data_6H45
#
_model_server_result.job_id            buhsyjjhX0signzYWo3Kzw 
_model_server_result.datetime_utc      '2024-10-25 20:27:29' 
_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          6h45 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    6H45 
#
_exptl.entry_id    6H45 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              277.279 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-amino-5-({[(1S,4S,5R)-4,5-dihydroxycyclopent-2-en-1-yl]amino}methyl)-3,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one 
_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          108.19 
_cell.angle_gamma         90 
_cell.entry_id            6H45 
_cell.length_a            127.5 
_cell.length_b            158.86 
_cell.length_c            47.62 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6H45 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 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,C,D,E,F,G,H,I,S 1 1 
B,J,K,L,M,N,O,P,Q,R,T 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
? 2 C N N 
? 2 K 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
covale ? covale1 A C GLU 11 A GLU 22 1_555 A N OCS 12 A OCS 23 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.325 ? 
covale ? covale2 A C OCS 12 A OCS 23 1_555 A N SER 13 A SER 24 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.325 ? 
covale ? covale3 B C GLU 11 B GLU 22 1_555 B N OCS 12 B OCS 23 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.327 ? 
covale ? covale4 B C OCS 12 B OCS 23 1_555 B N SER 13 B SER 24 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.328 ? 
metalc ? metalc1 A O TYR 64 A TYR 75 1_555 H K K . A K 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? 
metalc ? metalc2 A O LEU 66 A LEU 77 1_555 H K K . A K 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? 
metalc ? metalc3 A O ARG 69 A ARG 80 1_555 H K K . A K 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? 
metalc ? metalc4 A O GLY 71 A GLY 82 1_555 H K K . A K 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.652 ? 
metalc ? metalc5 A OE2 GLU 73 A GLU 84 1_555 H K K . A K 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.999 ? 
metalc ? metalc6 A SG CYS 306 A CYS 317 1_555 D ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? 
metalc ? metalc7 A SG CYS 308 A CYS 319 1_555 D ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc8 A SG CYS 311 A CYS 322 1_555 D ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? 
metalc ? metalc9 A ND1 HIS 337 A HIS 348 1_555 D ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
metalc ? metalc10 B O TYR 64 B TYR 75 1_555 Q K K . B K 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.637 ? 
metalc ? metalc11 B O LEU 66 B LEU 77 1_555 Q K K . B K 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.612 ? 
metalc ? metalc12 B O ARG 69 B ARG 80 1_555 Q K K . B K 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? 
metalc ? metalc13 B O GLY 71 B GLY 82 1_555 Q K K . B K 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? 
metalc ? metalc14 B OE2 GLU 73 B GLU 84 1_555 Q K K . B K 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.252 ? 
metalc ? metalc15 B SG CYS 306 B CYS 317 1_555 L ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? 
metalc ? metalc16 B SG CYS 308 B CYS 319 1_555 L ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? 
metalc ? metalc17 B SG CYS 311 B CYS 322 1_555 L ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? 
metalc ? metalc18 B ND1 HIS 337 B HIS 348 1_555 L ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? 
#
_chem_comp.formula           'C12 H15 N5 O3' 
_chem_comp.formula_weight    277.279 
_chem_comp.id                QEI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-amino-5-({[(1S,4S,5R)-4,5-dihydroxycyclopent-2-en-1-yl]amino}methyl)-3,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     queuine 
#
_atom_sites.entry_id                     6H45 
_atom_sites.fract_transf_matrix[1][1]    0.007843 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002578 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006295 
_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]    0.022105 
_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
C 2 QEI A 1 501 501 QEI QEI . 
D 3 ZN A 1 502 601 ZN ZN . 
E 4 BR A 1 503 1001 BR BR . 
F 5 CL A 1 504 1001 CL CL . 
G 5 CL A 1 505 2 CL CL . 
H 6 K A 1 506 2 K K . 
I 4 BR A 1 507 2 BR BR . 
J 5 CL B 1 801 801 CL CL . 
K 2 QEI B 1 802 501 QEI QEI . 
L 3 ZN B 1 803 601 ZN ZN . 
M 4 BR B 1 804 701 BR BR . 
N 7 GLU B 1 805 1301 GLU GGL . 
O 5 CL B 1 806 1 CL CL . 
P 5 CL B 1 807 3 CL CL . 
Q 6 K B 1 808 1 K K . 
R 4 BR B 1 809 1 BR BR . 
S 8 HOH A 1 601 98 HOH HOH . 
S 8 HOH A 2 602 14 HOH HOH . 
S 8 HOH A 3 603 23 HOH HOH . 
S 8 HOH A 4 604 4 HOH HOH . 
S 8 HOH A 5 605 7 HOH HOH . 
S 8 HOH A 6 606 9 HOH HOH . 
S 8 HOH A 7 607 127 HOH HOH . 
S 8 HOH A 8 608 112 HOH HOH . 
S 8 HOH A 9 609 76 HOH HOH . 
S 8 HOH A 10 610 30 HOH HOH . 
S 8 HOH A 11 611 17 HOH HOH . 
S 8 HOH A 12 612 115 HOH HOH . 
S 8 HOH A 13 613 65 HOH HOH . 
S 8 HOH A 14 614 91 HOH HOH . 
S 8 HOH A 15 615 39 HOH HOH . 
S 8 HOH A 16 616 41 HOH HOH . 
S 8 HOH A 17 617 19 HOH HOH . 
S 8 HOH A 18 618 58 HOH HOH . 
S 8 HOH A 19 619 15 HOH HOH . 
S 8 HOH A 20 620 67 HOH HOH . 
S 8 HOH A 21 621 116 HOH HOH . 
S 8 HOH A 22 622 113 HOH HOH . 
S 8 HOH A 23 623 42 HOH HOH . 
S 8 HOH A 24 624 32 HOH HOH . 
S 8 HOH A 25 625 18 HOH HOH . 
S 8 HOH A 26 626 124 HOH HOH . 
S 8 HOH A 27 627 102 HOH HOH . 
S 8 HOH A 28 628 57 HOH HOH . 
S 8 HOH A 29 629 52 HOH HOH . 
S 8 HOH A 30 630 8 HOH HOH . 
S 8 HOH A 31 631 45 HOH HOH . 
S 8 HOH A 32 632 72 HOH HOH . 
S 8 HOH A 33 633 26 HOH HOH . 
S 8 HOH A 34 634 51 HOH HOH . 
S 8 HOH A 35 635 87 HOH HOH . 
S 8 HOH A 36 636 110 HOH HOH . 
S 8 HOH A 37 637 80 HOH HOH . 
S 8 HOH A 38 638 64 HOH HOH . 
S 8 HOH A 39 639 99 HOH HOH . 
S 8 HOH A 40 640 59 HOH HOH . 
S 8 HOH A 41 641 28 HOH HOH . 
S 8 HOH A 42 642 68 HOH HOH . 
S 8 HOH A 43 643 6 HOH HOH . 
S 8 HOH A 44 644 78 HOH HOH . 
S 8 HOH A 45 645 27 HOH HOH . 
S 8 HOH A 46 646 55 HOH HOH . 
S 8 HOH A 47 647 89 HOH HOH . 
S 8 HOH A 48 648 81 HOH HOH . 
S 8 HOH A 49 649 125 HOH HOH . 
S 8 HOH A 50 650 109 HOH HOH . 
S 8 HOH A 51 651 69 HOH HOH . 
S 8 HOH A 52 652 77 HOH HOH . 
S 8 HOH A 53 653 97 HOH HOH . 
S 8 HOH A 54 654 100 HOH HOH . 
S 8 HOH A 55 655 66 HOH HOH . 
T 8 HOH B 1 901 88 HOH HOH . 
T 8 HOH B 2 902 47 HOH HOH . 
T 8 HOH B 3 903 73 HOH HOH . 
T 8 HOH B 4 904 13 HOH HOH . 
T 8 HOH B 5 905 71 HOH HOH . 
T 8 HOH B 6 906 1 HOH HOH . 
T 8 HOH B 7 907 104 HOH HOH . 
T 8 HOH B 8 908 35 HOH HOH . 
T 8 HOH B 9 909 5 HOH HOH . 
T 8 HOH B 10 910 44 HOH HOH . 
T 8 HOH B 11 911 11 HOH HOH . 
T 8 HOH B 12 912 50 HOH HOH . 
T 8 HOH B 13 913 79 HOH HOH . 
T 8 HOH B 14 914 118 HOH HOH . 
T 8 HOH B 15 915 63 HOH HOH . 
T 8 HOH B 16 916 103 HOH HOH . 
T 8 HOH B 17 917 107 HOH HOH . 
T 8 HOH B 18 918 70 HOH HOH . 
T 8 HOH B 19 919 62 HOH HOH . 
T 8 HOH B 20 920 20 HOH HOH . 
T 8 HOH B 21 921 122 HOH HOH . 
T 8 HOH B 22 922 29 HOH HOH . 
T 8 HOH B 23 923 10 HOH HOH . 
T 8 HOH B 24 924 3 HOH HOH . 
T 8 HOH B 25 925 56 HOH HOH . 
T 8 HOH B 26 926 106 HOH HOH . 
T 8 HOH B 27 927 126 HOH HOH . 
T 8 HOH B 28 928 33 HOH HOH . 
T 8 HOH B 29 929 111 HOH HOH . 
T 8 HOH B 30 930 121 HOH HOH . 
T 8 HOH B 31 931 105 HOH HOH . 
T 8 HOH B 32 932 86 HOH HOH . 
T 8 HOH B 33 933 93 HOH HOH . 
T 8 HOH B 34 934 119 HOH HOH . 
T 8 HOH B 35 935 2 HOH HOH . 
T 8 HOH B 36 936 123 HOH HOH . 
T 8 HOH B 37 937 101 HOH HOH . 
T 8 HOH B 38 938 83 HOH HOH . 
T 8 HOH B 39 939 120 HOH HOH . 
T 8 HOH B 40 940 94 HOH HOH . 
T 8 HOH B 41 941 43 HOH HOH . 
T 8 HOH B 42 942 25 HOH HOH . 
T 8 HOH B 43 943 90 HOH HOH . 
T 8 HOH B 44 944 117 HOH HOH . 
T 8 HOH B 45 945 60 HOH HOH . 
T 8 HOH B 46 946 75 HOH HOH . 
T 8 HOH B 47 947 96 HOH HOH . 
T 8 HOH B 48 948 49 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 C C1 QEI . . . C 2 36.428 -12.088 20.211 0.79 78.56 ? C1 QEI 501 A 1 
HETATM 2 C C2 QEI . . . C 2 35.799 -13.429 20.88 0.79 78.14 ? C2 QEI 501 A 1 
HETATM 3 C C3 QEI . . . C 2 37.751 -12.223 20.384 0.79 76.81 ? C3 QEI 501 A 1 
HETATM 4 C C4 QEI . . . C 2 36.953 -13.969 21.811 0.79 74.88 ? C4 QEI 501 A 1 
HETATM 5 C C5 QEI . . . C 2 38.092 -13.416 21.275 0.79 74.66 ? C5 QEI 501 A 1 
HETATM 6 C C6 QEI . . . C 2 34.813 -10.295 20.212 0.79 74.38 ? C6 QEI 501 A 1 
HETATM 7 C C9 QEI . . . C 2 36.286 -8.525 18.711 0.79 70.39 ? C9 QEI 501 A 1 
HETATM 8 C C10 QEI . . . C 2 36.014 -8.057 17.441 0.79 66.86 ? C10 QEI 501 A 1 
HETATM 9 C C11 QEI . . . C 2 37.546 -8.046 19.446 0.79 66.99 ? C11 QEI 501 A 1 
HETATM 10 O O1 QEI . . . C 2 35.522 -14.298 19.962 0.79 79.7 ? O1 QEI 501 A 1 
HETATM 11 O O2 QEI . . . C 2 37.03 -15.395 21.745 0.79 74.39 ? O2 QEI 501 A 1 
HETATM 12 N N1 QEI . . . C 2 35.953 -10.856 20.909 0.79 79.25 ? N1 QEI 501 A 1 
HETATM 13 C C7 QEI . . . C 2 35.285 -9.382 19.059 0.79 73.15 ? C7 QEI 501 A 1 
HETATM 14 C C8 QEI . . . C 2 34.396 -9.446 18.006 0.79 69.17 ? C8 QEI 501 A 1 
HETATM 15 N N2 QEI . . . C 2 34.849 -8.63 17.017 0.79 66.86 ? N2 QEI 501 A 1 
HETATM 16 N N3 QEI . . . C 2 36.939 -7.091 16.782 0.79 64.25 ? N3 QEI 501 A 1 
HETATM 17 C C12 QEI . . . C 2 38.14 -6.632 17.475 0.79 62.41 ? C12 QEI 501 A 1 
HETATM 18 N N5 QEI . . . C 2 39.046 -5.678 16.815 0.79 59.02 ? N5 QEI 501 A 1 
HETATM 19 N N4 QEI . . . C 2 38.437 -7.115 18.813 0.79 63.74 ? N4 QEI 501 A 1 
HETATM 20 O O3 QEI . . . C 2 37.79 -8.446 20.545 0.79 64.13 ? O3 QEI 501 A 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          12 
_model_server_stats.element_count           20 
#