data_5VVN
#
_model_server_result.job_id            9D2xPkrpAahp5jY_MXhbPA 
_model_server_result.datetime_utc      '2024-11-13 07:41:44' 
_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          5vvn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":502}' 
#
_entry.id    5VVN 
#
_exptl.entry_id    5VVN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              241.247 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5,6,7,8-TETRAHYDROBIOPTERIN 
_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         90 
_cell.entry_id            5VVN 
_cell.length_a            58.093 
_cell.length_b            106.388 
_cell.length_c            156.04 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VVN 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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,G,H,I,J,K,L,M,N,O,P,Q 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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 D N N 
? 3 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 VAL 344 A VAL 383 1_555 A N CAS 345 A CAS 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale2 A C CAS 345 A CAS 384 1_555 A N MET 346 A MET 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale3 B C VAL 344 B VAL 383 1_555 B N CAS 345 B CAS 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale4 B C CAS 345 B CAS 384 1_555 B N MET 346 B MET 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
metalc ? metalc1 A SG CYS 57 A CYS 96 1_555 I ZN ZN . A ZN 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? 
metalc ? metalc2 A SG CYS 62 A CYS 101 1_555 I ZN ZN . A ZN 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? 
metalc ? metalc3 A SG CYS 147 A CYS 186 1_555 C FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? 
metalc ? metalc4 I ZN ZN . A ZN 507 1_555 B SG CYS 57 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? 
metalc ? metalc5 I ZN ZN . A ZN 507 1_555 B SG CYS 62 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? 
metalc ? metalc6 B SG CYS 147 B CYS 186 1_555 J FE HEM . B HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? 
#
_chem_comp.formula           'C9 H15 N5 O3' 
_chem_comp.formula_weight    241.247 
_chem_comp.id                H4B 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5,6,7,8-TETRAHYDROBIOPTERIN 
_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
N1 C2 H4B doub 169 n y 
N1 C8A H4B sing 170 n y 
C2 N2 H4B sing 171 n n 
C2 N3 H4B sing 172 n y 
N2 HN21 H4B sing 173 n n 
N2 HN22 H4B sing 174 n n 
N3 C4 H4B sing 175 n y 
N3 HN3 H4B sing 176 n n 
C4 O4 H4B doub 177 n n 
C4 C4A H4B sing 178 n y 
C4A C8A H4B doub 179 n y 
C4A N5 H4B sing 180 n n 
C8A N8 H4B sing 181 n n 
N5 C6 H4B sing 182 n n 
N5 HN5 H4B sing 183 n n 
N8 C7 H4B sing 184 n n 
N8 HN8 H4B sing 185 n n 
C6 C7 H4B sing 186 n n 
C6 C9 H4B sing 187 n n 
C6 H6 H4B sing 188 n n 
C7 H71 H4B sing 189 n n 
C7 H72 H4B sing 190 n n 
C9 O9 H4B sing 191 n n 
C9 C10 H4B sing 192 n n 
C9 H9 H4B sing 193 n n 
O9 HO9 H4B sing 194 n n 
C10 C11 H4B sing 195 n n 
C10 O10 H4B sing 196 n n 
C10 H10 H4B sing 197 n n 
C11 H111 H4B sing 198 n n 
C11 H112 H4B sing 199 n n 
C11 H113 H4B sing 200 n n 
O10 HO0 H4B sing 201 n n 
#
_atom_sites.entry_id                     5VVN 
_atom_sites.fract_transf_matrix[1][1]    0.017214 
_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]    0.0094 
_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]    0.006409 
_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 HEM A 1 501 500 HEM HEM . 
D 3 H4B A 1 502 600 H4B BH4 . 
E 4 P94 A 1 503 800 P94 P94 . 
F 5 ACT A 1 504 860 ACT ACT . 
G 5 ACT A 1 505 861 ACT ACT . 
H 6 GOL A 1 506 880 GOL GOL . 
I 7 ZN A 1 507 900 ZN ZN . 
J 2 HEM B 1 501 500 HEM HEM . 
K 3 H4B B 1 502 600 H4B BH4 . 
L 4 P94 B 1 503 800 P94 P94 . 
M 5 ACT B 1 504 860 ACT ACT . 
N 5 ACT B 1 505 861 ACT ACT . 
O 6 GOL B 1 506 880 GOL GOL . 
P 8 HOH A 1 601 16 HOH HOH . 
P 8 HOH A 2 602 49 HOH HOH . 
P 8 HOH A 3 603 61 HOH HOH . 
P 8 HOH A 4 604 48 HOH HOH . 
P 8 HOH A 5 605 24 HOH HOH . 
P 8 HOH A 6 606 56 HOH HOH . 
P 8 HOH A 7 607 66 HOH HOH . 
P 8 HOH A 8 608 13 HOH HOH . 
P 8 HOH A 9 609 35 HOH HOH . 
P 8 HOH A 10 610 9 HOH HOH . 
P 8 HOH A 11 611 72 HOH HOH . 
P 8 HOH A 12 612 42 HOH HOH . 
P 8 HOH A 13 613 19 HOH HOH . 
P 8 HOH A 14 614 28 HOH HOH . 
P 8 HOH A 15 615 29 HOH HOH . 
P 8 HOH A 16 616 73 HOH HOH . 
P 8 HOH A 17 617 34 HOH HOH . 
P 8 HOH A 18 618 47 HOH HOH . 
P 8 HOH A 19 619 82 HOH HOH . 
P 8 HOH A 20 620 11 HOH HOH . 
P 8 HOH A 21 621 36 HOH HOH . 
P 8 HOH A 22 622 78 HOH HOH . 
P 8 HOH A 23 623 31 HOH HOH . 
P 8 HOH A 24 624 67 HOH HOH . 
P 8 HOH A 25 625 77 HOH HOH . 
P 8 HOH A 26 626 38 HOH HOH . 
P 8 HOH A 27 627 71 HOH HOH . 
P 8 HOH A 28 628 33 HOH HOH . 
P 8 HOH A 29 629 5 HOH HOH . 
P 8 HOH A 30 630 70 HOH HOH . 
P 8 HOH A 31 631 37 HOH HOH . 
P 8 HOH A 32 632 46 HOH HOH . 
P 8 HOH A 33 633 64 HOH HOH . 
P 8 HOH A 34 634 14 HOH HOH . 
P 8 HOH A 35 635 4 HOH HOH . 
P 8 HOH A 36 636 63 HOH HOH . 
P 8 HOH A 37 637 76 HOH HOH . 
P 8 HOH A 38 638 80 HOH HOH . 
P 8 HOH A 39 639 2 HOH HOH . 
P 8 HOH A 40 640 17 HOH HOH . 
P 8 HOH A 41 641 65 HOH HOH . 
P 8 HOH A 42 642 62 HOH HOH . 
P 8 HOH A 43 643 81 HOH HOH . 
P 8 HOH A 44 644 74 HOH HOH . 
P 8 HOH A 45 645 22 HOH HOH . 
P 8 HOH A 46 646 75 HOH HOH . 
P 8 HOH A 47 647 20 HOH HOH . 
P 8 HOH A 48 648 18 HOH HOH . 
P 8 HOH A 49 649 23 HOH HOH . 
P 8 HOH A 50 650 79 HOH HOH . 
P 8 HOH A 51 651 39 HOH HOH . 
P 8 HOH A 52 652 43 HOH HOH . 
P 8 HOH A 53 653 45 HOH HOH . 
P 8 HOH A 54 654 55 HOH HOH . 
P 8 HOH A 55 655 68 HOH HOH . 
P 8 HOH A 56 656 3 HOH HOH . 
P 8 HOH A 57 657 40 HOH HOH . 
Q 8 HOH B 1 601 83 HOH HOH . 
Q 8 HOH B 2 602 50 HOH HOH . 
Q 8 HOH B 3 603 6 HOH HOH . 
Q 8 HOH B 4 604 91 HOH HOH . 
Q 8 HOH B 5 605 30 HOH HOH . 
Q 8 HOH B 6 606 69 HOH HOH . 
Q 8 HOH B 7 607 44 HOH HOH . 
Q 8 HOH B 8 608 7 HOH HOH . 
Q 8 HOH B 9 609 93 HOH HOH . 
Q 8 HOH B 10 610 88 HOH HOH . 
Q 8 HOH B 11 611 85 HOH HOH . 
Q 8 HOH B 12 612 32 HOH HOH . 
Q 8 HOH B 13 613 51 HOH HOH . 
Q 8 HOH B 14 614 41 HOH HOH . 
Q 8 HOH B 15 615 8 HOH HOH . 
Q 8 HOH B 16 616 21 HOH HOH . 
Q 8 HOH B 17 617 90 HOH HOH . 
Q 8 HOH B 18 618 54 HOH HOH . 
Q 8 HOH B 19 619 10 HOH HOH . 
Q 8 HOH B 20 620 84 HOH HOH . 
Q 8 HOH B 21 621 12 HOH HOH . 
Q 8 HOH B 22 622 1 HOH HOH . 
Q 8 HOH B 23 623 53 HOH HOH . 
Q 8 HOH B 24 624 26 HOH HOH . 
Q 8 HOH B 25 625 57 HOH HOH . 
Q 8 HOH B 26 626 15 HOH HOH . 
Q 8 HOH B 27 627 27 HOH HOH . 
Q 8 HOH B 28 628 86 HOH HOH . 
Q 8 HOH B 29 629 52 HOH HOH . 
Q 8 HOH B 30 630 89 HOH HOH . 
Q 8 HOH B 31 631 25 HOH HOH . 
Q 8 HOH B 32 632 59 HOH HOH . 
Q 8 HOH B 33 633 58 HOH HOH . 
Q 8 HOH B 34 634 92 HOH HOH . 
Q 8 HOH B 35 635 60 HOH HOH . 
Q 8 HOH B 36 636 87 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 N N1 H4B . . . D 3 8.291 11.76 42.824 1 64.26 ? N1 H4B 502 A 1 
HETATM 2 C C2 H4B . . . D 3 8.217 12.099 41.509 1 61.05 ? C2 H4B 502 A 1 
HETATM 3 N N2 H4B . . . D 3 7.319 11.491 40.689 1 56.1 ? N2 H4B 502 A 1 
HETATM 4 N N3 H4B . . . D 3 9.033 13.048 41.007 1 62.53 ? N3 H4B 502 A 1 
HETATM 5 C C4 H4B . . . D 3 9.933 13.675 41.793 1 65.23 ? C4 H4B 502 A 1 
HETATM 6 O O4 H4B . . . D 3 10.685 14.557 41.306 1 66.72 ? O4 H4B 502 A 1 
HETATM 7 C C4A H4B . . . D 3 10.024 13.321 43.131 1 63.81 ? C4A H4B 502 A 1 
HETATM 8 C C8A H4B . . . D 3 9.185 12.361 43.644 1 62.85 ? C8A H4B 502 A 1 
HETATM 9 N N5 H4B . . . D 3 10.909 13.924 43.941 1 66.66 ? N5 H4B 502 A 1 
HETATM 10 N N8 H4B . . . D 3 9.265 12.016 44.95 1 64.29 ? N8 H4B 502 A 1 
HETATM 11 C C6 H4B . . . D 3 11.328 13.294 45.173 1 69.15 ? C6 H4B 502 A 1 
HETATM 12 C C7 H4B . . . D 3 10.139 12.689 45.908 1 67.65 ? C7 H4B 502 A 1 
HETATM 13 C C9 H4B . . . D 3 12.133 14.288 46.029 1 74.63 ? C9 H4B 502 A 1 
HETATM 14 O O9 H4B . . . D 3 11.47 15.555 46.194 1 74.03 ? O9 H4B 502 A 1 
HETATM 15 C C10 H4B . . . D 3 12.487 13.693 47.387 1 77.48 ? C10 H4B 502 A 1 
HETATM 16 C C11 H4B . . . D 3 13.374 14.641 48.183 1 78.16 ? C11 H4B 502 A 1 
HETATM 17 O O10 H4B . . . D 3 13.182 12.46 47.179 1 79.72 ? O10 H4B 502 A 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    20 
_model_server_stats.query_time_ms           273 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           17 
#