data_1W57
#
_model_server_result.job_id            hoPP_KE6WgQQRRXxl688LQ 
_model_server_result.datetime_utc      '2024-11-22 23:13:43' 
_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          1w57 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1373}' 
#
_entry.id    1W57 
#
_exptl.entry_id    1W57 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              323.197 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "CYTIDINE-5'-MONOPHOSPHATE" 
_entity.pdbx_number_of_molecules    2 
_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         120 
_cell.entry_id            1W57 
_cell.length_a            107.76 
_cell.length_b            107.76 
_cell.length_c            161.004 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1W57 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        182 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 63 2 2' 
#
_pdbx_struct_assembly.method_details        PQS 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3,4,5,6 
#
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]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 53.88 93.322898 0 
3 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 107.76 0 0 
4 'crystal symmetry operation' 12_554 x,x-y,-z-1/2 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 -80.502 
5 'crystal symmetry operation' 11_654 -x+y+1,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 107.76 0 -80.502 
6 'crystal symmetry operation' 10_664 -y+1,-x+1,-z-1/2 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 53.88 93.322898 -80.502 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 C N N 
? 3 D N 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 A OD2 ASP 217 A ASP 217 1_555 B ZN ZN . A ZN 1371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
metalc ? metalc2 A NE2 HIS 219 A HIS 219 1_555 B ZN ZN . A ZN 1371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? 
metalc ? metalc3 A ND1 HIS 251 A HIS 251 1_555 B ZN ZN . A ZN 1371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? 
metalc ? metalc4 B ZN ZN . A ZN 1371 1_555 F O HOH . A HOH 2057 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? 
#
_chem_comp.formula           'C9 H14 N3 O8 P' 
_chem_comp.formula_weight    323.197 
_chem_comp.id                C5P 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "CYTIDINE-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
O3P P C5P sing 70 n n 
O3P HOP3 C5P sing 71 n n 
P O1P C5P doub 72 n n 
P O2P C5P sing 73 n n 
P O5' C5P sing 74 n n 
O2P HOP2 C5P sing 75 n n 
O5' C5' C5P sing 76 n n 
C5' C4' C5P sing 77 n n 
C5' "H5'1" C5P sing 78 n n 
C5' "H5'2" C5P sing 79 n n 
C4' O4' C5P sing 80 n n 
C4' C3' C5P sing 81 n n 
C4' H4' C5P sing 82 n n 
O4' C1' C5P sing 83 n n 
C3' O3' C5P sing 84 n n 
C3' C2' C5P sing 85 n n 
C3' H3' C5P sing 86 n n 
O3' HO3' C5P sing 87 n n 
C2' O2' C5P sing 88 n n 
C2' C1' C5P sing 89 n n 
C2' "H2'1" C5P sing 90 n n 
O2' HO2' C5P sing 91 n n 
C1' N1 C5P sing 92 n n 
C1' H1' C5P sing 93 n n 
N1 C2 C5P sing 94 n n 
N1 C6 C5P sing 95 n n 
C2 N3 C5P sing 96 n n 
C2 O2 C5P doub 97 n n 
N3 C4 C5P doub 98 n n 
C4 C5 C5P sing 99 n n 
C4 N4 C5P sing 100 n n 
C5 C6 C5P doub 101 n n 
C5 H5 C5P sing 102 n n 
C6 H6 C5P sing 103 n n 
N4 HN41 C5P sing 104 n n 
N4 HN42 C5P sing 105 n n 
#
_atom_sites.entry_id                     1W57 
_atom_sites.fract_transf_matrix[1][1]    0.00928 
_atom_sites.fract_transf_matrix[1][2]    0.005358 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010715 
_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]    0.006211 
_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
B 2 ZN A 1 1371 1371 ZN ZN . 
C 3 C5P A 1 1372 1372 C5P C5P . 
D 3 C5P A 1 1373 1373 C5P C5P . 
E 4 GPP A 1 1374 1374 GPP GPP . 
F 5 HOH A 1 2001 2001 HOH HOH . 
F 5 HOH A 2 2002 2002 HOH HOH . 
F 5 HOH A 3 2003 2003 HOH HOH . 
F 5 HOH A 4 2004 2004 HOH HOH . 
F 5 HOH A 5 2005 2005 HOH HOH . 
F 5 HOH A 6 2006 2006 HOH HOH . 
F 5 HOH A 7 2007 2007 HOH HOH . 
F 5 HOH A 8 2008 2008 HOH HOH . 
F 5 HOH A 9 2009 2009 HOH HOH . 
F 5 HOH A 10 2010 2010 HOH HOH . 
F 5 HOH A 11 2011 2011 HOH HOH . 
F 5 HOH A 12 2012 2012 HOH HOH . 
F 5 HOH A 13 2013 2013 HOH HOH . 
F 5 HOH A 14 2014 2014 HOH HOH . 
F 5 HOH A 15 2015 2015 HOH HOH . 
F 5 HOH A 16 2016 2016 HOH HOH . 
F 5 HOH A 17 2017 2017 HOH HOH . 
F 5 HOH A 18 2018 2018 HOH HOH . 
F 5 HOH A 19 2019 2019 HOH HOH . 
F 5 HOH A 20 2020 2020 HOH HOH . 
F 5 HOH A 21 2021 2021 HOH HOH . 
F 5 HOH A 22 2022 2022 HOH HOH . 
F 5 HOH A 23 2023 2023 HOH HOH . 
F 5 HOH A 24 2024 2024 HOH HOH . 
F 5 HOH A 25 2025 2025 HOH HOH . 
F 5 HOH A 26 2026 2026 HOH HOH . 
F 5 HOH A 27 2027 2027 HOH HOH . 
F 5 HOH A 28 2028 2028 HOH HOH . 
F 5 HOH A 29 2029 2029 HOH HOH . 
F 5 HOH A 30 2030 2030 HOH HOH . 
F 5 HOH A 31 2031 2031 HOH HOH . 
F 5 HOH A 32 2032 2032 HOH HOH . 
F 5 HOH A 33 2033 2033 HOH HOH . 
F 5 HOH A 34 2034 2034 HOH HOH . 
F 5 HOH A 35 2035 2035 HOH HOH . 
F 5 HOH A 36 2036 2036 HOH HOH . 
F 5 HOH A 37 2037 2037 HOH HOH . 
F 5 HOH A 38 2038 2038 HOH HOH . 
F 5 HOH A 39 2039 2039 HOH HOH . 
F 5 HOH A 40 2040 2040 HOH HOH . 
F 5 HOH A 41 2041 2041 HOH HOH . 
F 5 HOH A 42 2042 2042 HOH HOH . 
F 5 HOH A 43 2043 2043 HOH HOH . 
F 5 HOH A 44 2044 2044 HOH HOH . 
F 5 HOH A 45 2045 2045 HOH HOH . 
F 5 HOH A 46 2046 2046 HOH HOH . 
F 5 HOH A 47 2047 2047 HOH HOH . 
F 5 HOH A 48 2048 2048 HOH HOH . 
F 5 HOH A 49 2049 2049 HOH HOH . 
F 5 HOH A 50 2050 2050 HOH HOH . 
F 5 HOH A 51 2051 2051 HOH HOH . 
F 5 HOH A 52 2052 2052 HOH HOH . 
F 5 HOH A 53 2053 2053 HOH HOH . 
F 5 HOH A 54 2054 2054 HOH HOH . 
F 5 HOH A 55 2055 2055 HOH HOH . 
F 5 HOH A 56 2056 2056 HOH HOH . 
F 5 HOH A 57 2057 2057 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 O3P C5P . . . D 3 83.099 42.246 -25.471 1 54.67 ? O3P C5P 1373 A 1 
HETATM 2 P P C5P . . . D 3 84.596 42.464 -25.282 1 54.8 ? P C5P 1373 A 1 
HETATM 3 O O1P C5P . . . D 3 84.86 43.178 -23.969 1 55.28 ? O1P C5P 1373 A 1 
HETATM 4 O O2P C5P . . . D 3 85.379 42.969 -26.486 1 52.04 ? O2P C5P 1373 A 1 
HETATM 5 O O5' C5P . . . D 3 85.207 40.997 -25.037 1 52.09 ? O5' C5P 1373 A 1 
HETATM 6 C C5' C5P . . . D 3 84.779 39.904 -25.845 1 50.54 ? C5' C5P 1373 A 1 
HETATM 7 C C4' C5P . . . D 3 84.382 38.718 -24.971 1 49.15 ? C4' C5P 1373 A 1 
HETATM 8 O O4' C5P . . . D 3 85.404 38.509 -24.003 1 48.69 ? O4' C5P 1373 A 1 
HETATM 9 C C3' C5P . . . D 3 83.072 38.931 -24.225 1 48.64 ? C3' C5P 1373 A 1 
HETATM 10 O O3' C5P . . . D 3 82.239 37.8 -24.416 1 47.37 ? O3' C5P 1373 A 1 
HETATM 11 C C2' C5P . . . D 3 83.474 39.062 -22.777 1 48.22 ? C2' C5P 1373 A 1 
HETATM 12 O O2' C5P . . . D 3 82.582 38.357 -21.944 1 49.82 ? O2' C5P 1373 A 1 
HETATM 13 C C1' C5P . . . D 3 84.84 38.407 -22.706 1 48.14 ? C1' C5P 1373 A 1 
HETATM 14 N N1 C5P . . . D 3 85.686 39.063 -21.703 1 47.54 ? N1 C5P 1373 A 1 
HETATM 15 C C2 C5P . . . D 3 86.333 38.281 -20.698 1 46.29 ? C2 C5P 1373 A 1 
HETATM 16 N N3 C5P . . . D 3 87.097 38.912 -19.777 1 46.23 ? N3 C5P 1373 A 1 
HETATM 17 C C4 C5P . . . D 3 87.248 40.258 -19.802 1 45.71 ? C4 C5P 1373 A 1 
HETATM 18 C C5 C5P . . . D 3 86.627 41.028 -20.775 1 45.46 ? C5 C5P 1373 A 1 
HETATM 19 C C6 C5P . . . D 3 85.84 40.401 -21.732 1 46.42 ? C6 C5P 1373 A 1 
HETATM 20 O O2 C5P . . . D 3 86.217 37.033 -20.64 1 43.25 ? O2 C5P 1373 A 1 
HETATM 21 N N4 C5P . . . D 3 88.01 40.854 -18.859 1 46.62 ? N4 C5P 1373 A 1 
#
_model_server_stats.io_time_ms              28 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           21 
#