data_6CVN
#
_model_server_result.job_id            InLFPVbzxwEsE8XwHY8cuQ 
_model_server_result.datetime_utc      '2024-11-19 07:12:54' 
_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          6cvn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":501}' 
#
_entry.id    6CVN 
#
_exptl.entry_id    6CVN 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              523.18 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "GUANOSINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? 120-meric 120 'representative helical assembly' 1 
? tetrameric 4 'helical asymmetric unit' 2 
? tetrameric 4 'helical asymmetric unit, std helical frame' 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H 1 (1-30) 
A,B,C,D,E,F,G,H 2 16 
A,B,C,D,E,F,G,H 3 H 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
H 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'helical symmetry operation' ? ? 0.896873 -0.442289 0 0.442289 0.896873 0 0 0 1 155.44355 -96.66101 -130.5 
3 'helical symmetry operation' ? ? 0.999962 -0.008727 0 0.008727 0.999962 0 0 0 1 2.49791 -2.47621 -121.8 
4 'helical symmetry operation' ? ? 0.904455 0.426569 0 -0.426569 0.904455 0 0 0 1 -94.34181 148.80237 -113.1 
5 'helical symmetry operation' ? ? 0.62932 0.777146 0 -0.777146 0.62932 0 0 0 1 -115.84291 327.13029 -104.4 
6 'helical symmetry operation' ? ? 0.2292 0.973379 0 -0.973379 0.2292 0 0 0 1 -57.7352 497.09098 -95.7 
7 'helical symmetry operation' ? ? -0.21644 0.976296 0 -0.976296 -0.21644 0 0 0 1 68.44093 624.92965 -87 
8 'helical symmetry operation' ? ? -0.619094 0.785317 0 -0.785317 -0.619094 0 0 0 1 237.62645 685.2571 -78.3 
9 'helical symmetry operation' ? ? -0.898794 0.438371 0 -0.438371 -0.898794 0 0 0 1 416.22053 666.09208 -69.6 
10 'helical symmetry operation' ? ? -0.99999 0.004363 0 -0.004363 -0.99999 0 0 0 1 568.75374 571.24083 -60.9 
11 'helical symmetry operation' ? ? -0.902585 -0.430511 0 0.430511 -0.902585 0 0 0 1 664.93247 419.54114 -52.2 
12 'helical symmetry operation' ? ? -0.625923 -0.779884 0 0.779884 -0.625923 0 0 0 1 685.65527 241.12111 -43.5 
13 'helical symmetry operation' ? ? -0.224951 -0.97437 0 0.97437 -0.224951 0 0 0 1 626.80652 71.41558 -34.8 
14 'helical symmetry operation' ? ? 0.220697 -0.975342 0 0.975342 0.220697 0 0 0 1 500.07379 -55.87133 -26.1 
15 'helical symmetry operation' ? ? 0.622515 -0.782608 0 0.782608 0.622515 0 0 0 1 330.62665 -115.46 -17.4 
16 'helical symmetry operation' ? ? 0.900698 -0.434445 0 0.434445 0.900698 0 0 0 1 152.1179 -95.5159 -8.7 
17 'helical symmetry operation' ? ? 0.900698 0.434445 0 -0.434445 0.900698 0 0 0 1 -95.5159 152.1179 8.7 
18 'helical symmetry operation' ? ? 0.622515 0.782608 0 -0.782608 0.622515 0 0 0 1 -115.46 330.62665 17.4 
19 'helical symmetry operation' ? ? 0.220697 0.975342 0 -0.975342 0.220697 0 0 0 1 -55.87133 500.07379 26.1 
20 'helical symmetry operation' ? ? -0.224951 0.97437 0 -0.97437 -0.224951 0 0 0 1 71.41558 626.80652 34.8 
21 'helical symmetry operation' ? ? -0.625923 0.779884 0 -0.779884 -0.625923 0 0 0 1 241.12111 685.65527 43.5 
22 'helical symmetry operation' ? ? -0.902585 0.430511 0 -0.430511 -0.902585 0 0 0 1 419.54114 664.93247 52.2 
23 'helical symmetry operation' ? ? -0.99999 -0.004363 0 0.004363 -0.99999 0 0 0 1 571.24083 568.75374 60.9 
24 'helical symmetry operation' ? ? -0.898794 -0.438371 0 0.438371 -0.898794 0 0 0 1 666.09208 416.22053 69.6 
25 'helical symmetry operation' ? ? -0.619094 -0.785317 0 0.785317 -0.619094 0 0 0 1 685.2571 237.62645 78.3 
26 'helical symmetry operation' ? ? -0.21644 -0.976296 0 0.976296 -0.21644 0 0 0 1 624.92965 68.44093 87 
27 'helical symmetry operation' ? ? 0.2292 -0.973379 0 0.973379 0.2292 0 0 0 1 497.09098 -57.7352 95.7 
28 'helical symmetry operation' ? ? 0.62932 -0.777146 0 0.777146 0.62932 0 0 0 1 327.13029 -115.84291 104.4 
29 'helical symmetry operation' ? ? 0.904455 -0.426569 0 0.426569 0.904455 0 0 0 1 148.80237 -94.34181 113.1 
30 'helical symmetry operation' ? ? 0.999962 0.008727 0 -0.008727 0.999962 0 0 0 1 -2.47621 2.49791 121.8 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             F 
_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 F O1G GTP . B GTP 501 1_555 G MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc2 F O1B GTP . B GTP 501 1_555 G MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? 
#
_chem_comp.formula           'C10 H16 N5 O14 P3' 
_chem_comp.formula_weight    523.18 
_chem_comp.id                GTP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "GUANOSINE-5'-TRIPHOSPHATE" 
_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
PG O1G GTP doub 174 n n 
PG O2G GTP sing 175 n n 
PG O3G GTP sing 176 n n 
PG O3B GTP sing 177 n n 
O2G HOG2 GTP sing 178 n n 
O3G HOG3 GTP sing 179 n n 
O3B PB GTP sing 180 n n 
PB O1B GTP doub 181 n n 
PB O2B GTP sing 182 n n 
PB O3A GTP sing 183 n n 
O2B HOB2 GTP sing 184 n n 
O3A PA GTP sing 185 n n 
PA O1A GTP doub 186 n n 
PA O2A GTP sing 187 n n 
PA O5' GTP sing 188 n n 
O2A HOA2 GTP sing 189 n n 
O5' C5' GTP sing 190 n n 
C5' C4' GTP sing 191 n n 
C5' H5' GTP sing 192 n n 
C5' "H5''" GTP sing 193 n n 
C4' O4' GTP sing 194 n n 
C4' C3' GTP sing 195 n n 
C4' H4' GTP sing 196 n n 
O4' C1' GTP sing 197 n n 
C3' O3' GTP sing 198 n n 
C3' C2' GTP sing 199 n n 
C3' H3' GTP sing 200 n n 
O3' HO3' GTP sing 201 n n 
C2' O2' GTP sing 202 n n 
C2' C1' GTP sing 203 n n 
C2' H2' GTP sing 204 n n 
O2' HO2' GTP sing 205 n n 
C1' N9 GTP sing 206 n n 
C1' H1' GTP sing 207 n n 
N9 C8 GTP sing 208 n y 
N9 C4 GTP sing 209 n y 
C8 N7 GTP doub 210 n y 
C8 H8 GTP sing 211 n n 
N7 C5 GTP sing 212 n y 
C5 C6 GTP sing 213 n n 
C5 C4 GTP doub 214 n y 
C6 O6 GTP doub 215 n n 
C6 N1 GTP sing 216 n n 
N1 C2 GTP sing 217 n n 
N1 HN1 GTP sing 218 n n 
C2 N2 GTP sing 219 n n 
C2 N3 GTP doub 220 n n 
N2 HN21 GTP sing 221 n n 
N2 HN22 GTP sing 222 n n 
N3 C4 GTP sing 223 n n 
#
_atom_sites.entry_id                     6CVN 
_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
E 4 GDP A 1 501 4 GDP GDP . 
F 5 GTP B 1 501 1 GTP GTP . 
G 6 MG B 1 502 2 MG MG . 
H 4 GDP C 1 501 3 GDP GDP . 
#
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 PG GTP . . . F 5 250.474 399.602 235.529 1 24.56 ? PG GTP 501 B 1 
HETATM 2 O O1G GTP . . . F 5 251.152 398.437 234.852 1 24.38 ? O1G GTP 501 B 1 
HETATM 3 O O2G GTP . . . F 5 249.066 399.775 235.012 1 24.67 ? O2G GTP 501 B 1 
HETATM 4 O O3G GTP . . . F 5 251.254 400.862 235.245 1 24.43 ? O3G GTP 501 B 1 
HETATM 5 O O3B GTP . . . F 5 250.439 399.329 237.116 1 23.61 ? O3B GTP 501 B 1 
HETATM 6 P PB GTP . . . F 5 251.472 398.296 237.793 1 22.92 ? PB GTP 501 B 1 
HETATM 7 O O1B GTP . . . F 5 251.224 396.912 237.246 1 22.95 ? O1B GTP 501 B 1 
HETATM 8 O O2B GTP . . . F 5 251.309 398.323 239.294 1 23.04 ? O2B GTP 501 B 1 
HETATM 9 O O3A GTP . . . F 5 252.929 398.82 237.337 1 22.83 ? O3A GTP 501 B 1 
HETATM 10 P PA GTP . . . F 5 254.269 398.558 238.198 1 22.63 ? PA GTP 501 B 1 
HETATM 11 O O1A GTP . . . F 5 255.177 397.633 237.424 1 22.6 ? O1A GTP 501 B 1 
HETATM 12 O O2A GTP . . . F 5 253.976 397.992 239.568 1 22.66 ? O2A GTP 501 B 1 
HETATM 13 O O5' GTP . . . F 5 254.967 400.005 238.31 1 22.04 ? O5' GTP 501 B 1 
HETATM 14 C C5' GTP . . . F 5 256.268 400.232 237.815 1 21.71 ? C5' GTP 501 B 1 
HETATM 15 C C4' GTP . . . F 5 257.266 400.294 238.965 1 21.52 ? C4' GTP 501 B 1 
HETATM 16 O O4' GTP . . . F 5 257.114 399.172 239.81 1 21.12 ? O4' GTP 501 B 1 
HETATM 17 C C3' GTP . . . F 5 258.698 400.267 238.461 1 21.39 ? C3' GTP 501 B 1 
HETATM 18 O O3' GTP . . . F 5 259.291 401.534 238.622 1 21.43 ? O3' GTP 501 B 1 
HETATM 19 C C2' GTP . . . F 5 259.415 399.252 239.326 1 20.99 ? C2' GTP 501 B 1 
HETATM 20 O O2' GTP . . . F 5 260.485 399.868 240 1 21.2 ? O2' GTP 501 B 1 
HETATM 21 C C1' GTP . . . F 5 258.368 398.749 240.309 1 20.83 ? C1' GTP 501 B 1 
HETATM 22 N N9 GTP . . . F 5 258.397 397.278 240.395 1 20.47 ? N9 GTP 501 B 1 
HETATM 23 C C8 GTP . . . F 5 257.682 396.401 239.621 1 20.4 ? C8 GTP 501 B 1 
HETATM 24 N N7 GTP . . . F 5 257.972 395.141 240.02 1 20.37 ? N7 GTP 501 B 1 
HETATM 25 C C5 GTP . . . F 5 258.852 395.198 241.044 1 20.07 ? C5 GTP 501 B 1 
HETATM 26 C C6 GTP . . . F 5 259.467 394.218 241.814 1 19.9 ? C6 GTP 501 B 1 
HETATM 27 O O6 GTP . . . F 5 259.242 393.028 241.606 1 19.96 ? O6 GTP 501 B 1 
HETATM 28 N N1 GTP . . . F 5 260.343 394.582 242.815 1 20.1 ? N1 GTP 501 B 1 
HETATM 29 C C2 GTP . . . F 5 260.6 395.916 243.048 1 20.48 ? C2 GTP 501 B 1 
HETATM 30 N N2 GTP . . . F 5 261.443 396.269 244.014 1 20.68 ? N2 GTP 501 B 1 
HETATM 31 N N3 GTP . . . F 5 259.988 396.884 242.278 1 20.47 ? N3 GTP 501 B 1 
HETATM 32 C C4 GTP . . . F 5 259.124 396.536 241.294 1 20.31 ? C4 GTP 501 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    29 
_model_server_stats.query_time_ms           365 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           32 
#