data_6SP2
#
_model_server_result.job_id            Hl1ZdqNLLr3uSvgpQ0cdBw 
_model_server_result.datetime_utc      '2025-03-04 13:19:41' 
_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          6sp2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":602}' 
#
_entry.id    6SP2 
#
_exptl.entry_id    6SP2 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              792.075 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine 
_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            6SP2 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6SP2 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_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    ? 
_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
? 3 H N N 
? 3 N N N 
? 3 R N N 
? 3 V N N 
? 3 Z N N 
? 3 DA 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 71 A CYS 71 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf2 A SG CYS 238 A CYS 238 1_555 A SG CYS 299 A CYS 299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf3 B SG CYS 71 B CYS 71 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf4 B SG CYS 238 B CYS 238 1_555 B SG CYS 299 B CYS 299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf5 C SG CYS 71 C CYS 71 1_555 C SG CYS 95 C CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf6 C SG CYS 238 C CYS 238 1_555 C SG CYS 299 C CYS 299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf7 D SG CYS 71 D CYS 71 1_555 D SG CYS 95 D CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf8 D SG CYS 238 D CYS 238 1_555 D SG CYS 299 D CYS 299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf9 E SG CYS 71 E CYS 71 1_555 E SG CYS 95 E CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf10 E SG CYS 238 E CYS 238 1_555 E SG CYS 299 E CYS 299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf11 F SG CYS 71 F CYS 71 1_555 F SG CYS 95 F CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf12 F SG CYS 238 F CYS 238 1_555 F SG CYS 299 F CYS 299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
#
_chem_comp.formula           'C42 H82 N O10 P' 
_chem_comp.formula_weight    792.075 
_chem_comp.id                P5S 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'phosphatidyl serine' 
#
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
CA C P5S sing 650 n n 
O C P5S doub 651 n n 
C OXT P5S sing 652 n n 
CA N P5S sing 653 n n 
N HN P5S sing 654 n n 
N HNA P5S sing 655 n n 
O19 C1 P5S sing 656 n n 
C1 C2 P5S sing 657 n n 
C1 H1 P5S sing 658 n n 
C1 H1A P5S sing 659 n n 
C2 O37 P5S sing 660 n n 
C2 C3 P5S sing 661 n n 
C2 H2 P5S sing 662 n n 
O16 C3 P5S sing 663 n n 
C3 H3 P5S sing 664 n n 
C3 H3A P5S sing 665 n n 
CB CA P5S sing 666 n n 
CA HA P5S sing 667 n n 
CB OG P5S sing 668 n n 
CB HB P5S sing 669 n n 
CB HBA P5S sing 670 n n 
P12 OG P5S sing 671 n n 
O16 P12 P5S sing 672 n n 
O13 P12 P5S doub 673 n n 
P12 O15 P5S sing 674 n n 
O15 HO15 P5S sing 675 n n 
C20 C17 P5S sing 676 n n 
O19 C17 P5S sing 677 n n 
C17 O18 P5S doub 678 n n 
C21 C20 P5S sing 679 n n 
C20 H20 P5S sing 680 n n 
C20 H20A P5S sing 681 n n 
C21 C22 P5S sing 682 n n 
C21 H21 P5S sing 683 n n 
C21 H21A P5S sing 684 n n 
C23 C22 P5S sing 685 n n 
C22 H22 P5S sing 686 n n 
C22 H22A P5S sing 687 n n 
C24 C23 P5S sing 688 n n 
C23 H23 P5S sing 689 n n 
C23 H23A P5S sing 690 n n 
C25 C24 P5S sing 691 n n 
C24 H24 P5S sing 692 n n 
C24 H24A P5S sing 693 n n 
C26 C25 P5S sing 694 n n 
C25 H25 P5S sing 695 n n 
C25 H25A P5S sing 696 n n 
C26 C27 P5S sing 697 n n 
C26 H26 P5S sing 698 n n 
C26 H26A P5S sing 699 n n 
C27 C28 P5S sing 700 n n 
C27 H27 P5S sing 701 n n 
C27 H27A P5S sing 702 n n 
C29 C28 P5S sing 703 n n 
C28 H28 P5S sing 704 n n 
C28 H28A P5S sing 705 n n 
C30 C29 P5S sing 706 n n 
C29 H29 P5S sing 707 n n 
C29 H29A P5S sing 708 n n 
C31 C30 P5S sing 709 n n 
C30 H30 P5S sing 710 n n 
C30 H30A P5S sing 711 n n 
C31 C32 P5S sing 712 n n 
C31 H31 P5S sing 713 n n 
C31 H31A P5S sing 714 n n 
C33 C32 P5S sing 715 n n 
C32 H32 P5S sing 716 n n 
C32 H32A P5S sing 717 n n 
C33 C34 P5S sing 718 n n 
C33 H33 P5S sing 719 n n 
C33 H33A P5S sing 720 n n 
C35 C34 P5S sing 721 n n 
C34 H34 P5S sing 722 n n 
C34 H34A P5S sing 723 n n 
C36 C35 P5S sing 724 n n 
C35 H35 P5S sing 725 n n 
C35 H35A P5S sing 726 n n 
C36 H36 P5S sing 727 n n 
C36 H36A P5S sing 728 n n 
C36 H36B P5S sing 729 n n 
C38 O37 P5S sing 730 n n 
O47 C38 P5S doub 731 n n 
C38 C39 P5S sing 732 n n 
C40 C39 P5S sing 733 n n 
C39 H39 P5S sing 734 n n 
C39 H39A P5S sing 735 n n 
C41 C40 P5S sing 736 n n 
C40 H40 P5S sing 737 n n 
C40 H40A P5S sing 738 n n 
C42 C41 P5S sing 739 n n 
C41 H41 P5S sing 740 n n 
C41 H41A P5S sing 741 n n 
C43 C42 P5S sing 742 n n 
C42 H42 P5S sing 743 n n 
C42 H42A P5S sing 744 n n 
C43 C44 P5S sing 745 n n 
C43 H43 P5S sing 746 n n 
C43 H43A P5S sing 747 n n 
C44 C45 P5S sing 748 n n 
C44 H44 P5S sing 749 n n 
C44 H44A P5S sing 750 n n 
C45 C46 P5S sing 751 n n 
C45 H45 P5S sing 752 n n 
C45 H45A P5S sing 753 n n 
C46 C48 P5S sing 754 n n 
C46 H46 P5S sing 755 n n 
C46 H46A P5S sing 756 n n 
C48 C49 P5S sing 757 n n 
C48 H48 P5S sing 758 n n 
C48 H48A P5S sing 759 n n 
C49 C50 P5S sing 760 n n 
C49 H49 P5S sing 761 n n 
C49 H49A P5S sing 762 n n 
C50 C51 P5S sing 763 n n 
C50 H50 P5S sing 764 n n 
C50 H50A P5S sing 765 n n 
C51 C52 P5S sing 766 n n 
C51 H51 P5S sing 767 n n 
C51 H51A P5S sing 768 n n 
C53 C52 P5S sing 769 n n 
C52 H52 P5S sing 770 n n 
C52 H52A P5S sing 771 n n 
C53 C54 P5S sing 772 n n 
C53 H53 P5S sing 773 n n 
C53 H53A P5S sing 774 n n 
C55 C54 P5S sing 775 n n 
C54 H54 P5S sing 776 n n 
C54 H54A P5S sing 777 n n 
C55 C56 P5S sing 778 n n 
C55 H55 P5S sing 779 n n 
C55 H55A P5S sing 780 n n 
C56 H56 P5S sing 781 n n 
C56 H56A P5S sing 782 n n 
C56 H56B P5S sing 783 n n 
OXT HXT P5S sing 784 n n 
#
_atom_sites.entry_id                     6SP2 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
G 2 LMN A 1 601 1003 LMN LMN . 
H 3 P5S A 1 602 1004 P5S P5S . 
I 4 CDL A 1 603 1001 CDL CDL . 
J 2 LMN A 1 604 1002 LMN LMN . 
K 4 CDL B 1 1001 1001 CDL CDL . 
L 2 LMN B 1 1002 1002 LMN LMN . 
M 2 LMN B 1 1003 1003 LMN LMN . 
N 3 P5S B 1 1004 1004 P5S P5S . 
O 4 CDL C 1 1001 1001 CDL CDL . 
P 2 LMN C 1 1002 1002 LMN LMN . 
Q 2 LMN C 1 1003 1003 LMN LMN . 
R 3 P5S C 1 1004 1004 P5S P5S . 
S 4 CDL D 1 1001 1001 CDL CDL . 
T 2 LMN D 1 1002 1002 LMN LMN . 
U 2 LMN D 1 1003 1003 LMN LMN . 
V 3 P5S D 1 1004 1004 P5S P5S . 
W 4 CDL E 1 1001 1001 CDL CDL . 
X 2 LMN E 1 1002 1002 LMN LMN . 
Y 2 LMN E 1 1003 1003 LMN LMN . 
Z 3 P5S E 1 1004 1004 P5S P5S . 
AA 4 CDL F 1 1001 1001 CDL CDL . 
BA 2 LMN F 1 1002 1002 LMN LMN . 
CA 2 LMN F 1 1003 1003 LMN LMN . 
DA 3 P5S F 1 1004 1004 P5S P5S . 
#
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 C P5S . . . H 3 235.634 209.892 178.415 1 163.39 ? C P5S 602 A 1 
HETATM 2 N N P5S . . . H 3 235.008 208.255 176.656 1 163.39 ? N P5S 602 A 1 
HETATM 3 O O P5S . . . H 3 234.742 209.886 179.238 1 163.39 ? O P5S 602 A 1 
HETATM 4 C C1 P5S . . . H 3 240.034 209.398 181.314 1 163.39 ? C1 P5S 602 A 1 
HETATM 5 C C2 P5S . . . H 3 240.373 208.213 180.452 1 163.39 ? C2 P5S 602 A 1 
HETATM 6 C C3 P5S . . . H 3 240.339 208.584 178.994 1 163.39 ? C3 P5S 602 A 1 
HETATM 7 C CA P5S . . . H 3 236.042 208.647 177.628 1 163.39 ? CA P5S 602 A 1 
HETATM 8 C CB P5S . . . H 3 237.363 208.889 176.916 1 163.39 ? CB P5S 602 A 1 
HETATM 9 O OG P5S . . . H 3 238.068 207.632 176.84 1 163.39 ? OG P5S 602 A 1 
HETATM 10 P P12 P5S . . . H 3 239.665 207.57 176.681 1 163.39 ? P12 P5S 602 A 1 
HETATM 11 O O13 P5S . . . H 3 240.076 206.453 175.806 1 163.39 ? O13 P5S 602 A 1 
HETATM 12 O O15 P5S . . . H 3 240.111 208.95 176.205 1 163.39 ? O15 P5S 602 A 1 
HETATM 13 O O16 P5S . . . H 3 240.248 207.394 178.184 1 163.39 ? O16 P5S 602 A 1 
HETATM 14 C C17 P5S . . . H 3 240.012 210.043 183.577 1 163.39 ? C17 P5S 602 A 1 
HETATM 15 O O18 P5S . . . H 3 239.997 211.196 183.245 1 163.39 ? O18 P5S 602 A 1 
HETATM 16 O O19 P5S . . . H 3 240.043 209.028 182.712 1 163.39 ? O19 P5S 602 A 1 
HETATM 17 C C20 P5S . . . H 3 239.996 209.573 185.001 1 163.39 ? C20 P5S 602 A 1 
HETATM 18 C C21 P5S . . . H 3 239.816 210.733 185.973 1 163.39 ? C21 P5S 602 A 1 
HETATM 19 C C22 P5S . . . H 3 239.935 210.341 187.436 1 163.39 ? C22 P5S 602 A 1 
HETATM 20 C C23 P5S . . . H 3 238.759 209.562 187.994 1 163.39 ? C23 P5S 602 A 1 
HETATM 21 C C24 P5S . . . H 3 238.884 209.285 189.483 1 163.39 ? C24 P5S 602 A 1 
HETATM 22 C C25 P5S . . . H 3 237.705 208.545 190.088 1 163.39 ? C25 P5S 602 A 1 
HETATM 23 C C26 P5S . . . H 3 237.861 208.271 191.573 1 163.39 ? C26 P5S 602 A 1 
HETATM 24 C C27 P5S . . . H 3 236.672 207.567 192.203 1 163.39 ? C27 P5S 602 A 1 
HETATM 25 C C28 P5S . . . H 3 235.39 208.381 192.184 1 163.39 ? C28 P5S 602 A 1 
HETATM 26 O O37 P5S . . . H 3 239.369 207.176 180.681 1 163.39 ? O37 P5S 602 A 1 
HETATM 27 C C38 P5S . . . H 3 239.797 205.907 180.755 1 163.39 ? C38 P5S 602 A 1 
HETATM 28 C C39 P5S . . . H 3 238.652 204.962 180.961 1 163.39 ? C39 P5S 602 A 1 
HETATM 29 C C40 P5S . . . H 3 237.829 205.291 182.199 1 163.39 ? C40 P5S 602 A 1 
HETATM 30 C C41 P5S . . . H 3 238.558 204.98 183.493 1 163.39 ? C41 P5S 602 A 1 
HETATM 31 C C42 P5S . . . H 3 237.852 205.514 184.725 1 163.39 ? C42 P5S 602 A 1 
HETATM 32 C C43 P5S . . . H 3 238.398 204.982 186.037 1 163.39 ? C43 P5S 602 A 1 
HETATM 33 C C44 P5S . . . H 3 237.839 205.698 187.253 1 163.39 ? C44 P5S 602 A 1 
HETATM 34 C C45 P5S . . . H 3 238.112 205.002 188.575 1 163.39 ? C45 P5S 602 A 1 
HETATM 35 C C46 P5S . . . H 3 237.375 203.685 188.737 1 163.39 ? C46 P5S 602 A 1 
HETATM 36 O O47 P5S . . . H 3 240.95 205.584 180.662 1 163.39 ? O47 P5S 602 A 1 
HETATM 37 C C48 P5S . . . H 3 237.4 203.143 190.156 1 163.39 ? C48 P5S 602 A 1 
HETATM 38 C C49 P5S . . . H 3 236.78 204.082 191.176 1 163.39 ? C49 P5S 602 A 1 
HETATM 39 C C50 P5S . . . H 3 236.821 203.563 192.604 1 163.39 ? C50 P5S 602 A 1 
HETATM 40 C C51 P5S . . . H 3 236.093 202.245 192.801 1 163.39 ? C51 P5S 602 A 1 
HETATM 41 O OXT P5S . . . H 3 236.343 210.942 178.105 1 163.39 ? OXT P5S 602 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    19 
_model_server_stats.query_time_ms           266 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           41 
#