1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Kieft, J.S. Tinoco Junior, I. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C10 H14 N5 O7 P 347.221 y ADENOSINE-5'-MONOPHOSPHATE RNA linking C9 H14 N3 O8 P 323.197 y CYTIDINE-5'-MONOPHOSPHATE RNA linking C10 H14 N5 O8 P 363.221 y GUANOSINE-5'-MONOPHOSPHATE RNA linking Co H18 N6 3 161.116 COBALT HEXAMMINE(III) non-polymer C9 H13 N2 O9 P 324.181 y URIDINE-5'-MONOPHOSPHATE RNA linking UK Structure STRUE6 2005 0969-2126 5 713 721 10.1016/S0969-2126(97)00225-6 9195889 Solution structure of a metal-binding site in the major groove of RNA complexed with cobalt (III) hexammine. 1997 10.2210/pdb1ajf/pdb pdb_00001ajf 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 5812.515 RNA (5'-R(*GP*AP*CP*AP*GP*GP*GP*GP*AP*AP*AP*CP*UP*UP*UP*GP*UP*C)-3') TETRALOOP OF TETRALOOP-TETRALOOP RECEPTOR TERTIARY INTERACTION C1G, U2A 1 syn polymer 161.116 COBALT HEXAMMINE(III) 1 syn non-polymer GAAA TETRALOOP OF A GROUP I INTRON no no GACAGGGGAAACUUUGUC GACAGGGGAAACUUUGUC A polyribonucleotide n n n n n n n n n n n n n n n n n n -27.726 1 19 A 1 A 18 -4.319 A_G1:C18_A 1 -17.123 -0.476 -0.438 -0.288 5.557 1 20 A 2 A 17 -11.070 A_A2:U17_A 2 -2.361 0.410 0.507 -0.063 10.152 1 19 A 3 A 16 -1.708 A_C3:G16_A 3 -10.140 0.461 -0.250 -0.272 -7.828 1 20 A 4 A 15 2.116 A_A4:U15_A 4 -25.907 -0.002 -0.787 -0.313 -17.834 28 A 5 A 14 0.037 A_G5:U14_A 5 -9.893 -2.479 -1.171 -0.660 3.955 28 A 6 A 13 1.629 A_G6:U13_A 6 -0.086 -2.568 0.547 -0.498 -5.324 1 19 A 7 A 12 -4.273 A_G7:C12_A 7 0.653 -0.435 0.020 -0.365 19.040 10 A 8 A 11 -24.735 A_G8:A11_A 8 -1.049 6.955 0.263 -5.370 2.570 34.825 A A 1 2 -10.027 A A 18 17 2.354 -5.950 -0.749 -0.981 AA_G1A2:U17C18_AA 1 -5.377 9.061 33.917 -0.949 0.627 3.220 36.065 A A 2 3 4.478 A A 17 16 3.019 2.743 1.619 -1.220 AA_A2C3:G16U17_AA 2 8.879 -14.495 34.886 -2.349 -1.394 2.276 35.280 A A 3 4 34.427 A A 16 15 3.693 19.647 -0.040 -1.407 AA_C3A4:U15G16_AA 3 5.311 -9.307 28.971 -5.261 0.860 2.061 31.715 A A 4 5 35.022 A A 15 14 3.429 17.867 -0.465 -1.430 AA_A4G5:U14U15_AA 4 -7.216 14.145 25.310 -5.707 -0.397 2.985 32.972 A A 5 6 -22.528 A A 14 13 3.020 -12.192 0.107 -1.166 AA_G5G6:U13U14_AA 5 -12.002 22.177 28.292 0.004 -2.216 2.566 47.177 A A 6 7 23.895 A A 13 12 3.434 18.652 -0.349 -1.666 AA_G6G7:C12U13_AA 6 -1.993 2.553 43.485 -3.547 0.280 2.455 60.828 A A 7 8 2.706 A A 12 11 2.459 2.738 -1.130 -0.956 AA_G7G8:A11C12_AA 7 -2.319 2.291 60.732 -1.043 1.032 database_2 pdbx_database_status pdbx_entity_src_syn pdbx_nmr_representative pdbx_nmr_software pdbx_nmr_spectrometer pdbx_struct_assembly pdbx_struct_oper_list struct_conn struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations Other Source and taxonomy 1 0 1997-07-07 1 1 2008-03-24 1 2 2011-07-13 1 3 2021-10-27 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.organism_scientific _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_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.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _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_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Y BNL 1997-05-02 REL REL NCO COBALT HEXAMMINE(III) SYNTHESIZED ENZYMATICALLY IN-VITRO USING T7 RNA POLYMERASE 32630 synthetic construct sample NOE ENERGY (LEAST RESTRAINT VIOLATIONS), TOTAL ENERGY 32 1 DQF-COSY D2O NOESY H2O NOESY 13C-1H HMQC 6.4 283 K REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE. RESTRAINED MOLECULAR DYNAMICS 1 BRUNGER refinement X-PLOR 3.1 Accelrys Software Inc. structure calculation Felix 95 BRUNGER structure calculation X-PLOR 3.1 Accelrys Software Inc. structure calculation Discover BIOSYM 500 Bruker AMX 600 GE GN NCO 1 2 NCO NCO 19 A G 1 n 1 G 1 A A 2 n 2 A 2 A C 3 n 3 C 3 A A 4 n 4 A 4 A G 5 n 5 G 5 A G 6 n 6 G 6 A G 7 n 7 G 7 A G 8 n 8 G 8 A A 9 n 9 A 9 A A 10 n 10 A 10 A A 11 n 11 A 11 A C 12 n 12 C 12 A U 13 n 13 U 13 A U 14 n 14 U 14 A U 15 n 15 U 15 A G 16 n 16 G 16 A U 17 n 17 U 17 A C 18 n 18 C 18 A author_defined_assembly 1 monomeric A G 6 A N7 G 6 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N1 NCO 1_555 106.5 A G 6 A N7 G 6 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N2 NCO 1_555 75.8 A NCO 19 B N1 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N2 NCO 1_555 177.5 A G 6 A N7 G 6 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N3 NCO 1_555 131.4 A NCO 19 B N1 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N3 NCO 1_555 92.7 A NCO 19 B N2 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N3 NCO 1_555 85.0 A G 6 A N7 G 6 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N4 NCO 1_555 53.6 A NCO 19 B N1 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N4 NCO 1_555 81.9 A NCO 19 B N2 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N4 NCO 1_555 100.3 A NCO 19 B N3 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N4 NCO 1_555 173.9 A G 6 A N7 G 6 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N5 NCO 1_555 121.9 A NCO 19 B N1 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N5 NCO 1_555 100.2 A NCO 19 B N2 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N5 NCO 1_555 79.1 A NCO 19 B N3 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N5 NCO 1_555 96.8 A NCO 19 B N4 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N5 NCO 1_555 81.4 A G 6 A N7 G 6 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N6 NCO 1_555 55.0 A NCO 19 B N1 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N6 NCO 1_555 80.5 A NCO 19 B N2 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N6 NCO 1_555 100.4 A NCO 19 B N3 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N6 NCO 1_555 86.4 A NCO 19 B N4 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N6 NCO 1_555 95.5 A NCO 19 B N5 NCO 1_555 A NCO 19 B CO NCO 1_555 A NCO 19 B N6 NCO 1_555 176.8 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 identity operation 0.0000000000 0.0000000000 0.0000000000 1 A A O6 H41 G C 7 12 1.60 model building X-PLOR 3.1 refinement X-PLOR 3.1 phasing X-PLOR 3.1 SOLUTION STRUCTURE OF THE P5B STEM LOOP FROM A GROUP I INTRON COMPLEXED WITH COBALT (III) HEXAMMINE, NMR, MINIMIZED AVERAGE STRUCTURE 1 N N 2 N N metalc 3.112 A G 6 A N7 G 6 1_555 A NCO 19 B CO NCO 1_555 hydrog WATSON-CRICK A G 1 A N1 G 1 1_555 A C 18 A N3 C 18 1_555 hydrog WATSON-CRICK A G 1 A N2 G 1 1_555 A C 18 A O2 C 18 1_555 hydrog WATSON-CRICK A G 1 A O6 G 1 1_555 A C 18 A N4 C 18 1_555 hydrog WATSON-CRICK A A 2 A N1 A 2 1_555 A U 17 A N3 U 17 1_555 hydrog WATSON-CRICK A A 2 A N6 A 2 1_555 A U 17 A O4 U 17 1_555 hydrog WATSON-CRICK A C 3 A N3 C 3 1_555 A G 16 A N1 G 16 1_555 hydrog WATSON-CRICK A C 3 A N4 C 3 1_555 A G 16 A O6 G 16 1_555 hydrog WATSON-CRICK A C 3 A O2 C 3 1_555 A G 16 A N2 G 16 1_555 hydrog WATSON-CRICK A A 4 A N1 A 4 1_555 A U 15 A N3 U 15 1_555 hydrog WATSON-CRICK A A 4 A N6 A 4 1_555 A U 15 A O4 U 15 1_555 hydrog TYPE_28_PAIR A G 5 A N1 G 5 1_555 A U 14 A O2 U 14 1_555 hydrog TYPE_28_PAIR A G 5 A O6 G 5 1_555 A U 14 A N3 U 14 1_555 hydrog TYPE_28_PAIR A G 6 A N1 G 6 1_555 A U 13 A O2 U 13 1_555 hydrog TYPE_28_PAIR A G 6 A O6 G 6 1_555 A U 13 A N3 U 13 1_555 hydrog WATSON-CRICK A G 7 A N1 G 7 1_555 A C 12 A N3 C 12 1_555 hydrog WATSON-CRICK A G 7 A N2 G 7 1_555 A C 12 A O2 C 12 1_555 hydrog WATSON-CRICK A G 7 A O6 G 7 1_555 A C 12 A N4 C 12 1_555 hydrog G-A MISPAIR A G 8 A N2 G 8 1_555 A A 11 A N7 A 11 1_555 RNA RIBONUCLEIC ACID, COBALT (III) HEXAMMINE, METAL BINDING, RNA STRUCTURE, RNA 1AJF PDB 1 1AJF 1 18 1AJF 1 18 1AJF A 1 1 18 BINDING SITE FOR RESIDUE NCO A 19 A NCO 19 Software 6 A G 5 A G 5 6 1_555 A G 6 A G 6 6 1_555 A G 7 A G 7 6 1_555 A G 8 A G 8 6 1_555 A C 12 A C 12 6 1_555 A U 13 A U 13 6 1_555 1 P 1