10 20 30 40 50 60 70 80 28SP - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER RNA 07-APR-99 28SP
TITLE NMR STRUCTURE OF THE MOST CONSERVED RNA MOTIF IN SRP RNA
COMPND MOL_ID: 1; COMPND 2 MOLECULE: CONSERVED MOTIF IN SRP RNA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SRP DOMAIN IV; COMPND 5 SYNONYM: SRP54 BINDING DOMAIN; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 OTHER_DETAILS: PREPARED BY IN VITRO TRANSCRIPTION WITH T7 SOURCE 7 RNA POLYMERASE
KEYWDS NMR OF RNA, SRP, 4.5S RNA, COMPLETE RELAXATION MATRIX KEYWDS 2 ANALYSIS
EXPDTA SOLUTION NMR
NUMMDL 7
AUTHOR U.SCHMITZ,T.L.JAMES,P.LUKAVSKY,P.WALTER
REVDAT 3 24-FEB-09 28SP 1 VERSN REVDAT 2 31-AUG-99 28SP 1 JRNL REVDAT 1 12-APR-99 28SP 0
JRNL AUTH U.SCHMITZ,T.L.JAMES,P.LUKAVSKY,P.WALTER JRNL TITL STRUCTURE OF THE MOST CONSERVED INTERNAL LOOP IN JRNL TITL 2 SRP RNA. JRNL REF NAT.STRUCT.BIOL. V. 6 634 1999 JRNL REFN ISSN 1072-8368 JRNL PMID 10404218 JRNL DOI 10.1038/10683
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 5.0 REMARK 3 AUTHORS : PEARLMAN, KOLLMAN ET AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN REMARK 3 THE JRNL CITATION ABOVE
REMARK 4 REMARK 4 28SP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-APR-99. REMARK 100 THE RCSB ID CODE IS RCSB000812.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.25 MM RNA REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY, COSY, SSNOESY, TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY REMARK 210 METHOD USED : RESTRAINED MD, COMPLETE REMARK 210 RELAXATION-MATRIX ANALYSIS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 15 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 7 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: HOMONUCLEAR NMR USING 8MM SAMPLE TUBES
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 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 C A 3 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 4 O4' - C1' - N9 ANGL. DEV. = 5.1 DEGREES REMARK 500 1 C A 6 O4' - C1' - N1 ANGL. DEV. = 5.6 DEGREES REMARK 500 1 A A 7 C5 - C6 - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 1 A A 7 N1 - C6 - N6 ANGL. DEV. = -3.7 DEGREES REMARK 500 1 G A 8 N9 - C1' - C2' ANGL. DEV. = -12.3 DEGREES REMARK 500 1 G A 17 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 19 O4' - C1' - N9 ANGL. DEV. = 6.8 DEGREES REMARK 500 1 A A 19 C5 - C6 - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 1 A A 20 N1 - C6 - N6 ANGL. DEV. = -3.7 DEGREES REMARK 500 1 G A 21 C4' - C3' - C2' ANGL. DEV. = -6.4 DEGREES REMARK 500 1 G A 21 C3' - C2' - C1' ANGL. DEV. = 6.1 DEGREES REMARK 500 1 G A 21 O4' - C1' - N9 ANGL. DEV. = 12.3 DEGREES REMARK 500 1 A A 23 C5' - C4' - O4' ANGL. DEV. = 6.5 DEGREES REMARK 500 1 A A 23 O4' - C1' - N9 ANGL. DEV. = 6.1 DEGREES REMARK 500 1 A A 23 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 A A 23 N1 - C6 - N6 ANGL. DEV. = -5.5 DEGREES REMARK 500 1 C A 25 O4' - C1' - N1 ANGL. DEV. = 6.6 DEGREES REMARK 500 1 G A 26 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 C A 27 O4' - C1' - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 C A 27 N3 - C2 - O2 ANGL. DEV. = -4.5 DEGREES REMARK 500 1 C A 28 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 2 G A 1 O4' - C1' - N9 ANGL. DEV. = 7.5 DEGREES REMARK 500 2 C A 3 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 4 O4' - C1' - N9 ANGL. DEV. = 5.3 DEGREES REMARK 500 2 U A 5 C5' - C4' - O4' ANGL. DEV. = 6.2 DEGREES REMARK 500 2 A A 7 C5 - C6 - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 2 G A 8 N9 - C1' - C2' ANGL. DEV. = -12.4 DEGREES REMARK 500 2 G A 14 C5' - C4' - O4' ANGL. DEV. = -7.7 DEGREES REMARK 500 2 A A 15 N1 - C6 - N6 ANGL. DEV. = -3.7 DEGREES REMARK 500 2 A A 16 N7 - C8 - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 2 G A 17 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 2 A A 19 O4' - C1' - N9 ANGL. DEV. = 5.4 DEGREES REMARK 500 2 A A 19 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 2 A A 20 N1 - C6 - N6 ANGL. DEV. = -3.9 DEGREES REMARK 500 2 G A 21 N9 - C1' - C2' ANGL. DEV. = 7.9 DEGREES REMARK 500 2 A A 23 C5' - C4' - C3' ANGL. DEV. = -9.5 DEGREES REMARK 500 2 A A 23 C5' - C4' - O4' ANGL. DEV. = 8.7 DEGREES REMARK 500 2 A A 23 N9 - C1' - C2' ANGL. DEV. = 8.3 DEGREES REMARK 500 2 A A 23 C5 - C6 - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 2 A A 23 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 2 C A 25 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 2 C A 27 O4' - C1' - N1 ANGL. DEV. = 5.6 DEGREES REMARK 500 2 C A 28 O4' - C1' - N1 ANGL. DEV. = 5.0 DEGREES REMARK 500 3 G A 2 O4' - C1' - N9 ANGL. DEV. = 6.9 DEGREES REMARK 500 3 C A 3 O4' - C1' - N1 ANGL. DEV. = 5.7 DEGREES REMARK 500 3 G A 4 O4' - C1' - N9 ANGL. DEV. = 5.4 DEGREES REMARK 500 3 C A 6 O4' - C1' - N1 ANGL. DEV. = 6.4 DEGREES REMARK 500 3 A A 7 C5' - C4' - O4' ANGL. DEV. = 7.0 DEGREES REMARK 500 3 A A 7 C5 - C6 - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 202 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 2 0.10 SIDE_CHAIN REMARK 500 1 C A 6 0.21 SIDE_CHAIN REMARK 500 1 G A 8 0.06 SIDE_CHAIN REMARK 500 1 U A 10 0.11 SIDE_CHAIN REMARK 500 1 C A 11 0.09 SIDE_CHAIN REMARK 500 1 G A 13 0.07 SIDE_CHAIN REMARK 500 1 G A 14 0.12 SIDE_CHAIN REMARK 500 1 A A 15 0.14 SIDE_CHAIN REMARK 500 1 G A 21 0.07 SIDE_CHAIN REMARK 500 1 C A 22 0.12 SIDE_CHAIN REMARK 500 1 A A 23 0.07 SIDE_CHAIN REMARK 500 2 G A 2 0.10 SIDE_CHAIN REMARK 500 2 U A 5 0.07 SIDE_CHAIN REMARK 500 2 G A 8 0.09 SIDE_CHAIN REMARK 500 2 U A 10 0.11 SIDE_CHAIN REMARK 500 2 C A 11 0.10 SIDE_CHAIN REMARK 500 2 G A 13 0.07 SIDE_CHAIN REMARK 500 2 G A 14 0.11 SIDE_CHAIN REMARK 500 2 A A 15 0.13 SIDE_CHAIN REMARK 500 2 G A 21 0.17 SIDE_CHAIN REMARK 500 2 C A 22 0.15 SIDE_CHAIN REMARK 500 2 A A 23 0.13 SIDE_CHAIN REMARK 500 3 G A 1 0.10 SIDE_CHAIN REMARK 500 3 G A 2 0.14 SIDE_CHAIN REMARK 500 3 U A 5 0.12 SIDE_CHAIN REMARK 500 3 C A 6 0.16 SIDE_CHAIN REMARK 500 3 U A 10 0.12 SIDE_CHAIN REMARK 500 3 C A 11 0.09 SIDE_CHAIN REMARK 500 3 G A 13 0.09 SIDE_CHAIN REMARK 500 3 G A 14 0.12 SIDE_CHAIN REMARK 500 3 A A 15 0.13 SIDE_CHAIN REMARK 500 3 G A 21 0.13 SIDE_CHAIN REMARK 500 3 C A 22 0.13 SIDE_CHAIN REMARK 500 3 A A 23 0.10 SIDE_CHAIN REMARK 500 3 G A 24 0.07 SIDE_CHAIN REMARK 500 3 G A 26 0.06 SIDE_CHAIN REMARK 500 4 G A 1 0.11 SIDE_CHAIN REMARK 500 4 G A 2 0.12 SIDE_CHAIN REMARK 500 4 U A 5 0.11 SIDE_CHAIN REMARK 500 4 C A 6 0.17 SIDE_CHAIN REMARK 500 4 G A 8 0.07 SIDE_CHAIN REMARK 500 4 U A 10 0.11 SIDE_CHAIN REMARK 500 4 C A 11 0.09 SIDE_CHAIN REMARK 500 4 G A 13 0.09 SIDE_CHAIN REMARK 500 4 G A 14 0.09 SIDE_CHAIN REMARK 500 4 A A 15 0.13 SIDE_CHAIN REMARK 500 4 A A 16 0.07 SIDE_CHAIN REMARK 500 4 A A 19 0.08 SIDE_CHAIN REMARK 500 4 G A 21 0.13 SIDE_CHAIN REMARK 500 4 C A 22 0.13 SIDE_CHAIN REMARK 500 5 G A 2 0.20 SIDE_CHAIN REMARK 500 5 C A 3 0.12 SIDE_CHAIN REMARK 500 5 U A 5 0.12 SIDE_CHAIN REMARK 500 5 C A 6 0.14 SIDE_CHAIN REMARK 500 5 G A 8 0.10 SIDE_CHAIN REMARK 500 5 U A 10 0.10 SIDE_CHAIN REMARK 500 5 C A 11 0.08 SIDE_CHAIN REMARK 500 5 G A 13 0.07 SIDE_CHAIN REMARK 500 5 G A 14 0.11 SIDE_CHAIN REMARK 500 5 A A 15 0.13 SIDE_CHAIN REMARK 500 5 A A 19 0.06 SIDE_CHAIN REMARK 500 5 G A 21 0.11 SIDE_CHAIN REMARK 500 5 C A 22 0.09 SIDE_CHAIN REMARK 500 5 G A 26 0.39 SIDE_CHAIN REMARK 500 5 C A 28 0.08 SIDE_CHAIN REMARK 500 6 G A 1 0.11 SIDE_CHAIN REMARK 500 6 G A 2 0.18 SIDE_CHAIN REMARK 500 6 C A 3 0.48 SIDE_CHAIN REMARK 500 6 U A 5 0.08 SIDE_CHAIN REMARK 500 6 C A 6 0.18 SIDE_CHAIN REMARK 500 6 G A 8 0.09 SIDE_CHAIN REMARK 500 6 G A 9 0.07 SIDE_CHAIN REMARK 500 6 U A 10 0.09 SIDE_CHAIN REMARK 500 6 C A 11 0.09 SIDE_CHAIN REMARK 500 6 C A 12 0.16 SIDE_CHAIN REMARK 500 6 G A 13 0.09 SIDE_CHAIN REMARK 500 6 G A 14 0.11 SIDE_CHAIN REMARK 500 6 A A 15 0.12 SIDE_CHAIN REMARK 500 6 A A 16 0.09 SIDE_CHAIN REMARK 500 6 G A 17 0.12 SIDE_CHAIN REMARK 500 6 G A 21 0.18 SIDE_CHAIN REMARK 500 6 C A 22 0.14 SIDE_CHAIN REMARK 500 6 A A 23 0.09 SIDE_CHAIN REMARK 500 6 G A 24 0.07 SIDE_CHAIN REMARK 500 6 G A 26 0.09 SIDE_CHAIN REMARK 500 6 C A 27 0.11 SIDE_CHAIN REMARK 500 7 G A 1 0.08 SIDE_CHAIN REMARK 500 7 G A 2 0.12 SIDE_CHAIN REMARK 500 7 U A 5 0.12 SIDE_CHAIN REMARK 500 7 C A 6 0.16 SIDE_CHAIN REMARK 500 7 A A 7 0.05 SIDE_CHAIN REMARK 500 7 G A 8 0.07 SIDE_CHAIN REMARK 500 7 U A 10 0.14 SIDE_CHAIN REMARK 500 7 C A 11 0.11 SIDE_CHAIN REMARK 500 7 G A 13 0.08 SIDE_CHAIN REMARK 500 7 A A 16 0.05 SIDE_CHAIN REMARK 500 7 G A 21 0.12 SIDE_CHAIN REMARK 500 7 C A 22 0.14 SIDE_CHAIN REMARK 500 7 A A 23 0.08 SIDE_CHAIN REMARK 500 7 G A 26 0.07 SIDE_CHAIN REMARK 500 7 C A 28 0.09 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
DBREF 28SP A 1 28 PDB 28SP 28SP 1 28
SEQRES 1 A 28 G G C G U C A G G U C C G SEQRES 2 A 28 G A A G G A A G C A G C G SEQRES 3 A 28 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