data_2Y02
#
_model_server_result.job_id            i7SLr8uufEjgOPIneSNlMQ 
_model_server_result.datetime_utc      '2024-11-05 19:51:42' 
_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          2y02 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":402}' 
#
_entry.id    2Y02 
#
_exptl.entry_id    2Y02 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              486.726 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'CHOLESTEROL HEMISUCCINATE' 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          109.3 
_cell.angle_gamma         90 
_cell.entry_id            2Y02 
_cell.length_a            89.6 
_cell.length_b            61.7 
_cell.length_c            101.4 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2Y02 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
PISA dimeric 2 software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,F,G,H,I,J,K,T 1 1 
B,L,M,N,O,P,Q,R,S,U 2 1 
A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U 3 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 C N N 
? 2 D N N 
? 2 L N N 
? 2 M 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 A SG CYS 84 A CYS 114 1_555 A SG CYS 169 A CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf2 A SG CYS 162 A CYS 192 1_555 A SG CYS 168 A CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
disulf ? disulf3 B SG CYS 84 B CYS 114 1_555 B SG CYS 169 B CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf4 B SG CYS 162 B CYS 192 1_555 B SG CYS 168 B CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
metalc ? metalc1 A O CYS 162 A CYS 192 1_555 K NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.639 ? 
metalc ? metalc2 A O ASP 165 A ASP 195 1_555 K NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? 
metalc ? metalc3 A O CYS 168 A CYS 198 1_555 K NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.736 ? 
#
_chem_comp.formula           'C31 H50 O4' 
_chem_comp.formula_weight    486.726 
_chem_comp.id                Y01 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'CHOLESTEROL HEMISUCCINATE' 
_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
CAA CBA Y01 sing 491 n n 
CBA CAB Y01 sing 492 n n 
CBA CAN Y01 sing 493 n n 
CAN CAJ Y01 sing 494 n n 
CAJ CAO Y01 sing 495 n n 
CAO CBB Y01 sing 496 n n 
CBB CAC Y01 sing 497 n n 
CBB CBE Y01 sing 498 n n 
CBE CAP Y01 sing 499 n n 
CBE CBI Y01 sing 500 n n 
CAP CAQ Y01 sing 501 n n 
CAQ CBG Y01 sing 502 n n 
CBG CBI Y01 sing 503 n n 
CBG CBD Y01 sing 504 n n 
CBI CAE Y01 sing 505 n n 
CBI CAU Y01 sing 506 n n 
CAU CAS Y01 sing 507 n n 
CAS CBF Y01 sing 508 n n 
CBF CBD Y01 sing 509 n n 
CBF CBH Y01 sing 510 n n 
CBD CAK Y01 sing 511 n n 
CAK CAI Y01 sing 512 n n 
CAI CAZ Y01 doub 513 n n 
CAZ CAV Y01 sing 514 n n 
CAZ CBH Y01 sing 515 n n 
CAV CBC Y01 sing 516 n n 
CBH CAD Y01 sing 517 n n 
CBH CAT Y01 sing 518 n n 
CAT CAR Y01 sing 519 n n 
CAR CBC Y01 sing 520 n n 
CBC OAW Y01 sing 521 n n 
OAW CAY Y01 sing 522 n n 
CAY OAG Y01 doub 523 n n 
CAY CAM Y01 sing 524 n n 
CAM CAL Y01 sing 525 n n 
CAL CAX Y01 sing 526 n n 
CAX OAH Y01 sing 527 n n 
CAX OAF Y01 doub 528 n n 
CAA HAA1 Y01 sing 529 n n 
CAA HAA2 Y01 sing 530 n n 
CAA HAA3 Y01 sing 531 n n 
CBA HBA Y01 sing 532 n n 
CAB HAB1 Y01 sing 533 n n 
CAB HAB2 Y01 sing 534 n n 
CAB HAB3 Y01 sing 535 n n 
CAN HAN1 Y01 sing 536 n n 
CAN HAN2 Y01 sing 537 n n 
CAJ HAJ1 Y01 sing 538 n n 
CAJ HAJ2 Y01 sing 539 n n 
CAO HAO1 Y01 sing 540 n n 
CAO HAO2 Y01 sing 541 n n 
CBB HBB Y01 sing 542 n n 
CAC HAC1 Y01 sing 543 n n 
CAC HAC2 Y01 sing 544 n n 
CAC HAC3 Y01 sing 545 n n 
CBE HBE Y01 sing 546 n n 
CAP HAP1 Y01 sing 547 n n 
CAP HAP2 Y01 sing 548 n n 
CAQ HAQ1 Y01 sing 549 n n 
CAQ HAQ2 Y01 sing 550 n n 
CBG HBG Y01 sing 551 n n 
CBD HBD Y01 sing 552 n n 
CAE HAE1 Y01 sing 553 n n 
CAE HAE2 Y01 sing 554 n n 
CAE HAE3 Y01 sing 555 n n 
CAU HAU1 Y01 sing 556 n n 
CAU HAU2 Y01 sing 557 n n 
CAS HAS1 Y01 sing 558 n n 
CAS HAS2 Y01 sing 559 n n 
CBF HBF Y01 sing 560 n n 
CAK HAK1 Y01 sing 561 n n 
CAK HAK2 Y01 sing 562 n n 
CAI HAI Y01 sing 563 n n 
CAV HAV1 Y01 sing 564 n n 
CAV HAV2 Y01 sing 565 n n 
CBC HBC Y01 sing 566 n n 
CAD HAD1 Y01 sing 567 n n 
CAD HAD2 Y01 sing 568 n n 
CAD HAD3 Y01 sing 569 n n 
CAT HAT1 Y01 sing 570 n n 
CAT HAT2 Y01 sing 571 n n 
CAR HAR1 Y01 sing 572 n n 
CAR HAR2 Y01 sing 573 n n 
CAM HAM1 Y01 sing 574 n n 
CAM HAM2 Y01 sing 575 n n 
CAL HAL1 Y01 sing 576 n n 
CAL HAL2 Y01 sing 577 n n 
OAH HAH Y01 sing 578 n n 
#
_atom_sites.entry_id                     2Y02 
_atom_sites.fract_transf_matrix[1][1]    0.011161 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003908 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016207 
_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]    0.010449 
_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
C 2 Y01 A 1 401 401 Y01 Y01 . 
D 2 Y01 A 1 402 402 Y01 Y01 . 
E 3 2CV A 1 501 501 2CV 2CV . 
F 3 2CV A 1 502 502 2CV 2CV . 
G 3 2CV A 1 503 503 2CV 2CV . 
H 3 2CV A 1 504 504 2CV 2CV . 
I 3 2CV A 1 505 505 2CV 2CV . 
J 4 WHJ A 1 601 601 WHJ WHJ . 
K 5 NA A 1 701 701 NA NA . 
L 2 Y01 B 1 401 401 Y01 Y01 . 
M 2 Y01 B 1 402 402 Y01 Y01 . 
N 3 2CV B 1 501 501 2CV 2CV . 
O 3 2CV B 1 502 502 2CV 2CV . 
P 3 2CV B 1 503 503 2CV 2CV . 
Q 3 2CV B 1 504 504 2CV 2CV . 
R 3 2CV B 1 505 505 2CV 2CV . 
S 4 WHJ B 1 601 601 WHJ WHJ . 
T 6 HOH A 1 2001 2001 HOH HOH . 
T 6 HOH A 2 2002 2002 HOH HOH . 
T 6 HOH A 3 2003 2003 HOH HOH . 
T 6 HOH A 4 2004 2004 HOH HOH . 
T 6 HOH A 5 2005 2005 HOH HOH . 
T 6 HOH A 6 2006 2006 HOH HOH . 
T 6 HOH A 7 2007 2007 HOH HOH . 
T 6 HOH A 8 2008 2008 HOH HOH . 
T 6 HOH A 9 2009 2009 HOH HOH . 
T 6 HOH A 10 2010 2010 HOH HOH . 
T 6 HOH A 11 2011 2011 HOH HOH . 
T 6 HOH A 12 2012 2012 HOH HOH . 
T 6 HOH A 13 2013 2013 HOH HOH . 
T 6 HOH A 14 2014 2014 HOH HOH . 
T 6 HOH A 15 2015 2015 HOH HOH . 
T 6 HOH A 16 2016 2016 HOH HOH . 
T 6 HOH A 17 2017 2017 HOH HOH . 
T 6 HOH A 18 2018 2018 HOH HOH . 
T 6 HOH A 19 2019 2019 HOH HOH . 
T 6 HOH A 20 2020 2020 HOH HOH . 
T 6 HOH A 21 2021 2021 HOH HOH . 
U 6 HOH B 1 2001 2001 HOH HOH . 
U 6 HOH B 2 2002 2002 HOH HOH . 
U 6 HOH B 3 2003 2003 HOH HOH . 
U 6 HOH B 4 2004 2004 HOH HOH . 
U 6 HOH B 5 2005 2005 HOH HOH . 
U 6 HOH B 6 2006 2006 HOH HOH . 
U 6 HOH B 7 2007 2007 HOH HOH . 
U 6 HOH B 8 2008 2008 HOH HOH . 
U 6 HOH B 9 2009 2009 HOH HOH . 
U 6 HOH B 10 2010 2010 HOH HOH . 
U 6 HOH B 11 2011 2011 HOH HOH . 
U 6 HOH B 12 2012 2012 HOH HOH . 
U 6 HOH B 13 2013 2013 HOH HOH . 
U 6 HOH B 14 2014 2014 HOH HOH . 
U 6 HOH B 15 2015 2015 HOH HOH . 
U 6 HOH B 16 2016 2016 HOH HOH . 
U 6 HOH B 17 2017 2017 HOH HOH . 
U 6 HOH B 18 2018 2018 HOH HOH . 
U 6 HOH B 19 2019 2019 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 Y01 . . . D 2 -17.898 -16.696 10.525 1 34.56 ? CAA Y01 402 A 1 
HETATM 2 C CBA Y01 . . . D 2 -19.288 -16.213 10.088 1 33.44 ? CBA Y01 402 A 1 
HETATM 3 C CAB Y01 . . . D 2 -20.113 -17.374 9.488 1 29.58 ? CAB Y01 402 A 1 
HETATM 4 C CAN Y01 . . . D 2 -19.255 -14.965 9.159 1 35.51 ? CAN Y01 402 A 1 
HETATM 5 C CAJ Y01 . . . D 2 -17.925 -14.657 8.436 1 36.22 ? CAJ Y01 402 A 1 
HETATM 6 C CAO Y01 . . . D 2 -17.987 -13.234 7.825 1 41.07 ? CAO Y01 402 A 1 
HETATM 7 C CBB Y01 . . . D 2 -16.653 -12.659 7.232 1 45.7 ? CBB Y01 402 A 1 
HETATM 8 C CAC Y01 . . . D 2 -15.871 -13.712 6.422 1 42.94 ? CAC Y01 402 A 1 
HETATM 9 C CBE Y01 . . . D 2 -16.937 -11.324 6.442 1 46.68 ? CBE Y01 402 A 1 
HETATM 10 C CAP Y01 . . . D 2 -17.549 -10.234 7.369 1 46.09 ? CAP Y01 402 A 1 
HETATM 11 C CAQ Y01 . . . D 2 -17.132 -8.874 6.777 1 47.19 ? CAQ Y01 402 A 1 
HETATM 12 C CBG Y01 . . . D 2 -16.548 -9.282 5.423 1 48.46 ? CBG Y01 402 A 1 
HETATM 13 C CBI Y01 . . . D 2 -15.76 -10.56 5.776 1 47.82 ? CBI Y01 402 A 1 
HETATM 14 C CAE Y01 . . . D 2 -14.563 -10.33 6.738 1 46.42 ? CAE Y01 402 A 1 
HETATM 15 C CAU Y01 . . . D 2 -15.276 -11.184 4.441 1 49.12 ? CAU Y01 402 A 1 
HETATM 16 C CAS Y01 . . . D 2 -14.425 -10.223 3.589 1 47.8 ? CAS Y01 402 A 1 
HETATM 17 C CBF Y01 . . . D 2 -15.101 -8.834 3.383 1 54.18 ? CBF Y01 402 A 1 
HETATM 18 C CBD Y01 . . . D 2 -15.679 -8.238 4.71 1 49.56 ? CBD Y01 402 A 1 
HETATM 19 C CAK Y01 . . . D 2 -16.441 -6.917 4.497 1 49.47 ? CAK Y01 402 A 1 
HETATM 20 C CAI Y01 . . . D 2 -15.784 -6.059 3.615 1 51.74 ? CAI Y01 402 A 1 
HETATM 21 C CAZ Y01 . . . D 2 -14.748 -6.382 2.733 1 56.29 ? CAZ Y01 402 A 1 
HETATM 22 C CAV Y01 . . . D 2 -14.182 -5.276 1.834 1 61.56 ? CAV Y01 402 A 1 
HETATM 23 C CBH Y01 . . . D 2 -14.177 -7.829 2.619 1 57.83 ? CBH Y01 402 A 1 
HETATM 24 C CAD Y01 . . . D 2 -12.728 -7.86 3.151 1 55.94 ? CAD Y01 402 A 1 
HETATM 25 C CAT Y01 . . . D 2 -14.154 -8.205 1.122 1 62.38 ? CAT Y01 402 A 1 
HETATM 26 C CAR Y01 . . . D 2 -13.476 -7.138 0.238 1 65.66 ? CAR Y01 402 A 1 
HETATM 27 C CBC Y01 . . . D 2 -14.134 -5.741 0.376 1 66.01 ? CBC Y01 402 A 1 
HETATM 28 O OAW Y01 . . . D 2 -13.359 -4.79 -0.345 1 73.59 ? OAW Y01 402 A 1 
HETATM 29 C CAY Y01 . . . D 2 -13.567 -4.882 -1.695 1 84.11 ? CAY Y01 402 A 1 
HETATM 30 O OAG Y01 . . . D 2 -12.582 -5.047 -2.427 1 86.59 ? OAG Y01 402 A 1 
HETATM 31 C CAM Y01 . . . D 2 -15.002 -4.789 -2.289 1 88.92 ? CAM Y01 402 A 1 
HETATM 32 C CAL Y01 . . . D 2 -15.511 -3.326 -2.365 1 93.4 ? CAL Y01 402 A 1 
HETATM 33 C CAX Y01 . . . D 2 -14.96 -2.596 -3.615 1 95.95 ? CAX Y01 402 A 1 
HETATM 34 O OAH Y01 . . . D 2 -15.724 -2.496 -4.615 1 97.78 ? OAH Y01 402 A 1 
HETATM 35 O OAF Y01 . . . D 2 -13.788 -2.157 -3.54 1 96.25 ? OAF Y01 402 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    23 
_model_server_stats.query_time_ms           273 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           35 
#