HEADER RNA 31-JUL-01 1JOX TITLE NMR STRUCTURE OF THE LP5.1 HAIRPIN FROM BACILLUS RNASE P RNA REFINED TITLE 2 WITH RESIDUAL DIPOLAR COUPLINGS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(*GP*GP*CP*GP*GP*UP*GP*CP*UP*GP*AP*GP*AP*UP*GP*CP*CP*CP COMPND 3 *GP*UP*C)-3'; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: PL5.1 HAIRPIN FROM RNASE P RNA SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: IN VITRO TRANSCRIPTION KEYWDS RIBONUCLEIC ACID, RNASE P, HAIRPIN, RESIDUAL DIPOLAR COUPLING KEYWDS 2 REFINEMENT, UGNRAU, RNA EXPDTA SOLUTION NMR NUMMDL 24 AUTHOR T.C.LEEPER,F.J.SCHMIDT,S.R.VAN DOREN REVDAT 4 23-FEB-22 1JOX 1 REMARK REVDAT 3 24-FEB-09 1JOX 1 VERSN REVDAT 2 01-APR-03 1JOX 1 JRNL REVDAT 1 01-MAY-02 1JOX 0 JRNL AUTH T.C.LEEPER,M.B.MARTIN,H.KIM,S.COX,V.SEMENCHENKO,F.J.SCHMIDT, JRNL AUTH 2 S.R.VAN DOREN JRNL TITL STRUCTURE OF THE UGAGAU HEXALOOP THAT BRACES BACILLUS RNASE JRNL TITL 2 P FOR ACTION. JRNL REF NAT.STRUCT.BIOL. V. 9 397 2002 JRNL REFN ISSN 1072-8368 JRNL PMID 11927952 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER ET. AL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESIDUAL DIPOLAR COUPLING REFINEMENT REMARK 4 REMARK 4 1JOX COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-AUG-01. REMARK 100 THE DEPOSITION ID IS D_1000014016. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 277; 298; 298; 277; 298 REMARK 210 PH : 5.5; 5.5; 5.5; 5.5; 5.5; 5.5 REMARK 210 IONIC STRENGTH : 20 MM SODIUM PHOSPHATE; 20 MM REMARK 210 SODIUM PHOSPHATE; 20 MM SODIUM REMARK 210 PHOSPHATE; 20 MM SODIUM REMARK 210 PHOSPHATE; 20 MM SODIUM REMARK 210 PHOSPHATE; 20 MM SODIUM PHOSPHATE REMARK 210 PRESSURE : AMBIENT; AMBIENT; AMBIENT; REMARK 210 AMBIENT; AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1.0 MM PL5.1 HAIRPIN RNA U REMARK 210 -15N,13C, 20MM PHOSPHATE BUFFER REMARK 210 NA, 100% D2O; 1.0 MM PL5.1 REMARK 210 HAIRPIN RNA U-15N,13C, 20MM REMARK 210 PHOSPHATE BUFFER NA, 8% H2O 92% REMARK 210 D2O; 2.5 MM PL5.1 HAIRPIN RNA U- REMARK 210 15N,13C U AND A RESIDUES ONLY, REMARK 210 20MM PHOSPHATE BUFFER NA, 100% REMARK 210 D2O; 1.8 MM PL5.1 HAIRPIN RNA U- REMARK 210 15N,13C A, C, AND G RESIDUES REMARK 210 ONLY, 20MM PHOSPHATE BUFFER NA, REMARK 210 100% D2O; 1.8 MM PL5.1 HAIRPIN REMARK 210 RNA U-15N,13C A, C, AND G REMARK 210 RESIDUES ONLY, 20MM PHOSPHATE REMARK 210 BUFFER NA, 8% H2O 92% D2O; 1.8 REMARK 210 MM PL5.1 HAIRPIN RNA U-15N,13C A, REMARK 210 C, AND G RESIDUES ONLY, 20MM REMARK 210 PHOSPHATE BUFFER NA, 100% D2O REMARK 210 WITH 5% PEG/HEXANOL FOR REMARK 210 ORIENTATION REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 13C-SEPARATED-NOESY (MIXING REMARK 210 TIMES OF 200 AND 250 MS); NOESY REMARK 210 (MIXING TIMES OF 80 AND 140 MS); REMARK 210 HCCH-TOCSY; HCCH-COSY; IPAP-HSQC; REMARK 210 13C-HETERO-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.0 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 24 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 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 H2' C A 8 O4' U A 9 1.43 REMARK 500 H2' U A 14 O4' G A 15 1.44 REMARK 500 HO2' C A 8 O5' U A 9 1.47 REMARK 500 H21 G A 4 O2 C A 18 1.48 REMARK 500 O2' G A 12 H2' A A 13 1.52 REMARK 500 H21 G A 1 O2 C A 21 1.56 REMARK 500 O6 G A 5 H41 C A 17 1.57 REMARK 500 H4' G A 5 O5' U A 6 1.57 REMARK 500 HO2' G A 1 O5' G A 2 1.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.2 DEGREES REMARK 500 1 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.3 DEGREES REMARK 500 1 C A 21 O4' - C4' - C3' ANGL. DEV. = -7.8 DEGREES REMARK 500 2 G A 10 C1' - O4' - C4' ANGL. DEV. = -5.2 DEGREES REMARK 500 2 A A 11 C3' - C2' - C1' ANGL. DEV. = -4.5 DEGREES REMARK 500 2 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.4 DEGREES REMARK 500 3 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.3 DEGREES REMARK 500 3 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 3 C A 21 O4' - C4' - C3' ANGL. DEV. = -7.8 DEGREES REMARK 500 4 G A 10 C1' - O4' - C4' ANGL. DEV. = -5.0 DEGREES REMARK 500 4 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.1 DEGREES REMARK 500 5 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.7 DEGREES REMARK 500 5 C A 21 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 6 G A 10 C1' - O4' - C4' ANGL. DEV. = -5.2 DEGREES REMARK 500 6 C A 21 C3' - C2' - C1' ANGL. DEV. = -4.3 DEGREES REMARK 500 7 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.6 DEGREES REMARK 500 7 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.1 DEGREES REMARK 500 7 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.2 DEGREES REMARK 500 8 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.3 DEGREES REMARK 500 8 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.4 DEGREES REMARK 500 9 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.5 DEGREES REMARK 500 9 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.5 DEGREES REMARK 500 10 G A 10 C1' - O4' - C4' ANGL. DEV. = -5.4 DEGREES REMARK 500 10 A A 11 C3' - C2' - C1' ANGL. DEV. = -4.5 DEGREES REMARK 500 10 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.4 DEGREES REMARK 500 11 G A 10 C1' - O4' - C4' ANGL. DEV. = -5.0 DEGREES REMARK 500 11 A A 11 C3' - C2' - C1' ANGL. DEV. = -4.3 DEGREES REMARK 500 12 A A 11 C3' - C2' - C1' ANGL. DEV. = -4.9 DEGREES REMARK 500 12 C A 21 C3' - C2' - C1' ANGL. DEV. = -4.5 DEGREES REMARK 500 13 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.4 DEGREES REMARK 500 13 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 13 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.6 DEGREES REMARK 500 14 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.3 DEGREES REMARK 500 14 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.4 DEGREES REMARK 500 14 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.4 DEGREES REMARK 500 15 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.1 DEGREES REMARK 500 15 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.5 DEGREES REMARK 500 16 A A 11 C4' - C3' - C2' ANGL. DEV. = -6.2 DEGREES REMARK 500 16 A A 11 C3' - C2' - C1' ANGL. DEV. = -4.3 DEGREES REMARK 500 16 C A 21 O4' - C4' - C3' ANGL. DEV. = -7.5 DEGREES REMARK 500 17 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.8 DEGREES REMARK 500 17 A A 11 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 17 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.0 DEGREES REMARK 500 18 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.6 DEGREES REMARK 500 18 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 18 C A 21 O4' - C4' - C3' ANGL. DEV. = -8.5 DEGREES REMARK 500 19 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.4 DEGREES REMARK 500 19 A A 11 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 20 G A 10 C1' - O4' - C4' ANGL. DEV. = -4.9 DEGREES REMARK 500 20 A A 11 O4' - C1' - N9 ANGL. DEV. = 5.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 61 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 G A 5 0.06 SIDE CHAIN REMARK 500 4 C A 21 0.07 SIDE CHAIN REMARK 500 6 G A 5 0.07 SIDE CHAIN REMARK 500 11 C A 21 0.07 SIDE CHAIN REMARK 500 12 G A 5 0.06 SIDE CHAIN REMARK 500 13 G A 5 0.08 SIDE CHAIN REMARK 500 14 G A 5 0.07 SIDE CHAIN REMARK 500 15 G A 5 0.06 SIDE CHAIN REMARK 500 16 C A 21 0.06 SIDE CHAIN REMARK 500 17 U A 14 0.07 SIDE CHAIN REMARK 500 19 G A 2 0.08 SIDE CHAIN REMARK 500 19 G A 7 0.05 SIDE CHAIN REMARK 500 22 G A 5 0.07 SIDE CHAIN REMARK 500 24 C A 3 0.07 SIDE CHAIN REMARK 500 24 G A 5 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JP0 RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE LP5.1 HAIRPIN FROM BACILLUS RNASE P RNA REMARK 900 REFINED WITHOUT RESIDUAL DIPOLAR COUPLINGS. DBREF 1JOX A 1 21 PDB 1JOX 1JOX 1 21 SEQRES 1 A 21 G G C G G U G C U G A G A SEQRES 2 A 21 U G C C C G U C CRYST1 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