HEADER RNA 10-OCT-25 9SY4 TITLE NMR STRUCTURE DETERMINATION OF A DYNAMIC AND THERMODYNAMICALLY STABLE TITLE 2 CUUG RNA TETRALOOP WITHOUT RESTRAINED LOOP BASE PAIR COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA HAIRPIN WITH CUUG TETRALOOP; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC RNA; SOURCE 4 ORGANISM_TAXID: 2086595; SOURCE 5 OTHER_DETAILS: 14MER RNA HAIRPIN WITH CUUG TETRALOOP KEYWDS MODEL HAIRPIN, CONFORMATIONAL ENSEMBLE, MD, RNA, CUUG, TETRALOOP, KEYWDS 2 HIGH RESOLUTION EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR A.OXENFARTH,F.KUEMMERER,D.LEOPOLD,S.BOTTARO,R.SCHNIEDERS,G.PINTER, AUTHOR 2 H.R.A.JONKER,B.FUERTIG,C.RICHTER,M.BLACKLEDGE,K.LINDORFF-LARSEN, AUTHOR 3 H.SCHWALBE REVDAT 1 12-NOV-25 9SY4 0 JRNL AUTH A.OXENFARTH,F.KUEMMERER,S.BOTTARO,R.SCHNIEDERS,G.PINTER, JRNL AUTH 2 H.R.A.JONKER,B.FUERTIG,C.RICHTER,M.BLACKLEDGE, JRNL AUTH 3 K.LINDORFF-LARSEN,H.SCHWALBE JRNL TITL INTEGRATED NMR/MOLECULAR DYNAMICS DETERMINATION OF THE JRNL TITL 2 ENSEMBLE CONFORMATION OF A THERMODYNAMICALLY STABLE CUUG RNA JRNL TITL 3 TETRALOOP. JRNL REF J AM CHEM SOC V. 145 16557 2023 JRNL REFN ESSN 1520-5126 JRNL PMID 37479220 JRNL DOI 10.1021/ACS.JCIM.9B00558 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9SY4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-OCT-25. REMARK 100 THE DEPOSITION ID IS D_1292151390. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 6.4 REMARK 210 IONIC STRENGTH : 13 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.64 MM [U-13C; U-15N] RNA REMARK 210 HAIRPIN WITH CUUG TETRALOOP, 10 REMARK 210 MM POTASSIUM PHOSPHATE, 1 MM REMARK 210 EDTA, 50 UM DSS, 95% H2O/5% D2O; REMARK 210 1.26 MM [U-13C; U-15N] RNA REMARK 210 HAIRPIN WITH CUUG TETRALOOP, 10 REMARK 210 MM POTASSIUM PHOSPHATE, 1 MM REMARK 210 EDTA, 50 UM DSS, 100% D2O; 0.98 REMARK 210 MM RNA HAIRPIN WITH CUUG REMARK 210 TETRALOOP, 10 MM POTASSIUM REMARK 210 PHOSPHATE, 1 MM EDTA, 50 UM DSS, REMARK 210 100% D2O; 0.86 MM RNA HAIRPIN REMARK 210 WITH CUUG TETRALOOP, 10 MM REMARK 210 POTASSIUM PHOSPHATE, 1 MM EDTA, REMARK 210 50 UM DSS, 95% H2O/5% D2O; 0.2 REMARK 210 MM [U-13C; U-15N] RNA HAIRPIN REMARK 210 WITH CUUG TETRALOOP, 10 MM REMARK 210 POTASSIUM PHOSPHATE, 1 MM EDTA, REMARK 210 50 UM DSS, 95% H2O/5% D2O; 0.2 REMARK 210 MM [U-13C; U-15N] RNA HAIRPIN REMARK 210 WITH CUUG TETRALOOP, 10 MM REMARK 210 POTASSIUM PHOSPHATE, 1 MM EDTA, REMARK 210 50 UM DSS, 50 MG/ML PF1 PHAGE, REMARK 210 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-13C HSQC; REMARK 210 2D 1H-15N HSQC; 3D QHCP; 2D QHCP; REMARK 210 2D P-FIDS; 3D HCC-TOCSY-CCH- REMARK 210 E.COSY; 2D HNN-COSY; 2D GAMMA REMARK 210 HCCH; 2D GAMMA HCNCH; 2D GAMMA REMARK 210 HCP; 2D HCN; 3D FORWARD DIRECTED REMARK 210 HCCH-TOCSY; 3D HCP REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ; 800 MHZ; 900 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; AVANCE III HD REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, NMRFAM-SPARKY, ARIA, REMARK 210 PALES REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8CLR RELATED DB: PDB REMARK 900 MD SIMULATION, REWEIGHTED WITH SAME NMR DATA REMARK 900 RELATED ID: 34796 RELATED DB: BMRB REMARK 900 RELATED ID: 9SXV RELATED DB: PDB REMARK 900 SAME NMR DATA, DIFFERENT BASE PAIR RESTRAINTS DBREF 9SY4 A 1 14 PDB 9SY4 9SY4 1 14 SEQRES 1 A 14 G G C A G C U U G C U G C SEQRES 2 A 14 C CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1 ENDMDL MODEL 2 ENDMDL MODEL 3 ENDMDL MODEL 4 ENDMDL MODEL 5 ENDMDL MODEL 6 ENDMDL MODEL 7 ENDMDL MODEL 8 ENDMDL MODEL 9 ENDMDL MODEL 10 ENDMDL MASTER 113 0 0 0 0 0 0 6 298 1 0 2 END