data_6W4F # _model_server_result.job_id tp-lkPXP1Z1oCAx9fhFB3g _model_server_result.datetime_utc '2024-12-22 11:09:43' _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 6w4f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"HB","auth_seq_id":201}' # _entry.id 6W4F # _exptl.entry_id 6W4F _exptl.method 'SOLUTION NMR' # _entity.details ? _entity.formula_weight 443.201 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 5 HB N N ? 5 YB 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 metalc ? metalc1 C OG SER 16 B SER 17 1_555 IB MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.713 ? metalc ? metalc2 C O ASP 32 B ASP 33 1_555 IB MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.827 ? metalc ? metalc3 D OG SER 16 C SER 17 1_555 ZB MG MG . C MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.738 ? # _chem_comp.formula 'C10 H15 N5 O11 P2' _chem_comp.formula_weight 443.201 _chem_comp.id GDP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-5'-DIPHOSPHATE" _chem_comp.type 'rna linking' _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 PB O1B GDP doub 214 n n PB O2B GDP sing 215 n n PB O3B GDP sing 216 n n PB O3A GDP sing 217 n n O2B HOB2 GDP sing 218 n n O3B HOB3 GDP sing 219 n n O3A PA GDP sing 220 n n PA O1A GDP doub 221 n n PA O2A GDP sing 222 n n PA O5' GDP sing 223 n n O2A HOA2 GDP sing 224 n n O5' C5' GDP sing 225 n n C5' C4' GDP sing 226 n n C5' H5' GDP sing 227 n n C5' "H5''" GDP sing 228 n n C4' O4' GDP sing 229 n n C4' C3' GDP sing 230 n n C4' H4' GDP sing 231 n n O4' C1' GDP sing 232 n n C3' O3' GDP sing 233 n n C3' C2' GDP sing 234 n n C3' H3' GDP sing 235 n n O3' HO3' GDP sing 236 n n C2' O2' GDP sing 237 n n C2' C1' GDP sing 238 n n C2' H2' GDP sing 239 n n O2' HO2' GDP sing 240 n n C1' N9 GDP sing 241 n n C1' H1' GDP sing 242 n n N9 C8 GDP sing 243 n y N9 C4 GDP sing 244 n y C8 N7 GDP doub 245 n y C8 H8 GDP sing 246 n n N7 C5 GDP sing 247 n y C5 C6 GDP sing 248 n n C5 C4 GDP doub 249 n y C6 O6 GDP doub 250 n n C6 N1 GDP sing 251 n n N1 C2 GDP sing 252 n n N1 HN1 GDP sing 253 n n C2 N2 GDP sing 254 n n C2 N3 GDP doub 255 n n N2 HN21 GDP sing 256 n n N2 HN22 GDP sing 257 n n N3 C4 GDP sing 258 n n # _atom_sites.entry_id 6W4F _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 E 3 PCW A 1 401 2 PCW PCW . F 3 PCW A 1 402 3 PCW PCW . G 3 PCW A 1 403 4 PCW PCW . H 3 PCW A 1 404 5 PCW PCW . I 3 PCW A 1 405 8 PCW PCW . J 3 PCW A 1 406 10 PCW PCW . K 3 PCW A 1 407 13 PCW PCW . L 3 PCW A 1 408 15 PCW PCW . M 3 PCW A 1 409 19 PCW PCW . N 3 PCW A 1 410 20 PCW PCW . O 3 PCW A 1 411 21 PCW PCW . P 3 PCW A 1 412 29 PCW PCW . Q 3 PCW A 1 413 32 PCW PCW . R 4 17F A 1 414 33 17F 17F . S 4 17F A 1 415 38 17F 17F . T 3 PCW A 1 416 41 PCW PCW . U 3 PCW A 1 417 48 PCW PCW . V 3 PCW A 1 418 51 PCW PCW . W 3 PCW A 1 419 58 PCW PCW . X 3 PCW A 1 420 59 PCW PCW . Y 3 PCW D 1 601 27 PCW PCW . Z 3 PCW D 1 602 42 PCW PCW . AA 3 PCW D 1 603 43 PCW PCW . BA 3 PCW D 1 604 44 PCW PCW . CA 3 PCW D 1 605 45 PCW PCW . DA 3 PCW D 1 606 46 PCW PCW . EA 3 PCW D 1 607 47 PCW PCW . FA 3 PCW D 1 608 49 PCW PCW . GA 3 PCW D 1 609 50 PCW PCW . HA 3 PCW D 1 610 52 PCW PCW . IA 3 PCW D 1 611 53 PCW PCW . JA 3 PCW D 1 612 54 PCW PCW . KA 3 PCW D 1 613 55 PCW PCW . LA 3 PCW D 1 614 56 PCW PCW . MA 3 PCW D 1 615 57 PCW PCW . NA 3 PCW D 1 616 60 PCW PCW . OA 3 PCW D 1 617 61 PCW PCW . PA 3 PCW D 1 618 62 PCW PCW . QA 3 PCW D 1 619 64 PCW PCW . RA 3 PCW D 1 620 65 PCW PCW . SA 3 PCW D 1 621 66 PCW PCW . TA 3 PCW D 1 622 67 PCW PCW . UA 3 PCW D 1 623 68 PCW PCW . VA 3 PCW D 1 624 69 PCW PCW . WA 3 PCW D 1 625 70 PCW PCW . XA 3 PCW D 1 626 71 PCW PCW . YA 3 PCW D 1 627 72 PCW PCW . ZA 4 17F D 1 628 73 17F 17F . AB 4 17F D 1 629 74 17F 17F . BB 4 17F D 1 630 75 17F 17F . CB 4 17F D 1 631 76 17F 17F . DB 4 17F D 1 632 77 17F 17F . EB 4 17F D 1 633 78 17F 17F . FB 4 17F D 1 634 79 17F 17F . GB 4 17F D 1 635 80 17F 17F . HB 5 GDP B 1 201 201 GDP GDP . IB 6 MG B 1 202 202 MG MG . JB 3 PCW B 1 203 1 PCW PCW . KB 3 PCW B 1 204 6 PCW PCW . LB 3 PCW B 1 205 9 PCW PCW . MB 3 PCW B 1 206 11 PCW PCW . NB 3 PCW B 1 207 12 PCW PCW . OB 3 PCW B 1 208 14 PCW PCW . PB 3 PCW B 1 209 17 PCW PCW . QB 3 PCW B 1 210 22 PCW PCW . RB 3 PCW B 1 211 26 PCW PCW . SB 3 PCW B 1 212 28 PCW PCW . TB 3 PCW B 1 213 30 PCW PCW . UB 4 17F B 1 214 34 17F 17F . VB 4 17F B 1 215 36 17F 17F . WB 4 17F B 1 216 37 17F 17F . XB 4 17F B 1 217 40 17F 17F . YB 5 GDP C 1 201 201 GDP GDP . ZB 6 MG C 1 202 202 MG MG . AC 3 PCW C 1 203 7 PCW PCW . BC 3 PCW C 1 204 16 PCW PCW . CC 3 PCW C 1 205 18 PCW PCW . DC 3 PCW C 1 206 23 PCW PCW . EC 3 PCW C 1 207 24 PCW PCW . FC 3 PCW C 1 208 25 PCW PCW . GC 3 PCW C 1 209 31 PCW PCW . HC 4 17F C 1 210 35 17F 17F . IC 4 17F C 1 211 39 17F 17F . JC 3 PCW C 1 212 63 PCW PCW . # 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 PB GDP . . . HB 5 22.067 -23.152 -31.821 1 10 ? PB GDP 201 B 1 HETATM 2 O O1B GDP . . . HB 5 22.304 -23.45 -33.251 1 10 ? O1B GDP 201 B 1 HETATM 3 O O2B GDP . . . HB 5 22.041 -21.569 -31.538 1 10 -1 O2B GDP 201 B 1 HETATM 4 O O3B GDP . . . HB 5 20.636 -23.686 -31.311 1 10 ? O3B GDP 201 B 1 HETATM 5 O O3A GDP . . . HB 5 23.172 -23.763 -30.822 1 10 ? O3A GDP 201 B 1 HETATM 6 P PA GDP . . . HB 5 23.892 -25.174 -31.115 1 10 ? PA GDP 201 B 1 HETATM 7 O O1A GDP . . . HB 5 22.956 -26.03 -31.876 1 10 -1 O1A GDP 201 B 1 HETATM 8 O O2A GDP . . . HB 5 24.408 -25.685 -29.825 1 10 ? O2A GDP 201 B 1 HETATM 9 O O5' GDP . . . HB 5 25.133 -24.773 -32.057 1 10 ? O5' GDP 201 B 1 HETATM 10 C C5' GDP . . . HB 5 24.909 -24.457 -33.432 1 10 ? C5' GDP 201 B 1 HETATM 11 C C4' GDP . . . HB 5 26.226 -24.301 -34.195 1 10 ? C4' GDP 201 B 1 HETATM 12 O O4' GDP . . . HB 5 27.056 -23.372 -33.473 1 10 ? O4' GDP 201 B 1 HETATM 13 C C3' GDP . . . HB 5 26.973 -25.637 -34.148 1 10 ? C3' GDP 201 B 1 HETATM 14 O O3' GDP . . . HB 5 28.026 -25.634 -35.114 1 10 ? O3' GDP 201 B 1 HETATM 15 C C2' GDP . . . HB 5 27.566 -25.543 -32.744 1 10 ? C2' GDP 201 B 1 HETATM 16 O O2' GDP . . . HB 5 28.648 -26.47 -32.616 1 10 ? O2' GDP 201 B 1 HETATM 17 C C1' GDP . . . HB 5 28.127 -24.129 -32.881 1 10 ? C1' GDP 201 B 1 HETATM 18 N N9 GDP . . . HB 5 28.527 -23.576 -31.568 1 10 ? N9 GDP 201 B 1 HETATM 19 C C8 GDP . . . HB 5 27.701 -23.221 -30.586 1 10 ? C8 GDP 201 B 1 HETATM 20 N N7 GDP . . . HB 5 28.41 -22.737 -29.569 1 10 ? N7 GDP 201 B 1 HETATM 21 C C5 GDP . . . HB 5 29.695 -22.789 -29.902 1 10 ? C5 GDP 201 B 1 HETATM 22 C C6 GDP . . . HB 5 30.861 -22.416 -29.243 1 10 ? C6 GDP 201 B 1 HETATM 23 O O6 GDP . . . HB 5 30.816 -21.937 -28.112 1 10 ? O6 GDP 201 B 1 HETATM 24 N N1 GDP . . . HB 5 32.086 -22.596 -29.895 1 10 ? N1 GDP 201 B 1 HETATM 25 C C2 GDP . . . HB 5 32.102 -23.145 -31.182 1 10 ? C2 GDP 201 B 1 HETATM 26 N N2 GDP . . . HB 5 33.264 -23.316 -31.809 1 10 ? N2 GDP 201 B 1 HETATM 27 N N3 GDP . . . HB 5 30.956 -23.495 -31.786 1 10 ? N3 GDP 201 B 1 HETATM 28 C C4 GDP . . . HB 5 29.775 -23.328 -31.181 1 10 ? C4 GDP 201 B 1 HETATM 29 H HO3' GDP . . . HB 5 28.64 -24.863 -34.941 1 10 ? HO3' GDP 201 B 1 HETATM 30 H HO2' GDP . . . HB 5 29.027 -26.411 -31.692 1 10 ? HO2' GDP 201 B 1 HETATM 31 H HN1 GDP . . . HB 5 32.94 -22.335 -29.444 1 10 ? HN1 GDP 201 B 1 HETATM 32 H HN21 GDP . . . HB 5 33.284 -23.705 -32.729 1 10 ? HN21 GDP 201 B 1 HETATM 33 H HN22 GDP . . . HB 5 34.116 -23.043 -31.362 1 10 ? HN22 GDP 201 B 1 # _model_server_stats.io_time_ms 76 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 615 _model_server_stats.query_time_ms 5533 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 33 #