data_7YML # _model_server_result.job_id Jhi5Hvg77Ja2dSDlNV3gjQ _model_server_result.datetime_utc '2025-02-26 07:46:11' _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 7yml # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"HB","auth_seq_id":101}' # _entry.id 7YML # _exptl.entry_id 7YML _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 911.504 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'BACTERIOCHLOROPHYLL A' _entity.pdbx_number_of_molecules 25 _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 7YML _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YML _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 24-meric _pdbx_struct_assembly.oligomeric_count 24 _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,YB,ZB,AC,BC,CC,DC,EC,FC,GC,HC,IC,JC,KC,LC,MC,NC,OC,PC,QC,RC,SC,TC,UC,VC,WC,XC,YC,ZC,AD,BD,CD,DD,ED,FD,GD,HD,ID,JD,KD _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 ? 7 Y N N ? 7 HA N N ? 7 LA N N ? 7 MA N N ? 7 HB N N ? 7 JB N N ? 7 LB N N ? 7 QB N N ? 7 RB N N ? 7 TB N N ? 7 VB N N ? 7 YB N N ? 7 BC N N ? 7 DC N N ? 7 FC N N ? 7 HC N N ? 7 LC N N ? 7 QC N N ? 7 SC N N ? 7 VC N N ? 7 ZC N N ? 7 AD N N ? 7 CD N N ? 7 ED N N ? 7 GD 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 covale ? covale1 D C FME 1 A FME 1 1_555 D N SER 2 A SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 F C FME 1 D FME 1 1_555 F N SER 2 D SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 H C FME 1 F FME 1 1_555 H N SER 2 F SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 J C FME 1 I FME 1 1_555 J N SER 2 I SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale5 L C FME 1 K FME 1 1_555 L N SER 2 K SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale6 N C FME 1 O FME 1 1_555 N N SER 2 O SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale7 P C FME 1 Q FME 1 1_555 P N SER 2 Q SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale8 R C FME 1 S FME 1 1_555 R N SER 2 S SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale9 T C FME 1 V FME 1 1_555 T N SER 2 V SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A NE2 HIS 191 L HIS 191 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc2 A NE2 HIS 231 L HIS 231 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc3 B NE2 HIS 218 M HIS 218 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc4 B OE1 GLU 233 M GLU 233 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc5 B OE2 GLU 233 M GLU 233 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc6 B NE2 HIS 265 M HIS 265 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? metalc ? metalc7 RB MG BCL . F BCL 101 1_555 SB O1 MYR . F MYR 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.654 ? # _chem_comp.formula 'C55 H74 Mg N4 O6' _chem_comp.formula_weight 911.504 _chem_comp.id BCL _chem_comp.mon_nstd_flag . _chem_comp.name 'BACTERIOCHLOROPHYLL A' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 7YML _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 Y 7 BCL L 1 301 301 BCL BCL . Z 8 BPH L 1 302 302 BPH BPH . AA 9 U10 L 1 303 310 U10 U10 . BA 9 U10 L 1 304 312 U10 U10 . CA 10 PGV L 1 305 316 PGV PGV . DA 11 PEE L 1 306 317 PEE PEE . EA 12 LDA L 1 307 318 LDA LDA . FA 13 LMT L 1 308 319 LMT LMT . GA 13 LMT L 1 309 320 LMT LMT . HA 7 BCL L 1 310 401 BCL BCL . IA 13 LMT L 1 311 307 LMT LMT . JA 9 U10 M 1 401 311 U10 U10 . KA 10 PGV M 1 402 315 PGV PGV . LA 7 BCL M 1 403 402 BCL BCL . MA 7 BCL M 1 404 403 BCL BCL . NA 8 BPH M 1 405 404 BPH BPH . OA 14 FE M 1 406 410 FE FE . PA 9 U10 M 1 407 411 U10 U10 . QA 15 SPO M 1 408 412 SPO SPO . RA 13 LMT M 1 409 418 LMT LMT . SA 13 LMT M 1 410 420 LMT LMT . TA 13 LMT M 1 411 422 LMT LMT . UA 13 LMT M 1 412 423 LMT LMT . VA 10 PGV M 1 413 424 PGV PGV . WA 10 PGV M 1 414 425 PGV PGV . XA 10 PGV M 1 415 426 PGV PGV . YA 12 LDA M 1 416 428 LDA LDA . ZA 13 LMT M 1 417 429 LMT LMT . AB 12 LDA M 1 418 430 LDA LDA . BB 12 LDA M 1 419 431 LDA LDA . CB 12 LDA M 1 420 433 LDA LDA . DB 12 LDA H 1 301 413 LDA LDA . EB 12 LDA H 1 302 416 LDA LDA . FB 10 PGV H 1 303 305 PGV PGV . GB 10 PGV H 1 304 306 PGV PGV . HB 7 BCL A 1 101 101 BCL BCL . IB 13 LMT A 1 102 201 LMT LMT . JB 7 BCL B 1 101 101 BCL BCL . KB 15 SPO D 1 101 110 SPO SPO . LB 7 BCL D 1 102 101 BCL BCL . MB 15 SPO D 1 103 110 SPO SPO . NB 12 LDA D 1 104 112 LDA LDA . OB 15 SPO D 1 105 110 SPO SPO . PB 15 SPO E 1 101 111 SPO SPO . QB 7 BCL E 1 102 101 BCL BCL . RB 7 BCL F 1 101 310 BCL BCL . SB 16 MYR F 1 102 311 MYR MYR . TB 7 BCL F 1 103 101 BCL BCL . UB 15 SPO F 1 104 111 SPO SPO . VB 7 BCL G 1 101 101 BCL BCL . WB 15 SPO G 1 102 111 SPO SPO . XB 13 LMT I 1 101 314 LMT LMT . YB 7 BCL I 1 102 101 BCL BCL . ZB 15 SPO I 1 103 110 SPO SPO . AC 15 SPO I 1 104 110 SPO SPO . BC 7 BCL J 1 101 101 BCL BCL . CC 13 LMT K 1 101 302 LMT LMT . DC 7 BCL K 1 102 101 BCL BCL . EC 15 SPO N 1 101 111 SPO SPO . FC 7 BCL N 1 102 101 BCL BCL . GC 12 LDA O 1 101 435 LDA LDA . HC 7 BCL O 1 102 101 BCL BCL . IC 15 SPO O 1 103 110 SPO SPO . JC 15 SPO O 1 104 110 SPO SPO . KC 15 SPO P 1 101 111 SPO SPO . LC 7 BCL P 1 102 101 BCL BCL . MC 13 LMT Q 1 101 414 LMT LMT . NC 12 LDA Q 1 102 417 LDA LDA . OC 10 PGV Q 1 103 427 PGV PGV . PC 12 LDA Q 1 104 434 LDA LDA . QC 7 BCL Q 1 105 101 BCL BCL . RC 15 SPO R 1 101 111 SPO SPO . SC 7 BCL R 1 102 101 BCL BCL . TC 13 LMT S 1 101 415 LMT LMT . UC 13 LMT S 1 102 419 LMT LMT . VC 7 BCL S 1 103 101 BCL BCL . WC 15 SPO S 1 104 110 SPO SPO . XC 15 SPO S 1 105 110 SPO SPO . YC 15 SPO T 1 101 111 SPO SPO . ZC 7 BCL T 1 102 101 BCL BCL . AD 7 BCL V 1 101 101 BCL BCL . BD 15 SPO W 1 101 111 SPO SPO . CD 7 BCL W 1 102 101 BCL BCL . DD 13 LMT Y 1 101 421 LMT LMT . ED 7 BCL Y 1 102 101 BCL BCL . FD 13 LMT Y 1 103 432 LMT LMT . GD 7 BCL Z 1 101 101 BCL BCL . HD 13 LMT X 1 101 321 LMT LMT . ID 13 LMT X 1 102 301 LMT LMT . JD 17 HOH L 1 401 1 HOH HOH . JD 17 HOH L 2 402 3 HOH HOH . JD 17 HOH L 3 403 4 HOH HOH . JD 17 HOH L 4 404 2 HOH HOH . KD 17 HOH M 1 501 6 HOH HOH . KD 17 HOH M 2 502 5 HOH HOH . KD 17 HOH M 3 503 7 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 MG MG BCL . . . HB 7 193.32 133.578 190.954 1 69.81 ? MG BCL 101 A 1 HETATM 2 C CHA BCL . . . HB 7 194.218 135.959 193.202 1 68.74 ? CHA BCL 101 A 1 HETATM 3 C CHB BCL . . . HB 7 190.261 133.465 192.124 1 73.42 ? CHB BCL 101 A 1 HETATM 4 C CHC BCL . . . HB 7 193.223 130.446 189.833 1 76.6 ? CHC BCL 101 A 1 HETATM 5 C CHD BCL . . . HB 7 196.547 133.587 189.589 1 68.71 ? CHD BCL 101 A 1 HETATM 6 N NA BCL . . . HB 7 192.378 134.511 192.442 1 75.22 ? NA BCL 101 A 1 HETATM 7 C C1A BCL . . . HB 7 192.842 135.406 193.235 1 73.45 ? C1A BCL 101 A 1 HETATM 8 C C2A BCL . . . HB 7 191.883 135.768 194.332 1 70.98 ? C2A BCL 101 A 1 HETATM 9 C C3A BCL . . . HB 7 190.77 134.771 194.142 1 71.01 ? C3A BCL 101 A 1 HETATM 10 C C4A BCL . . . HB 7 191.128 134.208 192.814 1 74.85 ? C4A BCL 101 A 1 HETATM 11 C CMA BCL . . . HB 7 190.845 133.681 195.195 1 70.05 ? CMA BCL 101 A 1 HETATM 12 C CAA BCL . . . HB 7 191.367 137.194 194.254 1 70.11 ? CAA BCL 101 A 1 HETATM 13 C CBA BCL . . . HB 7 190.91 137.592 195.65 1 69.46 ? CBA BCL 101 A 1 HETATM 14 C CGA BCL . . . HB 7 190.331 138.981 195.652 1 73.53 ? CGA BCL 101 A 1 HETATM 15 O O1A BCL . . . HB 7 190.528 139.746 194.728 1 77.2 ? O1A BCL 101 A 1 HETATM 16 O O2A BCL . . . HB 7 189.54 139.428 196.78 1 75.2 ? O2A BCL 101 A 1 HETATM 17 N NB BCL . . . HB 7 191.908 132.106 190.991 1 78.43 ? NB BCL 101 A 1 HETATM 18 C C1B BCL . . . HB 7 190.666 132.194 191.5 1 75.69 ? C1B BCL 101 A 1 HETATM 19 C C2B BCL . . . HB 7 189.826 130.971 191.371 1 74.08 ? C2B BCL 101 A 1 HETATM 20 C C3B BCL . . . HB 7 190.766 130.069 190.679 1 75.75 ? C3B BCL 101 A 1 HETATM 21 C C4B BCL . . . HB 7 191.988 130.871 190.491 1 77.21 ? C4B BCL 101 A 1 HETATM 22 C CMB BCL . . . HB 7 188.417 130.734 191.843 1 71.97 ? CMB BCL 101 A 1 HETATM 23 C CAB BCL . . . HB 7 190.574 128.665 190.227 1 75.04 ? CAB BCL 101 A 1 HETATM 24 O OBB BCL . . . HB 7 190.793 128.365 189.067 1 74.69 ? OBB BCL 101 A 1 HETATM 25 C CBB BCL . . . HB 7 190.152 127.668 191.263 1 73.61 ? CBB BCL 101 A 1 HETATM 26 N NC BCL . . . HB 7 194.33 132.501 189.625 1 76.58 ? NC BCL 101 A 1 HETATM 27 C C1C BCL . . . HB 7 193.903 131.344 189.133 1 75.19 ? C1C BCL 101 A 1 HETATM 28 C C2C BCL . . . HB 7 194.388 131.104 187.749 1 70.89 ? C2C BCL 101 A 1 HETATM 29 C C3C BCL . . . HB 7 195.665 131.912 187.837 1 71.56 ? C3C BCL 101 A 1 HETATM 30 C C4C BCL . . . HB 7 195.466 132.723 189.085 1 72.33 ? C4C BCL 101 A 1 HETATM 31 C CMC BCL . . . HB 7 194.648 129.621 187.536 1 66.98 ? CMC BCL 101 A 1 HETATM 32 C CAC BCL . . . HB 7 195.886 132.801 186.626 1 69.92 ? CAC BCL 101 A 1 HETATM 33 C CBC BCL . . . HB 7 197.363 132.892 186.31 1 69.64 ? CBC BCL 101 A 1 HETATM 34 N ND BCL . . . HB 7 195.103 134.503 191.26 1 69.19 ? ND BCL 101 A 1 HETATM 35 C C1D BCL . . . HB 7 196.325 134.508 190.703 1 69.08 ? C1D BCL 101 A 1 HETATM 36 C C2D BCL . . . HB 7 197.257 135.484 191.367 1 67.32 ? C2D BCL 101 A 1 HETATM 37 C C3D BCL . . . HB 7 196.349 136.039 192.377 1 67.63 ? C3D BCL 101 A 1 HETATM 38 C C4D BCL . . . HB 7 195.167 135.449 192.239 1 68.07 ? C4D BCL 101 A 1 HETATM 39 C CMD BCL . . . HB 7 198.679 135.956 191.262 1 67.34 ? CMD BCL 101 A 1 HETATM 40 C CAD BCL . . . HB 7 196.278 137.016 193.477 1 68.97 ? CAD BCL 101 A 1 HETATM 41 O OBD BCL . . . HB 7 197.241 137.76 193.875 1 78.13 ? OBD BCL 101 A 1 HETATM 42 C CBD BCL . . . HB 7 194.895 136.994 194.046 1 64.02 ? CBD BCL 101 A 1 HETATM 43 C CGD BCL . . . HB 7 194.943 136.623 195.485 1 72.5 ? CGD BCL 101 A 1 HETATM 44 O O1D BCL . . . HB 7 194.681 135.488 195.836 1 78.32 ? O1D BCL 101 A 1 HETATM 45 O O2D BCL . . . HB 7 195.302 137.628 196.47 1 75.05 ? O2D BCL 101 A 1 HETATM 46 C CED BCL . . . HB 7 194.76 137.58 197.787 1 72.92 ? CED BCL 101 A 1 HETATM 47 C C1 BCL . . . HB 7 188.547 140.428 196.601 1 72.66 ? C1 BCL 101 A 1 HETATM 48 C C2 BCL . . . HB 7 187.508 140.251 197.676 1 73.36 ? C2 BCL 101 A 1 HETATM 49 C C3 BCL . . . HB 7 187.652 140.879 198.848 1 73 ? C3 BCL 101 A 1 HETATM 50 C C4 BCL . . . HB 7 188.839 141.764 199.089 1 69.06 ? C4 BCL 101 A 1 HETATM 51 C C5 BCL . . . HB 7 186.613 140.698 199.924 1 75.09 ? C5 BCL 101 A 1 HETATM 52 C C6 BCL . . . HB 7 187.293 140.685 201.286 1 72.68 ? C6 BCL 101 A 1 HETATM 53 C C7 BCL . . . HB 7 187.996 139.36 201.549 1 73.85 ? C7 BCL 101 A 1 HETATM 54 C C8 BCL . . . HB 7 188.19 139.144 203.043 1 74.92 ? C8 BCL 101 A 1 HETATM 55 C C9 BCL . . . HB 7 186.899 139.389 203.81 1 74.24 ? C9 BCL 101 A 1 HETATM 56 C C10 BCL . . . HB 7 189.302 140.06 203.528 1 73.54 ? C10 BCL 101 A 1 HETATM 57 C C11 BCL . . . HB 7 190.513 139.26 203.989 1 74.64 ? C11 BCL 101 A 1 HETATM 58 C C12 BCL . . . HB 7 191.779 140.101 203.897 1 73.48 ? C12 BCL 101 A 1 HETATM 59 C C13 BCL . . . HB 7 192.966 139.382 204.52 1 73.56 ? C13 BCL 101 A 1 HETATM 60 C C14 BCL . . . HB 7 193.184 138.013 203.886 1 72.77 ? C14 BCL 101 A 1 HETATM 61 C C15 BCL . . . HB 7 192.736 139.262 206.02 1 69.85 ? C15 BCL 101 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 61 #