data_6WFT
#
_model_server_result.job_id            3R8nqnqs6EJ-WID1aFROGQ 
_model_server_result.datetime_utc      '2024-11-14 21:16:36' 
_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          6wft 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"LD","auth_seq_id":801}' 
#
_entry.id    6WFT 
#
_exptl.entry_id    6WFT 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              331.222 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" 
_entity.pdbx_number_of_molecules    60 
_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            6WFT 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6WFT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    60-meric 
_pdbx_struct_assembly.oligomeric_count      60 
_pdbx_struct_assembly.details               author_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,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB,YB,ZB,AC,BC,CC,DC,EC,FC,GC,HC,IC,JC,KC,LC,MC,NC,OC,PC,QC,RC,SC,TC,UC,VC,WC,XC,YC,ZC,AD,BD,CD,DD,ED,FD,GD,HD,ID,JD,KD,LD,MD,ND,OD,PD 
_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    ? 
_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 IB N N 
? 2 JB N N 
? 2 KB N N 
? 2 LB N N 
? 2 MB N N 
? 2 NB N N 
? 2 OB N N 
? 2 PB N N 
? 2 QB N N 
? 2 RB N N 
? 2 SB N N 
? 2 TB N N 
? 2 UB N N 
? 2 VB N N 
? 2 WB N N 
? 2 XB N N 
? 2 YB N N 
? 2 ZB N N 
? 2 AC N N 
? 2 BC N N 
? 2 CC N N 
? 2 DC N N 
? 2 EC N N 
? 2 FC N N 
? 2 GC N N 
? 2 HC N N 
? 2 IC N N 
? 2 JC N N 
? 2 KC N N 
? 2 LC N N 
? 2 MC N N 
? 2 NC N N 
? 2 OC N N 
? 2 PC N N 
? 2 QC N N 
? 2 RC N N 
? 2 SC N N 
? 2 TC N N 
? 2 UC N N 
? 2 VC N N 
? 2 WC N N 
? 2 XC N N 
? 2 YC N N 
? 2 ZC N N 
? 2 AD N N 
? 2 BD N N 
? 2 CD N N 
? 2 DD N N 
? 2 ED N N 
? 2 FD N N 
? 2 GD N N 
? 2 HD N N 
? 2 ID N N 
? 2 JD N N 
? 2 KD N N 
? 2 LD N N 
? 2 MD N N 
? 2 ND N N 
? 2 OD N N 
? 2 PD N N 
#
_chem_comp.formula           'C10 H14 N5 O6 P' 
_chem_comp.formula_weight    331.222 
_chem_comp.id                D5M 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" 
_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
O5' C5' D5M sing 83 n n 
O5' P D5M sing 84 n n 
C5' C4' D5M sing 85 n n 
C5' "H5'1" D5M sing 86 n n 
C5' "H5'2" D5M sing 87 n n 
C4' O4' D5M sing 88 n n 
C4' C3' D5M sing 89 n n 
C4' H4' D5M sing 90 n n 
O4' C1' D5M sing 91 n n 
C3' O3' D5M sing 92 n n 
C3' C2' D5M sing 93 n n 
C3' H1 D5M sing 94 n n 
O3' H3' D5M sing 95 n n 
C2' C1' D5M sing 96 n n 
C2' "H2'1" D5M sing 97 n n 
C2' "H2'2" D5M sing 98 n n 
C1' N9 D5M sing 99 n n 
C1' H1' D5M sing 100 n n 
N9 C8 D5M sing 101 n y 
N9 C4 D5M sing 102 n y 
C8 N7 D5M doub 103 n y 
C8 H8 D5M sing 104 n n 
N7 C5 D5M sing 105 n y 
C5 C6 D5M sing 106 n y 
C5 C4 D5M doub 107 n y 
C6 N6 D5M sing 108 n n 
C6 N1 D5M doub 109 n y 
N6 HN61 D5M sing 110 n n 
N6 HN62 D5M sing 111 n n 
N1 C2 D5M sing 112 n y 
C2 N3 D5M doub 113 n y 
C2 H2 D5M sing 114 n n 
N3 C4 D5M sing 115 n y 
P O1P D5M doub 116 n n 
P O3P D5M sing 117 n n 
P O2P D5M sing 118 n n 
O3P H3P D5M sing 119 n n 
O2P H2P D5M sing 120 n n 
#
_atom_sites.entry_id                     6WFT 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
IB 2 D5M A 1 801 902 D5M DA . 
JB 2 D5M B 1 801 902 D5M DA . 
KB 2 D5M C 1 801 902 D5M DA . 
LB 2 D5M D 1 801 902 D5M DA . 
MB 2 D5M E 1 801 902 D5M DA . 
NB 2 D5M F 1 801 902 D5M DA . 
OB 2 D5M G 1 801 902 D5M DA . 
PB 2 D5M H 1 801 902 D5M DA . 
QB 2 D5M I 1 801 902 D5M DA . 
RB 2 D5M J 1 801 902 D5M DA . 
SB 2 D5M K 1 801 902 D5M DA . 
TB 2 D5M L 1 801 902 D5M DA . 
UB 2 D5M M 1 801 902 D5M DA . 
VB 2 D5M N 1 801 902 D5M DA . 
WB 2 D5M O 1 801 902 D5M DA . 
XB 2 D5M P 1 801 902 D5M DA . 
YB 2 D5M Q 1 801 902 D5M DA . 
ZB 2 D5M R 1 801 902 D5M DA . 
AC 2 D5M S 1 801 902 D5M DA . 
BC 2 D5M T 1 801 902 D5M DA . 
CC 2 D5M U 1 801 902 D5M DA . 
DC 2 D5M V 1 801 902 D5M DA . 
EC 2 D5M W 1 801 902 D5M DA . 
FC 2 D5M X 1 801 902 D5M DA . 
GC 2 D5M Y 1 801 902 D5M DA . 
HC 2 D5M Z 1 801 902 D5M DA . 
IC 2 D5M a 1 801 902 D5M DA . 
JC 2 D5M b 1 801 902 D5M DA . 
KC 2 D5M c 1 801 902 D5M DA . 
LC 2 D5M d 1 801 902 D5M DA . 
MC 2 D5M e 1 801 902 D5M DA . 
NC 2 D5M f 1 801 902 D5M DA . 
OC 2 D5M g 1 801 902 D5M DA . 
PC 2 D5M h 1 801 902 D5M DA . 
QC 2 D5M i 1 801 902 D5M DA . 
RC 2 D5M j 1 801 902 D5M DA . 
SC 2 D5M k 1 801 902 D5M DA . 
TC 2 D5M l 1 801 902 D5M DA . 
UC 2 D5M m 1 801 902 D5M DA . 
VC 2 D5M n 1 801 902 D5M DA . 
WC 2 D5M o 1 801 902 D5M DA . 
XC 2 D5M p 1 801 902 D5M DA . 
YC 2 D5M q 1 801 902 D5M DA . 
ZC 2 D5M r 1 801 902 D5M DA . 
AD 2 D5M s 1 801 902 D5M DA . 
BD 2 D5M t 1 801 902 D5M DA . 
CD 2 D5M u 1 801 902 D5M DA . 
DD 2 D5M v 1 801 902 D5M DA . 
ED 2 D5M w 1 801 902 D5M DA . 
FD 2 D5M x 1 801 902 D5M DA . 
GD 2 D5M y 1 801 902 D5M DA . 
HD 2 D5M z 1 801 902 D5M DA . 
ID 2 D5M 1 1 801 902 D5M DA . 
JD 2 D5M 2 1 801 902 D5M DA . 
KD 2 D5M 3 1 801 902 D5M DA . 
LD 2 D5M 4 1 801 902 D5M DA . 
MD 2 D5M 5 1 801 902 D5M DA . 
ND 2 D5M 6 1 801 902 D5M DA . 
OD 2 D5M 7 1 801 902 D5M DA . 
PD 2 D5M 8 1 801 902 D5M DA . 
#
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 O5' D5M . . . LD 2 88.535 -37.976 -6.713 0.7 63.72 ? O5' D5M 801 4 1 
HETATM 2 C C5' D5M . . . LD 2 87.783 -37.412 -5.641 0.7 57.06 ? C5' D5M 801 4 1 
HETATM 3 C C4' D5M . . . LD 2 88.1 -38.101 -4.322 0.7 52.04 ? C4' D5M 801 4 1 
HETATM 4 O O4' D5M . . . LD 2 87.643 -39.476 -4.372 0.7 47.73 ? O4' D5M 801 4 1 
HETATM 5 C C3' D5M . . . LD 2 89.58 -38.162 -3.956 0.7 50.19 ? C3' D5M 801 4 1 
HETATM 6 O O3' D5M . . . LD 2 89.739 -38.029 -2.553 0.7 50.86 ? O3' D5M 801 4 1 
HETATM 7 C C2' D5M . . . LD 2 89.992 -39.549 -4.438 0.7 47.37 ? C2' D5M 801 4 1 
HETATM 8 C C1' D5M . . . LD 2 88.73 -40.355 -4.169 0.7 43.83 ? C1' D5M 801 4 1 
HETATM 9 N N9 D5M . . . LD 2 88.565 -41.501 -5.059 0.7 52.77 ? N9 D5M 801 4 1 
HETATM 10 C C8 D5M . . . LD 2 89.248 -41.756 -6.212 0.7 50.33 ? C8 D5M 801 4 1 
HETATM 11 N N7 D5M . . . LD 2 88.884 -42.863 -6.807 0.7 47.68 ? N7 D5M 801 4 1 
HETATM 12 C C5 D5M . . . LD 2 87.892 -43.37 -5.987 0.7 47.06 ? C5 D5M 801 4 1 
HETATM 13 C C6 D5M . . . LD 2 87.094 -44.53 -6.061 0.7 45.15 ? C6 D5M 801 4 1 
HETATM 14 N N6 D5M . . . LD 2 87.183 -45.424 -7.047 0.7 43.54 ? N6 D5M 801 4 1 
HETATM 15 N N1 D5M . . . LD 2 86.199 -44.734 -5.078 0.7 43.71 ? N1 D5M 801 4 1 
HETATM 16 C C2 D5M . . . LD 2 86.11 -43.84 -4.091 0.7 43 ? C2 D5M 801 4 1 
HETATM 17 N N3 D5M . . . LD 2 86.801 -42.72 -3.914 0.7 45.09 ? N3 D5M 801 4 1 
HETATM 18 C C4 D5M . . . LD 2 87.684 -42.542 -4.906 0.7 48.16 ? C4 D5M 801 4 1 
HETATM 19 P P D5M . . . LD 2 89.772 -37.171 -7.334 0.7 69.08 ? P D5M 801 4 1 
HETATM 20 O O1P D5M . . . LD 2 89.252 -36.1 -8.213 0.7 68.42 ? O1P D5M 801 4 1 
HETATM 21 O O2P D5M . . . LD 2 90.746 -38.154 -7.854 0.7 69.62 ? O2P D5M 801 4 1 
#
_model_server_stats.io_time_ms              168 
_model_server_stats.parse_time_ms           57 
_model_server_stats.create_model_time_ms    1281 
_model_server_stats.query_time_ms           674 
_model_server_stats.encode_time_ms          25 
_model_server_stats.element_count           21 
#