data_2GN2
#
_model_server_result.job_id            UXvx10vRquKmR5vEZQVNEQ 
_model_server_result.datetime_utc      '2025-02-05 16:55:26' 
_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          2gn2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":400}' 
#
_entry.id    2GN2 
#
_exptl.entry_id    2GN2 
_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    1 
_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            2GN2 
_cell.length_a            161.145 
_cell.length_b            161.145 
_cell.length_c            68.723 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2GN2 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        177 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 6 2 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3,4 
#
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' 4_445 -x-1,-y-1,z -1 0 0 0 -1 0 0 0 1 -80.5725 -139.555664 0 
3 'crystal symmetry operation' 7_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 
4 'crystal symmetry operation' 10_445 -y-1,-x-1,-z 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 -80.5725 -139.555664 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_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
disulf ? disulf1 A SG CYS 131 A CYS 118 1_555 A SG CYS 131 A CYS 118 11_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.864 ? 
covale ? covale1 A C PHE 70 A PHE 57 1_555 A N LLP 71 A LLP 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale2 A C LLP 71 A LLP 58 1_555 A N ILE 72 A ILE 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
metalc ? metalc1 A O GLU 184 A GLU 171 1_555 B NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc2 A O GLU 184 A GLU 171 4_445 B NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? 
#
_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                     2GN2 
_atom_sites.fract_transf_matrix[1][1]    0.006206 
_atom_sites.fract_transf_matrix[1][2]    0.003583 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007166 
_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]    0.014551 
_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 NA A 1 401 401 NA NA . 
C 3 C5P A 1 400 400 C5P C5P . 
D 4 HOH A 1 402 1 HOH HOH . 
D 4 HOH A 2 403 2 HOH HOH . 
D 4 HOH A 3 404 3 HOH HOH . 
D 4 HOH A 4 405 4 HOH HOH . 
D 4 HOH A 5 406 5 HOH HOH . 
D 4 HOH A 6 407 6 HOH HOH . 
D 4 HOH A 7 408 7 HOH HOH . 
D 4 HOH A 8 409 8 HOH HOH . 
D 4 HOH A 9 410 9 HOH HOH . 
D 4 HOH A 10 411 10 HOH HOH . 
D 4 HOH A 11 412 11 HOH HOH . 
D 4 HOH A 12 413 12 HOH HOH . 
D 4 HOH A 13 414 13 HOH HOH . 
D 4 HOH A 14 415 14 HOH HOH . 
D 4 HOH A 15 416 15 HOH HOH . 
D 4 HOH A 16 417 16 HOH HOH . 
D 4 HOH A 17 418 17 HOH HOH . 
D 4 HOH A 18 419 18 HOH HOH . 
D 4 HOH A 19 420 19 HOH HOH . 
D 4 HOH A 20 421 20 HOH HOH . 
D 4 HOH A 21 422 21 HOH HOH . 
D 4 HOH A 22 423 22 HOH HOH . 
D 4 HOH A 23 424 23 HOH HOH . 
D 4 HOH A 24 425 24 HOH HOH . 
D 4 HOH A 25 426 25 HOH HOH . 
D 4 HOH A 26 427 26 HOH HOH . 
D 4 HOH A 27 428 27 HOH HOH . 
D 4 HOH A 28 429 28 HOH HOH . 
D 4 HOH A 29 430 29 HOH HOH . 
D 4 HOH A 30 431 30 HOH HOH . 
D 4 HOH A 31 432 31 HOH HOH . 
D 4 HOH A 32 433 32 HOH HOH . 
D 4 HOH A 33 434 33 HOH HOH . 
D 4 HOH A 34 435 34 HOH HOH . 
D 4 HOH A 35 436 35 HOH HOH . 
D 4 HOH A 36 437 36 HOH HOH . 
D 4 HOH A 37 438 37 HOH HOH . 
D 4 HOH A 38 439 38 HOH HOH . 
D 4 HOH A 39 440 39 HOH HOH . 
D 4 HOH A 40 441 40 HOH HOH . 
D 4 HOH A 41 442 41 HOH HOH . 
D 4 HOH A 42 443 42 HOH HOH . 
D 4 HOH A 43 444 43 HOH HOH . 
D 4 HOH A 44 445 44 HOH HOH . 
D 4 HOH A 45 446 45 HOH HOH . 
D 4 HOH A 46 447 46 HOH HOH . 
D 4 HOH A 47 448 47 HOH HOH . 
D 4 HOH A 48 449 48 HOH HOH . 
D 4 HOH A 49 450 49 HOH HOH . 
D 4 HOH A 50 451 50 HOH HOH . 
D 4 HOH A 51 452 51 HOH HOH . 
D 4 HOH A 52 453 52 HOH HOH . 
D 4 HOH A 53 454 53 HOH HOH . 
D 4 HOH A 54 455 54 HOH HOH . 
D 4 HOH A 55 456 55 HOH HOH . 
D 4 HOH A 56 457 56 HOH HOH . 
D 4 HOH A 57 458 57 HOH HOH . 
D 4 HOH A 58 459 58 HOH HOH . 
D 4 HOH A 59 460 59 HOH HOH . 
D 4 HOH A 60 461 60 HOH HOH . 
D 4 HOH A 61 462 61 HOH HOH . 
D 4 HOH A 62 463 62 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 . . . C 3 -16.561 -68.402 -35.78 1 56.79 ? O3P C5P 400 A 1 
HETATM 2 P P C5P . . . C 3 -15.341 -68.315 -36.617 1 57.14 ? P C5P 400 A 1 
HETATM 3 O O1P C5P . . . C 3 -15.693 -68.657 -38.053 1 56.52 ? O1P C5P 400 A 1 
HETATM 4 O O2P C5P . . . C 3 -14.684 -66.982 -36.408 1 56.78 ? O2P C5P 400 A 1 
HETATM 5 O O5' C5P . . . C 3 -14.321 -69.434 -36.057 1 57.12 ? O5' C5P 400 A 1 
HETATM 6 C C5' C5P . . . C 3 -14.736 -70.802 -36.028 1 57.72 ? C5' C5P 400 A 1 
HETATM 7 C C4' C5P . . . C 3 -13.665 -71.684 -35.386 1 57.73 ? C4' C5P 400 A 1 
HETATM 8 O O4' C5P . . . C 3 -12.435 -71.566 -36.112 1 57.5 ? O4' C5P 400 A 1 
HETATM 9 C C3' C5P . . . C 3 -13.363 -71.283 -33.946 1 57.42 ? C3' C5P 400 A 1 
HETATM 10 O O3' C5P . . . C 3 -13.199 -72.43 -33.128 1 54.87 ? O3' C5P 400 A 1 
HETATM 11 C C2' C5P . . . C 3 -12.04 -70.552 -34.03 1 58.19 ? C2' C5P 400 A 1 
HETATM 12 O O2' C5P . . . C 3 -11.255 -70.667 -32.846 1 58.16 ? O2' C5P 400 A 1 
HETATM 13 C C1' C5P . . . C 3 -11.38 -71.256 -35.203 1 58.24 ? C1' C5P 400 A 1 
HETATM 14 N N1 C5P . . . C 3 -10.334 -70.475 -35.864 1 58.11 ? N1 C5P 400 A 1 
HETATM 15 C C2 C5P . . . C 3 -9.089 -71.083 -36.116 1 58.51 ? C2 C5P 400 A 1 
HETATM 16 N N3 C5P . . . C 3 -8.109 -70.396 -36.726 1 59.36 ? N3 C5P 400 A 1 
HETATM 17 C C4 C5P . . . C 3 -8.328 -69.119 -37.106 1 59.55 ? C4 C5P 400 A 1 
HETATM 18 C C5 C5P . . . C 3 -9.547 -68.494 -36.869 1 58.31 ? C5 C5P 400 A 1 
HETATM 19 C C6 C5P . . . C 3 -10.548 -69.207 -36.238 1 58.1 ? C6 C5P 400 A 1 
HETATM 20 O O2 C5P . . . C 3 -8.875 -72.261 -35.777 1 59.61 ? O2 C5P 400 A 1 
HETATM 21 N N4 C5P . . . C 3 -7.342 -68.44 -37.712 1 59.4 ? N4 C5P 400 A 1 
#
_model_server_stats.io_time_ms              45 
_model_server_stats.parse_time_ms           78 
_model_server_stats.create_model_time_ms    44 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           21 
#