data_7BWT
#
_model_server_result.job_id            eWuruduhInyhqLRDzvvT7g 
_model_server_result.datetime_utc      '2024-11-15 16:44:29' 
_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          7bwt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":201}' 
#
_entry.id    7BWT 
#
_exptl.entry_id    7BWT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              443.201 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "GUANOSINE-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         120 
_cell.entry_id            7BWT 
_cell.length_a            114.66 
_cell.length_b            114.66 
_cell.length_c            107.066 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7BWT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    'P 31 2"' 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_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,I,J,K,L,M,N,O,P,Q 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             J 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
metalc ? metalc1 B OG1 THR 21 B THR 22 1_555 K MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? 
metalc ? metalc2 J O1B GDP . B GDP 201 1_555 K MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? 
metalc ? metalc3 K MG MG . B MG 202 1_555 Q O HOH . B HOH 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? 
metalc ? metalc4 K MG MG . B MG 202 1_555 Q O HOH . B HOH 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
metalc ? metalc5 K MG MG . B MG 202 1_555 Q O HOH . B HOH 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? 
metalc ? metalc6 K MG MG . B MG 202 1_555 Q O HOH . B HOH 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? 
#
_chem_comp.formula           'C10 H15 N5 O11 P2' 
_chem_comp.formula_weight    443.201 
_chem_comp.id                GDP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "GUANOSINE-5'-DIPHOSPHATE" 
_chem_comp.type              'rna 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
PB O1B GDP doub 83 n n 
PB O2B GDP sing 84 n n 
PB O3B GDP sing 85 n n 
PB O3A GDP sing 86 n n 
O2B HOB2 GDP sing 87 n n 
O3B HOB3 GDP sing 88 n n 
O3A PA GDP sing 89 n n 
PA O1A GDP doub 90 n n 
PA O2A GDP sing 91 n n 
PA O5' GDP sing 92 n n 
O2A HOA2 GDP sing 93 n n 
O5' C5' GDP sing 94 n n 
C5' C4' GDP sing 95 n n 
C5' H5' GDP sing 96 n n 
C5' "H5''" GDP sing 97 n n 
C4' O4' GDP sing 98 n n 
C4' C3' GDP sing 99 n n 
C4' H4' GDP sing 100 n n 
O4' C1' GDP sing 101 n n 
C3' O3' GDP sing 102 n n 
C3' C2' GDP sing 103 n n 
C3' H3' GDP sing 104 n n 
O3' HO3' GDP sing 105 n n 
C2' O2' GDP sing 106 n n 
C2' C1' GDP sing 107 n n 
C2' H2' GDP sing 108 n n 
O2' HO2' GDP sing 109 n n 
C1' N9 GDP sing 110 n n 
C1' H1' GDP sing 111 n n 
N9 C8 GDP sing 112 n y 
N9 C4 GDP sing 113 n y 
C8 N7 GDP doub 114 n y 
C8 H8 GDP sing 115 n n 
N7 C5 GDP sing 116 n y 
C5 C6 GDP sing 117 n n 
C5 C4 GDP doub 118 n y 
C6 O6 GDP doub 119 n n 
C6 N1 GDP sing 120 n n 
N1 C2 GDP sing 121 n n 
N1 HN1 GDP sing 122 n n 
C2 N2 GDP sing 123 n n 
C2 N3 GDP doub 124 n n 
N2 HN21 GDP sing 125 n n 
N2 HN22 GDP sing 126 n n 
N3 C4 GDP sing 127 n n 
#
_atom_sites.entry_id                     7BWT 
_atom_sites.fract_transf_matrix[1][1]    0.008721 
_atom_sites.fract_transf_matrix[1][2]    0.005035 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010071 
_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]    0.00934 
_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 3 PEG A 1 401 1 PEG PEG . 
D 3 PEG A 1 402 2 PEG PEG . 
E 4 GOL A 1 403 3 GOL GOL . 
F 4 GOL A 1 404 4 GOL GOL . 
G 4 GOL A 1 405 5 GOL GOL . 
H 4 GOL A 1 406 7 GOL GOL . 
I 4 GOL A 1 407 9 GOL GOL . 
J 5 GDP B 1 201 1 GDP GDP . 
K 6 MG B 1 202 1 MG MG . 
L 4 GOL B 1 203 1 GOL GOL . 
M 4 GOL B 1 204 2 GOL GOL . 
N 4 GOL B 1 205 6 GOL GOL . 
O 4 GOL B 1 206 8 GOL GOL . 
P 7 HOH A 1 501 41 HOH HOH . 
P 7 HOH A 2 502 88 HOH HOH . 
P 7 HOH A 3 503 4 HOH HOH . 
P 7 HOH A 4 504 49 HOH HOH . 
P 7 HOH A 5 505 110 HOH HOH . 
P 7 HOH A 6 506 12 HOH HOH . 
P 7 HOH A 7 507 58 HOH HOH . 
P 7 HOH A 8 508 1 HOH HOH . 
P 7 HOH A 9 509 16 HOH HOH . 
P 7 HOH A 10 510 8 HOH HOH . 
P 7 HOH A 11 511 68 HOH HOH . 
P 7 HOH A 12 512 105 HOH HOH . 
P 7 HOH A 13 513 18 HOH HOH . 
P 7 HOH A 14 514 69 HOH HOH . 
P 7 HOH A 15 515 48 HOH HOH . 
P 7 HOH A 16 516 17 HOH HOH . 
P 7 HOH A 17 517 78 HOH HOH . 
P 7 HOH A 18 518 75 HOH HOH . 
P 7 HOH A 19 519 7 HOH HOH . 
P 7 HOH A 20 520 72 HOH HOH . 
P 7 HOH A 21 521 36 HOH HOH . 
P 7 HOH A 22 522 15 HOH HOH . 
P 7 HOH A 23 523 3 HOH HOH . 
P 7 HOH A 24 524 38 HOH HOH . 
P 7 HOH A 25 525 57 HOH HOH . 
P 7 HOH A 26 526 62 HOH HOH . 
P 7 HOH A 27 527 108 HOH HOH . 
P 7 HOH A 28 528 51 HOH HOH . 
P 7 HOH A 29 529 19 HOH HOH . 
P 7 HOH A 30 530 2 HOH HOH . 
P 7 HOH A 31 531 111 HOH HOH . 
P 7 HOH A 32 532 77 HOH HOH . 
P 7 HOH A 33 533 25 HOH HOH . 
P 7 HOH A 34 534 27 HOH HOH . 
P 7 HOH A 35 535 55 HOH HOH . 
P 7 HOH A 36 536 6 HOH HOH . 
P 7 HOH A 37 537 10 HOH HOH . 
P 7 HOH A 38 538 24 HOH HOH . 
P 7 HOH A 39 539 26 HOH HOH . 
P 7 HOH A 40 540 91 HOH HOH . 
P 7 HOH A 41 541 109 HOH HOH . 
P 7 HOH A 42 542 13 HOH HOH . 
P 7 HOH A 43 543 9 HOH HOH . 
P 7 HOH A 44 544 23 HOH HOH . 
P 7 HOH A 45 545 5 HOH HOH . 
P 7 HOH A 46 546 76 HOH HOH . 
P 7 HOH A 47 547 107 HOH HOH . 
P 7 HOH A 48 548 33 HOH HOH . 
P 7 HOH A 49 549 32 HOH HOH . 
P 7 HOH A 50 550 52 HOH HOH . 
P 7 HOH A 51 551 89 HOH HOH . 
P 7 HOH A 52 552 113 HOH HOH . 
P 7 HOH A 53 553 14 HOH HOH . 
P 7 HOH A 54 554 44 HOH HOH . 
P 7 HOH A 55 555 102 HOH HOH . 
P 7 HOH A 56 556 74 HOH HOH . 
P 7 HOH A 57 557 22 HOH HOH . 
P 7 HOH A 58 558 54 HOH HOH . 
P 7 HOH A 59 559 50 HOH HOH . 
P 7 HOH A 60 560 31 HOH HOH . 
P 7 HOH A 61 561 56 HOH HOH . 
P 7 HOH A 62 562 28 HOH HOH . 
P 7 HOH A 63 563 79 HOH HOH . 
P 7 HOH A 64 564 35 HOH HOH . 
P 7 HOH A 65 565 98 HOH HOH . 
P 7 HOH A 66 566 87 HOH HOH . 
P 7 HOH A 67 567 65 HOH HOH . 
P 7 HOH A 68 568 67 HOH HOH . 
P 7 HOH A 69 569 86 HOH HOH . 
P 7 HOH A 70 570 63 HOH HOH . 
P 7 HOH A 71 571 85 HOH HOH . 
P 7 HOH A 72 572 37 HOH HOH . 
P 7 HOH A 73 573 34 HOH HOH . 
P 7 HOH A 74 574 106 HOH HOH . 
P 7 HOH A 75 575 40 HOH HOH . 
P 7 HOH A 76 576 30 HOH HOH . 
P 7 HOH A 77 577 71 HOH HOH . 
P 7 HOH A 78 578 101 HOH HOH . 
P 7 HOH A 79 579 90 HOH HOH . 
P 7 HOH A 80 580 66 HOH HOH . 
P 7 HOH A 81 581 64 HOH HOH . 
P 7 HOH A 82 582 39 HOH HOH . 
P 7 HOH A 83 583 73 HOH HOH . 
P 7 HOH A 84 584 97 HOH HOH . 
Q 7 HOH B 1 301 94 HOH HOH . 
Q 7 HOH B 2 302 80 HOH HOH . 
Q 7 HOH B 3 303 104 HOH HOH . 
Q 7 HOH B 4 304 112 HOH HOH . 
Q 7 HOH B 5 305 114 HOH HOH . 
Q 7 HOH B 6 306 47 HOH HOH . 
Q 7 HOH B 7 307 117 HOH HOH . 
Q 7 HOH B 8 308 20 HOH HOH . 
Q 7 HOH B 9 309 116 HOH HOH . 
Q 7 HOH B 10 310 84 HOH HOH . 
Q 7 HOH B 11 311 21 HOH HOH . 
Q 7 HOH B 12 312 82 HOH HOH . 
Q 7 HOH B 13 313 46 HOH HOH . 
Q 7 HOH B 14 314 53 HOH HOH . 
Q 7 HOH B 15 315 70 HOH HOH . 
Q 7 HOH B 16 316 60 HOH HOH . 
Q 7 HOH B 17 317 11 HOH HOH . 
Q 7 HOH B 18 318 96 HOH HOH . 
Q 7 HOH B 19 319 115 HOH HOH . 
Q 7 HOH B 20 320 93 HOH HOH . 
Q 7 HOH B 21 321 45 HOH HOH . 
Q 7 HOH B 22 322 81 HOH HOH . 
Q 7 HOH B 23 323 95 HOH HOH . 
Q 7 HOH B 24 324 99 HOH HOH . 
Q 7 HOH B 25 325 83 HOH HOH . 
Q 7 HOH B 26 326 29 HOH HOH . 
Q 7 HOH B 27 327 61 HOH HOH . 
Q 7 HOH B 28 328 119 HOH HOH . 
Q 7 HOH B 29 329 42 HOH HOH . 
Q 7 HOH B 30 330 59 HOH HOH . 
Q 7 HOH B 31 331 92 HOH HOH . 
Q 7 HOH B 32 332 43 HOH HOH . 
Q 7 HOH B 33 333 120 HOH HOH . 
Q 7 HOH B 34 334 118 HOH HOH . 
Q 7 HOH B 35 335 100 HOH HOH . 
Q 7 HOH B 36 336 103 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 P PB GDP . . . J 5 50.722 8.626 7.524 1 71.33 ? PB GDP 201 B 1 
HETATM 2 O O1B GDP . . . J 5 50.337 8.245 6.114 1 64.77 ? O1B GDP 201 B 1 
HETATM 3 O O2B GDP . . . J 5 51.641 7.563 8.124 1 70.44 ? O2B GDP 201 B 1 
HETATM 4 O O3B GDP . . . J 5 49.475 8.782 8.369 1 73.63 ? O3B GDP 201 B 1 
HETATM 5 O O3A GDP . . . J 5 51.557 10.087 7.487 1 75.96 ? O3A GDP 201 B 1 
HETATM 6 P PA GDP . . . J 5 51.593 11.123 6.15 1 71.26 ? PA GDP 201 B 1 
HETATM 7 O O1A GDP . . . J 5 52.364 10.508 5.017 1 68 ? O1A GDP 201 B 1 
HETATM 8 O O2A GDP . . . J 5 50.2 11.468 5.7 1 68.08 ? O2A GDP 201 B 1 
HETATM 9 O O5' GDP . . . J 5 52.338 12.495 6.653 1 78.57 ? O5' GDP 201 B 1 
HETATM 10 C C5' GDP . . . J 5 51.806 13.15 7.795 1 77.03 ? C5' GDP 201 B 1 
HETATM 11 C C4' GDP . . . J 5 52.42 14.591 7.892 1 78.64 ? C4' GDP 201 B 1 
HETATM 12 O O4' GDP . . . J 5 53.947 14.476 8.189 1 77.44 ? O4' GDP 201 B 1 
HETATM 13 C C3' GDP . . . J 5 52.318 15.195 6.773 1 77.17 ? C3' GDP 201 B 1 
HETATM 14 O O3' GDP . . . J 5 52.032 16.591 6.998 1 77.78 ? O3' GDP 201 B 1 
HETATM 15 C C2' GDP . . . J 5 53.798 15.044 6.015 1 76.95 ? C2' GDP 201 B 1 
HETATM 16 O O2' GDP . . . J 5 53.991 16.122 5.033 1 76 ? O2' GDP 201 B 1 
HETATM 17 C C1' GDP . . . J 5 54.641 15.128 6.955 1 76.98 ? C1' GDP 201 B 1 
HETATM 18 N N9 GDP . . . J 5 55.897 14.387 6.636 1 78.44 ? N9 GDP 201 B 1 
HETATM 19 C C8 GDP . . . J 5 55.825 13.107 6.197 1 78.13 ? C8 GDP 201 B 1 
HETATM 20 N N7 GDP . . . J 5 57.101 12.692 5.997 1 76.43 ? N7 GDP 201 B 1 
HETATM 21 C C5 GDP . . . J 5 57.933 13.709 6.313 1 76.53 ? C5 GDP 201 B 1 
HETATM 22 C C6 GDP . . . J 5 59.462 13.85 6.292 1 73.46 ? C6 GDP 201 B 1 
HETATM 23 O O6 GDP . . . J 5 60.152 12.926 5.939 1 65.39 ? O6 GDP 201 B 1 
HETATM 24 N N1 GDP . . . J 5 60.063 15.08 6.695 1 78.37 ? N1 GDP 201 B 1 
HETATM 25 C C2 GDP . . . J 5 59.234 16.192 7.119 1 78.7 ? C2 GDP 201 B 1 
HETATM 26 N N2 GDP . . . J 5 59.838 17.456 7.528 1 82.76 ? N2 GDP 201 B 1 
HETATM 27 N N3 GDP . . . J 5 57.79 16.054 7.136 1 77.44 ? N3 GDP 201 B 1 
HETATM 28 C C4 GDP . . . J 5 57.171 14.763 6.713 1 77.67 ? C4 GDP 201 B 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           28 
#