sing 87 n n 
O4' C1' DGI sing 88 n n 
C3' O3' DGI sing 89 n n 
C3' C2' DGI sing 90 n n 
C3' H3' DGI sing 91 n n 
O3' HO3' DGI sing 92 n n 
C2' C1' DGI sing 93 n n 
C2' H2' DGI sing 94 n n 
C2' "H2''" DGI sing 95 n n 
C1' N9 DGI sing 96 n n 
C1' H1' DGI sing 97 n n 
N9 C8 DGI sing 98 n y 
N9 C4 DGI sing 99 n y 
C8 N7 DGI doub 100 n y 
C8 H8 DGI sing 101 n n 
N7 C5 DGI sing 102 n y 
C5 C4 DGI doub 103 n y 
C5 C6 DGI sing 104 n n 
C4 N3 DGI sing 105 n n 
N3 C2 DGI doub 106 n n 
C2 N2 DGI sing 107 n n 
C2 N1 DGI sing 108 n n 
N2 HN21 DGI sing 109 n n 
N2 HN22 DGI sing 110 n n 
N1 C6 DGI sing 111 n n 
N1 HN1 DGI sing 112 n n 
C6 O6 DGI doub 113 n n 
#
_atom_sites.entry_id                     4GT1 
_atom_sites.fract_transf_matrix[1][1]    0.01517 
_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]    0.005324 
_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]    0.015047 
_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
B 2 DGI A 1 401 335 DGI DGI . 
C 3 PGE A 1 402 336 PGE PGE . 
D 3 PGE A 1 403 337 PGE PGE . 
E 4 CL A 1 404 338 CL CL . 
F 5 HOH A 1 501 1 HOH HOH . 
F 5 HOH A 2 502 2 HOH HOH . 
F 5 HOH A 3 503 3 HOH HOH . 
F 5 HOH A 4 504 4 HOH HOH . 
F 5 HOH A 5 505 5 HOH HOH . 
F 5 HOH A 6 506 6 HOH HOH . 
F 5 HOH A 7 507 7 HOH HOH . 
F 5 HOH A 8 508 8 HOH HOH . 
F 5 HOH A 9 509 9 HOH HOH . 
F 5 HOH A 10 510 10 HOH HOH . 
F 5 HOH A 11 511 11 HOH HOH . 
F 5 HOH A 12 512 12 HOH HOH . 
F 5 HOH A 13 513 13 HOH HOH . 
F 5 HOH A 14 514 14 HOH HOH . 
F 5 HOH A 15 515 15 HOH HOH . 
F 5 HOH A 16 516 16 HOH HOH . 
F 5 HOH A 17 517 17 HOH HOH . 
F 5 HOH A 18 518 18 HOH HOH . 
F 5 HOH A 19 519 19 HOH HOH . 
F 5 HOH A 20 520 20 HOH HOH . 
F 5 HOH A 21 521 21 HOH HOH . 
F 5 HOH A 22 522 22 HOH HOH . 
F 5 HOH A 23 523 23 HOH HOH . 
F 5 HOH A 24 524 24 HOH HOH . 
F 5 HOH A 25 525 25 HOH HOH . 
F 5 HOH A 26 526 26 HOH HOH . 
F 5 HOH A 27 527 27 HOH HOH . 
F 5 HOH A 28 528 28 HOH HOH . 
F 5 HOH A 29 529 29 HOH HOH . 
F 5 HOH A 30 530 30 HOH HOH . 
F 5 HOH A 31 531 31 HOH HOH . 
F 5 HOH A 32 532 32 HOH HOH . 
F 5 HOH A 33 533 33 HOH HOH . 
F 5 HOH A 34 534 34 HOH HOH . 
F 5 HOH A 35 535 35 HOH HOH . 
F 5 HOH A 36 536 36 HOH HOH . 
F 5 HOH A 37 537 37 HOH HOH . 
F 5 HOH A 38 538 38 HOH HOH . 
F 5 HOH A 39 539 39 HOH HOH . 
F 5 HOH A 40 540 40 HOH HOH . 
F 5 HOH A 41 541 41 HOH HOH . 
F 5 HOH A 42 542 42 HOH HOH . 
F 5 HOH A 43 543 43 HOH HOH . 
F 5 HOH A 44 544 44 HOH HOH . 
F 5 HOH A 45 545 45 HOH HOH . 
F 5 HOH A 46 546 46 HOH HOH . 
F 5 HOH A 47 547 47 HOH HOH . 
F 5 HOH A 48 548 48 HOH HOH . 
F 5 HOH A 49 549 49 HOH HOH . 
F 5 HOH A 50 550 50 HOH HOH . 
F 5 HOH A 51 551 51 HOH HOH . 
F 5 HOH A 52 552 52 HOH HOH . 
F 5 HOH A 53 553 53 HOH HOH . 
F 5 HOH A 54 554 54 HOH HOH . 
F 5 HOH A 55 555 55 HOH HOH . 
F 5 HOH A 56 556 56 HOH HOH . 
F 5 HOH A 57 557 57 HOH HOH . 
F 5 HOH A 58 558 58 HOH HOH . 
F 5 HOH A 59 559 59 HOH HOH . 
F 5 HOH A 60 560 60 HOH HOH . 
F 5 HOH A 61 561 61 HOH HOH . 
F 5 HOH A 62 562 62 HOH HOH . 
F 5 HOH A 63 563 63 HOH HOH . 
F 5 HOH A 64 564 64 HOH HOH . 
F 5 HOH A 65 565 65 HOH HOH . 
F 5 HOH A 66 566 66 HOH HOH . 
F 5 HOH A 67 567 67 HOH HOH . 
F 5 HOH A 68 568 68 HOH HOH . 
F 5 HOH A 69 569 69 HOH HOH . 
F 5 HOH A 70 570 70 HOH HOH . 
F 5 HOH A 71 571 71 HOH HOH . 
F 5 HOH A 72 572 72 HOH HOH . 
F 5 HOH A 73 573 73 HOH HOH . 
F 5 HOH A 74 574 74 HOH HOH . 
F 5 HOH A 75 575 75 HOH HOH . 
F 5 HOH A 76 576 76 HOH HOH . 
F 5 HOH A 77 577 77 HOH HOH . 
F 5 HOH A 78 578 78 HOH HOH . 
F 5 HOH A 79 579 79 HOH HOH . 
F 5 HOH A 80 580 80 HOH HOH . 
F 5 HOH A 81 581 81 HOH HOH . 
F 5 HOH A 82 582 82 HOH HOH . 
F 5 HOH A 83 583 83 HOH HOH . 
F 5 HOH A 84 584 84 HOH HOH . 
F 5 HOH A 85 585 85 HOH HOH . 
F 5 HOH A 86 586 86 HOH HOH . 
F 5 HOH A 87 587 87 HOH HOH . 
F 5 HOH A 88 588 88 HOH HOH . 
F 5 HOH A 89 589 89 HOH HOH . 
F 5 HOH A 90 590 90 HOH HOH . 
F 5 HOH A 91 591 91 HOH HOH . 
F 5 HOH A 92 592 92 HOH HOH . 
F 5 HOH A 93 593 93 HOH HOH . 
F 5 HOH A 94 594 94 HOH HOH . 
F 5 HOH A 95 595 95 HOH HOH . 
F 5 HOH A 96 596 96 HOH HOH . 
F 5 HOH A 97 597 97 HOH HOH . 
F 5 HOH A 98 598 98 HOH HOH . 
F 5 HOH A 99 599 99 HOH HOH . 
F 5 HOH A 100 600 100 HOH HOH . 
F 5 HOH A 101 601 101 HOH HOH . 
F 5 HOH A 102 602 102 HOH HOH . 
F 5 HOH A 103 603 103 HOH HOH . 
F 5 HOH A 104 604 104 HOH HOH . 
F 5 HOH A 105 605 105 HOH HOH . 
F 5 HOH A 106 606 106 HOH HOH . 
F 5 HOH A 107 607 107 HOH HOH . 
F 5 HOH A 108 608 108 HOH HOH . 
F 5 HOH A 109 609 109 HOH HOH . 
F 5 HOH A 110 610 110 HOH HOH . 
F 5 HOH A 111 611 111 HOH HOH . 
F 5 HOH A 112 612 112 HOH HOH . 
F 5 HOH A 113 613 113 HOH HOH . 
F 5 HOH A 114 614 114 HOH HOH . 
F 5 HOH A 115 615 115 HOH HOH . 
F 5 HOH A 116 616 116 HOH HOH . 
F 5 HOH A 117 617 117 HOH HOH . 
F 5 HOH A 118 618 118 HOH HOH . 
F 5 HOH A 119 619 119 HOH HOH . 
F 5 HOH A 120 620 120 HOH HOH . 
F 5 HOH A 121 621 121 HOH HOH . 
F 5 HOH A 122 622 122 HOH HOH . 
F 5 HOH A 123 623 123 HOH HOH . 
F 5 HOH A 124 624 124 HOH HOH . 
F 5 HOH A 125 625 125 HOH HOH . 
F 5 HOH A 126 626 126 HOH HOH . 
F 5 HOH A 127 627 127 HOH HOH . 
F 5 HOH A 128 628 128 HOH HOH . 
F 5 HOH A 129 629 129 HOH HOH . 
F 5 HOH A 130 630 130 HOH HOH . 
F 5 HOH A 131 631 131 HOH HOH . 
F 5 HOH A 132 632 132 HOH HOH . 
F 5 HOH A 133 633 133 HOH HOH . 
F 5 HOH A 134 634 134 HOH HOH . 
F 5 HOH A 135 635 135 HOH HOH . 
F 5 HOH A 136 636 136 HOH HOH . 
F 5 HOH A 137 637 137 HOH HOH . 
F 5 HOH A 138 638 138 HOH HOH . 
F 5 HOH A 139 639 139 HOH HOH . 
F 5 HOH A 140 640 140 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 O1B DGI . . . B 2 23.406 36.615 -14.098 1 33.91 ? O1B DGI 401 A 1 
HETATM 2 P PB DGI . . . B 2 22.888 37.536 -15.192 1 32.58 ? PB DGI 401 A 1 
HETATM 3 O O2B DGI . . . B 2 21.442 37.918 -15.004 1 31.95 ? O2B DGI 401 A 1 
HETATM 4 O O3B DGI . . . B 2 23.111 36.976 -16.547 1 33.94 ? O3B DGI 401 A 1 
HETATM 5 O O3A DGI . . . B 2 23.635 38.962 -15.151 1 31.65 ? O3A DGI 401 A 1 
HETATM 6 P PA DGI . . . B 2 25.064 39.33 -14.492 1 35.11 ? PA DGI 401 A 1 
HETATM 7 O O1A DGI . . . B 2 25.994 38.326 -15.087 1 36.64 ? O1A DGI 401 A 1 
HETATM 8 O O2A DGI . . . B 2 25.063 39.596 -12.996 1 33.71 ? O2A DGI 401 A 1 
HETATM 9 O O5' DGI . . . B 2 25.257 40.767 -15.113 1 36.54 ? O5' DGI 401 A 1 
HETATM 10 C C5' DGI . . . B 2 25.278 40.955 -16.532 1 37.93 ? C5' DGI 401 A 1 
HETATM 11 C C4' DGI . . . B 2 26.109 42.186 -16.818 1 38.6 ? C4' DGI 401 A 1 
HETATM 12 O O4' DGI . . . B 2 25.47 43.339 -16.277 1 39.49 ? O4' DGI 401 A 1 
HETATM 13 C C3' DGI . . . B 2 27.502 42.219 -16.222 1 40.2 ? C3' DGI 401 A 1 
HETATM 14 O O3' DGI . . . B 2 28.307 43.013 -17.081 1 37.44 ? O3' DGI 401 A 1 
HETATM 15 C C2' DGI . . . B 2 27.375 43.007 -14.957 1 41.83 ? C2' DGI 401 A 1 
HETATM 16 C C1' DGI . . . B 2 26.281 43.99 -15.35 1 39.8 ? C1' DGI 401 A 1 
HETATM 17 N N9 DGI . . . B 2 25.48 44.439 -14.193 1 43.36 ? N9 DGI 401 A 1 
HETATM 18 C C8 DGI . . . B 2 25.014 43.678 -13.168 1 42.28 ? C8 DGI 401 A 1 
HETATM 19 N N7 DGI . . . B 2 24.327 44.441 -12.29 1 39.77 ? N7 DGI 401 A 1 
HETATM 20 C C5 DGI . . . B 2 24.336 45.699 -12.749 1 39.94 ? C5 DGI 401 A 1 
HETATM 21 C C4 DGI . . . B 2 25.086 45.699 -14.017 1 42.24 ? C4 DGI 401 A 1 
HETATM 22 N N3 DGI . . . B 2 25.245 46.856 -14.703 1 41.12 ? N3 DGI 401 A 1 
HETATM 23 C C2 DGI . . . B 2 24.72 48.008 -14.214 1 41.68 ? C2 DGI 401 A 1 
HETATM 24 N N2 DGI . . . B 2 24.885 49.147 -14.925 1 39.09 ? N2 DGI 401 A 1 
HETATM 25 N N1 DGI . . . B 2 24.014 48.07 -13.059 1 38.69 ? N1 DGI 401 A 1 
HETATM 26 C C6 DGI . . . B 2 23.797 46.987 -12.296 1 38.82 ? C6 DGI 401 A 1 
HETATM 27 O O6 DGI . . . B 2 23.142 47.06 -11.227 1 39.14 ? O6 DGI 401 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           305 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           27 
#