data_2WWW
#
_model_server_result.job_id            '_IXTGTJ_7vGo6Wz7sJXHiw' 
_model_server_result.datetime_utc      '2024-10-20 19:48:25' 
_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          2www 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":600}' 
#
_entry.id    2WWW 
#
_exptl.entry_id    2WWW 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              443.201 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "GUANOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    4 
_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            2WWW 
_cell.length_a            149.43 
_cell.length_b            149.43 
_cell.length_c            69.06 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2WWW 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        77 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 42' 
#
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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
C,D,H,I,J,K,N,O 1 1 
A,B,E,F,G,L,M 2 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 F N N 
? 3 G N N 
? 3 I N N 
? 3 K 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 148 n n 
PB O2B GDP sing 149 n n 
PB O3B GDP sing 150 n n 
PB O3A GDP sing 151 n n 
O2B HOB2 GDP sing 152 n n 
O3B HOB3 GDP sing 153 n n 
O3A PA GDP sing 154 n n 
PA O1A GDP doub 155 n n 
PA O2A GDP sing 156 n n 
PA O5' GDP sing 157 n n 
O2A HOA2 GDP sing 158 n n 
O5' C5' GDP sing 159 n n 
C5' C4' GDP sing 160 n n 
C5' H5' GDP sing 161 n n 
C5' "H5''" GDP sing 162 n n 
C4' O4' GDP sing 163 n n 
C4' C3' GDP sing 164 n n 
C4' H4' GDP sing 165 n n 
O4' C1' GDP sing 166 n n 
C3' O3' GDP sing 167 n n 
C3' C2' GDP sing 168 n n 
C3' H3' GDP sing 169 n n 
O3' HO3' GDP sing 170 n n 
C2' O2' GDP sing 171 n n 
C2' C1' GDP sing 172 n n 
C2' H2' GDP sing 173 n n 
O2' HO2' GDP sing 174 n n 
C1' N9 GDP sing 175 n n 
C1' H1' GDP sing 176 n n 
N9 C8 GDP sing 177 n y 
N9 C4 GDP sing 178 n y 
C8 N7 GDP doub 179 n y 
C8 H8 GDP sing 180 n n 
N7 C5 GDP sing 181 n y 
C5 C6 GDP sing 182 n n 
C5 C4 GDP doub 183 n y 
C6 O6 GDP doub 184 n n 
C6 N1 GDP sing 185 n n 
N1 C2 GDP sing 186 n n 
N1 HN1 GDP sing 187 n n 
C2 N2 GDP sing 188 n n 
C2 N3 GDP doub 189 n n 
N2 HN21 GDP sing 190 n n 
N2 HN22 GDP sing 191 n n 
N3 C4 GDP sing 192 n n 
#
_atom_sites.entry_id                     2WWW 
_atom_sites.fract_transf_matrix[1][1]    0.006692 
_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]    0.006692 
_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]    0.01448 
_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 2 2PE A 1 500 500 2PE 2PE . 
F 3 GDP A 1 600 600 GDP GDP . 
G 3 GDP B 1 600 600 GDP GDP . 
H 2 2PE C 1 500 500 2PE 2PE . 
I 3 GDP C 1 600 600 GDP GDP . 
J 2 2PE D 1 500 500 2PE 2PE . 
K 3 GDP D 1 600 600 GDP GDP . 
L 4 HOH A 1 2001 2001 HOH HOH . 
L 4 HOH A 2 2002 2002 HOH HOH . 
L 4 HOH A 3 2003 2003 HOH HOH . 
L 4 HOH A 4 2004 2004 HOH HOH . 
L 4 HOH A 5 2005 2005 HOH HOH . 
L 4 HOH A 6 2006 2006 HOH HOH . 
L 4 HOH A 7 2007 2007 HOH HOH . 
L 4 HOH A 8 2008 2008 HOH HOH . 
L 4 HOH A 9 2009 2009 HOH HOH . 
L 4 HOH A 10 2010 2010 HOH HOH . 
L 4 HOH A 11 2011 2011 HOH HOH . 
L 4 HOH A 12 2012 2012 HOH HOH . 
L 4 HOH A 13 2013 2013 HOH HOH . 
L 4 HOH A 14 2014 2014 HOH HOH . 
L 4 HOH A 15 2015 2015 HOH HOH . 
L 4 HOH A 16 2016 2016 HOH HOH . 
L 4 HOH A 17 2017 2017 HOH HOH . 
L 4 HOH A 18 2018 2018 HOH HOH . 
L 4 HOH A 19 2019 2019 HOH HOH . 
L 4 HOH A 20 2020 2020 HOH HOH . 
L 4 HOH A 21 2021 2021 HOH HOH . 
L 4 HOH A 22 2022 2022 HOH HOH . 
M 4 HOH B 1 2001 2001 HOH HOH . 
M 4 HOH B 2 2002 2002 HOH HOH . 
M 4 HOH B 3 2003 2003 HOH HOH . 
M 4 HOH B 4 2004 2004 HOH HOH . 
M 4 HOH B 5 2005 2005 HOH HOH . 
M 4 HOH B 6 2006 2006 HOH HOH . 
M 4 HOH B 7 2007 2007 HOH HOH . 
M 4 HOH B 8 2008 2008 HOH HOH . 
M 4 HOH B 9 2009 2009 HOH HOH . 
M 4 HOH B 10 2010 2010 HOH HOH . 
M 4 HOH B 11 2011 2011 HOH HOH . 
M 4 HOH B 12 2012 2012 HOH HOH . 
M 4 HOH B 13 2013 2013 HOH HOH . 
M 4 HOH B 14 2014 2014 HOH HOH . 
M 4 HOH B 15 2015 2015 HOH HOH . 
M 4 HOH B 16 2016 2016 HOH HOH . 
M 4 HOH B 17 2017 2017 HOH HOH . 
M 4 HOH B 18 2018 2018 HOH HOH . 
M 4 HOH B 19 2019 2019 HOH HOH . 
M 4 HOH B 20 2020 2020 HOH HOH . 
N 4 HOH C 1 2001 2001 HOH HOH . 
N 4 HOH C 2 2002 2002 HOH HOH . 
N 4 HOH C 3 2003 2003 HOH HOH . 
N 4 HOH C 4 2004 2004 HOH HOH . 
N 4 HOH C 5 2005 2005 HOH HOH . 
N 4 HOH C 6 2006 2006 HOH HOH . 
N 4 HOH C 7 2007 2007 HOH HOH . 
N 4 HOH C 8 2008 2008 HOH HOH . 
N 4 HOH C 9 2009 2009 HOH HOH . 
N 4 HOH C 10 2010 2010 HOH HOH . 
N 4 HOH C 11 2011 2011 HOH HOH . 
N 4 HOH C 12 2012 2012 HOH HOH . 
N 4 HOH C 13 2013 2013 HOH HOH . 
N 4 HOH C 14 2014 2014 HOH HOH . 
N 4 HOH C 15 2015 2015 HOH HOH . 
O 4 HOH D 1 2001 2001 HOH HOH . 
O 4 HOH D 2 2002 2002 HOH HOH . 
O 4 HOH D 3 2003 2003 HOH HOH . 
O 4 HOH D 4 2004 2004 HOH HOH . 
O 4 HOH D 5 2005 2005 HOH HOH . 
O 4 HOH D 6 2006 2006 HOH HOH . 
O 4 HOH D 7 2007 2007 HOH HOH . 
O 4 HOH D 8 2008 2008 HOH HOH . 
O 4 HOH D 9 2009 2009 HOH HOH . 
O 4 HOH D 10 2010 2010 HOH HOH . 
O 4 HOH D 11 2011 2011 HOH HOH . 
O 4 HOH D 12 2012 2012 HOH HOH . 
O 4 HOH D 13 2013 2013 HOH HOH . 
O 4 HOH D 14 2014 2014 HOH HOH . 
O 4 HOH D 15 2015 2015 HOH HOH . 
O 4 HOH D 16 2016 2016 HOH HOH . 
O 4 HOH D 17 2017 2017 HOH HOH . 
O 4 HOH D 18 2018 2018 HOH HOH . 
O 4 HOH D 19 2019 2019 HOH HOH . 
O 4 HOH D 20 2020 2020 HOH HOH . 
O 4 HOH D 21 2021 2021 HOH HOH . 
O 4 HOH D 22 2022 2022 HOH HOH . 
O 4 HOH D 23 2023 2023 HOH HOH . 
O 4 HOH D 24 2024 2024 HOH HOH . 
O 4 HOH D 25 2025 2025 HOH HOH . 
O 4 HOH D 26 2026 2026 HOH HOH . 
O 4 HOH D 27 2027 2027 HOH HOH . 
O 4 HOH D 28 2028 2028 HOH HOH . 
O 4 HOH D 29 2029 2029 HOH HOH . 
O 4 HOH D 30 2030 2030 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 GDP . . . K 3 27.153 20.887 79.317 1 76.74 ? PB GDP 600 D 1 
HETATM 2 O O1B GDP . . . K 3 26.006 19.963 79.027 1 62.72 ? O1B GDP 600 D 1 
HETATM 3 O O2B GDP . . . K 3 28.315 20.442 78.486 1 55.82 ? O2B GDP 600 D 1 
HETATM 4 O O3B GDP . . . K 3 27.528 20.808 80.803 1 73.14 ? O3B GDP 600 D 1 
HETATM 5 O O3A GDP . . . K 3 26.828 22.427 78.921 1 45.95 ? O3A GDP 600 D 1 
HETATM 6 P PA GDP . . . K 3 25.397 23.162 78.754 1 69.74 ? PA GDP 600 D 1 
HETATM 7 O O1A GDP . . . K 3 24.659 22.773 77.489 1 73.85 ? O1A GDP 600 D 1 
HETATM 8 O O2A GDP . . . K 3 24.47 22.954 79.896 1 78.72 ? O2A GDP 600 D 1 
HETATM 9 O O5' GDP . . . K 3 25.855 24.696 78.637 1 67.2 ? O5' GDP 600 D 1 
HETATM 10 C C5' GDP . . . K 3 26.972 25.233 79.35 1 60.71 ? C5' GDP 600 D 1 
HETATM 11 C C4' GDP . . . K 3 26.838 26.764 79.425 1 66.74 ? C4' GDP 600 D 1 
HETATM 12 O O4' GDP . . . K 3 27.228 27.327 78.163 1 77.77 ? O4' GDP 600 D 1 
HETATM 13 C C3' GDP . . . K 3 25.399 27.231 79.699 1 192.14 ? C3' GDP 600 D 1 
HETATM 14 O O3' GDP . . . K 3 25.385 28.426 80.512 1 89.62 ? O3' GDP 600 D 1 
HETATM 15 C C2' GDP . . . K 3 24.882 27.532 78.3 1 58.23 ? C2' GDP 600 D 1 
HETATM 16 O O2' GDP . . . K 3 23.804 28.448 78.227 1 88.25 ? O2' GDP 600 D 1 
HETATM 17 C C1' GDP . . . K 3 26.111 28.036 77.57 1 91.09 ? C1' GDP 600 D 1 
HETATM 18 N N9 GDP . . . K 3 25.977 27.731 76.118 1 58.82 ? N9 GDP 600 D 1 
HETATM 19 C C8 GDP . . . K 3 25.673 26.523 75.576 1 59.77 ? C8 GDP 600 D 1 
HETATM 20 N N7 GDP . . . K 3 25.693 26.572 74.221 1 73.12 ? N7 GDP 600 D 1 
HETATM 21 C C5 GDP . . . K 3 26.098 27.813 73.864 1 49.95 ? C5 GDP 600 D 1 
HETATM 22 C C6 GDP . . . K 3 26.44 28.542 72.598 1 70.64 ? C6 GDP 600 D 1 
HETATM 23 O O6 GDP . . . K 3 26.304 27.997 71.488 1 68.93 ? O6 GDP 600 D 1 
HETATM 24 N N1 GDP . . . K 3 26.818 29.839 72.681 1 67.77 ? N1 GDP 600 D 1 
HETATM 25 C C2 GDP . . . K 3 27.034 30.439 73.881 1 123.14 ? C2 GDP 600 D 1 
HETATM 26 N N2 GDP . . . K 3 27.489 31.711 73.945 1 61.57 ? N2 GDP 600 D 1 
HETATM 27 N N3 GDP . . . K 3 26.763 29.835 75.07 1 63.71 ? N3 GDP 600 D 1 
HETATM 28 C C4 GDP . . . K 3 26.298 28.56 75.127 1 98.9 ? C4 GDP 600 D 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           272 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           28 
#