10 20 30 40 50 60 70 80 1VOP - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER RNA 30-AUG-97 1VOP
TITLE CONSERVED RNA COMPONENT OF THE PEPTIDYL TRANSFERASE CENTER, TITLE 2 NMR, 33 STRUCTURES
COMPND MOL_ID: 1; COMPND 2 MOLECULE: 23S RIBOSOMAL RNA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: NUCLEOTIDES 2247 - 2256; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES
KEYWDS RIBOSOMAL RNA, HAIRPIN LOOP
EXPDTA SOLUTION NMR
NUMMDL 33
AUTHOR E.V.PUGLISI,J.D.PUGLISI
REVDAT 2 24-FEB-09 1VOP 1 VERSN REVDAT 1 24-DEC-97 1VOP 0
JRNL AUTH E.V.PUGLISI,R.GREEN,H.F.NOLLER,J.D.PUGLISI JRNL TITL STRUCTURE OF A CONSERVED RNA COMPONENT OF THE JRNL TITL 2 PEPTIDYL TRANSFERASE CENTRE. JRNL REF NAT.STRUCT.BIOL. V. 4 775 1997 JRNL REFN ISSN 1072-8368 JRNL PMID 9334738 JRNL DOI 10.1038/NSB1097-775
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER REMARK 3 AUTHORS : BIOSYM REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1VOP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283 REMARK 210 PH : 6.4 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : UNITY + REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DISCOVER REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 33 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: 10MM NA PHOSPHATE
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 LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 G A 1 N1 G A 1 C2 0.107 REMARK 500 1 G A 1 N3 G A 1 C4 0.093 REMARK 500 1 G A 1 C4 G A 1 C5 0.056 REMARK 500 1 G A 1 C5 G A 1 C6 0.123 REMARK 500 1 G A 1 N7 G A 1 C8 0.071 REMARK 500 1 G A 1 C2 G A 1 N2 0.070 REMARK 500 1 A A 2 N3 A A 2 C4 0.093 REMARK 500 1 A A 2 C4 A A 2 C5 0.062 REMARK 500 1 A A 2 C6 A A 2 N1 -0.049 REMARK 500 1 A A 2 N7 A A 2 C8 0.063 REMARK 500 1 C A 3 C4 C A 3 N4 0.078 REMARK 500 1 C A 3 N1 C A 3 C6 0.123 REMARK 500 1 C A 3 C2 C A 3 N3 0.103 REMARK 500 1 C A 3 N3 C A 3 C4 -0.047 REMARK 500 1 C A 3 C4 C A 3 C5 -0.065 REMARK 500 1 U A 4 N1 U A 4 C6 0.113 REMARK 500 1 U A 4 C4 U A 4 C5 0.114 REMARK 500 1 G A 5 N1 G A 5 C2 0.109 REMARK 500 1 G A 5 N3 G A 5 C4 0.091 REMARK 500 1 G A 5 C4 G A 5 C5 0.059 REMARK 500 1 G A 5 C5 G A 5 C6 0.121 REMARK 500 1 G A 5 N7 G A 5 C8 0.070 REMARK 500 1 G A 5 C2 G A 5 N2 0.069 REMARK 500 1 G A 6 N1 G A 6 C2 0.109 REMARK 500 1 G A 6 N3 G A 6 C4 0.090 REMARK 500 1 G A 6 C4 G A 6 C5 0.055 REMARK 500 1 G A 6 C5 G A 6 C6 0.122 REMARK 500 1 G A 6 N7 G A 6 C8 0.071 REMARK 500 1 G A 6 C2 G A 6 N2 0.068 REMARK 500 1 G A 7 N1 G A 7 C2 0.109 REMARK 500 1 G A 7 N3 G A 7 C4 0.090 REMARK 500 1 G A 7 C4 G A 7 C5 0.055 REMARK 500 1 G A 7 C5 G A 7 C6 0.123 REMARK 500 1 G A 7 N7 G A 7 C8 0.071 REMARK 500 1 G A 7 C2 G A 7 N2 0.069 REMARK 500 1 G A 8 N1 G A 8 C2 0.107 REMARK 500 1 G A 8 N3 G A 8 C4 0.096 REMARK 500 1 G A 8 C4 G A 8 C5 0.059 REMARK 500 1 G A 8 C5 G A 8 C6 0.122 REMARK 500 1 G A 8 N7 G A 8 C8 0.068 REMARK 500 1 G A 8 C2 G A 8 N2 0.069 REMARK 500 1 C A 9 C4 C A 9 N4 0.076 REMARK 500 1 C A 9 N1 C A 9 C6 0.109 REMARK 500 1 C A 9 C2 C A 9 N3 0.114 REMARK 500 1 C A 9 C4 C A 9 C5 -0.062 REMARK 500 1 G A 10 N1 G A 10 C2 0.113 REMARK 500 1 G A 10 N3 G A 10 C4 0.089 REMARK 500 1 G A 10 C4 G A 10 C5 0.058 REMARK 500 1 G A 10 C5 G A 10 C6 0.123 REMARK 500 1 G A 10 N7 G A 10 C8 0.071 REMARK 500 REMARK 500 THIS ENTRY HAS 2081 BOND DEVIATIONS. 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 1 OP1 - P - OP2 ANGL. DEV. = -10.1 DEGREES REMARK 500 1 G A 1 C2 - N3 - C4 ANGL. DEV. = 10.9 DEGREES REMARK 500 1 G A 1 N3 - C4 - C5 ANGL. DEV. = -11.2 DEGREES REMARK 500 1 G A 1 C5 - C6 - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 1 G A 1 C4 - C5 - N7 ANGL. DEV. = 2.7 DEGREES REMARK 500 1 G A 1 C5 - N7 - C8 ANGL. DEV. = -7.2 DEGREES REMARK 500 1 G A 1 N7 - C8 - N9 ANGL. DEV. = 8.8 DEGREES REMARK 500 1 G A 1 C8 - N9 - C4 ANGL. DEV. = -6.8 DEGREES REMARK 500 1 G A 1 N9 - C4 - C5 ANGL. DEV. = 2.5 DEGREES REMARK 500 1 G A 1 N3 - C4 - N9 ANGL. DEV. = 8.7 DEGREES REMARK 500 1 G A 1 C6 - C5 - N7 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 G A 1 C5 - C6 - O6 ANGL. DEV. = -5.8 DEGREES REMARK 500 1 A A 2 OP1 - P - OP2 ANGL. DEV. = -10.1 DEGREES REMARK 500 1 A A 2 C2 - N3 - C4 ANGL. DEV. = 3.9 DEGREES REMARK 500 1 A A 2 N3 - C4 - C5 ANGL. DEV. = -10.0 DEGREES REMARK 500 1 A A 2 C5 - N7 - C8 ANGL. DEV. = -6.0 DEGREES REMARK 500 1 A A 2 N7 - C8 - N9 ANGL. DEV. = 8.2 DEGREES REMARK 500 1 A A 2 C8 - N9 - C4 ANGL. DEV. = -6.1 DEGREES REMARK 500 1 A A 2 N9 - C4 - C5 ANGL. DEV. = 3.0 DEGREES REMARK 500 1 A A 2 N3 - C4 - N9 ANGL. DEV. = 7.0 DEGREES REMARK 500 1 C A 3 OP1 - P - OP2 ANGL. DEV. = -10.1 DEGREES REMARK 500 1 C A 3 C6 - N1 - C2 ANGL. DEV. = -4.0 DEGREES REMARK 500 1 C A 3 C2 - N3 - C4 ANGL. DEV. = 4.3 DEGREES REMARK 500 1 C A 3 C4 - C5 - C6 ANGL. DEV. = 3.3 DEGREES REMARK 500 1 C A 3 N1 - C2 - O2 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 U A 4 OP1 - P - OP2 ANGL. DEV. = -10.1 DEGREES REMARK 500 1 U A 4 N1 - C2 - N3 ANGL. DEV. = 5.5 DEGREES REMARK 500 1 U A 4 N3 - C2 - O2 ANGL. DEV. = -6.3 DEGREES REMARK 500 1 U A 4 C5 - C4 - O4 ANGL. DEV. = -4.1 DEGREES REMARK 500 1 G A 5 OP1 - P - OP2 ANGL. DEV. = -10.2 DEGREES REMARK 500 1 G A 5 C2 - N3 - C4 ANGL. DEV. = 10.9 DEGREES REMARK 500 1 G A 5 N3 - C4 - C5 ANGL. DEV. = -11.1 DEGREES REMARK 500 1 G A 5 C5 - C6 - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 1 G A 5 C4 - C5 - N7 ANGL. DEV. = 2.7 DEGREES REMARK 500 1 G A 5 C5 - N7 - C8 ANGL. DEV. = -7.4 DEGREES REMARK 500 1 G A 5 N7 - C8 - N9 ANGL. DEV. = 9.0 DEGREES REMARK 500 1 G A 5 C8 - N9 - C4 ANGL. DEV. = -6.8 DEGREES REMARK 500 1 G A 5 N9 - C4 - C5 ANGL. DEV. = 2.5 DEGREES REMARK 500 1 G A 5 N3 - C4 - N9 ANGL. DEV. = 8.6 DEGREES REMARK 500 1 G A 5 C6 - C5 - N7 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 G A 5 C5 - C6 - O6 ANGL. DEV. = -6.0 DEGREES REMARK 500 1 G A 6 OP1 - P - OP2 ANGL. DEV. = -10.3 DEGREES REMARK 500 1 G A 6 C2 - N3 - C4 ANGL. DEV. = 11.1 DEGREES REMARK 500 1 G A 6 N3 - C4 - C5 ANGL. DEV. = -11.3 DEGREES REMARK 500 1 G A 6 C5 - C6 - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 1 G A 6 C4 - C5 - N7 ANGL. DEV. = 2.5 DEGREES REMARK 500 1 G A 6 C5 - N7 - C8 ANGL. DEV. = -7.0 DEGREES REMARK 500 1 G A 6 N7 - C8 - N9 ANGL. DEV. = 9.5 DEGREES REMARK 500 1 G A 6 C8 - N9 - C4 ANGL. DEV. = -8.0 DEGREES REMARK 500 1 G A 6 N9 - C4 - C5 ANGL. DEV. = 3.0 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 3708 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 C A 3 0.06 SIDE_CHAIN REMARK 500 2 C A 3 0.06 SIDE_CHAIN REMARK 500 3 C A 3 0.06 SIDE_CHAIN REMARK 500 4 G A 7 0.06 SIDE_CHAIN REMARK 500 4 G A 10 0.07 SIDE_CHAIN REMARK 500 5 C A 3 0.06 SIDE_CHAIN REMARK 500 6 C A 3 0.06 SIDE_CHAIN REMARK 500 7 C A 3 0.06 SIDE_CHAIN REMARK 500 7 G A 7 0.06 SIDE_CHAIN REMARK 500 8 C A 3 0.06 SIDE_CHAIN REMARK 500 9 C A 3 0.06 SIDE_CHAIN REMARK 500 10 C A 3 0.06 SIDE_CHAIN REMARK 500 11 C A 3 0.06 SIDE_CHAIN REMARK 500 12 C A 3 0.06 SIDE_CHAIN REMARK 500 12 G A 8 0.06 SIDE_CHAIN REMARK 500 13 C A 3 0.06 SIDE_CHAIN REMARK 500 14 C A 3 0.06 SIDE_CHAIN REMARK 500 15 C A 3 0.06 SIDE_CHAIN REMARK 500 16 C A 3 0.06 SIDE_CHAIN REMARK 500 16 G A 8 0.06 SIDE_CHAIN REMARK 500 16 G A 10 0.07 SIDE_CHAIN REMARK 500 17 C A 3 0.06 SIDE_CHAIN REMARK 500 18 C A 3 0.08 SIDE_CHAIN REMARK 500 18 G A 8 0.06 SIDE_CHAIN REMARK 500 19 C A 3 0.06 SIDE_CHAIN REMARK 500 20 C A 3 0.06 SIDE_CHAIN REMARK 500 21 C A 3 0.06 SIDE_CHAIN REMARK 500 21 G A 7 0.06 SIDE_CHAIN REMARK 500 22 C A 3 0.06 SIDE_CHAIN REMARK 500 22 G A 8 0.06 SIDE_CHAIN REMARK 500 22 G A 10 0.07 SIDE_CHAIN REMARK 500 23 C A 3 0.06 SIDE_CHAIN REMARK 500 23 G A 8 0.06 SIDE_CHAIN REMARK 500 23 G A 10 0.07 SIDE_CHAIN REMARK 500 24 C A 3 0.06 SIDE_CHAIN REMARK 500 25 C A 3 0.06 SIDE_CHAIN REMARK 500 26 C A 3 0.06 SIDE_CHAIN REMARK 500 27 C A 3 0.06 SIDE_CHAIN REMARK 500 28 C A 3 0.06 SIDE_CHAIN REMARK 500 28 G A 7 0.06 SIDE_CHAIN REMARK 500 29 C A 3 0.06 SIDE_CHAIN REMARK 500 30 C A 3 0.06 SIDE_CHAIN REMARK 500 31 C A 3 0.06 SIDE_CHAIN REMARK 500 32 C A 3 0.06 SIDE_CHAIN REMARK 500 33 C A 3 0.06 SIDE_CHAIN REMARK 500 33 G A 7 0.06 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
DBREF 1VOP A 1 13 PDB 1VOP 1VOP 1 13
SEQRES 1 A 13 G A C U G G G G C G G U 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