data_4D6U
#
_model_server_result.job_id            KbbxD6ltCppg427DGMJWpg 
_model_server_result.datetime_utc      '2024-11-05 16:26:49' 
_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          4d6u 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"EA","auth_seq_id":506}' 
#
_entry.id    4D6U 
#
_exptl.entry_id    4D6U 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              744.034 
_entity.id                          16 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-dioleoyl-sn-glycero-3-phosphoethanolamine 
_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          90 
_cell.angle_gamma         120 
_cell.entry_id            4D6U 
_cell.length_a            129.49 
_cell.length_b            129.49 
_cell.length_c            719.936 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4D6U 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 65' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PQS decameric 10 software_defined_assembly 1 
PQS decameric 10 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,I,J,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA 1 1 
K,L,M,N,O,P,Q,R,S,T,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA 2 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
? 16 Y N N 
? 16 EA N N 
? 16 NA N N 
? 16 QA 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 H SG CYS 37 H CYS 24 1_555 H SG CYS 81 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
disulf ? disulf2 H SG CYS 53 H CYS 40 1_555 H SG CYS 67 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf3 O SG CYS 222 R CYS 144 1_555 O SG CYS 238 R CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
disulf ? disulf4 R SG CYS 37 U CYS 24 1_555 R SG CYS 81 U CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf5 R SG CYS 53 U CYS 40 1_555 R SG CYS 67 U CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
covale ? covale1 C NE2 HIS 201 C HIS 201 1_555 W O25 G8U . C G8U 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.258 ? 
covale ? covale2 M NE2 HIS 201 P HIS 201 1_555 LA O25 G8U . P G8U 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.493 ? 
metalc ? metalc1 C NE2 HIS 83 C HIS 83 1_555 U FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? 
metalc ? metalc2 C NE2 HIS 97 C HIS 97 1_555 V FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? 
metalc ? metalc3 C NE2 HIS 182 C HIS 182 1_555 U FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
metalc ? metalc4 C NE2 HIS 196 C HIS 196 1_555 V FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? 
metalc ? metalc5 D NE2 HIS 125 D HIS 41 1_555 Z FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
metalc ? metalc6 D SD MET 244 D MET 160 1_555 Z FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? 
metalc ? metalc7 M NE2 HIS 83 P HIS 83 1_555 JA FE HEM . P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? 
metalc ? metalc8 M NE2 HIS 97 P HIS 97 1_555 KA FE HEM . P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc9 M NE2 HIS 182 P HIS 182 1_555 JA FE HEM . P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? 
metalc ? metalc10 M NE2 HIS 196 P HIS 196 1_555 KA FE HEM . P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? 
metalc ? metalc11 N NE2 HIS 125 Q HIS 41 1_555 OA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? 
metalc ? metalc12 N SD MET 244 Q MET 160 1_555 OA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? 
metalc ? metalc13 O SG CYS 236 R CYS 158 1_555 RA FE2 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? 
#
_chem_comp.formula           'C41 H78 N O8 P' 
_chem_comp.formula_weight    744.034 
_chem_comp.id                PEE 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              1,2-dioleoyl-sn-glycero-3-phosphoethanolamine 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     DOPE 
#
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
N C5 PEE sing 719 n n 
C5 C4 PEE sing 720 n n 
C4 O4P PEE sing 721 n n 
O4P P PEE sing 722 n n 
O1P P PEE doub 723 n n 
C1 O3P PEE sing 724 n n 
C1 C2 PEE sing 725 n n 
O3P P PEE sing 726 n n 
P O2P PEE sing 727 n n 
C2 C3 PEE sing 728 n n 
C2 O2 PEE sing 729 n n 
C3 O3 PEE sing 730 n n 
O2 C10 PEE sing 731 n n 
C31 C30 PEE sing 732 n n 
C31 C32 PEE sing 733 n n 
C33 C32 PEE sing 734 n n 
C33 C34 PEE sing 735 n n 
C30 O3 PEE sing 736 n n 
C30 O5 PEE doub 737 n n 
C10 O4 PEE doub 738 n n 
C10 C11 PEE sing 739 n n 
C34 C35 PEE sing 740 n n 
C11 C12 PEE sing 741 n n 
C35 C36 PEE sing 742 n n 
C36 C37 PEE sing 743 n n 
C37 C38 PEE sing 744 n n 
C38 C39 PEE doub 745 z n 
C12 C13 PEE sing 746 n n 
C39 C40 PEE sing 747 n n 
C13 C14 PEE sing 748 n n 
C14 C15 PEE sing 749 n n 
C40 C41 PEE sing 750 n n 
C15 C16 PEE sing 751 n n 
C41 C42 PEE sing 752 n n 
C16 C17 PEE sing 753 n n 
C42 C43 PEE sing 754 n n 
C17 C18 PEE sing 755 n n 
C43 C44 PEE sing 756 n n 
C18 C19 PEE doub 757 z n 
C46 C47 PEE sing 758 n n 
C46 C45 PEE sing 759 n n 
C44 C45 PEE sing 760 n n 
C19 C20 PEE sing 761 n n 
C20 C21 PEE sing 762 n n 
C21 C22 PEE sing 763 n n 
C22 C23 PEE sing 764 n n 
C23 C24 PEE sing 765 n n 
C24 C25 PEE sing 766 n n 
C26 C25 PEE sing 767 n n 
C26 C27 PEE sing 768 n n 
C27 H7 PEE sing 769 n n 
C27 H8 PEE sing 770 n n 
C27 H82 PEE sing 771 n n 
C26 H5 PEE sing 772 n n 
C26 H6 PEE sing 773 n n 
C25 H12 PEE sing 774 n n 
C25 H4 PEE sing 775 n n 
C24 H10 PEE sing 776 n n 
C24 H11 PEE sing 777 n n 
C23 H83 PEE sing 778 n n 
C23 H9 PEE sing 779 n n 
C22 H2 PEE sing 780 n n 
C22 H3 PEE sing 781 n n 
C21 H14 PEE sing 782 n n 
C21 H1 PEE sing 783 n n 
C20 H16 PEE sing 784 n n 
C20 H13 PEE sing 785 n n 
C19 H18 PEE sing 786 n n 
C18 H20 PEE sing 787 n n 
C17 H22 PEE sing 788 n n 
C17 H19 PEE sing 789 n n 
C16 H21 PEE sing 790 n n 
C16 H28 PEE sing 791 n n 
C15 H23 PEE sing 792 n n 
C15 H24 PEE sing 793 n n 
C14 H25 PEE sing 794 n n 
C14 H26 PEE sing 795 n n 
C13 H17 PEE sing 796 n n 
C13 H27 PEE sing 797 n n 
C12 H15 PEE sing 798 n n 
C12 H29 PEE sing 799 n n 
C11 H30 PEE sing 800 n n 
C11 H31 PEE sing 801 n n 
C2 H32 PEE sing 802 n n 
C1 H33 PEE sing 803 n n 
C1 H34 PEE sing 804 n n 
O2P H35 PEE sing 805 n n 
C4 H36 PEE sing 806 n n 
C4 H37 PEE sing 807 n n 
C5 H38 PEE sing 808 n n 
C5 H39 PEE sing 809 n n 
N H40 PEE sing 810 n n 
N H41 PEE sing 811 n n 
C3 H43 PEE sing 812 n n 
C3 H44 PEE sing 813 n n 
C31 H45 PEE sing 814 n n 
C31 H46 PEE sing 815 n n 
C32 H47 PEE sing 816 n n 
C32 H48 PEE sing 817 n n 
C33 H49 PEE sing 818 n n 
C33 H50 PEE sing 819 n n 
C34 H51 PEE sing 820 n n 
C34 H52 PEE sing 821 n n 
C35 H53 PEE sing 822 n n 
C35 H54 PEE sing 823 n n 
C36 H55 PEE sing 824 n n 
C36 H56 PEE sing 825 n n 
C37 H57 PEE sing 826 n n 
C37 H58 PEE sing 827 n n 
C38 H59 PEE sing 828 n n 
C39 H60 PEE sing 829 n n 
C40 H81 PEE sing 830 n n 
C40 H61 PEE sing 831 n n 
C41 H80 PEE sing 832 n n 
C41 H62 PEE sing 833 n n 
C42 H63 PEE sing 834 n n 
C42 H64 PEE sing 835 n n 
C43 H65 PEE sing 836 n n 
C43 H66 PEE sing 837 n n 
C44 H67 PEE sing 838 n n 
C44 H68 PEE sing 839 n n 
C45 H69 PEE sing 840 n n 
C45 H70 PEE sing 841 n n 
C46 H71 PEE sing 842 n n 
C46 H72 PEE sing 843 n n 
C47 H73 PEE sing 844 n n 
C47 H74 PEE sing 845 n n 
C47 H75 PEE sing 846 n n 
#
_atom_sites.entry_id                     4D6U 
_atom_sites.fract_transf_matrix[1][1]    0.007723 
_atom_sites.fract_transf_matrix[1][2]    0.004459 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008917 
_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]    0.001389 
_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
U 13 HEM C 1 501 501 HEM HEM . 
V 13 HEM C 1 502 502 HEM HEM . 
W 14 G8U C 1 503 503 G8U G8U . 
X 15 PO4 C 1 504 504 PO4 PO4 . 
Y 16 PEE C 1 505 505 PEE PEE . 
Z 17 HEC D 1 501 501 HEC HEC . 
AA 15 PO4 D 1 502 502 PO4 PO4 . 
BA 15 PO4 D 1 503 503 PO4 PO4 . 
CA 15 PO4 D 1 504 504 PO4 PO4 . 
DA 18 CDL D 1 505 505 CDL CDL . 
EA 16 PEE D 1 506 506 PEE PEE . 
FA 15 PO4 E 1 501 501 PO4 PO4 . 
GA 15 PO4 F 1 501 501 PO4 PO4 . 
HA 18 CDL G 1 501 501 CDL CDL . 
IA 15 PO4 N 1 501 501 PO4 PO4 . 
JA 13 HEM P 1 501 501 HEM HEM . 
KA 13 HEM P 1 502 502 HEM HEM . 
LA 14 G8U P 1 503 503 G8U G8U . 
MA 15 PO4 P 1 504 504 PO4 PO4 . 
NA 16 PEE P 1 505 505 PEE PEE . 
OA 17 HEC Q 1 501 501 HEC HEC . 
PA 18 CDL Q 1 505 505 CDL CDL . 
QA 16 PEE Q 1 506 506 PEE PEE . 
RA 19 FES R 1 501 501 FES FES . 
SA 20 GOL R 1 502 502 GOL GOL . 
TA 15 PO4 S 1 501 501 PO4 PO4 . 
UA 18 CDL T 1 501 501 CDL CDL . 
#
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 C13 PEE . . . EA 16 43.398 -8.943 25.159 1 124.24 ? C13 PEE 506 D 1 
HETATM 2 C C12 PEE . . . EA 16 42.542 -9.934 25.948 1 134.35 ? C12 PEE 506 D 1 
HETATM 3 C C11 PEE . . . EA 16 41.262 -10.334 25.195 1 143.15 ? C11 PEE 506 D 1 
HETATM 4 C C10 PEE . . . EA 16 40.307 -11.16 26.044 1 148.59 ? C10 PEE 506 D 1 
HETATM 5 O O4 PEE . . . EA 16 40.7 -12.172 26.609 1 157.89 ? O4 PEE 506 D 1 
HETATM 6 O O2 PEE . . . EA 16 38.902 -10.769 26.166 1 144.48 ? O2 PEE 506 D 1 
HETATM 7 C C2 PEE . . . EA 16 38.304 -10.962 27.451 1 138.14 ? C2 PEE 506 D 1 
HETATM 8 C C1 PEE . . . EA 16 36.95 -11.655 27.274 1 138.98 ? C1 PEE 506 D 1 
HETATM 9 O O3P PEE . . . EA 16 36.705 -12.644 28.28 1 145.68 ? O3P PEE 506 D 1 
HETATM 10 P P PEE . . . EA 16 35.194 -13.17 28.543 1 152.34 ? P PEE 506 D 1 
HETATM 11 O O2P PEE . . . EA 16 34.514 -12.178 29.466 1 155.06 ? O2P PEE 506 D 1 
HETATM 12 O O1P PEE . . . EA 16 34.592 -13.504 27.193 1 152.03 ? O1P PEE 506 D 1 
HETATM 13 O O4P PEE . . . EA 16 35.343 -14.544 29.376 1 149.75 ? O4P PEE 506 D 1 
HETATM 14 C C4 PEE . . . EA 16 34.268 -15.041 30.177 1 151.11 ? C4 PEE 506 D 1 
HETATM 15 C C5 PEE . . . EA 16 33.318 -15.864 29.324 1 155.39 ? C5 PEE 506 D 1 
HETATM 16 N N PEE . . . EA 16 31.917 -15.702 29.804 1 162.4 ? N PEE 506 D 1 
HETATM 17 C C3 PEE . . . EA 16 38.123 -9.614 28.136 1 139.43 ? C3 PEE 506 D 1 
HETATM 18 O O3 PEE . . . EA 16 39.252 -8.745 27.976 1 147.12 ? O3 PEE 506 D 1 
HETATM 19 C C30 PEE . . . EA 16 39.131 -7.398 27.409 1 170.57 ? C30 PEE 506 D 1 
HETATM 20 O O5 PEE . . . EA 16 38.185 -6.701 27.77 1 178.71 ? O5 PEE 506 D 1 
HETATM 21 C C31 PEE . . . EA 16 40.16 -6.895 26.394 1 178.24 ? C31 PEE 506 D 1 
HETATM 22 C C32 PEE . . . EA 16 40.336 -5.368 26.385 1 176.54 ? C32 PEE 506 D 1 
HETATM 23 C C33 PEE . . . EA 16 41.042 -4.843 25.126 1 170.41 ? C33 PEE 506 D 1 
HETATM 24 C C34 PEE . . . EA 16 41.196 -3.314 25.125 1 161.22 ? C34 PEE 506 D 1 
HETATM 25 C C35 PEE . . . EA 16 40.744 -2.655 23.817 1 151.77 ? C35 PEE 506 D 1 
HETATM 26 C C36 PEE . . . EA 16 41.387 -1.287 23.588 1 138.2 ? C36 PEE 506 D 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    35 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          20 
_model_server_stats.element_count           26 
#