data_2VQS
#
_model_server_result.job_id            UwKV0iaSXeLkNkLGtBdYRg 
_model_server_result.datetime_utc      '2024-11-23 11:47:58' 
_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          2vqs 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":1210}' 
#
_entry.id    2VQS 
#
_exptl.entry_id    2VQS 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              333.135 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5-BROMOVINYLDEOXYURIDINE 
_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            2VQS 
_cell.length_a            137.644 
_cell.length_b            112.828 
_cell.length_c            69.721 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
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_symmetry.entry_id                 2VQS 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 2' 
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loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PQS dimeric 2 author_and_software_defined_assembly 1 
PQS dimeric 2 author_and_software_defined_assembly 2 
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loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,M,N 1 1 
C,D,I,J,K,L,O,P 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 H N N 
? 3 J N N 
? 3 L N N 
#
_chem_comp.formula           'C11 H13 Br N2 O5' 
_chem_comp.formula_weight    333.135 
_chem_comp.id                BVD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5-BROMOVINYLDEOXYURIDINE 
_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' BVD sing 70 n n 
O5' HO5' BVD sing 71 n n 
C5' C4' BVD sing 72 n n 
C5' "H5'1" BVD sing 73 n n 
C5' "H5'2" BVD sing 74 n n 
C4' O4' BVD sing 75 n n 
C4' C3' BVD sing 76 n n 
C4' H4' BVD sing 77 n n 
O4' C1' BVD sing 78 n n 
C1' N1 BVD sing 79 n n 
C1' C2' BVD sing 80 n n 
C1' H1' BVD sing 81 n n 
N1 C6 BVD sing 82 n n 
N1 C2 BVD sing 83 n n 
C6 C5 BVD doub 84 n n 
C6 H6 BVD sing 85 n n 
C2 O2 BVD doub 86 n n 
C2 N3 BVD sing 87 n n 
N3 C4 BVD sing 88 n n 
N3 HN3 BVD sing 89 n n 
C4 O4 BVD doub 90 n n 
C4 C5 BVD sing 91 n n 
C5 C5A BVD sing 92 n n 
C5A C5B BVD doub 93 e n 
C5A H5A BVD sing 94 n n 
C5B BR BVD sing 95 n n 
C5B H5B BVD sing 96 n n 
C2' C3' BVD sing 97 n n 
C2' "H2'1" BVD sing 98 n n 
C2' "H2'2" BVD sing 99 n n 
C3' O3' BVD sing 100 n n 
C3' H3' BVD sing 101 n n 
O3' HO3' BVD sing 102 n n 
#
_atom_sites.entry_id                     2VQS 
_atom_sites.fract_transf_matrix[1][1]    0.007265 
_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]    0.008863 
_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]    0.014343 
_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 SO4 A 1 1209 1209 SO4 SO4 . 
F 3 BVD A 1 1210 1210 BVD BVD . 
G 2 SO4 B 1 1209 1209 SO4 SO4 . 
H 3 BVD B 1 1210 1210 BVD BVD . 
I 2 SO4 C 1 1209 1209 SO4 SO4 . 
J 3 BVD C 1 1210 1210 BVD BVD . 
K 2 SO4 D 1 1209 1209 SO4 SO4 . 
L 3 BVD D 1 1210 1210 BVD BVD . 
M 4 HOH A 1 2001 2001 HOH HOH . 
M 4 HOH A 2 2002 2002 HOH HOH . 
M 4 HOH A 3 2003 2003 HOH HOH . 
M 4 HOH A 4 2004 2004 HOH HOH . 
M 4 HOH A 5 2005 2005 HOH HOH . 
M 4 HOH A 6 2006 2006 HOH HOH . 
M 4 HOH A 7 2007 2007 HOH HOH . 
M 4 HOH A 8 2008 2008 HOH HOH . 
M 4 HOH A 9 2009 2009 HOH HOH . 
M 4 HOH A 10 2010 2010 HOH HOH . 
M 4 HOH A 11 2011 2011 HOH HOH . 
M 4 HOH A 12 2012 2012 HOH HOH . 
M 4 HOH A 13 2013 2013 HOH HOH . 
M 4 HOH A 14 2014 2014 HOH HOH . 
M 4 HOH A 15 2015 2015 HOH HOH . 
M 4 HOH A 16 2016 2016 HOH HOH . 
M 4 HOH A 17 2017 2017 HOH HOH . 
M 4 HOH A 18 2018 2018 HOH HOH . 
M 4 HOH A 19 2019 2019 HOH HOH . 
M 4 HOH A 20 2020 2020 HOH HOH . 
M 4 HOH A 21 2021 2021 HOH HOH . 
M 4 HOH A 22 2022 2022 HOH HOH . 
M 4 HOH A 23 2023 2023 HOH HOH . 
M 4 HOH A 24 2024 2024 HOH HOH . 
N 4 HOH B 1 2001 2001 HOH HOH . 
N 4 HOH B 2 2002 2002 HOH HOH . 
O 4 HOH C 1 2001 2001 HOH HOH . 
O 4 HOH C 2 2002 2002 HOH HOH . 
O 4 HOH C 3 2003 2003 HOH HOH . 
O 4 HOH C 4 2004 2004 HOH HOH . 
P 4 HOH D 1 2001 2001 HOH HOH . 
P 4 HOH D 2 2002 2002 HOH HOH . 
P 4 HOH D 3 2003 2003 HOH HOH . 
P 4 HOH D 4 2004 2004 HOH HOH . 
P 4 HOH D 5 2005 2005 HOH HOH . 
P 4 HOH D 6 2006 2006 HOH HOH . 
P 4 HOH D 7 2007 2007 HOH HOH . 
P 4 HOH D 8 2008 2008 HOH HOH . 
P 4 HOH D 9 2009 2009 HOH HOH . 
P 4 HOH D 10 2010 2010 HOH HOH . 
P 4 HOH D 11 2011 2011 HOH HOH . 
P 4 HOH D 12 2012 2012 HOH HOH . 
P 4 HOH D 13 2013 2013 HOH HOH . 
P 4 HOH D 14 2014 2014 HOH HOH . 
P 4 HOH D 15 2015 2015 HOH HOH . 
P 4 HOH D 16 2016 2016 HOH HOH . 
P 4 HOH D 17 2017 2017 HOH HOH . 
P 4 HOH D 18 2018 2018 HOH HOH . 
P 4 HOH D 19 2019 2019 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 O O5' BVD . . . L 3 57.322 11.354 -38.973 1 56.29 ? O5' BVD 1210 D 1 
HETATM 2 C C5' BVD . . . L 3 58.247 10.346 -39.398 1 56.8 ? C5' BVD 1210 D 1 
HETATM 3 C C4' BVD . . . L 3 58.006 9.924 -40.846 1 57 ? C4' BVD 1210 D 1 
HETATM 4 O O4' BVD . . . L 3 57.306 8.689 -40.875 1 57.32 ? O4' BVD 1210 D 1 
HETATM 5 C C1' BVD . . . L 3 56.055 8.829 -41.56 1 59.33 ? C1' BVD 1210 D 1 
HETATM 6 N N1 BVD . . . L 3 55.033 8.333 -40.661 1 59.68 ? N1 BVD 1210 D 1 
HETATM 7 C C6 BVD . . . L 3 55.151 8.644 -39.371 1 60.2 ? C6 BVD 1210 D 1 
HETATM 8 C C2 BVD . . . L 3 53.973 7.536 -41.152 1 60.04 ? C2 BVD 1210 D 1 
HETATM 9 O O2 BVD . . . L 3 53.9 7.274 -42.368 1 60.99 ? O2 BVD 1210 D 1 
HETATM 10 N N3 BVD . . . L 3 53.032 7.062 -40.335 1 59.59 ? N3 BVD 1210 D 1 
HETATM 11 C C4 BVD . . . L 3 53.098 7.35 -39.035 1 59.65 ? C4 BVD 1210 D 1 
HETATM 12 O O4 BVD . . . L 3 52.248 6.942 -38.227 1 60.03 ? O4 BVD 1210 D 1 
HETATM 13 C C5 BVD . . . L 3 54.192 8.173 -38.519 1 61.51 ? C5 BVD 1210 D 1 
HETATM 14 C C5A BVD . . . L 3 54.231 8.478 -37.101 1 61.13 ? C5A BVD 1210 D 1 
HETATM 15 C C5B BVD . . . L 3 53.059 8.64 -36.518 1 63.4 ? C5B BVD 1210 D 1 
HETATM 16 BR BR BVD . . . L 3 53.074 9.032 -34.654 1 70 ? BR BVD 1210 D 1 
HETATM 17 C C2' BVD . . . L 3 55.814 10.296 -41.876 1 57.17 ? C2' BVD 1210 D 1 
HETATM 18 C C3' BVD . . . L 3 57.181 10.907 -41.665 1 56.26 ? C3' BVD 1210 D 1 
HETATM 19 O O3' BVD . . . L 3 57.813 10.981 -42.931 1 54.59 ? O3' BVD 1210 D 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           19 
#