data_7M18
#
_model_server_result.job_id            cCRuQbSIY7TmMtHB6qlKcw 
_model_server_result.datetime_utc      '2025-03-18 13:10:20' 
_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          7m18 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"X","auth_seq_id":502}' 
#
_entry.id    7M18 
#
_exptl.entry_id    7M18 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              443.201 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "GUANOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    8 
_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            7M18 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7M18 
_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    hexadecameric 
_pdbx_struct_assembly.oligomeric_count      16 
_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 
_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
? 4 R N N 
? 4 U N N 
? 4 X N N 
? 4 AA N N 
? 4 DA N N 
? 4 GA N N 
? 4 JA N N 
? 4 MA N N 
#
_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                     7M18 
_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
Q 3 YNP B 1 501 502 YNP CP1 . 
R 4 GDP B 1 502 601 GDP GDP . 
S 5 GTP A 1 501 501 GTP GTP . 
T 3 YNP D 1 501 502 YNP CP1 . 
U 4 GDP D 1 502 601 GDP GDP . 
V 5 GTP C 1 501 501 GTP GTP . 
W 3 YNP F 1 501 502 YNP CP1 . 
X 4 GDP F 1 502 601 GDP GDP . 
Y 5 GTP E 1 501 501 GTP GTP . 
Z 3 YNP H 1 501 502 YNP CP1 . 
AA 4 GDP H 1 502 601 GDP GDP . 
BA 5 GTP G 1 501 501 GTP GTP . 
CA 3 YNP J 1 501 502 YNP CP1 . 
DA 4 GDP J 1 502 601 GDP GDP . 
EA 5 GTP I 1 501 501 GTP GTP . 
FA 3 YNP L 1 501 502 YNP CP1 . 
GA 4 GDP L 1 502 601 GDP GDP . 
HA 5 GTP K 1 501 501 GTP GTP . 
IA 3 YNP N 1 501 502 YNP CP1 . 
JA 4 GDP N 1 502 601 GDP GDP . 
KA 5 GTP M 1 501 501 GTP GTP . 
LA 3 YNP P 1 501 502 YNP CP1 . 
MA 4 GDP P 1 502 601 GDP GDP . 
NA 5 GTP O 1 501 501 GTP GTP . 
#
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 . . . X 4 436.125 313.022 299.592 1 131.9 ? PB GDP 502 F 1 
HETATM 2 O O1B GDP . . . X 4 435.797 312.296 298.31 1 131.9 ? O1B GDP 502 F 1 
HETATM 3 O O2B GDP . . . X 4 435.152 314.125 299.927 1 131.9 ? O2B GDP 502 F 1 
HETATM 4 O O3B GDP . . . X 4 437.566 313.442 299.744 1 131.9 ? O3B GDP 502 F 1 
HETATM 5 O O3A GDP . . . X 4 435.942 311.894 300.733 1 131.9 ? O3A GDP 502 F 1 
HETATM 6 P PA GDP . . . X 4 434.482 311.514 301.294 1 131.9 ? PA GDP 502 F 1 
HETATM 7 O O1A GDP . . . X 4 433.659 310.969 300.154 1 131.9 ? O1A GDP 502 F 1 
HETATM 8 O O2A GDP . . . X 4 433.997 312.687 302.107 1 131.9 ? O2A GDP 502 F 1 
HETATM 9 O O5' GDP . . . X 4 434.733 310.31 302.331 1 131.9 ? O5' GDP 502 F 1 
HETATM 10 C C5' GDP . . . X 4 435.742 310.427 303.326 1 131.9 ? C5' GDP 502 F 1 
HETATM 11 C C4' GDP . . . X 4 435.185 310.806 304.69 1 131.9 ? C4' GDP 502 F 1 
HETATM 12 O O4' GDP . . . X 4 435.965 310.17 305.697 1 131.9 ? O4' GDP 502 F 1 
HETATM 13 C C3' GDP . . . X 4 435.384 312.286 304.931 1 131.9 ? C3' GDP 502 F 1 
HETATM 14 O O3' GDP . . . X 4 434.434 312.761 305.888 1 131.9 ? O3' GDP 502 F 1 
HETATM 15 C C2' GDP . . . X 4 436.785 312.381 305.487 1 131.9 ? C2' GDP 502 F 1 
HETATM 16 O O2' GDP . . . X 4 436.832 313.35 306.53 1 131.9 ? O2' GDP 502 F 1 
HETATM 17 C C1' GDP . . . X 4 437.087 310.995 306.027 1 131.9 ? C1' GDP 502 F 1 
HETATM 18 N N9 GDP . . . X 4 438.291 310.454 305.358 1 131.9 ? N9 GDP 502 F 1 
HETATM 19 C C8 GDP . . . X 4 439.174 311.141 304.613 1 131.9 ? C8 GDP 502 F 1 
HETATM 20 N N7 GDP . . . X 4 440.15 310.323 304.141 1 131.9 ? N7 GDP 502 F 1 
HETATM 21 C C5 GDP . . . X 4 439.89 309.083 304.588 1 131.9 ? C5 GDP 502 F 1 
HETATM 22 C C6 GDP . . . X 4 440.513 307.747 304.467 1 131.9 ? C6 GDP 502 F 1 
HETATM 23 O O6 GDP . . . X 4 441.561 307.576 303.807 1 131.9 ? O6 GDP 502 F 1 
HETATM 24 N N1 GDP . . . X 4 439.906 306.725 305.084 1 131.9 ? N1 GDP 502 F 1 
HETATM 25 C C2 GDP . . . X 4 438.776 306.876 305.805 1 131.9 ? C2 GDP 502 F 1 
HETATM 26 N N2 GDP . . . X 4 438.216 305.797 306.399 1 131.9 ? N2 GDP 502 F 1 
HETATM 27 N N3 GDP . . . X 4 438.156 308.066 305.955 1 131.9 ? N3 GDP 502 F 1 
HETATM 28 C C4 GDP . . . X 4 438.66 309.178 305.383 1 131.9 ? C4 GDP 502 F 1 
#
_model_server_stats.io_time_ms              82 
_model_server_stats.parse_time_ms           79 
_model_server_stats.create_model_time_ms    224 
_model_server_stats.query_time_ms           493 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           28 
#