data_8QCM
#
_model_server_result.job_id            3Q_GMDNQss_EhyTdiPdIfw 
_model_server_result.datetime_utc      '2024-11-07 03:31:54' 
_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          8qcm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":701}' 
#
_entry.id    8QCM 
#
_exptl.entry_id    8QCM 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              431.527 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2~{S},5~{S},8~{S})-14-methoxy-2-(2-methylpropyl)-5-(phenylmethyl)-3,6,17-triazatetracyclo[8.7.0.0^{3,8}.0^{11,16}]heptadeca-1(10),11,13,15-tetraene-4,7-dione 
_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            8QCM 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8QCM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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,R,S,T 
_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
? 5 I N N 
? 5 M N N 
#
_pdbx_entity_branch.entity_id    4 
_pdbx_entity_branch.type         oligosaccharide 
#
_pdbx_entity_branch_link.link_id                     1 
_pdbx_entity_branch_link.details                     ? 
_pdbx_entity_branch_link.entity_id                   4 
_pdbx_entity_branch_link.entity_branch_list_num_1    2 
_pdbx_entity_branch_link.entity_branch_list_num_2    1 
_pdbx_entity_branch_link.comp_id_1                   NAG 
_pdbx_entity_branch_link.comp_id_2                   NAG 
_pdbx_entity_branch_link.atom_id_1                   C1 
_pdbx_entity_branch_link.leaving_atom_id_1           O1 
_pdbx_entity_branch_link.atom_stereo_config_1        . 
_pdbx_entity_branch_link.atom_id_2                   O4 
_pdbx_entity_branch_link.leaving_atom_id_2           HO4 
_pdbx_entity_branch_link.atom_stereo_config_2        . 
_pdbx_entity_branch_link.value_order                 sing 
#
loop_
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.hetero
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.auth_mon_id
4 n G NAG 1 X 1 NAG X 1102 NAG 
4 n G NAG 2 X 2 NAG X 1103 NAG 
4 n H NAG 1 G 1 NAG X 1104 NAG 
4 n H NAG 2 G 2 NAG X 1105 NAG 
#
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
disulf ? disulf1 A SG CYS 602 A CYS 592 1_555 A SG CYS 618 A CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 B SG CYS 23 C CYS 23 1_555 B SG CYS 88 C CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
disulf ? disulf3 C SG CYS 22 D CYS 22 1_555 C SG CYS 96 D CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
disulf ? disulf4 D SG CYS 23 E CYS 23 1_555 D SG CYS 88 E CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
disulf ? disulf5 E SG CYS 22 F CYS 22 1_555 E SG CYS 96 F CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? 
disulf ? disulf6 F SG CYS 602 B CYS 592 1_555 F SG CYS 618 B CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
covale ? covale1 G O4 NAG . X NAG 1 1_555 G C1 NAG . X NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale2 H O4 NAG . G NAG 1 1_555 H C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
#
_chem_comp.formula           'C26 H29 N3 O3' 
_chem_comp.formula_weight    431.527 
_chem_comp.id                V0U 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2~{S},5~{S},8~{S})-14-methoxy-2-(2-methylpropyl)-5-(phenylmethyl)-3,6,17-triazatetracyclo[8.7.0.0^{3,8}.0^{11,16}]heptadeca-1(10),11,13,15-tetraene-4,7-dione 
_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
O02 C01 V0U sing 465 n n 
C03 O02 V0U sing 466 n n 
C04 C03 V0U doub 467 n y 
C05 C04 V0U sing 468 n y 
C06 C05 V0U doub 469 n y 
C08 C07 V0U doub 470 n y 
C07 C06 V0U sing 471 n y 
C09 C06 V0U sing 472 n y 
C10 C09 V0U doub 473 n y 
N11 C10 V0U sing 474 n y 
C12 C10 V0U sing 475 n n 
C14 C13 V0U sing 476 n n 
C15 C14 V0U sing 477 n n 
C16 C14 V0U sing 478 n n 
C13 C12 V0U sing 479 n n 
N17 C12 V0U sing 480 n n 
C18 N17 V0U sing 481 n n 
C19 C18 V0U sing 482 n n 
C20 C18 V0U sing 483 n n 
O21 C20 V0U doub 484 n n 
N22 C20 V0U sing 485 n n 
C23 N22 V0U sing 486 n n 
C25 C24 V0U sing 487 n n 
C26 C25 V0U doub 488 n y 
C27 C26 V0U sing 489 n y 
C28 C27 V0U doub 490 n y 
C29 C28 V0U sing 491 n y 
C30 C29 V0U doub 492 n y 
C24 C23 V0U sing 493 n n 
C31 C23 V0U sing 494 n n 
O32 C31 V0U doub 495 n n 
C03 C08 V0U sing 496 n y 
C05 N11 V0U sing 497 n y 
C09 C19 V0U sing 498 n n 
N17 C31 V0U sing 499 n n 
C25 C30 V0U sing 500 n y 
C01 H012 V0U sing 501 n n 
C01 H013 V0U sing 502 n n 
C01 H011 V0U sing 503 n n 
C04 H041 V0U sing 504 n n 
C08 H081 V0U sing 505 n n 
C12 H121 V0U sing 506 n n 
C13 H132 V0U sing 507 n n 
C13 H131 V0U sing 508 n n 
C14 H141 V0U sing 509 n n 
C15 H152 V0U sing 510 n n 
C15 H153 V0U sing 511 n n 
C15 H151 V0U sing 512 n n 
C16 H163 V0U sing 513 n n 
C16 H162 V0U sing 514 n n 
C16 H161 V0U sing 515 n n 
C18 H181 V0U sing 516 n n 
C19 H192 V0U sing 517 n n 
C19 H191 V0U sing 518 n n 
C23 H231 V0U sing 519 n n 
C26 H261 V0U sing 520 n n 
C27 H271 V0U sing 521 n n 
C28 H281 V0U sing 522 n n 
C29 H291 V0U sing 523 n n 
C07 H071 V0U sing 524 n n 
C24 H242 V0U sing 525 n n 
C24 H241 V0U sing 526 n n 
C30 H301 V0U sing 527 n n 
N11 H111 V0U sing 528 n n 
N22 H221 V0U sing 529 n n 
#
_atom_sites.entry_id                     8QCM 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
I 5 V0U A 1 701 1105 V0U BWQ . 
J 6 CLR A 1 702 1803 CLR CLR . 
K 6 CLR A 1 703 1804 CLR CLR . 
L 6 CLR A 1 704 1807 CLR CLR . 
M 5 V0U B 1 701 1104 V0U BWQ . 
N 6 CLR B 1 702 1805 CLR CLR . 
O 6 CLR B 1 703 1806 CLR CLR . 
P 6 CLR B 1 704 1808 CLR CLR . 
Q 7 HOH A 1 801 14 HOH HOH . 
Q 7 HOH A 2 802 39 HOH HOH . 
Q 7 HOH A 3 803 4 HOH HOH . 
Q 7 HOH A 4 804 38 HOH HOH . 
Q 7 HOH A 5 805 42 HOH HOH . 
Q 7 HOH A 6 806 20 HOH HOH . 
Q 7 HOH A 7 807 21 HOH HOH . 
Q 7 HOH A 8 808 35 HOH HOH . 
Q 7 HOH A 9 809 2 HOH HOH . 
Q 7 HOH A 10 810 41 HOH HOH . 
Q 7 HOH A 11 811 9 HOH HOH . 
Q 7 HOH A 12 812 46 HOH HOH . 
Q 7 HOH A 13 813 7 HOH HOH . 
Q 7 HOH A 14 814 18 HOH HOH . 
Q 7 HOH A 15 815 22 HOH HOH . 
Q 7 HOH A 16 816 12 HOH HOH . 
Q 7 HOH A 17 817 54 HOH HOH . 
Q 7 HOH A 18 818 37 HOH HOH . 
Q 7 HOH A 19 819 48 HOH HOH . 
Q 7 HOH A 20 820 50 HOH HOH . 
Q 7 HOH A 21 821 19 HOH HOH . 
Q 7 HOH A 22 822 5 HOH HOH . 
Q 7 HOH A 23 823 51 HOH HOH . 
R 7 HOH C 1 301 45 HOH HOH . 
R 7 HOH C 2 302 43 HOH HOH . 
S 7 HOH E 1 301 47 HOH HOH . 
S 7 HOH E 2 302 13 HOH HOH . 
T 7 HOH B 1 801 36 HOH HOH . 
T 7 HOH B 2 802 23 HOH HOH . 
T 7 HOH B 3 803 26 HOH HOH . 
T 7 HOH B 4 804 3 HOH HOH . 
T 7 HOH B 5 805 33 HOH HOH . 
T 7 HOH B 6 806 1 HOH HOH . 
T 7 HOH B 7 807 44 HOH HOH . 
T 7 HOH B 8 808 30 HOH HOH . 
T 7 HOH B 9 809 34 HOH HOH . 
T 7 HOH B 10 810 40 HOH HOH . 
T 7 HOH B 11 811 10 HOH HOH . 
T 7 HOH B 12 812 27 HOH HOH . 
T 7 HOH B 13 813 31 HOH HOH . 
T 7 HOH B 14 814 29 HOH HOH . 
T 7 HOH B 15 815 11 HOH HOH . 
T 7 HOH B 16 816 15 HOH HOH . 
T 7 HOH B 17 817 8 HOH HOH . 
T 7 HOH B 18 818 53 HOH HOH . 
T 7 HOH B 19 819 28 HOH HOH . 
T 7 HOH B 20 820 32 HOH HOH . 
T 7 HOH B 21 821 25 HOH HOH . 
T 7 HOH B 22 822 17 HOH HOH . 
T 7 HOH B 23 823 6 HOH HOH . 
T 7 HOH B 24 824 24 HOH HOH . 
T 7 HOH B 25 825 52 HOH HOH . 
T 7 HOH B 26 826 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 C01 V0U . . . M 5 128.939 127.062 126.778 1 33.8 ? C01 V0U 701 B 1 
HETATM 2 C C03 V0U . . . M 5 129.745 126.495 128.86 1 33.8 ? C03 V0U 701 B 1 
HETATM 3 C C04 V0U . . . M 5 130.807 126.278 129.734 1 33.8 ? C04 V0U 701 B 1 
HETATM 4 C C05 V0U . . . M 5 130.553 126.129 131.149 1 33.8 ? C05 V0U 701 B 1 
HETATM 5 C C06 V0U . . . M 5 129.299 126.199 131.618 1 33.8 ? C06 V0U 701 B 1 
HETATM 6 C C08 V0U . . . M 5 128.452 126.566 129.351 1 33.8 ? C08 V0U 701 B 1 
HETATM 7 C C09 V0U . . . M 5 129.413 126.009 133.058 1 33.8 ? C09 V0U 701 B 1 
HETATM 8 C C10 V0U . . . M 5 130.712 125.835 133.355 1 33.8 ? C10 V0U 701 B 1 
HETATM 9 C C12 V0U . . . M 5 131.164 125.63 134.792 1 33.8 ? C12 V0U 701 B 1 
HETATM 10 C C13 V0U . . . M 5 131.2 124.115 135.166 1 33.8 ? C13 V0U 701 B 1 
HETATM 11 C C14 V0U . . . M 5 132.565 123.422 134.785 1 33.8 ? C14 V0U 701 B 1 
HETATM 12 C C15 V0U . . . M 5 133.738 124.002 135.636 1 33.8 ? C15 V0U 701 B 1 
HETATM 13 C C16 V0U . . . M 5 132.457 121.885 134.961 1 33.8 ? C16 V0U 701 B 1 
HETATM 14 C C18 V0U . . . M 5 128.955 126.736 135.468 1 33.8 ? C18 V0U 701 B 1 
HETATM 15 C C19 V0U . . . M 5 128.34 125.988 134.166 1 33.8 ? C19 V0U 701 B 1 
HETATM 16 C C20 V0U . . . M 5 128.028 126.546 136.67 1 33.8 ? C20 V0U 701 B 1 
HETATM 17 C C23 V0U . . . M 5 129.944 127.456 137.956 1 33.8 ? C23 V0U 701 B 1 
HETATM 18 C C26 V0U . . . M 5 129.165 125.732 140.811 1 33.8 ? C26 V0U 701 B 1 
HETATM 19 C C27 V0U . . . M 5 128.913 124.466 141.334 1 33.8 ? C27 V0U 701 B 1 
HETATM 20 C C28 V0U . . . M 5 129.734 123.398 141 1 33.8 ? C28 V0U 701 B 1 
HETATM 21 C C29 V0U . . . M 5 130.814 123.586 140.14 1 33.8 ? C29 V0U 701 B 1 
HETATM 22 C C07 V0U . . . M 5 128.202 126.421 130.726 1 33.8 ? C07 V0U 701 B 1 
HETATM 23 C C24 V0U . . . M 5 130.515 127.309 139.379 1 33.8 ? C24 V0U 701 B 1 
HETATM 24 C C25 V0U . . . M 5 130.244 125.925 139.945 1 33.8 ? C25 V0U 701 B 1 
HETATM 25 C C30 V0U . . . M 5 131.068 124.852 139.622 1 33.8 ? C30 V0U 701 B 1 
HETATM 26 C C31 V0U . . . M 5 130.891 126.719 137.023 1 33.8 ? C31 V0U 701 B 1 
HETATM 27 N N11 V0U . . . M 5 131.416 125.912 132.195 1 33.8 ? N11 V0U 701 B 1 
HETATM 28 N N17 V0U . . . M 5 130.319 126.345 135.748 1 33.8 ? N17 V0U 701 B 1 
HETATM 29 N N22 V0U . . . M 5 128.58 126.944 137.965 1 33.8 ? N22 V0U 701 B 1 
HETATM 30 O O02 V0U . . . M 5 129.998 126.633 127.519 1 33.8 ? O02 V0U 701 B 1 
HETATM 31 O O21 V0U . . . M 5 126.93 126.117 136.558 1 33.8 ? O21 V0U 701 B 1 
HETATM 32 O O32 V0U . . . M 5 132.006 126.439 137.31 1 33.8 ? O32 V0U 701 B 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    26 
_model_server_stats.query_time_ms           215 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           32 
#