data_6WM2 # _model_server_result.job_id 2K-k2qu_AtBcHC02FfgSbg _model_server_result.datetime_utc '2024-11-05 15:22:16' _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 6wm2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"JB","auth_seq_id":202}' # _entry.id 6WM2 # _exptl.entry_id 6WM2 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 497.391 _entity.id 29 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2~{S})-2-$l^{4}-azanyl-3-[[(2~{R})-3-octadecanoyloxy-2-oxidanyl-propoxy]-oxidanyl-oxidanylidene-$l^{6}-phosphanyl]oxy-propanoic acid' _entity.pdbx_number_of_molecules 1 _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 6WM2 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WM2 _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 ? _pdbx_struct_assembly.oligomeric_details 35-meric _pdbx_struct_assembly.oligomeric_count 35 _pdbx_struct_assembly.details author_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,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB _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 # _struct_asym.details ? _struct_asym.entity_id 29 _struct_asym.id JB _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 18 oligosaccharide 19 oligosaccharide 20 oligosaccharide 21 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 18 2 1 GAL BGC C1 O1 . O4 HO4 . sing 2 ? 18 3 2 NGA GAL C1 O1 . O4 HO4 . sing 3 ? 18 4 3 GAL NGA C1 O1 . O3 HO3 . sing 4 ? 18 5 2 SIA GAL C2 O2 . O3 HO3 . sing 5 ? 19 2 1 NGA GAL C1 O1 . O4 HO4 . sing 6 ? 19 3 2 GAL NGA C1 O1 . O3 HO3 . sing 7 ? 19 4 1 SIA GAL C2 O2 . O3 HO3 . sing 8 ? 20 2 1 NAG NAG C1 O1 . O4 HO4 . sing 9 ? 21 2 1 NAG NAG C1 O1 . O4 HO4 . sing 10 ? 21 3 2 BMA NAG C1 O1 . O4 HO4 . sing 11 ? 21 4 3 MAN BMA C1 O1 . O3 HO3 . sing 12 ? 21 5 4 MAN MAN C1 O1 . O2 HO2 . sing 13 ? 21 6 5 MAN MAN C1 O1 . O2 HO2 . sing 14 ? 21 7 6 GLC MAN C1 O1 . O3 HO3 . sing 15 ? 21 8 7 GLC GLC C1 O1 . O3 HO3 . sing 16 ? 21 9 8 GLC GLC C1 O1 . O2 HO2 . sing 17 ? 21 10 3 MAN BMA C1 O1 . O6 HO6 . sing 18 ? 21 11 10 MAN MAN C1 O1 . O6 HO6 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 18 n JA BGC 1 W 1 BGC W 45 BGC 18 n JA GAL 2 W 2 GAL W 46 GAL 18 n JA NGA 3 W 3 NGA W 47 NGA 18 n JA GAL 4 W 4 GAL W 48 GAL 18 n JA SIA 5 W 5 SIA W 49 SIA 19 n KA GAL 1 a 1 GAL W 51 GAL 19 n KA NGA 2 a 2 NGA W 52 NGA 19 n KA GAL 3 a 3 GAL W 53 GAL 19 n KA SIA 4 a 4 SIA W 54 SIA 20 n LA NAG 1 u 1 NAG u 1 NAG 20 n LA NAG 2 u 2 NAG u 9 NAG 20 n MA NAG 1 b 1 NAG u 3 NAG 20 n MA NAG 2 b 2 NAG u 7 NAG 20 n NA NAG 1 c 1 NAG u 4 NAG 20 n NA NAG 2 c 2 NAG u 8 NAG 20 n OA NAG 1 d 1 NAG u 6 NAG 20 n OA NAG 2 d 2 NAG u 10 NAG 20 n PA NAG 1 s 1 NAG s 81 NAG 20 n PA NAG 2 s 2 NAG s 82 NAG 21 n QA NAG 1 r 1 NAG r 1067 NAG 21 n QA NAG 2 r 2 NAG r 1068 NAG 21 n QA BMA 3 r 3 BMA r 1069 BMA 21 n QA MAN 4 r 4 MAN r 1070 MAN 21 n QA MAN 5 r 5 MAN r 1071 MAN 21 n QA MAN 6 r 6 MAN r 1072 MAN 21 n QA GLC 7 r 7 GLC r 1073 GLC 21 n QA GLC 8 r 8 GLC r 1074 GLC 21 n QA GLC 9 r 9 GLC r 1075 GLC 21 n QA MAN 10 r 10 MAN r 1076 MAN 21 n QA MAN 11 r 11 MAN r 1077 MAN # 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 HA SG CYS 371 U CYS 371 1_555 HA SG CYS 418 U CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 I ND2 ASN 488 R ASN 488 1_555 WA C1 NAG . R NAG 906 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 XA O34 WJP . R WJP 907 1_555 QA C1 NAG . r NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.373 ? covale ? covale3 FA ND2 ASN 70 S ASN 70 1_555 PA C1 NAG . s NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale4 HA ND2 ASN 261 U ASN 261 1_555 MA C1 NAG . b NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 HA ND2 ASN 303 U ASN 303 1_555 NA C1 NAG . c NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale6 HA ND2 ASN 350 U ASN 350 1_555 LA C1 NAG . u NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale7 HA ND2 ASN 357 U ASN 357 1_555 UB C1 NAG . U NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale8 JA O4 BGC . W BGC 1 1_555 JA C1 GAL . W GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale9 JA O4 GAL . W GAL 2 1_555 JA C1 NGA . W NGA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale10 JA O3 GAL . W GAL 2 1_555 JA C2 SIA . W SIA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.536 ? covale ? covale11 JA O3 NGA . W NGA 3 1_555 JA C1 GAL . W GAL 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale12 KA O4 GAL . a GAL 1 1_555 KA C1 NGA . a NGA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale13 KA O3 GAL . a GAL 1 1_555 KA C2 SIA . a SIA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.538 ? covale ? covale14 KA O3 NGA . a NGA 2 1_555 KA C1 GAL . a GAL 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale15 LA O4 NAG . u NAG 1 1_555 LA C1 NAG . u NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 sing covale ? covale16 MA O4 NAG . b NAG 1 1_555 MA C1 NAG . b NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale17 NA O4 NAG . c NAG 1 1_555 NA C1 NAG . c NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale18 OA O4 NAG . d NAG 1 1_555 OA C1 NAG . d NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale19 PA O4 NAG . s NAG 1 1_555 PA C1 NAG . s NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale20 QA O4 NAG . r NAG 1 1_555 QA C1 NAG . r NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale21 QA O4 NAG . r NAG 2 1_555 QA C1 BMA . r BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale22 QA O3 BMA . r BMA 3 1_555 QA C1 MAN . r MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale23 QA O6 BMA . r BMA 3 1_555 QA C1 MAN . r MAN 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale24 QA O2 MAN . r MAN 4 1_555 QA C1 MAN . r MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale25 QA O2 MAN . r MAN 5 1_555 QA C1 MAN . r MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale26 QA O3 MAN . r MAN 6 1_555 QA C1 GLC . r GLC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale27 QA O3 GLC . r GLC 7 1_555 QA C1 GLC . r GLC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale28 QA O2 GLC . r GLC 8 1_555 QA C1 GLC . r GLC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale29 QA O6 MAN . r MAN 10 1_555 QA C1 MAN . r MAN 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _chem_comp.formula 'C24 H20 N O9 P' _chem_comp.formula_weight 497.391 _chem_comp.id WJS _chem_comp.mon_nstd_flag . _chem_comp.name '(2~{S})-2-$l^{4}-azanyl-3-[[(2~{R})-3-octadecanoyloxy-2-oxidanyl-propoxy]-oxidanyl-oxidanylidene-$l^{6}-phosphanyl]oxy-propanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6WM2 _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 RA 22 CLR R 1 901 22 CLR CLR . SA 23 PSF R 1 902 23 PSF PSF . TA 24 PTY R 1 903 26 PTY PTY . UA 24 PTY R 1 904 36 PTY PTY . VA 25 WSS R 1 905 38 WSS PCW . WA 26 NAG R 1 906 1000 NAG NAG . XA 27 WJP R 1 907 1066 WJP DOP . YA 28 ADP C 1 701 1 ADP ADP . ZA 25 WSS 0 1 301 1 WSS PCW . AB 25 WSS 0 1 302 2 WSS PCW . BB 25 WSS 0 1 303 5 WSS PCW . CB 22 CLR 0 1 304 10 CLR CLR . DB 25 WSS 0 1 305 11 WSS PCW . EB 24 PTY 0 1 306 30 PTY PTY . FB 24 PTY 0 1 307 33 PTY PTY . GB 25 WSS 1 1 201 6 WSS PCW . HB 24 PTY 2 1 201 24 PTY PTY . IB 25 WSS 3 1 201 8 WSS PCW . JB 29 WJS 3 1 202 40 WJS PSL . KB 22 CLR 5 1 201 12 CLR CLR . LB 24 PTY 5 1 202 27 PTY PTY . MB 24 PTY 6 1 201 28 PTY PTY . NB 24 PTY 7 1 201 34 PTY PTY . OB 24 PTY 8 1 201 35 PTY PTY . PB 24 PTY 8 1 202 37 PTY PTY . QB 24 PTY Q 1 401 31 PTY PTY . RB 25 WSS U 1 501 3 WSS PCW . SB 25 WSS U 1 502 4 WSS PCW . TB 24 PTY U 1 503 32 PTY PTY . UB 26 NAG U 1 504 5 NAG NAG . VB 25 WSS V 1 401 7 WSS PCW . WB 22 CLR V 1 402 21 CLR CLR . XB 24 PTY V 1 403 29 PTY PTY . # 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 P P25 WJS . . . JB 29 242.527 245.675 219.084 1 20 ? P25 WJS 202 3 1 HETATM 2 C C09 WJS . . . JB 29 253.416 259.492 223.179 1 20 ? C09 WJS 202 3 1 HETATM 3 C C10 WJS . . . JB 29 252.967 258.117 222.59 1 20 ? C10 WJS 202 3 1 HETATM 4 C C11 WJS . . . JB 29 251.506 257.646 222.896 1 20 ? C11 WJS 202 3 1 HETATM 5 C C12 WJS . . . JB 29 251.145 256.183 222.537 1 20 ? C12 WJS 202 3 1 HETATM 6 C C13 WJS . . . JB 29 251.903 255.52 221.35 1 20 ? C13 WJS 202 3 1 HETATM 7 C C14 WJS . . . JB 29 251.625 254 221.099 1 20 ? C14 WJS 202 3 1 HETATM 8 C C15 WJS . . . JB 29 250.357 253.387 221.731 1 20 ? C15 WJS 202 3 1 HETATM 9 C C16 WJS . . . JB 29 249.342 252.809 220.722 1 20 ? C16 WJS 202 3 1 HETATM 10 C C17 WJS . . . JB 29 248.271 251.914 221.35 1 20 ? C17 WJS 202 3 1 HETATM 11 C C18 WJS . . . JB 29 247.212 251.461 220.369 1 20 ? C18 WJS 202 3 1 HETATM 12 O O19 WJS . . . JB 29 247.149 251.864 219.215 1 20 ? O19 WJS 202 3 1 HETATM 13 O O20 WJS . . . JB 29 246.33 250.576 220.852 1 20 ? O20 WJS 202 3 1 HETATM 14 C C21 WJS . . . JB 29 245.289 250.083 220.037 1 20 ? C21 WJS 202 3 1 HETATM 15 C C22 WJS . . . JB 29 245.199 248.539 220.146 1 20 ? C22 WJS 202 3 1 HETATM 16 C C23 WJS . . . JB 29 243.84 247.952 219.663 1 20 ? C23 WJS 202 3 1 HETATM 17 O O24 WJS . . . JB 29 243.983 246.653 219.253 1 20 ? O24 WJS 202 3 1 HETATM 18 O O26 WJS . . . JB 29 241.643 246.589 218.311 1 20 ? O26 WJS 202 3 1 HETATM 19 O O27 WJS . . . JB 29 242.258 245.251 220.484 1 20 ? O27 WJS 202 3 1 HETATM 20 O O28 WJS . . . JB 29 242.898 244.35 218.169 1 20 ? O28 WJS 202 3 1 HETATM 21 C C29 WJS . . . JB 29 242.526 243.03 218.481 1 20 ? C29 WJS 202 3 1 HETATM 22 C C30 WJS . . . JB 29 241.184 242.575 217.788 1 20 ? C30 WJS 202 3 1 HETATM 23 C C31 WJS . . . JB 29 241.21 241.09 217.254 1 20 ? C31 WJS 202 3 1 HETATM 24 O O32 WJS . . . JB 29 242.168 240.752 216.519 1 20 ? O32 WJS 202 3 1 HETATM 25 O O33 WJS . . . JB 29 240.294 240.296 217.561 1 20 ? O33 WJS 202 3 1 HETATM 26 N N34 WJS . . . JB 29 240.093 242.689 218.78 1 20 ? N34 WJS 202 3 1 HETATM 27 O O35 WJS . . . JB 29 245.53 248.226 221.445 1 20 ? O35 WJS 202 3 1 # _model_server_stats.io_time_ms 31 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 454 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #