data_2A30
#
_model_server_result.job_id            aryIrHdr67C6cIhdzSZvsA 
_model_server_result.datetime_utc      '2024-11-25 13:32:20' 
_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          2a30 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":302}' 
#
_entry.id    2A30 
#
_exptl.entry_id    2A30 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              227.217 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2'-DEOXYCYTIDINE" 
_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          95.97 
_cell.angle_gamma         90 
_cell.entry_id            2A30 
_cell.length_a            79.337 
_cell.length_b            64.941 
_cell.length_c            108.602 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2A30 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
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
A,B,E,F,G,K,L 1 1 
C,D,H,I,J,M,N 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 J 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 OD1 ASN 63 A ASN 60 1_555 E CA CA . A CA 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? 
metalc ? metalc2 C OD1 ASN 63 C ASN 60 1_555 H CA CA . C CA 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.639 ? 
#
_chem_comp.formula           'C9 H13 N3 O4' 
_chem_comp.formula_weight    227.217 
_chem_comp.id                DCZ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2'-DEOXYCYTIDINE" 
_chem_comp.type              'dna oh 5 prime terminus' 
_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
N1 C2 DCZ sing 83 n n 
N1 C6 DCZ sing 84 n n 
N1 C1' DCZ sing 85 n n 
C2 N3 DCZ sing 86 n n 
C2 O2 DCZ doub 87 n n 
N3 C4 DCZ doub 88 n n 
C4 C5 DCZ sing 89 n n 
C4 N4 DCZ sing 90 n n 
C5 C6 DCZ doub 91 n n 
C5 H5 DCZ sing 92 n n 
C6 H6 DCZ sing 93 n n 
N4 HN41 DCZ sing 94 n n 
N4 HN42 DCZ sing 95 n n 
C1' C2' DCZ sing 96 n n 
C1' O4' DCZ sing 97 n n 
C1' H1' DCZ sing 98 n n 
C2' C3' DCZ sing 99 n n 
C2' "H2'1" DCZ sing 100 n n 
C2' "H2'2" DCZ sing 101 n n 
C3' C4' DCZ sing 102 n n 
C3' O3' DCZ sing 103 n n 
C3' H3' DCZ sing 104 n n 
C4' O4' DCZ sing 105 n n 
C4' C5' DCZ sing 106 n n 
C4' H4' DCZ sing 107 n n 
O3' HO3' DCZ sing 108 n n 
C5' O5' DCZ sing 109 n n 
C5' "H5'1" DCZ sing 110 n n 
C5' "H5'2" DCZ sing 111 n n 
O5' HO51 DCZ sing 112 n n 
#
_atom_sites.entry_id                     2A30 
_atom_sites.fract_transf_matrix[1][1]    0.012604 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001318 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015399 
_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]    0.009258 
_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 CA A 1 261 1 CA CA . 
F 3 DCZ A 1 302 302 DCZ DCZ . 
G 3 DCZ B 1 402 402 DCZ DCZ . 
H 2 CA C 1 261 2 CA CA . 
I 3 DCZ C 1 502 502 DCZ DCZ . 
J 3 DCZ D 1 602 602 DCZ DCZ . 
K 4 HOH A 1 303 4 HOH WAT . 
K 4 HOH A 2 304 5 HOH WAT . 
K 4 HOH A 3 305 6 HOH WAT . 
K 4 HOH A 4 306 7 HOH WAT . 
K 4 HOH A 5 307 12 HOH WAT . 
K 4 HOH A 6 308 15 HOH WAT . 
K 4 HOH A 7 309 18 HOH WAT . 
K 4 HOH A 8 310 19 HOH WAT . 
K 4 HOH A 9 311 20 HOH WAT . 
L 4 HOH B 1 403 8 HOH WAT . 
L 4 HOH B 2 404 11 HOH WAT . 
L 4 HOH B 3 405 13 HOH WAT . 
L 4 HOH B 4 406 21 HOH WAT . 
M 4 HOH C 1 503 3 HOH WAT . 
M 4 HOH C 2 504 9 HOH WAT . 
M 4 HOH C 3 505 10 HOH WAT . 
M 4 HOH C 4 506 14 HOH WAT . 
M 4 HOH C 5 507 16 HOH WAT . 
M 4 HOH C 6 508 17 HOH WAT . 
M 4 HOH C 7 509 22 HOH WAT . 
M 4 HOH C 8 510 23 HOH WAT . 
M 4 HOH C 9 511 24 HOH WAT . 
M 4 HOH C 10 512 25 HOH WAT . 
M 4 HOH C 11 513 26 HOH WAT . 
M 4 HOH C 12 514 27 HOH WAT . 
N 4 HOH D 1 603 28 HOH WAT . 
#
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 N N1 DCZ . . . F 3 -5.965 -2.838 44.607 1 41.95 ? N1 DCZ 302 A 1 
HETATM 2 C C2 DCZ . . . F 3 -5.098 -3.672 44.008 1 44.79 ? C2 DCZ 302 A 1 
HETATM 3 N N3 DCZ . . . F 3 -4.025 -4.215 44.693 1 45.61 ? N3 DCZ 302 A 1 
HETATM 4 C C4 DCZ . . . F 3 -3.887 -3.871 45.978 1 44.37 ? C4 DCZ 302 A 1 
HETATM 5 C C5 DCZ . . . F 3 -4.741 -3.064 46.574 1 42.08 ? C5 DCZ 302 A 1 
HETATM 6 C C6 DCZ . . . F 3 -5.752 -2.558 45.899 1 42.79 ? C6 DCZ 302 A 1 
HETATM 7 O O2 DCZ . . . F 3 -5.159 -4.046 42.795 1 46.95 ? O2 DCZ 302 A 1 
HETATM 8 N N4 DCZ . . . F 3 -2.81 -4.402 46.639 1 46.66 ? N4 DCZ 302 A 1 
HETATM 9 C C1' DCZ . . . F 3 -7.087 -2.25 43.843 1 38.52 ? C1' DCZ 302 A 1 
HETATM 10 C C2' DCZ . . . F 3 -8.379 -2.981 43.707 1 37.93 ? C2' DCZ 302 A 1 
HETATM 11 C C3' DCZ . . . F 3 -9.396 -1.806 43.664 1 39.98 ? C3' DCZ 302 A 1 
HETATM 12 C C4' DCZ . . . F 3 -8.727 -0.583 44.371 1 38.61 ? C4' DCZ 302 A 1 
HETATM 13 O O4' DCZ . . . F 3 -7.355 -0.925 44.431 1 38.25 ? O4' DCZ 302 A 1 
HETATM 14 O O3' DCZ . . . F 3 -9.683 -1.47 42.288 1 41.03 ? O3' DCZ 302 A 1 
HETATM 15 C C5' DCZ . . . F 3 -9.32 -0.364 45.739 1 38.31 ? C5' DCZ 302 A 1 
HETATM 16 O O5' DCZ . . . F 3 -8.553 -0.978 46.765 1 36.19 ? O5' DCZ 302 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           267 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           16 
#