data_3CM7
#
_model_server_result.job_id            nY-sPoQ9kQJkL2wrwnrqhw 
_model_server_result.datetime_utc      '2024-11-14 17:38:47' 
_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          3cm7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":600}' 
#
_entry.id    3CM7 
#
_exptl.entry_id    3CM7 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              492.61 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (3S,6S,7S,9aS)-6-{[(2S)-2-aminobutanoyl]amino}-N-(diphenylmethyl)-7-(hydroxymethyl)-5-oxooctahydro-1H-pyrrolo[1,2-a]azepine-3-carboxamide 
_entity.pdbx_number_of_molecules    6 
_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            3CM7 
_cell.length_a            92.39 
_cell.length_b            92.39 
_cell.length_c            175.151 
_cell.Z_PDB               32 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3CM7 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
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 software_defined_assembly 1 
PISA dimeric 2 software_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
? monomeric 1 author_defined_assembly 5 
? monomeric 1 author_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
C,D,I,J,K,L,M,N,Q,R 1 1 
A,E,F,O 2 2 
B,G,H,P 2 1 
A,E,F,O 3 1 
B,G,H,P 4 1 
C,I,J,Q 5 1 
D,K,L,M,N,R 6 1 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 F N N 
? 3 H N N 
? 3 J N N 
? 3 L N N 
? 3 M N N 
? 3 N 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
disulf ? disulf1 B SG CYS 77 A CYS 303 1_555 B SG CYS 101 A CYS 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
disulf ? disulf2 C SG CYS 125 B CYS 351 1_555 D SG CYS 125 D CYS 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? 
metalc ? metalc1 E ZN ZN . C ZN 4 1_555 A SG CYS 74 C CYS 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? 
metalc ? metalc2 E ZN ZN . C ZN 4 1_555 A SG CYS 77 C CYS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? 
metalc ? metalc3 E ZN ZN . C ZN 4 1_555 A NE2 HIS 94 C HIS 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? 
metalc ? metalc4 E ZN ZN . C ZN 4 1_555 A SG CYS 101 C CYS 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? 
metalc ? metalc5 G ZN ZN . A ZN 6 1_555 B SG CYS 74 A CYS 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? 
metalc ? metalc6 G ZN ZN . A ZN 6 1_555 B NE2 HIS 94 A HIS 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? 
metalc ? metalc7 I ZN ZN . B ZN 5 1_555 C SG CYS 74 B CYS 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? 
metalc ? metalc8 I ZN ZN . B ZN 5 1_555 C SG CYS 77 B CYS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.46 ? 
metalc ? metalc9 I ZN ZN . B ZN 5 1_555 C NE2 HIS 94 B HIS 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? 
metalc ? metalc10 I ZN ZN . B ZN 5 1_555 C SG CYS 101 B CYS 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? 
metalc ? metalc11 K ZN ZN . D ZN 3 1_555 D SG CYS 74 D CYS 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? 
metalc ? metalc12 K ZN ZN . D ZN 3 1_555 D SG CYS 77 D CYS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? 
metalc ? metalc13 K ZN ZN . D ZN 3 1_555 D NE2 HIS 94 D HIS 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
metalc ? metalc14 K ZN ZN . D ZN 3 1_555 D SG CYS 101 D CYS 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? 
#
_chem_comp.formula           'C28 H36 N4 O4' 
_chem_comp.formula_weight    492.61 
_chem_comp.id                X22 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (3S,6S,7S,9aS)-6-{[(2S)-2-aminobutanoyl]amino}-N-(diphenylmethyl)-7-(hydroxymethyl)-5-oxooctahydro-1H-pyrrolo[1,2-a]azepine-3-carboxamide 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '2(S),3(S),6(S),7(S),9a(S) 6-(2-Amino-butyrylamino)-7-hydroxymethyl-5-oxo-octahydro-pyrrolo[1,2-a]azepine-3-carboxylic acid benzhydryl-amide' 
#
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
CAA CB X22 sing 376 n n 
CB CA X22 sing 377 n n 
CA N X22 sing 378 n n 
CA C X22 sing 379 n n 
C O X22 doub 380 n n 
C NAX X22 sing 381 n n 
NAX CBI X22 sing 382 n n 
CBI CBA X22 sing 383 n n 
CBI CBE X22 sing 384 n n 
CBA OAE X22 doub 385 n n 
CBA NBJ X22 sing 386 n n 
NBJ CBF X22 sing 387 n n 
NBJ CBG X22 sing 388 n n 
CBE CAR X22 sing 389 n n 
CBE CAS X22 sing 390 n n 
CAR OAF X22 sing 391 n n 
CAS CAT X22 sing 392 n n 
CAT CBF X22 sing 393 n n 
CBF CAU X22 sing 394 n n 
CAU CAV X22 sing 395 n n 
CAV CBG X22 sing 396 n n 
CBG CAZ X22 sing 397 n n 
CAZ OAD X22 doub 398 n n 
CAZ NAW X22 sing 399 n n 
NAW CBH X22 sing 400 n n 
CBH CBC X22 sing 401 n n 
CBH CBB X22 sing 402 n n 
CBC CAO X22 doub 403 n y 
CBC CAP X22 sing 404 n y 
CAO CAK X22 sing 405 n y 
CAK CAH X22 doub 406 n y 
CAH CAL X22 sing 407 n y 
CAL CAP X22 doub 408 n y 
CBB CAM X22 doub 409 n y 
CBB CAN X22 sing 410 n y 
CAM CAI X22 sing 411 n y 
CAI CAG X22 doub 412 n y 
CAG CAJ X22 sing 413 n y 
CAJ CAN X22 doub 414 n y 
CAA HAA X22 sing 415 n n 
CAA HAAA X22 sing 416 n n 
CAA HAAB X22 sing 417 n n 
CB HB X22 sing 418 n n 
CB HBA X22 sing 419 n n 
CA HA X22 sing 420 n n 
N HN X22 sing 421 n n 
N HNA X22 sing 422 n n 
NAX HNAX X22 sing 423 n n 
CBI HBI X22 sing 424 n n 
CBE HBE X22 sing 425 n n 
CAR HAR X22 sing 426 n n 
CAR HARA X22 sing 427 n n 
OAF HOAF X22 sing 428 n n 
CAS HAS X22 sing 429 n n 
CAS HASA X22 sing 430 n n 
CAT HAT X22 sing 431 n n 
CAT HATA X22 sing 432 n n 
CBF HBF X22 sing 433 n n 
CAU HAU X22 sing 434 n n 
CAU HAUA X22 sing 435 n n 
CAV HAV X22 sing 436 n n 
CAV HAVA X22 sing 437 n n 
CBG HBG X22 sing 438 n n 
NAW HNAW X22 sing 439 n n 
CBH HBH X22 sing 440 n n 
CAO HAO X22 sing 441 n n 
CAK HAK X22 sing 442 n n 
CAH HAH X22 sing 443 n n 
CAL HAL X22 sing 444 n n 
CAP HAP X22 sing 445 n n 
CAM HAM X22 sing 446 n n 
CAI HAI X22 sing 447 n n 
CAG HAG X22 sing 448 n n 
CAJ HAJ X22 sing 449 n n 
CAN HAN X22 sing 450 n n 
#
_atom_sites.entry_id                     3CM7 
_atom_sites.fract_transf_matrix[1][1]    0.010824 
_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]    0.010824 
_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]    0.005709 
_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 ZN C 1 4 4 ZN ZN . 
F 3 X22 C 1 600 600 X22 DRG . 
G 2 ZN A 1 6 6 ZN ZN . 
H 3 X22 A 1 600 600 X22 DRG . 
I 2 ZN B 1 5 5 ZN ZN . 
J 3 X22 B 1 600 600 X22 DRG . 
K 2 ZN D 1 3 3 ZN ZN . 
L 3 X22 D 1 700 700 X22 DRG . 
M 3 X22 D 1 600 600 X22 DRG . 
N 3 X22 D 1 701 700 X22 DRG . 
O 4 HOH C 1 9 9 HOH HOH . 
O 4 HOH C 2 18 18 HOH HOH . 
O 4 HOH C 3 19 19 HOH HOH . 
P 4 HOH A 1 14 14 HOH HOH . 
P 4 HOH A 2 16 16 HOH HOH . 
P 4 HOH A 3 17 17 HOH HOH . 
P 4 HOH A 4 25 25 HOH HOH . 
Q 4 HOH B 1 12 12 HOH HOH . 
Q 4 HOH B 2 13 13 HOH HOH . 
Q 4 HOH B 3 15 15 HOH HOH . 
Q 4 HOH B 4 20 20 HOH HOH . 
Q 4 HOH B 5 26 26 HOH HOH . 
Q 4 HOH B 6 27 27 HOH HOH . 
R 4 HOH D 1 7 7 HOH HOH . 
R 4 HOH D 2 8 8 HOH HOH . 
R 4 HOH D 3 22 22 HOH HOH . 
R 4 HOH D 4 24 24 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 CAA X22 . . . F 3 -32.392 -4.389 -22.888 1 23.67 ? CAA X22 600 C 1 
HETATM 2 C CB X22 . . . F 3 -32.686 -2.98 -22.37 1 23.79 ? CB X22 600 C 1 
HETATM 3 C CA X22 . . . F 3 -33.658 -2.251 -23.3 1 23.95 ? CA X22 600 C 1 
HETATM 4 N N X22 . . . F 3 -33.788 -0.843 -22.901 1 24.05 ? N X22 600 C 1 
HETATM 5 C C X22 . . . F 3 -35.014 -2.938 -23.242 1 24 ? C X22 600 C 1 
HETATM 6 O O X22 . . . F 3 -35.721 -2.903 -22.235 1 24.12 ? O X22 600 C 1 
HETATM 7 N NAX X22 . . . F 3 -35.352 -3.576 -24.345 1 24.09 ? NAX X22 600 C 1 
HETATM 8 C CBI X22 . . . F 3 -36.632 -4.304 -24.422 1 24.59 ? CBI X22 600 C 1 
HETATM 9 C CBA X22 . . . F 3 -36.48 -5.487 -25.386 1 24.58 ? CBA X22 600 C 1 
HETATM 10 O OAE X22 . . . F 3 -35.465 -5.573 -26.084 1 24.33 ? OAE X22 600 C 1 
HETATM 11 N NBJ X22 . . . F 3 -37.405 -6.447 -25.441 1 25.05 ? NBJ X22 600 C 1 
HETATM 12 C CBE X22 . . . F 3 -37.811 -3.335 -24.738 1 24.65 ? CBE X22 600 C 1 
HETATM 13 C CAR X22 . . . F 3 -37.547 -2.48 -25.982 1 25.55 ? CAR X22 600 C 1 
HETATM 14 O OAF X22 . . . F 3 -36.535 -1.508 -25.65 1 27.37 ? OAF X22 600 C 1 
HETATM 15 C CAS X22 . . . F 3 -39.254 -3.927 -24.713 1 24.08 ? CAS X22 600 C 1 
HETATM 16 C CAT X22 . . . F 3 -39.535 -5.342 -25.255 1 23.22 ? CAT X22 600 C 1 
HETATM 17 C CBF X22 . . . F 3 -38.655 -6.441 -24.663 1 23.8 ? CBF X22 600 C 1 
HETATM 18 C CAU X22 . . . F 3 -39.302 -7.802 -24.902 1 24.51 ? CAU X22 600 C 1 
HETATM 19 C CAV X22 . . . F 3 -38.31 -8.618 -25.759 1 25.79 ? CAV X22 600 C 1 
HETATM 20 C CBG X22 . . . F 3 -37.314 -7.615 -26.357 1 26.35 ? CBG X22 600 C 1 
HETATM 21 C CAZ X22 . . . F 3 -37.704 -7.125 -27.782 1 28.19 ? CAZ X22 600 C 1 
HETATM 22 O OAD X22 . . . F 3 -38.073 -5.964 -27.947 1 31.06 ? OAD X22 600 C 1 
HETATM 23 N NAW X22 . . . F 3 -37.619 -7.918 -28.842 1 27.99 ? NAW X22 600 C 1 
HETATM 24 C CBH X22 . . . F 3 -37.232 -9.312 -28.905 1 28.1 ? CBH X22 600 C 1 
HETATM 25 C CBC X22 . . . F 3 -38.47 -10.042 -29.431 1 29.39 ? CBC X22 600 C 1 
HETATM 26 C CAO X22 . . . F 3 -38.679 -11.391 -29.147 1 30.21 ? CAO X22 600 C 1 
HETATM 27 C CAK X22 . . . F 3 -39.832 -12.021 -29.629 1 30.89 ? CAK X22 600 C 1 
HETATM 28 C CAH X22 . . . F 3 -40.777 -11.308 -30.374 1 30.05 ? CAH X22 600 C 1 
HETATM 29 C CAL X22 . . . F 3 -40.569 -9.957 -30.646 1 29.87 ? CAL X22 600 C 1 
HETATM 30 C CAP X22 . . . F 3 -39.418 -9.33 -30.173 1 29.75 ? CAP X22 600 C 1 
HETATM 31 C CBB X22 . . . F 3 -35.984 -9.441 -29.791 1 27.2 ? CBB X22 600 C 1 
HETATM 32 C CAM X22 . . . F 3 -35.833 -10.489 -30.701 1 26.75 ? CAM X22 600 C 1 
HETATM 33 C CAI X22 . . . F 3 -34.666 -10.586 -31.454 1 26.3 ? CAI X22 600 C 1 
HETATM 34 C CAG X22 . . . F 3 -33.655 -9.64 -31.3 1 26 ? CAG X22 600 C 1 
HETATM 35 C CAJ X22 . . . F 3 -33.803 -8.598 -30.394 1 25.04 ? CAJ X22 600 C 1 
HETATM 36 C CAN X22 . . . F 3 -34.965 -8.501 -29.641 1 25.8 ? CAN X22 600 C 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           329 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           36 
#