HEADER RIBOSOME 28-APR-99 1CK9 OBSLTE 25-JUL-06 1CK9 1CN7 TITLE SOLUTION STRUCTURE OF YEAST RIBOSOMAL PROTEIN L30 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (60S RIBOSOMAL PROTEIN L30); COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RL30_YEAST; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANELLE: RIBOSOME,60S SUBUNIT; SOURCE 5 CELLULAR_LOCATION: CYTOPLASM; SOURCE 6 GENE: RPL30; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_COMMON: BACTERIA; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_CELLULAR_LOCATION: CYTOPLASM; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PMALC-L30; SOURCE 12 EXPRESSION_SYSTEM_GENE: L30; SOURCE 13 OTHER_DETAILS: RECOMBINANT EXPRESSION AS A C-TERMINAL SOURCE 14 MALTOSE-BINDING PROTEIN FUSION IN ESCHERICHIA COLI STRAIN SOURCE 15 JM109 HOSTING PLASMID PMALC-30 KEYWDS NMR, RIBOSOMAL PROTEIN, AUTO-REGULATION OF PRE-MRNA KEYWDS 2 SPLICING AND MRNA TRANSLATION EXPDTA NMR, 20 STRUCTURES AUTHOR H.MAO,J.R.WILLAMSON REVDAT 3 25-JUL-06 1CK9 1 OBSLTE REVDAT 2 01-APR-03 1CK9 1 JRNL REVDAT 1 14-OCT-99 1CK9 0 JRNL AUTH H.MAO,J.R.WILLIAMSON JRNL TITL LOCAL FOLDING COUPLED TO RNA BINDING IN THE YEAST JRNL TITL 2 RIBOSOMAL PROTEIN L30. JRNL REF J.MOL.BIOL. V. 292 345 1999 JRNL REFN ASTM JMOBAK UK ISSN 0022-2836 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.D.DABEVA,J.R.WARNER REMARK 1 TITL THE YEAST RIBOSOMAL PROTEIN L32 AND ITS GENE REMARK 1 REF J.BIOL.CHEM. V. 262 16055 1987 REMARK 1 REFN ASTM JBCHA3 US ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM, FERGUSON, REMARK 3 SEIBEL,SINGH,WEINER,KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN REMARK 3 THE JRNL CITATION ABOVE. DISTANCE INTRARESIDUE NOES: 720; REMARK 3 INTERRESIDUE NOES: 698; SEQUENTIAL (|I-J|=1): 291; SHORT-RANGE REMARK 3 (|I-J|<=4): 149; LONG-RANGE (|I-J|>4): 258; HYDROGEN BONDS: REMARK 3 62; TOTAL: 1418. TORSION BACKBONE PHI: 80; SIDECHAIN KAI1: 59; REMARK 3 TOTAL: 139 REMARK 4 REMARK 4 1CK9 COMPLIES WITH FORMAT V. 3.0, 1-DEC-2006 REMARK 4 REMARK 4 THIS FILE IS A TEST VERSION. REMARK 4 REMARK 4 THIS IS THE REMEDIATED VERSION OF THIS PDB ENTRY. REMARK 4 REMEDIATED DATA FILE REVISION 3.100 (2007-03-19) REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-APR-1999. REMARK 100 THE RCSB ID CODE IS RCSB000965. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 300 MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 10% WATER/90% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY, COSY, TOCSY, HMQC-J, REMARK 210 HNCA, HNCO, HN(CO)CA, CBCA(CO) REMARK 210 NH, HCCHTOCSY, NOESYHSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRDRAW, NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING MOLECULAR REMARK 210 DYNAMIC REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST TOTAL ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 13 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE REMARK 210 NMR SPECTROSCOPY ON 13C, 15N-LABELED L30 PROTEIN. 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 3 ASP A 99 C - N - CA ANGL. DEV. = 14.2 DEGREES REMARK 500 5 ASP A 99 C - N - CA ANGL. DEV. = 15.3 DEGREES REMARK 500 10 ASP A 99 C - N - CA ANGL. DEV. = 14.7 DEGREES REMARK 500 14 ASP A 99 C - N - CA ANGL. DEV. = 14.3 DEGREES REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 2 LYS A 83 -70.53 51.25 REMARK 500 5 LYS A 83 -47.38 62.10 REMARK 500 6 LYS A 83 -64.19 53.91 REMARK 500 8 ASN A 75 -40.36 61.53 REMARK 500 8 ARG A 86 -33.85 55.40 REMARK 500 9 ARG A 86 -79.79 63.94 REMARK 500 11 LYS A 83 -62.11 73.14 REMARK 500 11 VAL A 87 142.86 72.88 REMARK 500 12 LYS A 83 -69.30 58.22 REMARK 500 14 LYS A 83 -55.88 52.72 REMARK 500 14 PHE A 85 -39.87 56.31 REMARK 500 15 ASN A 74 -68.70 60.53 REMARK 500 17 ARG A 86 -59.94 63.66 REMARK 500 18 LYS A 83 -78.10 47.95 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG A 86 VAL A 87 1 147.38 REMARK 500 LEU A 104 ALA A 105 1 -129.95 REMARK 500 SER A 63 LYS A 64 2 -146.78 REMARK 500 ASN A 47 THR A 48 4 -149.36 REMARK 500 GLY A 72 GLY A 73 4 -133.77 REMARK 500 SER A 63 LYS A 64 5 -134.16 REMARK 500 VAL A 87 GLY A 88 7 -146.20 REMARK 500 ALA A 95 GLY A 96 8 -148.47 REMARK 500 ASP A 97 SER A 98 8 144.30 REMARK 500 ASP A 99 ILE A 100 8 -137.74 REMARK 500 ASP A 97 SER A 98 9 139.24 REMARK 500 ASP A 99 ILE A 100 9 -139.47 REMARK 500 LEU A 62 SER A 63 10 -136.45 REMARK 500 LYS A 64 THR A 65 10 -146.88 REMARK 500 LEU A 104 ALA A 105 10 -147.99 REMARK 500 LEU A 104 ALA A 105 11 -143.05 REMARK 500 ALA A 2 PRO A 3 12 -142.63 REMARK 500 PRO A 3 VAL A 4 12 142.32 REMARK 500 SER A 63 LYS A 64 12 -134.24 REMARK 500 GLN A 71 GLY A 72 12 135.44 REMARK 500 ARG A 86 VAL A 87 12 143.43 REMARK 500 ALA A 95 GLY A 96 12 -113.15 REMARK 500 THR A 103 LEU A 104 12 142.44 REMARK 500 SER A 63 LYS A 64 13 -137.84 REMARK 500 LEU A 104 ALA A 105 13 -145.26 REMARK 500 SER A 63 LYS A 64 14 -136.74 REMARK 500 VAL A 87 GLY A 88 14 -142.03 REMARK 500 ASP A 99 ILE A 100 15 -145.19 REMARK 500 SER A 63 LYS A 64 16 -133.03 REMARK 500 GLY A 96 ASP A 97 17 148.94 REMARK 500 LEU A 101 THR A 102 17 147.45 REMARK 500 SER A 63 LYS A 64 18 -145.80 REMARK 500 GLN A 71 GLY A 72 19 -143.86 REMARK 500 SER A 63 LYS A 64 20 -136.02 DBREF 1CK9 A 2 105 UNP P14120 RL30_YEAST 2 105 SEQRES 1 A 104 ALA PRO VAL LYS SER GLN GLU SER ILE ASN GLN LYS LEU SEQRES 2 A 104 ALA LEU VAL ILE LYS SER GLY LYS TYR THR LEU GLY TYR SEQRES 3 A 104 LYS SER THR VAL LYS SER LEU ARG GLN GLY LYS SER LYS SEQRES 4 A 104 LEU ILE ILE ILE ALA ALA ASN THR PRO VAL LEU ARG LYS SEQRES 5 A 104 SER GLU LEU GLU TYR TYR ALA MET LEU SER LYS THR LYS SEQRES 6 A 104 VAL TYR TYR PHE GLN GLY GLY ASN ASN GLU LEU GLY THR SEQRES 7 A 104 ALA VAL GLY LYS LEU PHE ARG VAL GLY VAL VAL SER ILE SEQRES 8 A 104 LEU GLU ALA GLY ASP SER ASP ILE LEU THR THR LEU ALA HELIX 1 1 SER A 6 ILE A 18 5 13 HELIX 2 2 TYR A 27 ARG A 35 1 9 HELIX 3 3 VAL A 50 LEU A 62 1 13 HELIX 4 4 GLU A 76 VAL A 81 5 6 HELIX 5 5 LYS A 83 PHE A 85 5 3 HELIX 6 6 ILE A 100 THR A 103 1 4 SHEET 1 A 4 TYR A 23 LEU A 25 0 SHEET 2 A 4 GLY A 88 ILE A 92 -1 N SER A 91 O THR A 24 SHEET 3 A 4 LEU A 41 ALA A 45 -1 N ALA A 45 O GLY A 88 SHEET 4 A 4 LYS A 66 TYR A 69 1 N LYS A 66 O ILE A 42 CISPEP 1 VAL A 4 LYS A 5 2 -8.38 CISPEP 2 GLY A 73 ASN A 74 2 -0.29 CISPEP 3 LYS A 5 SER A 6 3 -9.42 CISPEP 4 ARG A 86 VAL A 87 4 -13.14 CISPEP 5 GLY A 72 GLY A 73 11 -6.48 CISPEP 6 ASP A 97 SER A 98 12 8.31 CISPEP 7 ASP A 97 SER A 98 17 -8.81 CISPEP 8 LEU A 104 ALA A 105 17 -4.23 CISPEP 9 GLY A 72 GLY A 73 20 9.05 CISPEP 10 VAL A 87 GLY A 88 20 5.55 CISPEP 11 LEU A 104 ALA A 105 20 -7.59 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