data_7MLY # _model_server_result.job_id yHdw8oU0envYmS7Meiyj-Q _model_server_result.datetime_utc '2024-11-28 17:31:37' _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 7mly # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"GA","auth_seq_id":506}' # _entry.id 7MLY # _exptl.entry_id 7MLY _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 72.149 _entity.id 11 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description PENTANE _entity.pdbx_number_of_molecules 10 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tridecameric _pdbx_struct_assembly.oligomeric_count 13 _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 _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 ? 11 V N N ? 11 Y N N ? 11 GA N N ? 11 JA N N ? 11 QA N N ? 11 SA N N ? 11 ZA N N ? 11 BB N N ? 11 LB N N ? 11 NB N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 5 oligosaccharide 6 oligosaccharide 7 oligosaccharide 8 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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 5 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 5 5 4 MAN MAN C1 O1 . O2 HO2 . sing 5 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 6 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing 7 ? 6 4 3 MAN BMA C1 O1 . O3 HO3 . sing 8 ? 6 5 3 MAN BMA C1 O1 . O6 HO6 . sing 9 ? 7 2 1 NAG NAG C1 O1 . O4 HO4 . sing 10 ? 7 3 2 BMA NAG C1 O1 . O4 HO4 . sing 11 ? 7 4 3 MAN BMA C1 O1 . O6 HO6 . sing 12 ? 8 2 1 NAG NAG C1 O1 . O4 HO4 . sing 13 ? 8 3 2 BMA NAG C1 O1 . O4 HO4 . 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 5 n N NAG 1 T 1 NAG D 601 NAG 5 n N NAG 2 T 2 NAG D 602 NAG 5 n N BMA 3 T 3 BMA D 603 BMA 5 n N MAN 4 T 4 MAN D 604 MAN 5 n N MAN 5 T 5 MAN D 605 MAN 6 n O NAG 1 Z 1 NAG A 601 NAG 6 n O NAG 2 Z 2 NAG A 602 NAG 6 n O BMA 3 Z 3 BMA A 603 BMA 6 n O MAN 4 Z 4 MAN A 604 MAN 6 n O MAN 5 Z 5 MAN A 605 MAN 7 n P NAG 1 f 1 NAG B 601 NAG 7 n P NAG 2 f 2 NAG B 602 NAG 7 n P BMA 3 f 3 BMA B 603 BMA 7 n P MAN 4 f 4 MAN B 604 MAN 7 n Q NAG 1 l 1 NAG C 601 NAG 7 n Q NAG 2 l 2 NAG C 602 NAG 7 n Q BMA 3 l 3 BMA C 603 BMA 7 n Q MAN 4 l 4 MAN C 604 MAN 8 n R NAG 1 r 1 NAG E 601 NAG 8 n R NAG 2 r 2 NAG E 602 NAG 8 n R BMA 3 r 3 BMA E 603 BMA # 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 23 J CYS 23 1_555 A SG CYS 88 J CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 B SG CYS 22 G CYS 22 1_555 B SG CYS 96 G CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 C SG CYS 23 K CYS 23 1_555 C SG CYS 88 K CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 D SG CYS 22 F CYS 22 1_555 D SG CYS 96 F CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 E SG CYS 23 M CYS 23 1_555 E SG CYS 88 M CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 F SG CYS 22 L CYS 22 1_555 F SG CYS 96 L CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf7 G SG CYS 23 I CYS 23 1_555 G SG CYS 88 I CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 H SG CYS 22 H CYS 22 1_555 H SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 I SG CYS 166 D CYS 138 1_555 I SG CYS 180 D CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf10 I SG CYS 226 D CYS 198 1_555 I SG CYS 237 D CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf11 J SG CYS 166 A CYS 138 1_555 J SG CYS 180 A CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf12 J SG CYS 226 A CYS 198 1_555 J SG CYS 237 A CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf13 K SG CYS 166 B CYS 138 1_555 K SG CYS 180 B CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf14 K SG CYS 226 B CYS 198 1_555 K SG CYS 237 B CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf15 L SG CYS 166 C CYS 138 1_555 L SG CYS 180 C CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf16 L SG CYS 226 C CYS 198 1_555 L SG CYS 237 C CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf17 M SG CYS 183 E CYS 161 1_555 M SG CYS 197 E CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf18 M SG CYS 243 E CYS 221 1_555 M SG CYS 255 E CYS 233 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 I ND2 ASN 66 D ASN 38 1_555 N C1 NAG . T NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale2 J ND2 ASN 66 A ASN 38 1_555 O C1 NAG . Z NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 K ND2 ASN 66 B ASN 38 1_555 P C1 NAG . f NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale4 L ND2 ASN 66 C ASN 38 1_555 Q C1 NAG . l NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale5 M ND2 ASN 242 E ASN 220 1_555 R C1 NAG . r NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? covale ? covale6 N O4 NAG . T NAG 1 1_555 N C1 NAG . T NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale7 N O4 NAG . T NAG 2 1_555 N C1 BMA . T BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale8 N O3 BMA . T BMA 3 1_555 N C1 MAN . T MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale9 N O2 MAN . T MAN 4 1_555 N C1 MAN . T MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale10 O O4 NAG . Z NAG 1 1_555 O C1 NAG . Z NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale11 O O4 NAG . Z NAG 2 1_555 O C1 BMA . Z BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale12 O O3 BMA . Z BMA 3 1_555 O C1 MAN . Z MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale13 O O6 BMA . Z BMA 3 1_555 O C1 MAN . Z MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale14 P O4 NAG . f NAG 1 1_555 P C1 NAG . f NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale15 P O4 NAG . f NAG 2 1_555 P C1 BMA . f BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale16 P O6 BMA . f BMA 3 1_555 P C1 MAN . f MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale17 Q O4 NAG . l NAG 1 1_555 Q C1 NAG . l NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale18 Q O4 NAG . l NAG 2 1_555 Q C1 BMA . l BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale19 Q O6 BMA . l BMA 3 1_555 Q C1 MAN . l MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale20 R O4 NAG . r NAG 1 1_555 R C1 NAG . r NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale21 R O4 NAG . r NAG 2 1_555 R C1 BMA . r BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _chem_comp.formula 'C5 H12' _chem_comp.formula_weight 72.149 _chem_comp.id LNK _chem_comp.mon_nstd_flag . _chem_comp.name PENTANE _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 C1 C2 LNK sing 353 n n C1 H11 LNK sing 354 n n C1 H12 LNK sing 355 n n C1 H13 LNK sing 356 n n C2 C3 LNK sing 357 n n C2 H21 LNK sing 358 n n C2 H22 LNK sing 359 n n C3 C4 LNK sing 360 n n C3 H31 LNK sing 361 n n C3 H32 LNK sing 362 n n C4 C5 LNK sing 363 n n C4 H41 LNK sing 364 n n C4 H42 LNK sing 365 n n C5 H51 LNK sing 366 n n C5 H52 LNK sing 367 n n C5 H23 LNK sing 368 n n # _atom_sites.entry_id 7MLY _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 S 9 HP6 D 1 501 6 HP6 HP6 . T 9 HP6 D 1 502 7 HP6 HP6 . U 10 DD9 D 1 503 13 DD9 DD9 . V 11 LNK D 1 504 15 LNK LNK . W 12 MYS D 1 505 19 MYS MYS . X 13 D10 D 1 506 20 D10 D10 . Y 11 LNK D 1 507 29 LNK LNK . Z 14 NBU D 1 508 32 NBU NBU . AA 14 NBU D 1 509 33 NBU NBU . BA 15 GLY A 1 501 600 GLY GLY . CA 15 GLY A 1 502 600 GLY GLY . DA 16 D12 A 1 503 1 D12 D12 . EA 9 HP6 A 1 504 3 HP6 HP6 . FA 9 HP6 A 1 505 8 HP6 HP6 . GA 11 LNK A 1 506 17 LNK LNK . HA 17 OCT A 1 507 22 OCT OCT . IA 17 OCT A 1 508 23 OCT OCT . JA 11 LNK A 1 509 27 LNK LNK . KA 18 HEX A 1 510 42 HEX HEX . LA 17 OCT A 1 511 43 OCT OCT . MA 10 DD9 A 1 512 45 DD9 DD9 . NA 15 GLY B 1 501 600 GLY GLY . OA 9 HP6 B 1 502 5 HP6 HP6 . PA 10 DD9 B 1 503 12 DD9 DD9 . QA 11 LNK B 1 504 18 LNK LNK . RA 18 HEX B 1 505 26 HEX HEX . SA 11 LNK B 1 506 31 LNK LNK . TA 14 NBU B 1 507 38 NBU NBU . UA 14 NBU B 1 508 39 NBU NBU . VA 14 NBU B 1 509 40 NBU NBU . WA 9 HP6 B 1 510 44 HP6 HP6 . XA 15 GLY C 1 501 600 GLY GLY . YA 16 D12 C 1 502 2 D12 D12 . ZA 11 LNK C 1 503 14 LNK LNK . AB 17 OCT C 1 504 24 OCT OCT . BB 11 LNK C 1 505 30 LNK LNK . CB 14 NBU C 1 506 34 NBU NBU . DB 14 NBU C 1 507 35 NBU NBU . EB 14 NBU C 1 508 36 NBU NBU . FB 14 NBU C 1 509 37 NBU NBU . GB 18 HEX C 1 510 41 HEX HEX . HB 15 GLY E 1 501 600 GLY GLY . IB 9 HP6 E 1 502 9 HP6 HP6 . JB 9 HP6 E 1 503 10 HP6 HP6 . KB 9 HP6 E 1 504 11 HP6 HP6 . LB 11 LNK E 1 505 16 LNK LNK . MB 19 UND E 1 506 21 UND UND . NB 11 LNK E 1 507 28 LNK LNK . # 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 C1 LNK . . . GA 11 219.511 186.072 153.115 1 136.55 ? C1 LNK 506 A 1 HETATM 2 C C2 LNK . . . GA 11 220.743 185.205 152.897 1 136.55 ? C2 LNK 506 A 1 HETATM 3 C C3 LNK . . . GA 11 220.866 184.879 151.415 1 136.55 ? C3 LNK 506 A 1 HETATM 4 C C4 LNK . . . GA 11 222.204 184.197 151.163 1 136.55 ? C4 LNK 506 A 1 HETATM 5 C C5 LNK . . . GA 11 222.08 183.298 149.938 1 136.55 ? C5 LNK 506 A 1 HETATM 6 H H11 LNK . . . GA 11 219.449 186.313 154.052 1 136.55 ? H11 LNK 506 A 1 HETATM 7 H H12 LNK . . . GA 11 218.721 185.579 152.852 1 136.55 ? H12 LNK 506 A 1 HETATM 8 H H13 LNK . . . GA 11 219.586 186.874 152.576 1 136.55 ? H13 LNK 506 A 1 HETATM 9 H H21 LNK . . . GA 11 221.533 185.683 153.189 1 136.55 ? H21 LNK 506 A 1 HETATM 10 H H22 LNK . . . GA 11 220.653 184.384 153.404 1 136.55 ? H22 LNK 506 A 1 HETATM 11 H H31 LNK . . . GA 11 220.147 184.284 151.155 1 136.55 ? H31 LNK 506 A 1 HETATM 12 H H32 LNK . . . GA 11 220.814 185.696 150.898 1 136.55 ? H32 LNK 506 A 1 HETATM 13 H H41 LNK . . . GA 11 222.885 184.87 151.008 1 136.55 ? H41 LNK 506 A 1 HETATM 14 H H42 LNK . . . GA 11 222.444 183.663 151.935 1 136.55 ? H42 LNK 506 A 1 HETATM 15 H H51 LNK . . . GA 11 222.945 182.915 149.729 1 136.55 ? H51 LNK 506 A 1 HETATM 16 H H52 LNK . . . GA 11 221.449 182.587 150.127 1 136.55 ? H52 LNK 506 A 1 HETATM 17 H H23 LNK . . . GA 11 221.764 183.821 149.185 1 136.55 ? H23 LNK 506 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 17 #