data_2Y00
#
_model_server_result.job_id            KFZ457T5Vy-zo6Owqxs2-g 
_model_server_result.datetime_utc      '2024-11-21 13:54:42' 
_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          2y00 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":401}' 
#
_entry.id    2Y00 
#
_exptl.entry_id    2Y00 
_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          110.2 
_cell.angle_gamma         90 
_cell.entry_id            2Y00 
_cell.length_a            90 
_cell.length_b            60.5 
_cell.length_c            101.9 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2Y00 
_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 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? 
disulf ? disulf2 A SG CYS 162 A CYS 192 1_555 A SG CYS 168 A CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? 
disulf ? disulf3 B SG CYS 84 B CYS 114 1_555 B SG CYS 169 B CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
disulf ? disulf4 B SG CYS 162 B CYS 192 1_555 B SG CYS 168 B CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? 
metalc ? metalc1 A O CYS 162 A CYS 192 1_555 K NA NA . A NA 1359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? 
metalc ? metalc2 A O ASP 165 A ASP 195 1_555 K NA NA . A NA 1359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? 
metalc ? metalc3 A O CYS 168 A CYS 198 1_555 K NA NA . A NA 1359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? 
metalc ? metalc4 K NA NA . A NA 1359 1_555 T O HOH . A HOH 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? 
#
_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 484 n n 
CBA CAB Y01 sing 485 n n 
CBA CAN Y01 sing 486 n n 
CAN CAJ Y01 sing 487 n n 
CAJ CAO Y01 sing 488 n n 
CAO CBB Y01 sing 489 n n 
CBB CAC Y01 sing 490 n n 
CBB CBE Y01 sing 491 n n 
CBE CAP Y01 sing 492 n n 
CBE CBI Y01 sing 493 n n 
CAP CAQ Y01 sing 494 n n 
CAQ CBG Y01 sing 495 n n 
CBG CBI Y01 sing 496 n n 
CBG CBD Y01 sing 497 n n 
CBI CAE Y01 sing 498 n n 
CBI CAU Y01 sing 499 n n 
CAU CAS Y01 sing 500 n n 
CAS CBF Y01 sing 501 n n 
CBF CBD Y01 sing 502 n n 
CBF CBH Y01 sing 503 n n 
CBD CAK Y01 sing 504 n n 
CAK CAI Y01 sing 505 n n 
CAI CAZ Y01 doub 506 n n 
CAZ CAV Y01 sing 507 n n 
CAZ CBH Y01 sing 508 n n 
CAV CBC Y01 sing 509 n n 
CBH CAD Y01 sing 510 n n 
CBH CAT Y01 sing 511 n n 
CAT CAR Y01 sing 512 n n 
CAR CBC Y01 sing 513 n n 
CBC OAW Y01 sing 514 n n 
OAW CAY Y01 sing 515 n n 
CAY OAG Y01 doub 516 n n 
CAY CAM Y01 sing 517 n n 
CAM CAL Y01 sing 518 n n 
CAL CAX Y01 sing 519 n n 
CAX OAH Y01 sing 520 n n 
CAX OAF Y01 doub 521 n n 
CAA HAA1 Y01 sing 522 n n 
CAA HAA2 Y01 sing 523 n n 
CAA HAA3 Y01 sing 524 n n 
CBA HBA Y01 sing 525 n n 
CAB HAB1 Y01 sing 526 n n 
CAB HAB2 Y01 sing 527 n n 
CAB HAB3 Y01 sing 528 n n 
CAN HAN1 Y01 sing 529 n n 
CAN HAN2 Y01 sing 530 n n 
CAJ HAJ1 Y01 sing 531 n n 
CAJ HAJ2 Y01 sing 532 n n 
CAO HAO1 Y01 sing 533 n n 
CAO HAO2 Y01 sing 534 n n 
CBB HBB Y01 sing 535 n n 
CAC HAC1 Y01 sing 536 n n 
CAC HAC2 Y01 sing 537 n n 
CAC HAC3 Y01 sing 538 n n 
CBE HBE Y01 sing 539 n n 
CAP HAP1 Y01 sing 540 n n 
CAP HAP2 Y01 sing 541 n n 
CAQ HAQ1 Y01 sing 542 n n 
CAQ HAQ2 Y01 sing 543 n n 
CBG HBG Y01 sing 544 n n 
CBD HBD Y01 sing 545 n n 
CAE HAE1 Y01 sing 546 n n 
CAE HAE2 Y01 sing 547 n n 
CAE HAE3 Y01 sing 548 n n 
CAU HAU1 Y01 sing 549 n n 
CAU HAU2 Y01 sing 550 n n 
CAS HAS1 Y01 sing 551 n n 
CAS HAS2 Y01 sing 552 n n 
CBF HBF Y01 sing 553 n n 
CAK HAK1 Y01 sing 554 n n 
CAK HAK2 Y01 sing 555 n n 
CAI HAI Y01 sing 556 n n 
CAV HAV1 Y01 sing 557 n n 
CAV HAV2 Y01 sing 558 n n 
CBC HBC Y01 sing 559 n n 
CAD HAD1 Y01 sing 560 n n 
CAD HAD2 Y01 sing 561 n n 
CAD HAD3 Y01 sing 562 n n 
CAT HAT1 Y01 sing 563 n n 
CAT HAT2 Y01 sing 564 n n 
CAR HAR1 Y01 sing 565 n n 
CAR HAR2 Y01 sing 566 n n 
CAM HAM1 Y01 sing 567 n n 
CAM HAM2 Y01 sing 568 n n 
CAL HAL1 Y01 sing 569 n n 
CAL HAL2 Y01 sing 570 n n 
OAH HAH Y01 sing 571 n n 
#
_atom_sites.entry_id                     2Y00 
_atom_sites.fract_transf_matrix[1][1]    0.011111 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004088 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016529 
_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]    0.010457 
_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 Y00 A 1 601 601 Y00 Y00 . 
K 5 NA A 1 1359 1359 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 Y00 B 1 601 601 Y00 Y00 . 
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 . 
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 . . . C 2 -8.712 -5.713 23.79 1 28.52 ? CAA Y01 401 A 1 
HETATM 2 C CBA Y01 . . . C 2 -9.054 -5.99 22.328 1 26.01 ? CBA Y01 401 A 1 
HETATM 3 C CAB Y01 . . . C 2 -8.698 -7.433 21.992 1 20.87 ? CAB Y01 401 A 1 
HETATM 4 C CAN Y01 . . . C 2 -8.346 -4.999 21.384 1 26.99 ? CAN Y01 401 A 1 
HETATM 5 C CAJ Y01 . . . C 2 -9.274 -3.889 20.902 1 26.73 ? CAJ Y01 401 A 1 
HETATM 6 C CAO Y01 . . . C 2 -8.505 -2.782 20.153 1 31.61 ? CAO Y01 401 A 1 
HETATM 7 C CBB Y01 . . . C 2 -9.048 -2.553 18.722 1 31.63 ? CBB Y01 401 A 1 
HETATM 8 C CAC Y01 . . . C 2 -10.508 -2.072 18.753 1 32.6 ? CAC Y01 401 A 1 
HETATM 9 C CBE Y01 . . . C 2 -8.232 -1.563 17.829 1 29.88 ? CBE Y01 401 A 1 
HETATM 10 C CAP Y01 . . . C 2 -7.34 -0.54 18.587 1 29.36 ? CAP Y01 401 A 1 
HETATM 11 C CAQ Y01 . . . C 2 -6.236 -0.147 17.562 1 25.57 ? CAQ Y01 401 A 1 
HETATM 12 C CBG Y01 . . . C 2 -6.656 -0.924 16.279 1 26.4 ? CBG Y01 401 A 1 
HETATM 13 C CBI Y01 . . . C 2 -7.246 -2.209 16.833 1 25.83 ? CBI Y01 401 A 1 
HETATM 14 C CAE Y01 . . . C 2 -6.188 -3.081 17.544 1 25.12 ? CAE Y01 401 A 1 
HETATM 15 C CAU Y01 . . . C 2 -7.943 -2.917 15.654 1 23.46 ? CAU Y01 401 A 1 
HETATM 16 C CAS Y01 . . . C 2 -6.969 -3.226 14.484 1 20.67 ? CAS Y01 401 A 1 
HETATM 17 C CBF Y01 . . . C 2 -6.101 -2.029 14.022 1 18.84 ? CBF Y01 401 A 1 
HETATM 18 C CBD Y01 . . . C 2 -5.571 -1.202 15.219 1 22.77 ? CBD Y01 401 A 1 
HETATM 19 C CAK Y01 . . . C 2 -4.901 0.109 14.753 1 24.54 ? CAK Y01 401 A 1 
HETATM 20 C CAI Y01 . . . C 2 -4.106 -0.059 13.615 1 26.81 ? CAI Y01 401 A 1 
HETATM 21 C CAZ Y01 . . . C 2 -4.065 -1.168 12.765 1 27.78 ? CAZ Y01 401 A 1 
HETATM 22 C CAV Y01 . . . C 2 -3.122 -1.117 11.534 1 29.35 ? CAV Y01 401 A 1 
HETATM 23 C CBH Y01 . . . C 2 -4.928 -2.427 13.084 1 20.39 ? CBH Y01 401 A 1 
HETATM 24 C CAD Y01 . . . C 2 -4.047 -3.441 13.789 1 19.03 ? CAD Y01 401 A 1 
HETATM 25 C CAT Y01 . . . C 2 -5.409 -3.019 11.75 1 21.21 ? CAT Y01 401 A 1 
HETATM 26 C CAR Y01 . . . C 2 -4.318 -3.066 10.675 1 21.77 ? CAR Y01 401 A 1 
HETATM 27 C CBC Y01 . . . C 2 -3.917 -1.619 10.313 1 34.5 ? CBC Y01 401 A 1 
HETATM 28 O OAW Y01 . . . C 2 -3.39 -1.362 8.929 1 42.87 ? OAW Y01 401 A 1 
HETATM 29 C CAY Y01 . . . C 2 -2.415 -2.143 8.407 1 49.91 ? CAY Y01 401 A 1 
HETATM 30 O OAG Y01 . . . C 2 -1.657 -2.778 9.142 1 58.58 ? OAG Y01 401 A 1 
HETATM 31 C CAM Y01 . . . C 2 -2.242 -2.193 6.888 1 50.53 ? CAM Y01 401 A 1 
HETATM 32 C CAL Y01 . . . C 2 -0.775 -1.94 6.565 1 49.35 ? CAL Y01 401 A 1 
HETATM 33 C CAX Y01 . . . C 2 -0.297 -2.679 5.327 1 50.38 ? CAX Y01 401 A 1 
HETATM 34 O OAH Y01 . . . C 2 -0.226 -3.93 5.366 1 50.99 ? OAH Y01 401 A 1 
HETATM 35 O OAF Y01 . . . C 2 0.045 -1.954 4.379 1 54.29 ? OAF Y01 401 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           234 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           35 
#