data_2WTZ
#
_model_server_result.job_id            801dCiaRwPvrAmlpHqdd1Q 
_model_server_result.datetime_utc      '2024-11-27 19:02:59' 
_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          2wtz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":1498}' 
#
_entry.id    2WTZ 
#
_exptl.entry_id    2WTZ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              879.608 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "URIDINE-5'-DIPHOSPHATE-N-ACETYLMURAMOYL-L-ALANINE-D-GLUTAMATE" 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         111.09 
_cell.angle_beta          92.16 
_cell.angle_gamma         93.98 
_cell.entry_id            2WTZ 
_cell.length_a            76.92 
_cell.length_b            79.8 
_cell.length_c            82.92 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2WTZ 
_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 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 
PISA monomeric 1 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F 1 1 
B,G,H 2 1 
C,I,J 3 1 
D,K,L 4 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 E N N 
? 2 G N N 
? 2 I 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 ALA 261 A ALA 261 1_555 A N KCX 262 A KCX 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale2 A C KCX 262 A KCX 262 1_555 A N ALA 263 A ALA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale3 B C ALA 261 B ALA 261 1_555 B N KCX 262 B KCX 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale4 B C KCX 262 B KCX 262 1_555 B N ALA 263 B ALA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? 
covale ? covale5 C C ALA 261 C ALA 261 1_555 C N KCX 262 C KCX 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale6 C C KCX 262 C KCX 262 1_555 C N ALA 263 C ALA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale7 D C ALA 261 D ALA 261 1_555 D N KCX 262 D KCX 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale8 D C KCX 262 D KCX 262 1_555 D N ALA 263 D ALA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
metalc ? metalc1 A NE2 HIS 248 A HIS 248 1_555 F MG MG . A MG 1499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? 
metalc ? metalc2 E O21 UAG . A UAG 1498 1_555 F MG MG . A MG 1499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? 
metalc ? metalc3 B NE2 HIS 248 B HIS 248 1_555 H MG MG . B MG 1499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
metalc ? metalc4 G O21 UAG . B UAG 1498 1_555 H MG MG . B MG 1499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? 
metalc ? metalc5 C NE2 HIS 248 C HIS 248 1_555 J MG MG . C MG 1499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
metalc ? metalc6 I O21 UAG . C UAG 1498 1_555 J MG MG . C MG 1499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? 
metalc ? metalc7 D NE2 HIS 248 D HIS 248 1_555 L MG MG . D MG 1499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
metalc ? metalc8 K O21 UAG . D UAG 1498 1_555 L MG MG . D MG 1499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? 
#
_chem_comp.formula           'C28 H43 N5 O23 P2' 
_chem_comp.formula_weight    879.608 
_chem_comp.id                UAG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "URIDINE-5'-DIPHOSPHATE-N-ACETYLMURAMOYL-L-ALANINE-D-GLUTAMATE" 
_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
C6 C5 UAG doub 382 n n 
C6 N1 UAG sing 383 n n 
C6 H6 UAG sing 384 n n 
C5 C4 UAG sing 385 n n 
C5 H5 UAG sing 386 n n 
C4 O4 UAG doub 387 n n 
C4 N3 UAG sing 388 n n 
N3 C2 UAG sing 389 n n 
N3 HN3 UAG sing 390 n n 
C2 O2 UAG doub 391 n n 
C2 N1 UAG sing 392 n n 
N1 C1B UAG sing 393 n n 
C1B C2B UAG sing 394 n n 
C1B O4B UAG sing 395 n n 
C1B H1B UAG sing 396 n n 
C2B O2' UAG sing 397 n n 
C2B C3B UAG sing 398 n n 
C2B H2B UAG sing 399 n n 
O2' "HO'2" UAG sing 400 n n 
C3B O3B UAG sing 401 n n 
C3B C4B UAG sing 402 n n 
C3B H3B UAG sing 403 n n 
O3B "HO'3" UAG sing 404 n n 
C4B O4B UAG sing 405 n n 
C4B C5B UAG sing 406 n n 
C4B H4B UAG sing 407 n n 
C5B O5B UAG sing 408 n n 
C5B "H5'1" UAG sing 409 n n 
C5B "H5'2" UAG sing 410 n n 
O5B PA UAG sing 411 n n 
PA O1A UAG doub 412 n n 
PA O2A UAG sing 413 n n 
PA O3A UAG sing 414 n n 
O2A HOA2 UAG sing 415 n n 
O3A PB UAG sing 416 n n 
PB O1B UAG doub 417 n n 
PB O2B UAG sing 418 n n 
PB O1' UAG sing 419 n n 
O2B HOB2 UAG sing 420 n n 
C1' O1' UAG sing 421 n n 
C1' C2' UAG sing 422 n n 
C1' O5' UAG sing 423 n n 
C1' H1' UAG sing 424 n n 
C2' N2' UAG sing 425 n n 
C2' C3' UAG sing 426 n n 
C2' H2' UAG sing 427 n n 
N2' C7' UAG sing 428 n n 
N2' HN2' UAG sing 429 n n 
C7' O7' UAG doub 430 n n 
C7' C8' UAG sing 431 n n 
C8' "H8'1" UAG sing 432 n n 
C8' "H8'2" UAG sing 433 n n 
C8' "H8'3" UAG sing 434 n n 
C3' O3' UAG sing 435 n n 
C3' C4' UAG sing 436 n n 
C3' H3' UAG sing 437 n n 
O3' C18 UAG sing 438 n n 
C4' O4' UAG sing 439 n n 
C4' C5' UAG sing 440 n n 
C4' H4' UAG sing 441 n n 
O4' HO4' UAG sing 442 n n 
C5' O5' UAG sing 443 n n 
C5' C6' UAG sing 444 n n 
C5' H5' UAG sing 445 n n 
C6' O6' UAG sing 446 n n 
C6' "H6'1" UAG sing 447 n n 
C6' "H6'2" UAG sing 448 n n 
O6' HO6' UAG sing 449 n n 
C18 C20 UAG sing 450 n n 
C18 C19 UAG sing 451 n n 
C18 H18 UAG sing 452 n n 
C20 H201 UAG sing 453 n n 
C20 H202 UAG sing 454 n n 
C20 H203 UAG sing 455 n n 
C19 O18 UAG doub 456 n n 
C19 N4 UAG sing 457 n n 
N4 C21 UAG sing 458 n n 
N4 HN4 UAG sing 459 n n 
C21 C23 UAG sing 460 n n 
C21 C22 UAG sing 461 n n 
C21 H21 UAG sing 462 n n 
C23 H231 UAG sing 463 n n 
C23 H232 UAG sing 464 n n 
C23 H233 UAG sing 465 n n 
C22 O19 UAG doub 466 n n 
C22 N5 UAG sing 467 n n 
N5 C24 UAG sing 468 n n 
N5 HN5 UAG sing 469 n n 
C24 C25 UAG sing 470 n n 
C24 C28 UAG sing 471 n n 
C24 H24 UAG sing 472 n n 
C25 C26 UAG sing 473 n n 
C25 H251 UAG sing 474 n n 
C25 H252 UAG sing 475 n n 
C26 C27 UAG sing 476 n n 
C26 H261 UAG sing 477 n n 
C26 H262 UAG sing 478 n n 
C27 O20 UAG doub 479 n n 
C27 O21 UAG sing 480 n n 
O21 HO1 UAG sing 481 n n 
C28 O22 UAG doub 482 n n 
C28 O23 UAG sing 483 n n 
O23 HO3 UAG sing 484 n n 
#
_atom_sites.entry_id                     2WTZ 
_atom_sites.fract_transf_matrix[1][1]    0.013001 
_atom_sites.fract_transf_matrix[1][2]    0.000905 
_atom_sites.fract_transf_matrix[1][3]    0.000879 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012562 
_atom_sites.fract_transf_matrix[2][3]    0.004903 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.012955 
_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 2 UAG A 1 1498 1498 UAG UAG . 
F 3 MG A 1 1499 1499 MG MG . 
G 2 UAG B 1 1498 1498 UAG UAG . 
H 3 MG B 1 1499 1499 MG MG . 
I 2 UAG C 1 1498 1498 UAG UAG . 
J 3 MG C 1 1499 1499 MG MG . 
K 2 UAG D 1 1498 1498 UAG UAG . 
L 3 MG D 1 1499 1499 MG MG . 
#
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 C6 UAG . . . K 2 6.283 -61.681 36.991 1 39.89 ? C6 UAG 1498 D 1 
HETATM 2 C C5 UAG . . . K 2 6.302 -63.063 36.951 1 38.97 ? C5 UAG 1498 D 1 
HETATM 3 C C4 UAG . . . K 2 5.808 -63.771 38.037 1 40.4 ? C4 UAG 1498 D 1 
HETATM 4 O O4 UAG . . . K 2 5.813 -64.994 38.023 1 41.22 ? O4 UAG 1498 D 1 
HETATM 5 N N3 UAG . . . K 2 5.296 -63.12 39.166 1 41.61 ? N3 UAG 1498 D 1 
HETATM 6 C C2 UAG . . . K 2 5.279 -61.713 39.217 1 41.39 ? C2 UAG 1498 D 1 
HETATM 7 O O2 UAG . . . K 2 4.832 -61.141 40.209 1 41.75 ? O2 UAG 1498 D 1 
HETATM 8 N N1 UAG . . . K 2 5.774 -60.988 38.119 1 39.71 ? N1 UAG 1498 D 1 
HETATM 9 C C1B UAG . . . K 2 5.776 -59.514 38.134 1 37.44 ? C1B UAG 1498 D 1 
HETATM 10 C C2B UAG . . . K 2 7.252 -59.168 38.024 1 36.22 ? C2B UAG 1498 D 1 
HETATM 11 O O2' UAG . . . K 2 7.834 -59.135 39.327 1 36.63 ? O2' UAG 1498 D 1 
HETATM 12 C C3B UAG . . . K 2 7.19 -57.787 37.399 1 35.01 ? C3B UAG 1498 D 1 
HETATM 13 O O3B UAG . . . K 2 6.885 -56.817 38.394 1 33 ? O3B UAG 1498 D 1 
HETATM 14 C C4B UAG . . . K 2 5.992 -57.899 36.449 1 34.94 ? C4B UAG 1498 D 1 
HETATM 15 O O4B UAG . . . K 2 5.176 -58.997 36.931 1 35.97 ? O4B UAG 1498 D 1 
HETATM 16 C C5B UAG . . . K 2 6.309 -58.105 34.952 1 34.77 ? C5B UAG 1498 D 1 
HETATM 17 O O5B UAG . . . K 2 7.491 -58.888 34.725 1 36.08 ? O5B UAG 1498 D 1 
HETATM 18 P PA UAG . . . K 2 8.572 -58.643 33.472 1 37.77 ? PA UAG 1498 D 1 
HETATM 19 O O1A UAG . . . K 2 8.713 -60.164 33.858 1 38.58 ? O1A UAG 1498 D 1 
HETATM 20 O O2A UAG . . . K 2 7.41 -58.191 32.626 1 39.52 ? O2A UAG 1498 D 1 
HETATM 21 O O3A UAG . . . K 2 9.241 -57.585 34.537 1 34.79 ? O3A UAG 1498 D 1 
HETATM 22 P PB UAG . . . K 2 10.096 -56.323 34.019 1 34.17 ? PB UAG 1498 D 1 
HETATM 23 O O1B UAG . . . K 2 10.114 -56.35 32.424 1 34.78 ? O1B UAG 1498 D 1 
HETATM 24 O O2B UAG . . . K 2 9.644 -54.982 34.486 1 35.02 ? O2B UAG 1498 D 1 
HETATM 25 C C1' UAG . . . K 2 12.231 -56.023 35.582 1 32.73 ? C1' UAG 1498 D 1 
HETATM 26 O O1' UAG . . . K 2 11.586 -56.648 34.478 1 32.46 ? O1' UAG 1498 D 1 
HETATM 27 C C2' UAG . . . K 2 13.711 -56.297 35.415 1 31.94 ? C2' UAG 1498 D 1 
HETATM 28 N N2' UAG . . . K 2 14.037 -56.047 34.009 1 31.89 ? N2' UAG 1498 D 1 
HETATM 29 C C7' UAG . . . K 2 14.612 -54.953 33.496 1 30.99 ? C7' UAG 1498 D 1 
HETATM 30 O O7' UAG . . . K 2 14.947 -53.945 34.108 1 30.18 ? O7' UAG 1498 D 1 
HETATM 31 C C8' UAG . . . K 2 14.821 -55.022 31.986 1 31.04 ? C8' UAG 1498 D 1 
HETATM 32 C C3' UAG . . . K 2 14.012 -57.768 35.714 1 32.27 ? C3' UAG 1498 D 1 
HETATM 33 O O3' UAG . . . K 2 15.429 -57.967 35.833 1 33.41 ? O3' UAG 1498 D 1 
HETATM 34 C C4' UAG . . . K 2 13.38 -58.235 37.013 1 32.09 ? C4' UAG 1498 D 1 
HETATM 35 O O4' UAG . . . K 2 13.457 -59.652 37.06 1 33.97 ? O4' UAG 1498 D 1 
HETATM 36 C C5' UAG . . . K 2 11.912 -57.871 37.075 1 31.54 ? C5' UAG 1498 D 1 
HETATM 37 O O5' UAG . . . K 2 11.796 -56.497 36.89 1 32.31 ? O5' UAG 1498 D 1 
HETATM 38 C C6' UAG . . . K 2 11.398 -58.115 38.467 1 31.38 ? C6' UAG 1498 D 1 
HETATM 39 O O6' UAG . . . K 2 12.004 -57.177 39.354 1 31.44 ? O6' UAG 1498 D 1 
HETATM 40 C C18 UAG . . . K 2 15.998 -58.717 34.736 1 33.07 ? C18 UAG 1498 D 1 
HETATM 41 C C20 UAG . . . K 2 16.5 -60.023 35.313 1 32.2 ? C20 UAG 1498 D 1 
HETATM 42 C C19 UAG . . . K 2 17.221 -58.003 34.151 1 33.52 ? C19 UAG 1498 D 1 
HETATM 43 O O18 UAG . . . K 2 17.903 -58.611 33.33 1 34.64 ? O18 UAG 1498 D 1 
HETATM 44 N N4 UAG . . . K 2 17.501 -56.766 34.532 1 33.7 ? N4 UAG 1498 D 1 
HETATM 45 C C21 UAG . . . K 2 18.685 -56.054 34.066 1 36.66 ? C21 UAG 1498 D 1 
HETATM 46 C C23 UAG . . . K 2 18.378 -55.316 32.781 1 38.21 ? C23 UAG 1498 D 1 
HETATM 47 C C22 UAG . . . K 2 19.125 -55.08 35.161 1 39.55 ? C22 UAG 1498 D 1 
HETATM 48 O O19 UAG . . . K 2 18.324 -54.77 36.059 1 40.81 ? O19 UAG 1498 D 1 
HETATM 49 N N5 UAG . . . K 2 20.406 -54.666 35.051 1 40.76 ? N5 UAG 1498 D 1 
HETATM 50 C C24 UAG . . . K 2 21.119 -53.767 35.979 1 42.74 ? C24 UAG 1498 D 1 
HETATM 51 C C25 UAG . . . K 2 22.566 -54.182 35.888 1 42.09 ? C25 UAG 1498 D 1 
HETATM 52 C C26 UAG . . . K 2 23.437 -53.263 35.05 1 40.89 ? C26 UAG 1498 D 1 
HETATM 53 C C27 UAG . . . K 2 24.877 -53.5 35.469 1 38.49 ? C27 UAG 1498 D 1 
HETATM 54 O O20 UAG . . . K 2 25.024 -54.391 36.332 1 37.34 ? O20 UAG 1498 D 1 
HETATM 55 O O21 UAG . . . K 2 25.773 -52.783 34.956 1 37.52 ? O21 UAG 1498 D 1 
HETATM 56 C C28 UAG . . . K 2 20.709 -54.006 37.458 1 45.72 ? C28 UAG 1498 D 1 
HETATM 57 O O22 UAG . . . K 2 20.476 -52.998 38.197 1 46.26 ? O22 UAG 1498 D 1 
HETATM 58 O O23 UAG . . . K 2 20.672 -55.213 37.826 1 47.04 ? O23 UAG 1498 D 1 
#
_model_server_stats.io_time_ms              142 
_model_server_stats.parse_time_ms           119 
_model_server_stats.create_model_time_ms    169 
_model_server_stats.query_time_ms           432 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           58 
#