data_6C1W
#
_model_server_result.job_id            5Lcf6NlFh7c_VBHD3JFv1Q 
_model_server_result.datetime_utc      '2025-02-24 00:05:27' 
_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          6c1w 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"T","auth_seq_id":501}' 
#
_entry.id    6C1W 
#
_exptl.entry_id    6C1W 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              396.353 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            3-methanethioyl-1-(5-O-phosphono-beta-D-ribofuranosyl)-5-(sulfanylcarbonyl)pyridin-1-ium 
_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            6C1W 
_cell.length_a            69.365 
_cell.length_b            157.897 
_cell.length_c            158.988 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6C1W 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
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 
PISA monomeric 1 author_and_software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D,E,F,G,H,I,AA 1 1 
B,J,K,L,M,N,O,P,Q,R,S,BA 2 1 
C,T,U,V,W,X,Y,Z,CA 3 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
? 5 J N N 
? 5 T 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 NZ LYS 184 A LYS 184 1_555 D C7 ENJ . A ENJ 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? 
covale ? covale2 B NZ LYS 184 B LYS 184 1_555 J C7 4EY . B 4EY 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.398 ? 
covale ? covale3 C NZ LYS 184 C LYS 184 1_555 T C7 4EY . C 4EY 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.415 ? 
metalc ? metalc1 A NE2 HIS 200 A HIS 200 1_555 E NI NI . A NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? 
metalc ? metalc2 D S2 ENJ . A ENJ 501 1_555 E NI NI . A NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? 
metalc ? metalc3 D S7 ENJ . A ENJ 501 1_555 E NI NI . A NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? 
metalc ? metalc4 B NE2 HIS 200 B HIS 200 1_555 K NI NI . B NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? 
metalc ? metalc5 J S7 4EY . B 4EY 501 1_555 K NI NI . B NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? 
metalc ? metalc6 J S2 4EY . B 4EY 501 1_555 K NI NI . B NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.419 ? 
metalc ? metalc7 C NE2 HIS 200 C HIS 200 1_555 U NI NI . C NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
metalc ? metalc8 T S7 4EY . C 4EY 501 1_555 U NI NI . C NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? 
metalc ? metalc9 T S2 4EY . C 4EY 501 1_555 U NI NI . C NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? 
#
_chem_comp.formula           'C12 H15 N O8 P S2 1' 
_chem_comp.formula_weight    396.353 
_chem_comp.id                4EY 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              3-methanethioyl-1-(5-O-phosphono-beta-D-ribofuranosyl)-5-(sulfanylcarbonyl)pyridin-1-ium 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'Dithiodinicotinic acid mononucleotide' 
#
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
O4R C4R 4EY sing 1 n n 
O4R C1R 4EY sing 2 n n 
O3R C3R 4EY sing 3 n n 
C4R C3R 4EY sing 4 n n 
C4R C5R 4EY sing 5 n n 
C1R N1 4EY sing 6 n n 
C1R C2R 4EY sing 7 n n 
O2 C1 4EY doub 8 n n 
C3R C2R 4EY sing 9 n n 
C6 N1 4EY doub 10 n y 
C6 C5 4EY sing 11 n y 
C5R O5R 4EY sing 12 n n 
N1 C2 4EY sing 13 n y 
O2R C2R 4EY sing 14 n n 
C1 C5 4EY sing 15 n n 
C1 S2 4EY sing 16 n n 
C5 C4 4EY doub 17 n y 
C2 C3 4EY doub 18 n y 
O5R P 4EY sing 19 n n 
C4 C3 4EY sing 20 n y 
C3 C7 4EY sing 21 n n 
C7 S7 4EY doub 22 n n 
P O3P 4EY doub 23 n n 
P O1P 4EY sing 24 n n 
P O2P 4EY sing 25 n n 
C2 H1 4EY sing 26 n n 
C4 H2 4EY sing 27 n n 
C6 H3 4EY sing 28 n n 
O2P H4 4EY sing 29 n n 
O1P H5 4EY sing 30 n n 
C5R H6 4EY sing 31 n n 
C5R H7 4EY sing 32 n n 
C4R H8 4EY sing 33 n n 
C3R H9 4EY sing 34 n n 
O3R H10 4EY sing 35 n n 
C2R H11 4EY sing 36 n n 
O2R H12 4EY sing 37 n n 
C1R H13 4EY sing 38 n n 
C7 H14 4EY sing 39 n n 
S2 H15 4EY sing 40 n n 
#
_atom_sites.entry_id                     6C1W 
_atom_sites.fract_transf_matrix[1][1]    0.014416 
_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]    0.006333 
_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]    0.00629 
_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
D 2 ENJ A 1 501 502 ENJ 4ES . 
E 3 NI A 1 502 603 NI NI . 
F 4 SO4 A 1 503 804 SO4 SO4 . 
G 4 SO4 A 1 504 805 SO4 SO4 . 
H 4 SO4 A 1 505 806 SO4 SO4 . 
I 4 SO4 A 1 506 807 SO4 SO4 . 
J 5 4EY B 1 501 503 4EY 4EY . 
K 3 NI B 1 502 601 NI NI . 
L 4 SO4 B 1 503 802 SO4 SO4 . 
M 4 SO4 B 1 504 808 SO4 SO4 . 
N 4 SO4 B 1 505 809 SO4 SO4 . 
O 4 SO4 B 1 506 810 SO4 SO4 . 
P 4 SO4 B 1 507 811 SO4 SO4 . 
Q 4 SO4 B 1 508 812 SO4 SO4 . 
R 4 SO4 B 1 509 817 SO4 SO4 . 
S 4 SO4 B 1 510 819 SO4 SO4 . 
T 5 4EY C 1 501 504 4EY 4EY . 
U 3 NI C 1 502 602 NI NI . 
V 6 SO3 C 1 503 702 SO3 SO3 . 
W 4 SO4 C 1 504 813 SO4 SO4 . 
X 4 SO4 C 1 505 814 SO4 SO4 . 
Y 4 SO4 C 1 506 815 SO4 SO4 . 
Z 4 SO4 C 1 507 816 SO4 SO4 . 
AA 7 HOH A 1 601 89 HOH HOH . 
AA 7 HOH A 2 602 98 HOH HOH . 
AA 7 HOH A 3 603 73 HOH HOH . 
AA 7 HOH A 4 604 46 HOH HOH . 
AA 7 HOH A 5 605 50 HOH HOH . 
AA 7 HOH A 6 606 115 HOH HOH . 
AA 7 HOH A 7 607 101 HOH HOH . 
AA 7 HOH A 8 608 51 HOH HOH . 
AA 7 HOH A 9 609 81 HOH HOH . 
AA 7 HOH A 10 610 39 HOH HOH . 
AA 7 HOH A 11 611 62 HOH HOH . 
AA 7 HOH A 12 612 65 HOH HOH . 
AA 7 HOH A 13 613 7 HOH HOH . 
AA 7 HOH A 14 614 20 HOH HOH . 
AA 7 HOH A 15 615 25 HOH HOH . 
AA 7 HOH A 16 616 118 HOH HOH . 
AA 7 HOH A 17 617 67 HOH HOH . 
AA 7 HOH A 18 618 12 HOH HOH . 
AA 7 HOH A 19 619 43 HOH HOH . 
AA 7 HOH A 20 620 5 HOH HOH . 
AA 7 HOH A 21 621 58 HOH HOH . 
AA 7 HOH A 22 622 111 HOH HOH . 
AA 7 HOH A 23 623 31 HOH HOH . 
AA 7 HOH A 24 624 76 HOH HOH . 
AA 7 HOH A 25 625 17 HOH HOH . 
AA 7 HOH A 26 626 71 HOH HOH . 
AA 7 HOH A 27 627 3 HOH HOH . 
AA 7 HOH A 28 628 14 HOH HOH . 
AA 7 HOH A 29 629 120 HOH HOH . 
AA 7 HOH A 30 630 37 HOH HOH . 
AA 7 HOH A 31 631 45 HOH HOH . 
AA 7 HOH A 32 632 80 HOH HOH . 
AA 7 HOH A 33 633 102 HOH HOH . 
AA 7 HOH A 34 634 97 HOH HOH . 
AA 7 HOH A 35 635 28 HOH HOH . 
AA 7 HOH A 36 636 10 HOH HOH . 
AA 7 HOH A 37 637 30 HOH HOH . 
AA 7 HOH A 38 638 42 HOH HOH . 
AA 7 HOH A 39 639 91 HOH HOH . 
AA 7 HOH A 40 640 100 HOH HOH . 
AA 7 HOH A 41 641 82 HOH HOH . 
AA 7 HOH A 42 642 96 HOH HOH . 
AA 7 HOH A 43 643 99 HOH HOH . 
AA 7 HOH A 44 644 108 HOH HOH . 
BA 7 HOH B 1 601 6 HOH HOH . 
BA 7 HOH B 2 602 88 HOH HOH . 
BA 7 HOH B 3 603 54 HOH HOH . 
BA 7 HOH B 4 604 4 HOH HOH . 
BA 7 HOH B 5 605 11 HOH HOH . 
BA 7 HOH B 6 606 55 HOH HOH . 
BA 7 HOH B 7 607 64 HOH HOH . 
BA 7 HOH B 8 608 93 HOH HOH . 
BA 7 HOH B 9 609 38 HOH HOH . 
BA 7 HOH B 10 610 9 HOH HOH . 
BA 7 HOH B 11 611 8 HOH HOH . 
BA 7 HOH B 12 612 29 HOH HOH . 
BA 7 HOH B 13 613 13 HOH HOH . 
BA 7 HOH B 14 614 105 HOH HOH . 
BA 7 HOH B 15 615 48 HOH HOH . 
BA 7 HOH B 16 616 63 HOH HOH . 
BA 7 HOH B 17 617 84 HOH HOH . 
BA 7 HOH B 18 618 117 HOH HOH . 
BA 7 HOH B 19 619 32 HOH HOH . 
BA 7 HOH B 20 620 119 HOH HOH . 
BA 7 HOH B 21 621 77 HOH HOH . 
BA 7 HOH B 22 622 22 HOH HOH . 
BA 7 HOH B 23 623 15 HOH HOH . 
BA 7 HOH B 24 624 56 HOH HOH . 
BA 7 HOH B 25 625 66 HOH HOH . 
BA 7 HOH B 26 626 21 HOH HOH . 
BA 7 HOH B 27 627 110 HOH HOH . 
BA 7 HOH B 28 628 109 HOH HOH . 
BA 7 HOH B 29 629 70 HOH HOH . 
BA 7 HOH B 30 630 95 HOH HOH . 
BA 7 HOH B 31 631 92 HOH HOH . 
BA 7 HOH B 32 632 78 HOH HOH . 
BA 7 HOH B 33 633 61 HOH HOH . 
CA 7 HOH C 1 601 112 HOH HOH . 
CA 7 HOH C 2 602 47 HOH HOH . 
CA 7 HOH C 3 603 1 HOH HOH . 
CA 7 HOH C 4 604 79 HOH HOH . 
CA 7 HOH C 5 605 114 HOH HOH . 
CA 7 HOH C 6 606 24 HOH HOH . 
CA 7 HOH C 7 607 104 HOH HOH . 
CA 7 HOH C 8 608 113 HOH HOH . 
CA 7 HOH C 9 609 35 HOH HOH . 
CA 7 HOH C 10 610 68 HOH HOH . 
CA 7 HOH C 11 611 23 HOH HOH . 
CA 7 HOH C 12 612 36 HOH HOH . 
CA 7 HOH C 13 613 27 HOH HOH . 
CA 7 HOH C 14 614 74 HOH HOH . 
CA 7 HOH C 15 615 26 HOH HOH . 
CA 7 HOH C 16 616 49 HOH HOH . 
CA 7 HOH C 17 617 103 HOH HOH . 
CA 7 HOH C 18 618 16 HOH HOH . 
CA 7 HOH C 19 619 83 HOH HOH . 
CA 7 HOH C 20 620 85 HOH HOH . 
CA 7 HOH C 21 621 33 HOH HOH . 
CA 7 HOH C 22 622 87 HOH HOH . 
CA 7 HOH C 23 623 59 HOH HOH . 
CA 7 HOH C 24 624 94 HOH HOH . 
CA 7 HOH C 25 625 86 HOH HOH . 
CA 7 HOH C 26 626 34 HOH HOH . 
CA 7 HOH C 27 627 75 HOH HOH . 
CA 7 HOH C 28 628 52 HOH HOH . 
CA 7 HOH C 29 629 90 HOH HOH . 
CA 7 HOH C 30 630 72 HOH HOH . 
CA 7 HOH C 31 631 116 HOH HOH . 
CA 7 HOH C 32 632 107 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 C2 4EY . . . T 5 -38.822 4.081 72.51 1 50.97 ? C2 4EY 501 C 1 
HETATM 2 C C3 4EY . . . T 5 -40.142 3.653 72.66 1 53.56 ? C3 4EY 501 C 1 
HETATM 3 C C1 4EY . . . T 5 -41.24 3.367 69.116 1 50.16 ? C1 4EY 501 C 1 
HETATM 4 C C4 4EY . . . T 5 -40.894 3.449 71.559 1 52.77 ? C4 4EY 501 C 1 
HETATM 5 C C5 4EY . . . T 5 -40.359 3.655 70.33 1 51.37 ? C5 4EY 501 C 1 
HETATM 6 C C6 4EY . . . T 5 -39.054 4.075 70.158 1 48.62 ? C6 4EY 501 C 1 
HETATM 7 O O2 4EY . . . T 5 -40.949 3.751 68.045 1 50.65 ? O2 4EY 501 C 1 
HETATM 8 O O2P 4EY . . . T 5 -35.6 6.585 75.759 1 41.91 ? O2P 4EY 501 C 1 
HETATM 9 P P 4EY . . . T 5 -36.337 5.29 75.855 1 50.83 ? P 4EY 501 C 1 
HETATM 10 O O3P 4EY . . . T 5 -37.802 5.517 75.564 1 44.29 ? O3P 4EY 501 C 1 
HETATM 11 O O1P 4EY . . . T 5 -36.278 4.631 77.219 1 44.43 ? O1P 4EY 501 C 1 
HETATM 12 O O5R 4EY . . . T 5 -35.453 4.255 74.878 1 48.63 ? O5R 4EY 501 C 1 
HETATM 13 C C5R 4EY . . . T 5 -35.967 3.678 73.717 1 44.94 ? C5R 4EY 501 C 1 
HETATM 14 C C4R 4EY . . . T 5 -35.27 4.164 72.502 1 48.23 ? C4R 4EY 501 C 1 
HETATM 15 O O4R 4EY . . . T 5 -36.07 3.749 71.348 1 51.71 ? O4R 4EY 501 C 1 
HETATM 16 C C3R 4EY . . . T 5 -35.152 5.494 72.448 1 46.76 ? C3R 4EY 501 C 1 
HETATM 17 O O3R 4EY . . . T 5 -34.074 5.895 71.521 1 47.29 ? O3R 4EY 501 C 1 
HETATM 18 C C2R 4EY . . . T 5 -36.494 5.971 71.882 1 44.8 ? C2R 4EY 501 C 1 
HETATM 19 O O2R 4EY . . . T 5 -36.306 6.965 71.022 1 46.27 ? O2R 4EY 501 C 1 
HETATM 20 C C1R 4EY . . . T 5 -36.909 4.71 71.039 1 52.13 ? C1R 4EY 501 C 1 
HETATM 21 N N1 4EY . . . T 5 -38.299 4.281 71.266 1 53.97 ? N1 4EY 501 C 1 
HETATM 22 C C7 4EY . . . T 5 -40.754 3.368 74.039 1 51.02 ? C7 4EY 501 C 1 
HETATM 23 S S7 4EY . . . T 5 -42.16 2.596 74.111 1 50.77 ? S7 4EY 501 C 1 
HETATM 24 S S2 4EY . . . T 5 -42.701 2.316 69.431 1 57.37 ? S2 4EY 501 C 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    20 
_model_server_stats.query_time_ms           318 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           24 
#