data_3A7K
#
_model_server_result.job_id            2VZooGdh3av9pj5-ZBWPzw 
_model_server_result.datetime_utc      '2024-11-02 13:32:58' 
_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          3a7k 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"CA","auth_seq_id":292}' 
#
_entry.id    3A7K 
#
_exptl.entry_id    3A7K 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              284.436 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            RETINAL 
_entity.pdbx_number_of_molecules    3 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          127.67 
_cell.angle_gamma         90 
_cell.entry_id            3A7K 
_cell.length_a            151.83 
_cell.length_b            99.77 
_cell.length_c            99.27 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3A7K 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA 
_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
? 2 D N N 
? 2 T N N 
? 2 CA 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 256 A LYS 256 1_555 D C15 RET . A RET 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? 
covale ? covale2 B NZ LYS 256 B LYS 256 1_555 T C15 RET . B RET 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale3 C NZ LYS 256 D LYS 256 1_555 CA C15 RET . D RET 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? 
#
_chem_comp.formula           'C20 H28 O' 
_chem_comp.formula_weight    284.436 
_chem_comp.id                RET 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              RETINAL 
_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
C1 C2 RET sing 829 n n 
C1 C6 RET sing 830 n n 
C1 C16 RET sing 831 n n 
C1 C17 RET sing 832 n n 
C2 C3 RET sing 833 n n 
C2 H21 RET sing 834 n n 
C2 H22 RET sing 835 n n 
C3 C4 RET sing 836 n n 
C3 H31 RET sing 837 n n 
C3 H32 RET sing 838 n n 
C4 C5 RET sing 839 n n 
C4 H41 RET sing 840 n n 
C4 H42 RET sing 841 n n 
C5 C6 RET doub 842 n n 
C5 C18 RET sing 843 n n 
C6 C7 RET sing 844 n n 
C7 C8 RET doub 845 e n 
C7 H7 RET sing 846 n n 
C8 C9 RET sing 847 n n 
C8 H8 RET sing 848 n n 
C9 C10 RET doub 849 e n 
C9 C19 RET sing 850 n n 
C10 C11 RET sing 851 n n 
C10 H10 RET sing 852 n n 
C11 C12 RET doub 853 e n 
C11 H11 RET sing 854 n n 
C12 C13 RET sing 855 n n 
C12 H12 RET sing 856 n n 
C13 C14 RET doub 857 e n 
C13 C20 RET sing 858 n n 
C14 C15 RET sing 859 n n 
C14 H14 RET sing 860 n n 
C15 O1 RET doub 861 n n 
C15 H15 RET sing 862 n n 
C16 H161 RET sing 863 n n 
C16 H162 RET sing 864 n n 
C16 H163 RET sing 865 n n 
C17 H171 RET sing 866 n n 
C17 H172 RET sing 867 n n 
C17 H173 RET sing 868 n n 
C18 H181 RET sing 869 n n 
C18 H182 RET sing 870 n n 
C18 H183 RET sing 871 n n 
C19 H191 RET sing 872 n n 
C19 H192 RET sing 873 n n 
C19 H193 RET sing 874 n n 
C20 H201 RET sing 875 n n 
C20 H202 RET sing 876 n n 
C20 H203 RET sing 877 n n 
#
_atom_sites.entry_id                     3A7K 
_atom_sites.fract_transf_matrix[1][1]    0.006586 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.005085 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010023 
_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]    0.012726 
_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 RET A 1 292 292 RET RET . 
E 3 22B A 1 300 300 22B 22B . 
F 4 L1P A 1 293 293 L1P L1P . 
G 5 L2P A 1 294 294 L2P L2P . 
H 5 L2P A 1 295 295 L2P L2P . 
I 6 L3P A 1 331 331 L3P L3P . 
J 6 L3P A 1 296 296 L3P L3P . 
K 6 L3P A 1 297 297 L3P L3P . 
L 6 L3P A 1 298 298 L3P L3P . 
M 6 L3P A 1 299 299 L3P L3P . 
N 6 L3P A 1 301 301 L3P L3P . 
O 6 L3P A 1 333 333 L3P L3P . 
P 7 CL A 1 401 401 CL CL . 
Q 7 CL A 1 402 402 CL CL . 
R 3 22B B 1 300 300 22B 22B . 
S 6 L3P B 1 331 331 L3P L3P . 
T 2 RET B 1 292 292 RET RET . 
U 7 CL B 1 401 401 CL CL . 
V 4 L1P B 1 293 293 L1P L1P . 
W 7 CL B 1 402 402 CL CL . 
X 4 L1P B 1 294 294 L1P L1P . 
Y 5 L2P B 1 295 295 L2P L2P . 
Z 5 L2P B 1 296 296 L2P L2P . 
AA 3 22B D 1 300 300 22B 22B . 
BA 6 L3P D 1 330 330 L3P L3P . 
CA 2 RET D 1 292 292 RET RET . 
DA 7 CL D 1 401 401 CL CL . 
EA 7 CL D 1 402 402 CL CL . 
FA 5 L2P D 1 293 293 L2P L2P . 
GA 5 L2P D 1 294 294 L2P L2P . 
HA 8 HOH A 1 501 501 HOH HOH . 
HA 8 HOH A 2 502 502 HOH HOH . 
HA 8 HOH A 3 503 503 HOH HOH . 
HA 8 HOH A 4 504 504 HOH HOH . 
HA 8 HOH A 5 505 505 HOH HOH . 
HA 8 HOH A 6 506 506 HOH HOH . 
HA 8 HOH A 7 507 507 HOH HOH . 
HA 8 HOH A 8 508 508 HOH HOH . 
HA 8 HOH A 9 509 509 HOH HOH . 
HA 8 HOH A 10 510 510 HOH HOH . 
HA 8 HOH A 11 511 511 HOH HOH . 
HA 8 HOH A 12 512 512 HOH HOH . 
HA 8 HOH A 13 513 513 HOH HOH . 
HA 8 HOH A 14 514 514 HOH HOH . 
HA 8 HOH A 15 515 515 HOH HOH . 
HA 8 HOH A 16 516 516 HOH HOH . 
HA 8 HOH A 17 517 517 HOH HOH . 
HA 8 HOH A 18 518 518 HOH HOH . 
HA 8 HOH A 19 519 519 HOH HOH . 
HA 8 HOH A 20 520 520 HOH HOH . 
HA 8 HOH A 21 521 521 HOH HOH . 
HA 8 HOH A 22 522 522 HOH HOH . 
HA 8 HOH A 23 523 523 HOH HOH . 
HA 8 HOH A 24 524 524 HOH HOH . 
HA 8 HOH A 25 525 525 HOH HOH . 
HA 8 HOH A 26 526 526 HOH HOH . 
HA 8 HOH A 27 527 527 HOH HOH . 
HA 8 HOH A 28 528 528 HOH HOH . 
HA 8 HOH A 29 529 529 HOH HOH . 
HA 8 HOH A 30 530 530 HOH HOH . 
HA 8 HOH A 31 531 531 HOH HOH . 
HA 8 HOH A 32 532 532 HOH HOH . 
HA 8 HOH A 33 533 533 HOH HOH . 
HA 8 HOH A 34 534 534 HOH HOH . 
HA 8 HOH A 35 535 535 HOH HOH . 
HA 8 HOH A 36 536 536 HOH HOH . 
HA 8 HOH A 37 537 537 HOH HOH . 
HA 8 HOH A 38 538 538 HOH HOH . 
HA 8 HOH A 39 539 539 HOH HOH . 
HA 8 HOH A 40 540 540 HOH HOH . 
HA 8 HOH A 41 541 541 HOH HOH . 
HA 8 HOH A 42 542 542 HOH HOH . 
HA 8 HOH A 43 543 543 HOH HOH . 
HA 8 HOH A 44 545 545 HOH HOH . 
HA 8 HOH A 45 546 546 HOH HOH . 
HA 8 HOH A 46 547 547 HOH HOH . 
HA 8 HOH A 47 548 548 HOH HOH . 
HA 8 HOH A 48 549 549 HOH HOH . 
HA 8 HOH A 49 552 552 HOH HOH . 
HA 8 HOH A 50 565 565 HOH HOH . 
HA 8 HOH A 51 600 600 HOH HOH . 
IA 8 HOH B 1 501 501 HOH HOH . 
IA 8 HOH B 2 502 502 HOH HOH . 
IA 8 HOH B 3 503 503 HOH HOH . 
IA 8 HOH B 4 504 504 HOH HOH . 
IA 8 HOH B 5 505 505 HOH HOH . 
IA 8 HOH B 6 506 506 HOH HOH . 
IA 8 HOH B 7 507 507 HOH HOH . 
IA 8 HOH B 8 508 508 HOH HOH . 
IA 8 HOH B 9 509 509 HOH HOH . 
IA 8 HOH B 10 510 510 HOH HOH . 
IA 8 HOH B 11 511 511 HOH HOH . 
IA 8 HOH B 12 512 512 HOH HOH . 
IA 8 HOH B 13 513 513 HOH HOH . 
IA 8 HOH B 14 515 515 HOH HOH . 
IA 8 HOH B 15 516 516 HOH HOH . 
IA 8 HOH B 16 517 517 HOH HOH . 
IA 8 HOH B 17 518 518 HOH HOH . 
IA 8 HOH B 18 519 519 HOH HOH . 
IA 8 HOH B 19 520 520 HOH HOH . 
IA 8 HOH B 20 521 521 HOH HOH . 
IA 8 HOH B 21 522 522 HOH HOH . 
IA 8 HOH B 22 523 523 HOH HOH . 
IA 8 HOH B 23 524 524 HOH HOH . 
IA 8 HOH B 24 525 525 HOH HOH . 
IA 8 HOH B 25 526 526 HOH HOH . 
IA 8 HOH B 26 527 527 HOH HOH . 
IA 8 HOH B 27 528 528 HOH HOH . 
IA 8 HOH B 28 529 529 HOH HOH . 
IA 8 HOH B 29 530 530 HOH HOH . 
IA 8 HOH B 30 531 531 HOH HOH . 
IA 8 HOH B 31 532 532 HOH HOH . 
IA 8 HOH B 32 534 534 HOH HOH . 
IA 8 HOH B 33 535 535 HOH HOH . 
IA 8 HOH B 34 536 536 HOH HOH . 
IA 8 HOH B 35 537 537 HOH HOH . 
IA 8 HOH B 36 538 538 HOH HOH . 
IA 8 HOH B 37 539 539 HOH HOH . 
IA 8 HOH B 38 540 540 HOH HOH . 
IA 8 HOH B 39 541 541 HOH HOH . 
IA 8 HOH B 40 542 542 HOH HOH . 
IA 8 HOH B 41 543 543 HOH HOH . 
IA 8 HOH B 42 545 545 HOH HOH . 
IA 8 HOH B 43 546 546 HOH HOH . 
IA 8 HOH B 44 547 547 HOH HOH . 
IA 8 HOH B 45 548 548 HOH HOH . 
IA 8 HOH B 46 549 549 HOH HOH . 
IA 8 HOH B 47 551 551 HOH HOH . 
IA 8 HOH B 48 552 552 HOH HOH . 
IA 8 HOH B 49 553 553 HOH HOH . 
IA 8 HOH B 50 554 554 HOH HOH . 
IA 8 HOH B 51 555 555 HOH HOH . 
IA 8 HOH B 52 556 556 HOH HOH . 
IA 8 HOH B 53 557 557 HOH HOH . 
IA 8 HOH B 54 558 558 HOH HOH . 
IA 8 HOH B 55 561 561 HOH HOH . 
IA 8 HOH B 56 562 562 HOH HOH . 
IA 8 HOH B 57 563 563 HOH HOH . 
IA 8 HOH B 58 564 564 HOH HOH . 
IA 8 HOH B 59 565 565 HOH HOH . 
IA 8 HOH B 60 567 567 HOH HOH . 
JA 8 HOH D 1 501 501 HOH HOH . 
JA 8 HOH D 2 502 502 HOH HOH . 
JA 8 HOH D 3 503 503 HOH HOH . 
JA 8 HOH D 4 504 504 HOH HOH . 
JA 8 HOH D 5 505 505 HOH HOH . 
JA 8 HOH D 6 506 506 HOH HOH . 
JA 8 HOH D 7 507 507 HOH HOH . 
JA 8 HOH D 8 508 508 HOH HOH . 
JA 8 HOH D 9 509 509 HOH HOH . 
JA 8 HOH D 10 510 510 HOH HOH . 
JA 8 HOH D 11 511 511 HOH HOH . 
JA 8 HOH D 12 512 512 HOH HOH . 
JA 8 HOH D 13 514 514 HOH HOH . 
JA 8 HOH D 14 515 515 HOH HOH . 
JA 8 HOH D 15 516 516 HOH HOH . 
JA 8 HOH D 16 517 517 HOH HOH . 
JA 8 HOH D 17 518 518 HOH HOH . 
JA 8 HOH D 18 519 514 HOH HOH . 
JA 8 HOH D 19 520 520 HOH HOH . 
JA 8 HOH D 20 521 521 HOH HOH . 
JA 8 HOH D 21 522 522 HOH HOH . 
JA 8 HOH D 22 523 523 HOH HOH . 
JA 8 HOH D 23 531 531 HOH HOH . 
JA 8 HOH D 24 532 532 HOH HOH . 
JA 8 HOH D 25 536 536 HOH HOH . 
JA 8 HOH D 26 537 537 HOH HOH . 
JA 8 HOH D 27 540 540 HOH HOH . 
JA 8 HOH D 28 541 541 HOH HOH . 
JA 8 HOH D 29 542 542 HOH HOH . 
JA 8 HOH D 30 543 543 HOH HOH . 
JA 8 HOH D 31 547 547 HOH HOH . 
JA 8 HOH D 32 548 548 HOH HOH . 
JA 8 HOH D 33 553 553 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 C1 RET . . . CA 2 10.665 -4.703 32.87 1 45.53 ? C1 RET 292 D 1 
HETATM 2 C C2 RET . . . CA 2 11.241 -5.832 33.809 1 44.32 ? C2 RET 292 D 1 
HETATM 3 C C3 RET . . . CA 2 12.118 -5.474 34.918 1 44.28 ? C3 RET 292 D 1 
HETATM 4 C C4 RET . . . CA 2 11.758 -4.212 35.669 1 42.96 ? C4 RET 292 D 1 
HETATM 5 C C5 RET . . . CA 2 11.184 -3.074 34.836 1 43.73 ? C5 RET 292 D 1 
HETATM 6 C C6 RET . . . CA 2 10.659 -3.228 33.532 1 44.16 ? C6 RET 292 D 1 
HETATM 7 C C7 RET . . . CA 2 10.117 -1.938 32.869 1 45.4 ? C7 RET 292 D 1 
HETATM 8 C C8 RET . . . CA 2 9.584 -1.7 31.643 1 44.66 ? C8 RET 292 D 1 
HETATM 9 C C9 RET . . . CA 2 9.002 -0.454 31.134 1 44.63 ? C9 RET 292 D 1 
HETATM 10 C C10 RET . . . CA 2 8.546 -0.501 29.84 1 45 ? C10 RET 292 D 1 
HETATM 11 C C11 RET . . . CA 2 7.87 0.524 29.054 1 44.18 ? C11 RET 292 D 1 
HETATM 12 C C12 RET . . . CA 2 7.485 0.248 27.801 1 43.55 ? C12 RET 292 D 1 
HETATM 13 C C13 RET . . . CA 2 6.791 1.139 26.847 1 43.92 ? C13 RET 292 D 1 
HETATM 14 C C14 RET . . . CA 2 6.588 0.624 25.598 1 44.87 ? C14 RET 292 D 1 
HETATM 15 C C15 RET . . . CA 2 6.065 1.251 24.378 1 47.05 ? C15 RET 292 D 1 
HETATM 16 C C16 RET . . . CA 2 11.556 -4.833 31.614 1 42.99 ? C16 RET 292 D 1 
HETATM 17 C C17 RET . . . CA 2 9.26 -5.219 32.492 1 44.56 ? C17 RET 292 D 1 
HETATM 18 C C18 RET . . . CA 2 11.259 -1.759 35.617 1 42.76 ? C18 RET 292 D 1 
HETATM 19 C C19 RET . . . CA 2 8.859 0.788 31.996 1 43.37 ? C19 RET 292 D 1 
HETATM 20 C C20 RET . . . CA 2 6.393 2.551 27.224 1 42.49 ? C20 RET 292 D 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    27 
_model_server_stats.query_time_ms           386 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           20 
#