data_2Y04
#
_model_server_result.job_id            jQXCTo8Nx3obFSLC-EQtYQ 
_model_server_result.datetime_utc      '2024-11-22 21:19:01' 
_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          2y04 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":402}' 
#
_entry.id    2Y04 
#
_exptl.entry_id    2Y04 
_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          109.9 
_cell.angle_gamma         90 
_cell.entry_id            2Y04 
_cell.length_a            89.9 
_cell.length_b            62 
_cell.length_c            101.5 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2Y04 
_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 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
disulf ? disulf2 A SG CYS 162 A CYS 192 1_555 A SG CYS 168 A CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? 
disulf ? disulf3 B SG CYS 84 B CYS 114 1_555 B SG CYS 169 B CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf4 B SG CYS 162 B CYS 192 1_555 B SG CYS 168 B CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
#
_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 476 n n 
CBA CAB Y01 sing 477 n n 
CBA CAN Y01 sing 478 n n 
CAN CAJ Y01 sing 479 n n 
CAJ CAO Y01 sing 480 n n 
CAO CBB Y01 sing 481 n n 
CBB CAC Y01 sing 482 n n 
CBB CBE Y01 sing 483 n n 
CBE CAP Y01 sing 484 n n 
CBE CBI Y01 sing 485 n n 
CAP CAQ Y01 sing 486 n n 
CAQ CBG Y01 sing 487 n n 
CBG CBI Y01 sing 488 n n 
CBG CBD Y01 sing 489 n n 
CBI CAE Y01 sing 490 n n 
CBI CAU Y01 sing 491 n n 
CAU CAS Y01 sing 492 n n 
CAS CBF Y01 sing 493 n n 
CBF CBD Y01 sing 494 n n 
CBF CBH Y01 sing 495 n n 
CBD CAK Y01 sing 496 n n 
CAK CAI Y01 sing 497 n n 
CAI CAZ Y01 doub 498 n n 
CAZ CAV Y01 sing 499 n n 
CAZ CBH Y01 sing 500 n n 
CAV CBC Y01 sing 501 n n 
CBH CAD Y01 sing 502 n n 
CBH CAT Y01 sing 503 n n 
CAT CAR Y01 sing 504 n n 
CAR CBC Y01 sing 505 n n 
CBC OAW Y01 sing 506 n n 
OAW CAY Y01 sing 507 n n 
CAY OAG Y01 doub 508 n n 
CAY CAM Y01 sing 509 n n 
CAM CAL Y01 sing 510 n n 
CAL CAX Y01 sing 511 n n 
CAX OAH Y01 sing 512 n n 
CAX OAF Y01 doub 513 n n 
CAA HAA1 Y01 sing 514 n n 
CAA HAA2 Y01 sing 515 n n 
CAA HAA3 Y01 sing 516 n n 
CBA HBA Y01 sing 517 n n 
CAB HAB1 Y01 sing 518 n n 
CAB HAB2 Y01 sing 519 n n 
CAB HAB3 Y01 sing 520 n n 
CAN HAN1 Y01 sing 521 n n 
CAN HAN2 Y01 sing 522 n n 
CAJ HAJ1 Y01 sing 523 n n 
CAJ HAJ2 Y01 sing 524 n n 
CAO HAO1 Y01 sing 525 n n 
CAO HAO2 Y01 sing 526 n n 
CBB HBB Y01 sing 527 n n 
CAC HAC1 Y01 sing 528 n n 
CAC HAC2 Y01 sing 529 n n 
CAC HAC3 Y01 sing 530 n n 
CBE HBE Y01 sing 531 n n 
CAP HAP1 Y01 sing 532 n n 
CAP HAP2 Y01 sing 533 n n 
CAQ HAQ1 Y01 sing 534 n n 
CAQ HAQ2 Y01 sing 535 n n 
CBG HBG Y01 sing 536 n n 
CBD HBD Y01 sing 537 n n 
CAE HAE1 Y01 sing 538 n n 
CAE HAE2 Y01 sing 539 n n 
CAE HAE3 Y01 sing 540 n n 
CAU HAU1 Y01 sing 541 n n 
CAU HAU2 Y01 sing 542 n n 
CAS HAS1 Y01 sing 543 n n 
CAS HAS2 Y01 sing 544 n n 
CBF HBF Y01 sing 545 n n 
CAK HAK1 Y01 sing 546 n n 
CAK HAK2 Y01 sing 547 n n 
CAI HAI Y01 sing 548 n n 
CAV HAV1 Y01 sing 549 n n 
CAV HAV2 Y01 sing 550 n n 
CBC HBC Y01 sing 551 n n 
CAD HAD1 Y01 sing 552 n n 
CAD HAD2 Y01 sing 553 n n 
CAD HAD3 Y01 sing 554 n n 
CAT HAT1 Y01 sing 555 n n 
CAT HAT2 Y01 sing 556 n n 
CAR HAR1 Y01 sing 557 n n 
CAR HAR2 Y01 sing 558 n n 
CAM HAM1 Y01 sing 559 n n 
CAM HAM2 Y01 sing 560 n n 
CAL HAL1 Y01 sing 561 n n 
CAL HAL2 Y01 sing 562 n n 
OAH HAH Y01 sing 563 n n 
#
_atom_sites.entry_id                     2Y04 
_atom_sites.fract_transf_matrix[1][1]    0.011123 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004027 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016129 
_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]    0.010478 
_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 68H A 1 601 601 68H 68H . 
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 68H B 1 601 601 68H 68H . 
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 . 
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 . 
#
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 . . . M 2 4.112 -23.117 27.458 1 51.4 ? CAA Y01 402 B 1 
HETATM 2 C CBA Y01 . . . M 2 5.377 -23.453 28.258 1 51.25 ? CBA Y01 402 B 1 
HETATM 3 C CAB Y01 . . . M 2 5.867 -24.88 27.961 1 51.23 ? CAB Y01 402 B 1 
HETATM 4 C CAN Y01 . . . M 2 5.211 -23.186 29.765 1 50.18 ? CAN Y01 402 B 1 
HETATM 5 C CAJ Y01 . . . M 2 3.767 -23.328 30.273 1 53.35 ? CAJ Y01 402 B 1 
HETATM 6 C CAO Y01 . . . M 2 3.779 -23.418 31.803 1 55.03 ? CAO Y01 402 B 1 
HETATM 7 C CBB Y01 . . . M 2 2.423 -23.182 32.494 1 54.01 ? CBB Y01 402 B 1 
HETATM 8 C CAC Y01 . . . M 2 1.48 -24.372 32.228 1 52.2 ? CAC Y01 402 B 1 
HETATM 9 C CBE Y01 . . . M 2 2.725 -22.892 33.997 1 53.21 ? CBE Y01 402 B 1 
HETATM 10 C CAP Y01 . . . M 2 3.558 -21.582 34.141 1 50.72 ? CAP Y01 402 B 1 
HETATM 11 C CAQ Y01 . . . M 2 2.97 -20.822 35.341 1 51.53 ? CAQ Y01 402 B 1 
HETATM 12 C CBG Y01 . . . M 2 2.336 -21.975 36.121 1 55.77 ? CBG Y01 402 B 1 
HETATM 13 C CBI Y01 . . . M 2 1.552 -22.765 35.04 1 56.03 ? CBI Y01 402 B 1 
HETATM 14 C CAE Y01 . . . M 2 0.275 -22.052 34.507 1 51.73 ? CAE Y01 402 B 1 
HETATM 15 C CAU Y01 . . . M 2 1.183 -24.129 35.689 1 57.89 ? CAU Y01 402 B 1 
HETATM 16 C CAS Y01 . . . M 2 0.473 -24.004 37.07 1 59.85 ? CAS Y01 402 B 1 
HETATM 17 C CBF Y01 . . . M 2 1.094 -22.972 38.067 1 62.27 ? CBF Y01 402 B 1 
HETATM 18 C CBD Y01 . . . M 2 1.511 -21.644 37.379 1 58.49 ? CBD Y01 402 B 1 
HETATM 19 C CAK Y01 . . . M 2 2.311 -20.765 38.343 1 61.69 ? CAK Y01 402 B 1 
HETATM 20 C CAI Y01 . . . M 2 1.723 -20.68 39.605 1 66.44 ? CAI Y01 402 B 1 
HETATM 21 C CAZ Y01 . . . M 2 0.749 -21.521 40.144 1 69.02 ? CAZ Y01 402 B 1 
HETATM 22 C CAV Y01 . . . M 2 0.228 -21.246 41.564 1 71.71 ? CAV Y01 402 B 1 
HETATM 23 C CBH Y01 . . . M 2 0.215 -22.742 39.345 1 68.55 ? CBH Y01 402 B 1 
HETATM 24 C CAD Y01 . . . M 2 -1.269 -22.508 38.974 1 67.79 ? CAD Y01 402 B 1 
HETATM 25 C CAT Y01 . . . M 2 0.327 -23.954 40.31 1 71.49 ? CAT Y01 402 B 1 
HETATM 26 C CAR Y01 . . . M 2 -0.307 -23.69 41.697 1 74.47 ? CAR Y01 402 B 1 
HETATM 27 C CBC Y01 . . . M 2 0.373 -22.506 42.442 1 77.06 ? CBC Y01 402 B 1 
HETATM 28 O OAW Y01 . . . M 2 -0.132 -22.204 43.792 1 83.46 ? OAW Y01 402 B 1 
HETATM 29 C CAY Y01 . . . M 2 -0.241 -23.257 44.668 1 87.62 ? CAY Y01 402 B 1 
HETATM 30 O OAG Y01 . . . M 2 -1.312 -23.87 44.727 1 89.71 ? OAG Y01 402 B 1 
HETATM 31 C CAM Y01 . . . M 2 0.943 -23.656 45.581 1 88.72 ? CAM Y01 402 B 1 
HETATM 32 C CAL Y01 . . . M 2 0.97 -22.888 46.924 1 90.11 ? CAL Y01 402 B 1 
HETATM 33 C CAX Y01 . . . M 2 -0.298 -23.058 47.793 1 90.18 ? CAX Y01 402 B 1 
HETATM 34 O OAH Y01 . . . M 2 -0.73 -22.04 48.375 1 88.69 ? OAH Y01 402 B 1 
HETATM 35 O OAF Y01 . . . M 2 -0.802 -24.199 47.878 1 91.34 ? OAF Y01 402 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           35 
#