HEADER RNA 07-DEC-22 8BWT TITLE STRUCTURE OF A SYMMETRICAL INTERNAL LOOP MOTIF WITH THREE CONSECUTIVE TITLE 2 U:U MISMATCHES FROM STEM-LOOP 1 IN THE 3'-UTR OF THE SARS-COV2 TITLE 3 GENOMIC RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (26-MER); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 4 2; SOURCE 5 ORGANISM_TAXID: 2697049 KEYWDS RNA STRUCTURE, U:U MISMATCH, SARS-COV-2, 3'-UTR, RNA EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR J.VOEGELE,E.DUCHARDT-FERNER,H.SCHWALBE,J.WOEHNERT REVDAT 3 03-JUL-24 8BWT 1 JRNL REVDAT 2 19-JUN-24 8BWT 1 JRNL REVDAT 1 30-AUG-23 8BWT 0 JRNL AUTH J.VOGELE,E.DUCHARDT-FERNER,J.K.BAINS,B.KNEZIC,A.WACKER, JRNL AUTH 2 C.SICH,J.E.WEIGAND,J.SPONER,H.SCHWALBE,M.KREPL,J.WOHNERT JRNL TITL STRUCTURE OF AN INTERNAL LOOP MOTIF WITH THREE CONSECUTIVE JRNL TITL 2 U•U MISMATCHES FROM STEM-LOOP 1 IN THE 3'-UTR OF THE JRNL TITL 3 SARS-COV-2 GENOMIC RNA. JRNL REF NUCLEIC ACIDS RES. V. 52 6687 2024 JRNL REFN ESSN 1362-4962 JRNL PMID 38783391 JRNL DOI 10.1093/NAR/GKAE349 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8BWT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-DEC-22. REMARK 100 THE DEPOSITION ID IS D_1292126851. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283; 298 REMARK 210 PH : 6.2; 6.2 REMARK 210 IONIC STRENGTH : 50; 50 REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 830 UM RNA (26-MER), 25 MM REMARK 210 POTASSIUM PHOSPHATE, 50 MM REMARK 210 POTASSIUM CHLORIDE, 5 % D2O, 95% REMARK 210 H2O/5% D2O; 1 MM 13C,15N-A,U RNA REMARK 210 (26-MER), 25 MM POTASSIUM REMARK 210 PHOSPHATE, 50 MM POTASSIUM REMARK 210 CHLORIDE, 5 % D2O, 95% H2O/5% REMARK 210 D2O; 1 MM 13C,15N-A,U RNA (26- REMARK 210 MER), 25 MM POTASSIUM PHOSPHATE, REMARK 210 50 MM POTASSIUM CHLORIDE, 100 % REMARK 210 D2O, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-1H NOESY; REMARK 210 2D 1H-13C HSQC AROMATIC; 2D 1H- REMARK 210 13C HSQC ALIPHATIC; 2D 1H-15N REMARK 210 HSQC NH2 ONLY; H56C56(C4N3)H REMARK 210 OPTIMIZED FOR H56; H56C56(C4N3)H REMARK 210 OPTIMIZED FOR C56; H(C)N REMARK 210 AROMATIC; H(C)N ALIPHATIC; H(C)P- REMARK 210 CCH-TOCSY; H(N)CO; 3D HCCH-COSY; REMARK 210 3D HCCH-TOCSY; HCC-TOCSY-CCH- REMARK 210 E.COSY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ; 800 MHZ; 900 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CARA, TOPSPIN REMARK 210 METHOD USED : DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34777 RELATED DB: BMRB REMARK 900 STRUCTURE OF A SYMMETRICAL INTERNAL LOOP MOTIF WITH THREE REMARK 900 CONSECUTIVE U:U MISMATCHES FROM STEM-LOOP 1 IN THE 3'-UTR OF THE REMARK 900 SARS-COV2 GENOMIC RNA DBREF 8BWT A 1 26 PDB 8BWT 8BWT 1 26 SEQRES 1 A 26 G G C G U U U U C G C U U SEQRES 2 A 26 C G G C G U U U A C G C 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 92 0 0 0 0 0 0 6 546 1 0 2 END