data_4CKB
#
_model_server_result.job_id            LXNScsndsMfcierm26ao-A 
_model_server_result.datetime_utc      '2024-12-01 19:06:39' 
_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          4ckb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":1845}' 
#
_entry.id    4CKB 
#
_exptl.entry_id    4CKB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              384.411 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            S-ADENOSYL-L-HOMOCYSTEINE 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90.13 
_cell.angle_beta          109.27 
_cell.angle_gamma         94.05 
_cell.entry_id            4CKB 
_cell.length_a            60.34 
_cell.length_b            197.73 
_cell.length_c            61.11 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4CKB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 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
C,D,F,G,J,K 1 1 
A,B,E,H,I 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 E N N 
? 3 F N N 
#
_chem_comp.formula           'C14 H20 N6 O5 S' 
_chem_comp.formula_weight    384.411 
_chem_comp.id                SAH 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              S-ADENOSYL-L-HOMOCYSTEINE 
_chem_comp.type              'l-peptide linking' 
_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
N CA SAH sing 327 n n 
N HN1 SAH sing 328 n n 
N HN2 SAH sing 329 n n 
CA CB SAH sing 330 n n 
CA C SAH sing 331 n n 
CA HA SAH sing 332 n n 
CB CG SAH sing 333 n n 
CB HB1 SAH sing 334 n n 
CB HB2 SAH sing 335 n n 
CG SD SAH sing 336 n n 
CG HG1 SAH sing 337 n n 
CG HG2 SAH sing 338 n n 
SD C5' SAH sing 339 n n 
C O SAH doub 340 n n 
C OXT SAH sing 341 n n 
OXT HXT SAH sing 342 n n 
C5' C4' SAH sing 343 n n 
C5' "H5'1" SAH sing 344 n n 
C5' "H5'2" SAH sing 345 n n 
C4' O4' SAH sing 346 n n 
C4' C3' SAH sing 347 n n 
C4' H4' SAH sing 348 n n 
O4' C1' SAH sing 349 n n 
C3' O3' SAH sing 350 n n 
C3' C2' SAH sing 351 n n 
C3' H3' SAH sing 352 n n 
O3' HO3' SAH sing 353 n n 
C2' O2' SAH sing 354 n n 
C2' C1' SAH sing 355 n n 
C2' H2' SAH sing 356 n n 
O2' HO2' SAH sing 357 n n 
C1' N9 SAH sing 358 n n 
C1' H1' SAH sing 359 n n 
N9 C8 SAH sing 360 n y 
N9 C4 SAH sing 361 n y 
C8 N7 SAH doub 362 n y 
C8 H8 SAH sing 363 n n 
N7 C5 SAH sing 364 n y 
C5 C6 SAH sing 365 n y 
C5 C4 SAH doub 366 n y 
C6 N6 SAH sing 367 n n 
C6 N1 SAH doub 368 n y 
N6 HN61 SAH sing 369 n n 
N6 HN62 SAH sing 370 n n 
N1 C2 SAH sing 371 n y 
C2 N3 SAH doub 372 n y 
C2 H2 SAH sing 373 n n 
N3 C4 SAH sing 374 n y 
#
_atom_sites.entry_id                     4CKB 
_atom_sites.fract_transf_matrix[1][1]    0.016573 
_atom_sites.fract_transf_matrix[1][2]    0.001173 
_atom_sites.fract_transf_matrix[1][3]    0.005828 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00507 
_atom_sites.fract_transf_matrix[2][3]    0.000138 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.017342 
_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 3 SAH A 1 1845 1845 SAH SAH . 
F 3 SAH D 1 1845 1845 SAH SAH . 
G 4 GTP D 1 1846 1846 GTP GTP . 
H 5 HOH A 1 2001 2001 HOH HOH . 
H 5 HOH A 2 2002 2002 HOH HOH . 
H 5 HOH A 3 2003 2003 HOH HOH . 
H 5 HOH A 4 2004 2004 HOH HOH . 
H 5 HOH A 5 2005 2005 HOH HOH . 
H 5 HOH A 6 2006 2006 HOH HOH . 
H 5 HOH A 7 2007 2007 HOH HOH . 
H 5 HOH A 8 2008 2008 HOH HOH . 
H 5 HOH A 9 2009 2009 HOH HOH . 
I 5 HOH B 1 2001 2001 HOH HOH . 
I 5 HOH B 2 2002 2002 HOH HOH . 
I 5 HOH B 3 2003 2003 HOH HOH . 
I 5 HOH B 4 2004 2004 HOH HOH . 
J 5 HOH D 1 2001 2001 HOH HOH . 
J 5 HOH D 2 2002 2002 HOH HOH . 
J 5 HOH D 3 2003 2003 HOH HOH . 
J 5 HOH D 4 2004 2004 HOH HOH . 
J 5 HOH D 5 2005 2005 HOH HOH . 
J 5 HOH D 6 2006 2006 HOH HOH . 
J 5 HOH D 7 2007 2007 HOH HOH . 
J 5 HOH D 8 2008 2008 HOH HOH . 
J 5 HOH D 9 2009 2009 HOH HOH . 
J 5 HOH D 10 2010 2010 HOH HOH . 
K 5 HOH E 1 2001 2001 HOH HOH . 
K 5 HOH E 2 2002 2002 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 N SAH . . . F 3 -48.852 -80.318 11.98 1 64.78 ? N SAH 1845 D 1 
HETATM 2 C CA SAH . . . F 3 -50.262 -80.494 11.486 1 65.85 ? CA SAH 1845 D 1 
HETATM 3 C CB SAH . . . F 3 -51.152 -79.269 11.768 1 63.94 ? CB SAH 1845 D 1 
HETATM 4 C CG SAH . . . F 3 -50.554 -77.933 11.321 1 62.07 ? CG SAH 1845 D 1 
HETATM 5 S SD SAH . . . F 3 -51.799 -76.674 11.319 1 59.18 ? SD SAH 1845 D 1 
HETATM 6 C C SAH . . . F 3 -50.264 -80.825 10.017 1 67.69 ? C SAH 1845 D 1 
HETATM 7 O O SAH . . . F 3 -49.212 -80.95 9.398 1 68.31 ? O SAH 1845 D 1 
HETATM 8 O OXT SAH . . . F 3 -51.314 -80.995 9.39 1 69.82 ? OXT SAH 1845 D 1 
HETATM 9 C C5' SAH . . . F 3 -51.181 -75.495 12.471 1 58.6 ? C5' SAH 1845 D 1 
HETATM 10 C C4' SAH . . . F 3 -51.321 -76.022 13.895 1 58.85 ? C4' SAH 1845 D 1 
HETATM 11 O O4' SAH . . . F 3 -50.52 -75.242 14.785 1 58.55 ? O4' SAH 1845 D 1 
HETATM 12 C C3' SAH . . . F 3 -52.742 -75.952 14.429 1 59.5 ? C3' SAH 1845 D 1 
HETATM 13 O O3' SAH . . . F 3 -53.114 -77.227 14.96 1 60.86 ? O3' SAH 1845 D 1 
HETATM 14 C C2' SAH . . . F 3 -52.709 -74.911 15.52 1 58.92 ? C2' SAH 1845 D 1 
HETATM 15 O O2' SAH . . . F 3 -53.58 -75.214 16.607 1 59.03 ? O2' SAH 1845 D 1 
HETATM 16 C C1' SAH . . . F 3 -51.261 -74.955 15.965 1 59.09 ? C1' SAH 1845 D 1 
HETATM 17 N N9 SAH . . . F 3 -50.807 -73.693 16.605 1 60.45 ? N9 SAH 1845 D 1 
HETATM 18 C C8 SAH . . . F 3 -50.036 -73.631 17.711 1 60.81 ? C8 SAH 1845 D 1 
HETATM 19 N N7 SAH . . . F 3 -49.796 -72.341 18.065 1 60.87 ? N7 SAH 1845 D 1 
HETATM 20 C C5 SAH . . . F 3 -50.414 -71.555 17.173 1 61.23 ? C5 SAH 1845 D 1 
HETATM 21 C C6 SAH . . . F 3 -50.567 -70.104 16.965 1 62.57 ? C6 SAH 1845 D 1 
HETATM 22 N N6 SAH . . . F 3 -49.978 -69.216 17.802 1 64.53 ? N6 SAH 1845 D 1 
HETATM 23 N N1 SAH . . . F 3 -51.309 -69.689 15.912 1 62.94 ? N1 SAH 1845 D 1 
HETATM 24 C C2 SAH . . . F 3 -51.895 -70.55 15.065 1 62.48 ? C2 SAH 1845 D 1 
HETATM 25 N N3 SAH . . . F 3 -51.791 -71.882 15.199 1 62.44 ? N3 SAH 1845 D 1 
HETATM 26 C C4 SAH . . . F 3 -51.082 -72.442 16.212 1 61.35 ? C4 SAH 1845 D 1 
#
_model_server_stats.io_time_ms              94 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           319 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           26 
#