data_5CMS
#
_model_server_result.job_id            INQDfIviOd0zyrZY90u3fw 
_model_server_result.datetime_utc      '2024-10-15 11:25:06' 
_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          5cms 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"AA","auth_seq_id":201}' 
#
_entry.id    5CMS 
#
_exptl.entry_id    5CMS 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              559.316 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ADENOSINE-5-DIPHOSPHORIBOSE 
_entity.pdbx_number_of_molecules    18 
_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            5CMS 
_cell.length_a            290.019 
_cell.length_b            290.019 
_cell.length_c            114.324 
_cell.Z_PDB               108 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5CMS 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
PISA monomeric 1 author_and_software_defined_assembly 4 
PISA monomeric 1 author_and_software_defined_assembly 5 
PISA monomeric 1 author_and_software_defined_assembly 6 
PISA monomeric 1 author_and_software_defined_assembly 7 
PISA monomeric 1 author_and_software_defined_assembly 8 
PISA monomeric 1 author_and_software_defined_assembly 9 
PISA monomeric 1 author_and_software_defined_assembly 10 
PISA monomeric 1 author_and_software_defined_assembly 11 
PISA monomeric 1 author_and_software_defined_assembly 12 
PISA monomeric 1 author_and_software_defined_assembly 13 
PISA monomeric 1 author_and_software_defined_assembly 14 
PISA monomeric 1 author_and_software_defined_assembly 15 
PISA monomeric 1 author_and_software_defined_assembly 16 
PISA monomeric 1 author_and_software_defined_assembly 17 
PISA monomeric 1 author_and_software_defined_assembly 18 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,S,T,CB 1 1 
B,U,V,DB 2 1 
C,W,X,EB 3 1 
D,Y,Z,FB 4 1 
E,AA,BA,GB 5 1 
F,CA,DA,HB 6 1 
G,EA,FA,IB 7 1 
H,GA,HA,JB 8 1 
I,IA,JA,KB 9 1 
J,KA,LA,LB 10 1 
K,MA,NA,MB 11 1 
L,OA,PA,NB 12 1 
M,QA,RA,OB 13 1 
N,SA,TA,PB 14 1 
O,UA,VA,QB 15 1 
P,WA,XA,RB 16 1 
Q,YA,ZA,SB 17 1 
R,AB,BB,TB 18 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
? 2 S N N 
? 2 U N N 
? 2 W N N 
? 2 Y N N 
? 2 AA N N 
? 2 CA N N 
? 2 EA N N 
? 2 GA N N 
? 2 IA N N 
? 2 KA N N 
? 2 MA N N 
? 2 OA N N 
? 2 QA N N 
? 2 SA N N 
? 2 UA N N 
? 2 WA N N 
? 2 YA N N 
? 2 AB N N 
#
_chem_comp.formula           'C15 H23 N5 O14 P2' 
_chem_comp.formula_weight    559.316 
_chem_comp.id                APR 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ADENOSINE-5-DIPHOSPHORIBOSE 
_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
N1 C2 APR sing 13 n y 
N1 C6 APR doub 14 n y 
C2 N3 APR doub 15 n y 
C2 H2 APR sing 16 n n 
N3 C4 APR sing 17 n y 
C4 C5 APR doub 18 n y 
C4 N9 APR sing 19 n y 
C5 C6 APR sing 20 n y 
C5 N7 APR sing 21 n y 
C6 N6 APR sing 22 n n 
N6 H61 APR sing 23 n n 
N6 H62 APR sing 24 n n 
N7 C8 APR doub 25 n y 
C8 N9 APR sing 26 n y 
C8 H8 APR sing 27 n n 
N9 C1' APR sing 28 n n 
C1' C2' APR sing 29 n n 
C1' O4' APR sing 30 n n 
C1' "H'1" APR sing 31 n n 
C2' O2' APR sing 32 n n 
C2' C3' APR sing 33 n n 
C2' "H'2" APR sing 34 n n 
O2' "HO'2" APR sing 35 n n 
C3' O3' APR sing 36 n n 
C3' C4' APR sing 37 n n 
C3' "H'3" APR sing 38 n n 
O3' "HO'3" APR sing 39 n n 
O4' C4' APR sing 40 n n 
C4' C5' APR sing 41 n n 
C4' "H'4" APR sing 42 n n 
C5' O5' APR sing 43 n n 
C5' "H5'1" APR sing 44 n n 
C5' "H5'2" APR sing 45 n n 
O5' PA APR sing 46 n n 
PA O1A APR doub 47 n n 
PA O2A APR sing 48 n n 
PA O3A APR sing 49 n n 
O2A HOA2 APR sing 50 n n 
O3A PB APR sing 51 n n 
PB O1B APR doub 52 n n 
PB O2B APR sing 53 n n 
PB O5D APR sing 54 n n 
O2B HOB2 APR sing 55 n n 
O5D C5D APR sing 56 n n 
C5D C4D APR sing 57 n n 
C5D H5R1 APR sing 58 n n 
C5D H5R2 APR sing 59 n n 
O4D C1D APR sing 60 n n 
O4D C4D APR sing 61 n n 
O1D C1D APR sing 62 n n 
O1D HOR1 APR sing 63 n n 
C1D C2D APR sing 64 n n 
C1D "HR'1" APR sing 65 n n 
O2D C2D APR sing 66 n n 
O2D HOR2 APR sing 67 n n 
C2D C3D APR sing 68 n n 
C2D "HR'2" APR sing 69 n n 
O3D C3D APR sing 70 n n 
O3D HOR3 APR sing 71 n n 
C3D C4D APR sing 72 n n 
C3D "HR'3" APR sing 73 n n 
C4D "HR'4" APR sing 74 n n 
#
_atom_sites.entry_id                     5CMS 
_atom_sites.fract_transf_matrix[1][1]    0.003448 
_atom_sites.fract_transf_matrix[1][2]    0.001991 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.003981 
_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]    0.008747 
_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
S 2 APR R 1 401 401 APR APR . 
T 3 SO4 R 1 402 1 SO4 SO4 . 
U 2 APR A 1 201 402 APR APR . 
V 3 SO4 A 1 202 2 SO4 SO4 . 
W 2 APR B 1 201 419 APR APR . 
X 3 SO4 B 1 202 3 SO4 SO4 . 
Y 2 APR C 1 201 421 APR APR . 
Z 3 SO4 C 1 202 4 SO4 SO4 . 
AA 2 APR D 1 201 405 APR APR . 
BA 3 SO4 D 1 202 5 SO4 SO4 . 
CA 2 APR E 1 201 420 APR APR . 
DA 3 SO4 E 1 202 6 SO4 SO4 . 
EA 2 APR F 1 201 407 APR APR . 
FA 3 SO4 F 1 202 7 SO4 SO4 . 
GA 2 APR G 1 201 408 APR APR . 
HA 3 SO4 G 1 202 8 SO4 SO4 . 
IA 2 APR H 1 201 409 APR APR . 
JA 3 SO4 H 1 202 9 SO4 SO4 . 
KA 2 APR I 1 201 410 APR APR . 
LA 3 SO4 I 1 202 10 SO4 SO4 . 
MA 2 APR J 1 201 411 APR APR . 
NA 3 SO4 J 1 202 11 SO4 SO4 . 
OA 2 APR K 1 201 412 APR APR . 
PA 3 SO4 K 1 202 12 SO4 SO4 . 
QA 2 APR L 1 201 413 APR APR . 
RA 3 SO4 L 1 202 13 SO4 SO4 . 
SA 2 APR M 1 201 414 APR APR . 
TA 3 SO4 M 1 202 14 SO4 SO4 . 
UA 2 APR N 1 201 415 APR APR . 
VA 3 SO4 N 1 202 15 SO4 SO4 . 
WA 2 APR O 1 201 417 APR APR . 
XA 3 SO4 O 1 202 16 SO4 SO4 . 
YA 2 APR P 1 201 416 APR APR . 
ZA 3 SO4 P 1 202 17 SO4 SO4 . 
AB 2 APR Q 1 201 418 APR APR . 
BB 3 SO4 Q 1 202 18 SO4 SO4 . 
CB 4 HOH R 1 501 43 HOH HOH . 
CB 4 HOH R 2 502 61 HOH HOH . 
CB 4 HOH R 3 503 110 HOH HOH . 
CB 4 HOH R 4 504 111 HOH HOH . 
DB 4 HOH A 1 301 78 HOH HOH . 
DB 4 HOH A 2 302 90 HOH HOH . 
DB 4 HOH A 3 303 50 HOH HOH . 
DB 4 HOH A 4 304 73 HOH HOH . 
DB 4 HOH A 5 305 30 HOH HOH . 
EB 4 HOH B 1 301 53 HOH HOH . 
EB 4 HOH B 2 302 36 HOH HOH . 
EB 4 HOH B 3 303 13 HOH HOH . 
EB 4 HOH B 4 304 10 HOH HOH . 
EB 4 HOH B 5 305 1 HOH HOH . 
EB 4 HOH B 6 306 54 HOH HOH . 
EB 4 HOH B 7 307 83 HOH HOH . 
EB 4 HOH B 8 308 40 HOH HOH . 
EB 4 HOH B 9 309 35 HOH HOH . 
FB 4 HOH C 1 301 103 HOH HOH . 
FB 4 HOH C 2 302 75 HOH HOH . 
FB 4 HOH C 3 303 89 HOH HOH . 
FB 4 HOH C 4 304 20 HOH HOH . 
FB 4 HOH C 5 305 115 HOH HOH . 
FB 4 HOH C 6 306 5 HOH HOH . 
FB 4 HOH C 7 307 106 HOH HOH . 
FB 4 HOH C 8 308 70 HOH HOH . 
FB 4 HOH C 9 309 34 HOH HOH . 
FB 4 HOH C 10 310 60 HOH HOH . 
FB 4 HOH C 11 311 107 HOH HOH . 
FB 4 HOH C 12 312 7 HOH HOH . 
GB 4 HOH D 1 301 24 HOH HOH . 
GB 4 HOH D 2 302 41 HOH HOH . 
GB 4 HOH D 3 303 39 HOH HOH . 
GB 4 HOH D 4 304 77 HOH HOH . 
GB 4 HOH D 5 305 95 HOH HOH . 
GB 4 HOH D 6 306 59 HOH HOH . 
HB 4 HOH E 1 301 6 HOH HOH . 
HB 4 HOH E 2 302 88 HOH HOH . 
HB 4 HOH E 3 303 32 HOH HOH . 
HB 4 HOH E 4 304 98 HOH HOH . 
HB 4 HOH E 5 305 63 HOH HOH . 
HB 4 HOH E 6 306 74 HOH HOH . 
HB 4 HOH E 7 307 56 HOH HOH . 
HB 4 HOH E 8 308 15 HOH HOH . 
HB 4 HOH E 9 309 99 HOH HOH . 
HB 4 HOH E 10 310 82 HOH HOH . 
HB 4 HOH E 11 311 58 HOH HOH . 
HB 4 HOH E 12 312 28 HOH HOH . 
IB 4 HOH F 1 301 113 HOH HOH . 
IB 4 HOH F 2 302 76 HOH HOH . 
IB 4 HOH F 3 303 51 HOH HOH . 
IB 4 HOH F 4 304 72 HOH HOH . 
IB 4 HOH F 5 305 93 HOH HOH . 
IB 4 HOH F 6 306 92 HOH HOH . 
IB 4 HOH F 7 307 97 HOH HOH . 
IB 4 HOH F 8 308 31 HOH HOH . 
JB 4 HOH G 1 301 105 HOH HOH . 
JB 4 HOH G 2 302 49 HOH HOH . 
JB 4 HOH G 3 303 2 HOH HOH . 
JB 4 HOH G 4 304 38 HOH HOH . 
JB 4 HOH G 5 305 119 HOH HOH . 
JB 4 HOH G 6 306 52 HOH HOH . 
JB 4 HOH G 7 307 80 HOH HOH . 
KB 4 HOH H 1 301 87 HOH HOH . 
KB 4 HOH H 2 302 11 HOH HOH . 
KB 4 HOH H 3 303 21 HOH HOH . 
KB 4 HOH H 4 304 12 HOH HOH . 
KB 4 HOH H 5 305 109 HOH HOH . 
KB 4 HOH H 6 306 86 HOH HOH . 
LB 4 HOH I 1 301 114 HOH HOH . 
LB 4 HOH I 2 302 94 HOH HOH . 
LB 4 HOH I 3 303 64 HOH HOH . 
MB 4 HOH J 1 301 68 HOH HOH . 
MB 4 HOH J 2 302 4 HOH HOH . 
MB 4 HOH J 3 303 23 HOH HOH . 
MB 4 HOH J 4 304 44 HOH HOH . 
MB 4 HOH J 5 305 8 HOH HOH . 
MB 4 HOH J 6 306 47 HOH HOH . 
MB 4 HOH J 7 307 79 HOH HOH . 
NB 4 HOH K 1 301 3 HOH HOH . 
NB 4 HOH K 2 302 91 HOH HOH . 
NB 4 HOH K 3 303 22 HOH HOH . 
NB 4 HOH K 4 304 112 HOH HOH . 
NB 4 HOH K 5 305 29 HOH HOH . 
NB 4 HOH K 6 306 45 HOH HOH . 
NB 4 HOH K 7 307 14 HOH HOH . 
OB 4 HOH L 1 301 120 HOH HOH . 
OB 4 HOH L 2 302 71 HOH HOH . 
OB 4 HOH L 3 303 101 HOH HOH . 
OB 4 HOH L 4 304 81 HOH HOH . 
OB 4 HOH L 5 305 118 HOH HOH . 
OB 4 HOH L 6 306 27 HOH HOH . 
OB 4 HOH L 7 307 18 HOH HOH . 
PB 4 HOH M 1 301 66 HOH HOH . 
PB 4 HOH M 2 302 42 HOH HOH . 
PB 4 HOH M 3 303 37 HOH HOH . 
PB 4 HOH M 4 304 9 HOH HOH . 
PB 4 HOH M 5 305 67 HOH HOH . 
PB 4 HOH M 6 306 17 HOH HOH . 
PB 4 HOH M 7 307 102 HOH HOH . 
QB 4 HOH N 1 301 55 HOH HOH . 
QB 4 HOH N 2 302 33 HOH HOH . 
QB 4 HOH N 3 303 62 HOH HOH . 
QB 4 HOH N 4 304 57 HOH HOH . 
QB 4 HOH N 5 305 104 HOH HOH . 
QB 4 HOH N 6 306 121 HOH HOH . 
RB 4 HOH O 1 301 108 HOH HOH . 
RB 4 HOH O 2 302 116 HOH HOH . 
RB 4 HOH O 3 303 19 HOH HOH . 
SB 4 HOH P 1 301 84 HOH HOH . 
SB 4 HOH P 2 302 96 HOH HOH . 
SB 4 HOH P 3 303 16 HOH HOH . 
SB 4 HOH P 4 304 26 HOH HOH . 
SB 4 HOH P 5 305 46 HOH HOH . 
SB 4 HOH P 6 306 69 HOH HOH . 
TB 4 HOH Q 1 301 100 HOH HOH . 
TB 4 HOH Q 2 302 85 HOH HOH . 
TB 4 HOH Q 3 303 25 HOH HOH . 
TB 4 HOH Q 4 304 65 HOH HOH . 
TB 4 HOH Q 5 305 117 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 APR . . . AA 2 -44.853 10.758 -5.267 1 69.46 ? N1 APR 201 D 1 
HETATM 2 C C2 APR . . . AA 2 -43.948 11.633 -5.785 1 63.92 ? C2 APR 201 D 1 
HETATM 3 N N3 APR . . . AA 2 -42.978 11.233 -6.627 1 62.34 ? N3 APR 201 D 1 
HETATM 4 C C4 APR . . . AA 2 -42.877 9.91 -6.97 1 60.94 ? C4 APR 201 D 1 
HETATM 5 C C5 APR . . . AA 2 -43.828 8.934 -6.417 1 60.45 ? C5 APR 201 D 1 
HETATM 6 C C6 APR . . . AA 2 -44.862 9.419 -5.514 1 59.87 ? C6 APR 201 D 1 
HETATM 7 N N6 APR . . . AA 2 -45.747 8.544 -4.987 1 56.35 ? N6 APR 201 D 1 
HETATM 8 N N7 APR . . . AA 2 -43.519 7.744 -6.911 1 64.89 ? N7 APR 201 D 1 
HETATM 9 C C8 APR . . . AA 2 -42.454 7.915 -7.729 1 64.64 ? C8 APR 201 D 1 
HETATM 10 N N9 APR . . . AA 2 -42.066 9.207 -7.768 1 61.54 ? N9 APR 201 D 1 
HETATM 11 C C1' APR . . . AA 2 -40.924 9.824 -8.546 1 63.5 ? C1' APR 201 D 1 
HETATM 12 C C2' APR . . . AA 2 -39.83 8.909 -9.117 1 57.51 ? C2' APR 201 D 1 
HETATM 13 O O2' APR . . . AA 2 -38.72 8.76 -8.238 1 56.78 ? O2' APR 201 D 1 
HETATM 14 C C3' APR . . . AA 2 -39.375 9.619 -10.379 1 54.95 ? C3' APR 201 D 1 
HETATM 15 O O3' APR . . . AA 2 -38.318 10.502 -10.112 1 52.58 ? O3' APR 201 D 1 
HETATM 16 O O4' APR . . . AA 2 -41.436 10.525 -9.699 1 65.65 ? O4' APR 201 D 1 
HETATM 17 C C4' APR . . . AA 2 -40.557 10.448 -10.832 1 59.3 ? C4' APR 201 D 1 
HETATM 18 C C5' APR . . . AA 2 -41.289 9.847 -12.033 1 61.32 ? C5' APR 201 D 1 
HETATM 19 O O5' APR . . . AA 2 -40.975 8.456 -12.118 1 56.1 ? O5' APR 201 D 1 
HETATM 20 P PA APR . . . AA 2 -41.883 7.368 -12.825 1 53.65 ? PA APR 201 D 1 
HETATM 21 O O1A APR . . . AA 2 -40.878 6.282 -13.143 1 54.68 ? O1A APR 201 D 1 
HETATM 22 O O2A APR . . . AA 2 -43.249 7.103 -12.207 1 49.32 ? O2A APR 201 D 1 
HETATM 23 O O3A APR . . . AA 2 -42.357 8.212 -14.113 1 57.39 ? O3A APR 201 D 1 
HETATM 24 P PB APR . . . AA 2 -41.683 8.268 -15.559 1 49.97 ? PB APR 201 D 1 
HETATM 25 O O1B APR . . . AA 2 -42.3 6.973 -16.31 1 39.05 ? O1B APR 201 D 1 
HETATM 26 O O2B APR . . . AA 2 -40.215 8.166 -15.388 1 42.61 ? O2B APR 201 D 1 
HETATM 27 O O5D APR . . . AA 2 -42.245 9.561 -16.07 1 51.5 ? O5D APR 201 D 1 
#
_model_server_stats.io_time_ms              28 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    26 
_model_server_stats.query_time_ms           304 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           27 
#