data_5UHT
#
_model_server_result.job_id            cXgaZPFsTjfJTW-253qeEA 
_model_server_result.datetime_utc      '2024-11-09 23:21:15' 
_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          5uht 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":501}' 
#
_entry.id    5UHT 
#
_exptl.entry_id    5UHT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          3 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_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          110.54 
_cell.angle_gamma         90 
_cell.entry_id            5UHT 
_cell.length_a            177.97 
_cell.length_b            98.38 
_cell.length_c            72.05 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5UHT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,R,S,T,U,V,W,X 
_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 E N N 
? 3 O 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 100 A CYS 330 1_555 A SG CYS 129 A CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? 
disulf ? disulf2 C SG CYS 100 C CYS 330 1_555 C SG CYS 129 C CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? 
covale ? covale1 B C LEU 52 B LEU 52 1_555 B N BFD 53 B BFD 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale2 B C BFD 53 B BFD 53 1_555 B N ILE 54 B ILE 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.316 ? 
covale ? covale3 D C LEU 52 D LEU 52 1_555 D N BFD 53 D BFD 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale4 D C BFD 53 D BFD 53 1_555 D N ILE 54 D ILE 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
metalc ? metalc1 B OD1 ASP 10 B ASP 10 1_555 M MG MG . B MG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? 
metalc ? metalc2 B OD2 ASP 10 B ASP 10 1_555 M MG MG . B MG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? 
metalc ? metalc3 B OD2 BFD 53 B BFD 53 1_555 M MG MG . B MG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? 
metalc ? metalc4 B O MET 55 B MET 55 1_555 M MG MG . B MG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? 
metalc ? metalc5 M MG MG . B MG 204 1_555 V O HOH . B HOH 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
metalc ? metalc6 M MG MG . B MG 204 1_555 V O HOH . B HOH 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? 
metalc ? metalc7 D OD1 ASP 10 D ASP 10 1_555 S MG MG . D MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? 
metalc ? metalc8 D OD2 ASP 10 D ASP 10 1_555 S MG MG . D MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? 
metalc ? metalc9 D OD2 BFD 53 D BFD 53 1_555 S MG MG . D MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? 
metalc ? metalc10 D O MET 55 D MET 55 1_555 S MG MG . D MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? 
metalc ? metalc11 S MG MG . D MG 202 1_555 X O HOH . D HOH 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
metalc ? metalc12 S MG MG . D MG 202 1_555 X O HOH . D HOH 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                ADP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "ADENOSINE-5'-DIPHOSPHATE" 
_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
PB O1B ADP doub 1 n n 
PB O2B ADP sing 2 n n 
PB O3B ADP sing 3 n n 
PB O3A ADP sing 4 n n 
O2B HOB2 ADP sing 5 n n 
O3B HOB3 ADP sing 6 n n 
PA O1A ADP doub 7 n n 
PA O2A ADP sing 8 n n 
PA O3A ADP sing 9 n n 
PA O5' ADP sing 10 n n 
O2A HOA2 ADP sing 11 n n 
O5' C5' ADP sing 12 n n 
C5' C4' ADP sing 13 n n 
C5' "H5'1" ADP sing 14 n n 
C5' "H5'2" ADP sing 15 n n 
C4' O4' ADP sing 16 n n 
C4' C3' ADP sing 17 n n 
C4' H4' ADP sing 18 n n 
O4' C1' ADP sing 19 n n 
C3' O3' ADP sing 20 n n 
C3' C2' ADP sing 21 n n 
C3' H3' ADP sing 22 n n 
O3' HO3' ADP sing 23 n n 
C2' O2' ADP sing 24 n n 
C2' C1' ADP sing 25 n n 
C2' H2' ADP sing 26 n n 
O2' HO2' ADP sing 27 n n 
C1' N9 ADP sing 28 n n 
C1' H1' ADP sing 29 n n 
N9 C8 ADP sing 30 n y 
N9 C4 ADP sing 31 n y 
C8 N7 ADP doub 32 n y 
C8 H8 ADP sing 33 n n 
N7 C5 ADP sing 34 n y 
C5 C6 ADP sing 35 n y 
C5 C4 ADP doub 36 n y 
C6 N6 ADP sing 37 n n 
C6 N1 ADP doub 38 n y 
N6 HN61 ADP sing 39 n n 
N6 HN62 ADP sing 40 n n 
N1 C2 ADP sing 41 n y 
C2 N3 ADP doub 42 n y 
C2 H2 ADP sing 43 n n 
N3 C4 ADP sing 44 n y 
#
_atom_sites.entry_id                     5UHT 
_atom_sites.fract_transf_matrix[1][1]    0.005619 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002106 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010165 
_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]    0.014822 
_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
E 3 ADP A 1 501 500 ADP ADP . 
F 4 GOL A 1 502 1 GOL GOL . 
G 4 GOL A 1 503 2 GOL GOL . 
H 4 GOL A 1 504 7 GOL GOL . 
I 5 SO4 A 1 505 3 SO4 SO4 . 
J 4 GOL B 1 201 3 GOL GOL . 
K 4 GOL B 1 202 5 GOL GOL . 
L 4 GOL B 1 203 8 GOL GOL . 
M 6 MG B 1 204 1 MG MG . 
N 5 SO4 B 1 205 2 SO4 SO4 . 
O 3 ADP C 1 501 500 ADP ADP . 
P 4 GOL C 1 502 6 GOL GOL . 
Q 4 GOL C 1 503 9 GOL GOL . 
R 4 GOL D 1 201 4 GOL GOL . 
S 6 MG D 1 202 1 MG MG . 
T 5 SO4 D 1 203 1 SO4 SO4 . 
U 7 HOH A 1 601 70 HOH HOH . 
U 7 HOH A 2 602 22 HOH HOH . 
U 7 HOH A 3 603 48 HOH HOH . 
U 7 HOH A 4 604 30 HOH HOH . 
U 7 HOH A 5 605 86 HOH HOH . 
U 7 HOH A 6 606 55 HOH HOH . 
U 7 HOH A 7 607 35 HOH HOH . 
U 7 HOH A 8 608 85 HOH HOH . 
U 7 HOH A 9 609 78 HOH HOH . 
U 7 HOH A 10 610 80 HOH HOH . 
U 7 HOH A 11 611 13 HOH HOH . 
U 7 HOH A 12 612 68 HOH HOH . 
U 7 HOH A 13 613 49 HOH HOH . 
U 7 HOH A 14 614 34 HOH HOH . 
U 7 HOH A 15 615 52 HOH HOH . 
U 7 HOH A 16 616 8 HOH HOH . 
U 7 HOH A 17 617 50 HOH HOH . 
U 7 HOH A 18 618 67 HOH HOH . 
U 7 HOH A 19 619 79 HOH HOH . 
U 7 HOH A 20 620 33 HOH HOH . 
U 7 HOH A 21 621 11 HOH HOH . 
U 7 HOH A 22 622 18 HOH HOH . 
U 7 HOH A 23 623 6 HOH HOH . 
U 7 HOH A 24 624 69 HOH HOH . 
U 7 HOH A 25 625 40 HOH HOH . 
U 7 HOH A 26 626 41 HOH HOH . 
U 7 HOH A 27 627 47 HOH HOH . 
U 7 HOH A 28 628 89 HOH HOH . 
V 7 HOH B 1 301 24 HOH HOH . 
V 7 HOH B 2 302 14 HOH HOH . 
V 7 HOH B 3 303 16 HOH HOH . 
V 7 HOH B 4 304 38 HOH HOH . 
V 7 HOH B 5 305 71 HOH HOH . 
V 7 HOH B 6 306 2 HOH HOH . 
V 7 HOH B 7 307 76 HOH HOH . 
V 7 HOH B 8 308 19 HOH HOH . 
V 7 HOH B 9 309 29 HOH HOH . 
V 7 HOH B 10 310 53 HOH HOH . 
V 7 HOH B 11 311 15 HOH HOH . 
V 7 HOH B 12 312 37 HOH HOH . 
V 7 HOH B 13 313 65 HOH HOH . 
V 7 HOH B 14 314 5 HOH HOH . 
V 7 HOH B 15 315 77 HOH HOH . 
V 7 HOH B 16 316 20 HOH HOH . 
V 7 HOH B 17 317 32 HOH HOH . 
W 7 HOH C 1 601 74 HOH HOH . 
W 7 HOH C 2 602 12 HOH HOH . 
W 7 HOH C 3 603 81 HOH HOH . 
W 7 HOH C 4 604 17 HOH HOH . 
W 7 HOH C 5 605 57 HOH HOH . 
W 7 HOH C 6 606 84 HOH HOH . 
W 7 HOH C 7 607 28 HOH HOH . 
W 7 HOH C 8 608 23 HOH HOH . 
W 7 HOH C 9 609 72 HOH HOH . 
W 7 HOH C 10 610 3 HOH HOH . 
W 7 HOH C 11 611 54 HOH HOH . 
W 7 HOH C 12 612 58 HOH HOH . 
W 7 HOH C 13 613 27 HOH HOH . 
W 7 HOH C 14 614 7 HOH HOH . 
W 7 HOH C 15 615 43 HOH HOH . 
W 7 HOH C 16 616 56 HOH HOH . 
W 7 HOH C 17 617 61 HOH HOH . 
W 7 HOH C 18 618 51 HOH HOH . 
W 7 HOH C 19 619 73 HOH HOH . 
W 7 HOH C 20 620 21 HOH HOH . 
W 7 HOH C 21 621 63 HOH HOH . 
W 7 HOH C 22 622 82 HOH HOH . 
W 7 HOH C 23 623 45 HOH HOH . 
W 7 HOH C 24 624 42 HOH HOH . 
W 7 HOH C 25 625 39 HOH HOH . 
W 7 HOH C 26 626 83 HOH HOH . 
X 7 HOH D 1 301 59 HOH HOH . 
X 7 HOH D 2 302 87 HOH HOH . 
X 7 HOH D 3 303 31 HOH HOH . 
X 7 HOH D 4 304 26 HOH HOH . 
X 7 HOH D 5 305 25 HOH HOH . 
X 7 HOH D 6 306 62 HOH HOH . 
X 7 HOH D 7 307 66 HOH HOH . 
X 7 HOH D 8 308 4 HOH HOH . 
X 7 HOH D 9 309 10 HOH HOH . 
X 7 HOH D 10 310 75 HOH HOH . 
X 7 HOH D 11 311 1 HOH HOH . 
X 7 HOH D 12 312 64 HOH HOH . 
X 7 HOH D 13 313 44 HOH HOH . 
X 7 HOH D 14 314 88 HOH HOH . 
X 7 HOH D 15 315 60 HOH HOH . 
X 7 HOH D 16 316 36 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 ADP . . . O 3 -30.32 22.986 -26.489 1 68.73 ? PB ADP 501 C 1 
HETATM 2 O O1B ADP . . . O 3 -29.099 23.699 -27.013 1 64.97 ? O1B ADP 501 C 1 
HETATM 3 O O2B ADP . . . O 3 -30.345 21.533 -26.862 1 71.75 ? O2B ADP 501 C 1 
HETATM 4 O O3B ADP . . . O 3 -30.654 23.286 -25.042 1 81.63 ? O3B ADP 501 C 1 
HETATM 5 P PA ADP . . . O 3 -31.854 25.134 -27.52 1 55.64 ? PA ADP 501 C 1 
HETATM 6 O O1A ADP . . . O 3 -33.244 25.45 -27.037 1 52.99 ? O1A ADP 501 C 1 
HETATM 7 O O2A ADP . . . O 3 -30.667 25.923 -27.03 1 57.41 ? O2A ADP 501 C 1 
HETATM 8 O O3A ADP . . . O 3 -31.588 23.564 -27.299 1 59.8 ? O3A ADP 501 C 1 
HETATM 9 O O5' ADP . . . O 3 -31.852 25.25 -29.121 1 61.03 ? O5' ADP 501 C 1 
HETATM 10 C C5' ADP . . . O 3 -32.877 24.618 -29.878 1 64.18 ? C5' ADP 501 C 1 
HETATM 11 C C4' ADP . . . O 3 -32.276 24.152 -31.198 1 71.03 ? C4' ADP 501 C 1 
HETATM 12 O O4' ADP . . . O 3 -31.914 25.284 -31.985 1 71.25 ? O4' ADP 501 C 1 
HETATM 13 C C3' ADP . . . O 3 -31.035 23.288 -31.049 1 78.8 ? C3' ADP 501 C 1 
HETATM 14 O O3' ADP . . . O 3 -31.296 21.978 -31.516 1 91.52 ? O3' ADP 501 C 1 
HETATM 15 C C2' ADP . . . O 3 -30.068 23.822 -32.061 1 74.16 ? C2' ADP 501 C 1 
HETATM 16 O O2' ADP . . . O 3 -30.067 22.832 -33.078 1 82.55 ? O2' ADP 501 C 1 
HETATM 17 C C1' ADP . . . O 3 -30.696 25.037 -32.676 1 66.51 ? C1' ADP 501 C 1 
HETATM 18 N N9 ADP . . . O 3 -29.754 26.139 -32.45 1 61.27 ? N9 ADP 501 C 1 
HETATM 19 C C8 ADP . . . O 3 -29.774 26.999 -31.412 1 61.66 ? C8 ADP 501 C 1 
HETATM 20 N N7 ADP . . . O 3 -28.758 27.891 -31.523 1 61.91 ? N7 ADP 501 C 1 
HETATM 21 C C5 ADP . . . O 3 -28.08 27.594 -32.651 1 60.33 ? C5 ADP 501 C 1 
HETATM 22 C C6 ADP . . . O 3 -26.903 28.135 -33.368 1 63.14 ? C6 ADP 501 C 1 
HETATM 23 N N6 ADP . . . O 3 -26.22 29.202 -32.89 1 61.65 ? N6 ADP 501 C 1 
HETATM 24 N N1 ADP . . . O 3 -26.53 27.52 -34.516 1 68.75 ? N1 ADP 501 C 1 
HETATM 25 C C2 ADP . . . O 3 -27.192 26.454 -35.009 1 65.43 ? C2 ADP 501 C 1 
HETATM 26 N N3 ADP . . . O 3 -28.27 25.908 -34.415 1 61.03 ? N3 ADP 501 C 1 
HETATM 27 C C4 ADP . . . O 3 -28.743 26.43 -33.257 1 58.28 ? C4 ADP 501 C 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           26 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           407 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           27 
#