PDB Short entry for 1OVY HEADER RIBOSOME 27-MAR-03 1OVY TITLE SOLUTION STRUCTURE OF RIBOSOMAL PROTEIN L18 FROM BACILLUS TITLE 2 STEAROTHERMOPHILUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 50S RIBOSOMAL PROTEIN L18; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 1422; SOURCE 4 GENE: RPLR; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET13A KEYWDS RIBOSOMAL PROTEIN, RIBOSOME EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR C.F.TURNER,P.B.MOORE REVDAT 3 23-FEB-22 1OVY 1 REMARK REVDAT 2 24-FEB-09 1OVY 1 VERSN REVDAT 1 17-FEB-04 1OVY 0 JRNL AUTH C.F.TURNER,P.B.MOORE JRNL TITL THE SOLUTION STRUCTURE OF RIBOSOMAL PROTEIN L18 FROM JRNL TITL 2 BACILLUS STEAROTHERMOPHILUS JRNL REF J.MOL.BIOL. V. 335 679 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 14687565 JRNL DOI 10.1016/J.JMB.2003.11.018 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 97.0, CNS 1.0, ARIA 1.2 REMARK 3 AUTHORS : BIOSYM/MSI (FELIX), BRUNGER, A.T. ET AL. (CNS), REMARK 3 LINGE, J.P. & NILGES, M. (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES ARE BASED ON A TOTAL OF 2272 RESTRAINTS. 1188 ARE REMARK 3 UNAMBIGUOUS DISTANCE CONSTRAINTS, 913 ARE AMBIGUOUS DISTANCE REMARK 3 CONSTRAINTS, 128 ARE DIHEDRAL ANGLE RESTRAINTS, AND 43 ARE HYDROGEN REMARK 3 BOND RESTRAINTS. REMARK 4 REMARK 4 1OVY COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-MAR-03. REMARK 100 THE DEPOSITION ID IS D_1000018719. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 12MM KH2PO4; 8MM NAH2PO4; 200MM REMARK 210 NACL, 5MM MGCL2 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1.5MM L18 U-15N; 20MM PHOSPHATE REMARK 210 BUFFER; 200MM NACL; 5MM MGCL2; REMARK 210 1.5MM L18 U-15N,13C; 20MM REMARK 210 PHOSPHATE BUFFER; 200MM NACL; REMARK 210 5MM MGCL2; 1MM L18; 20MM REMARK 210 PHOSPHATE BUFFER; 200MM NACL; REMARK 210 5MM MGCL2 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.93, CNS 1.0, ARIA 1.2 REMARK 210 METHOD USED : ARIA WAS USED TO SELECT AND REMARK 210 ASSIGN PEAK LISTS FROM NOESY REMARK 210 EXPERIMENTS. CNS AS MODIFIED FOR REMARK 210 USE WITH ARIA WAS USED FOR REMARK 210 STRUCTURE CALCULATION USING REMARK 210 TORSION ANGLE SIMULATED REMARK 210 ANNEALING. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 150 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: THIS STRUCTURE WAS DETERMINED USING TRIPLE RESONANCE NMR REMARK 210 SPECTROSCOPY. 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ILE A 2 REMARK 465 THR A 3 REMARK 465 LYS A 4 REMARK 465 VAL A 5 REMARK 465 ASP A 6 REMARK 465 ARG A 7 REMARK 465 ASN A 8 REMARK 465 ALA A 9 REMARK 465 VAL A 10 REMARK 465 ARG A 11 REMARK 465 LYS A 12 REMARK 465 LYS A 13 REMARK 465 ARG A 14 REMARK 465 HIS A 15 REMARK 465 ALA A 16 REMARK 465 ARG A 17 REMARK 465 ILE A 18 REMARK 465 ARG A 19 REMARK 465 LYS A 20 REMARK 465 LYS A 21 REMARK 465 ILE A 22 REMARK 465 PHE A 23 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 REMARK 500 REMARK: NULL 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 9 TYR A 100 CE1 TYR A 100 CZ 0.147 REMARK 500 9 TYR A 100 CZ TYR A 100 CE2 -0.148 REMARK 500 REMARK 500 REMARK: NULL 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 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 THR A 25 16.06 -146.87 REMARK 500 1 THR A 26 -40.60 -177.28 REMARK 500 1 ARG A 28 83.03 171.94 REMARK 500 1 ARG A 30 169.55 177.72 REMARK 500 1 ASN A 37 -93.80 66.63 REMARK 500 1 ASP A 46 158.36 -47.14 REMARK 500 1 ASP A 47 -115.61 -95.54 REMARK 500 1 LYS A 49 -60.31 -102.98 REMARK 500 1 SER A 50 171.16 167.95 REMARK 500 1 ALA A 51 -159.74 166.22 REMARK 500 1 SER A 55 -139.99 176.45 REMARK 500 1 SER A 57 -167.59 -160.05 REMARK 500 1 ASP A 66 128.01 65.89 REMARK 500 1 SER A 67 -36.60 174.97 REMARK 500 1 LYS A 88 -71.32 -51.56 REMARK 500 1 ILE A 90 -43.89 -161.54 REMARK 500 1 ASP A 96 -85.36 -68.39 REMARK 500 1 ARG A 97 -39.85 -138.09 REMARK 500 1 TYR A 100 -176.58 46.84 REMARK 500 1 TYR A 102 125.55 94.51 REMARK 500 1 HIS A 103 -34.79 175.01 REMARK 500 2 THR A 26 49.78 -167.94 REMARK 500 2 GLU A 27 -91.90 -171.97 REMARK 500 2 PRO A 29 162.65 -39.94 REMARK 500 2 ASN A 37 -88.52 58.17 REMARK 500 2 ASP A 46 165.83 -46.41 REMARK 500 2 ASP A 47 -70.51 -146.86 REMARK 500 2 LYS A 49 61.93 -117.48 REMARK 500 2 SER A 50 60.90 37.59 REMARK 500 2 ALA A 51 -158.97 -61.83 REMARK 500 2 VAL A 54 -152.95 -177.61 REMARK 500 2 SER A 55 -137.92 178.33 REMARK 500 2 LEU A 59 -30.40 -38.10 REMARK 500 2 ASP A 60 74.44 92.38 REMARK 500 2 LYS A 61 -71.73 -89.19 REMARK 500 2 ASP A 66 137.48 60.64 REMARK 500 2 SER A 67 -34.45 171.86 REMARK 500 2 PHE A 95 98.08 -51.03 REMARK 500 2 ASP A 96 -142.52 25.74 REMARK 500 2 TYR A 100 58.77 179.39 REMARK 500 2 LEU A 101 -61.94 68.56 REMARK 500 2 TYR A 102 178.04 122.65 REMARK 500 2 HIS A 103 -24.16 112.63 REMARK 500 3 THR A 26 -31.85 164.25 REMARK 500 3 GLU A 27 -76.45 -79.56 REMARK 500 3 ARG A 28 85.11 -161.69 REMARK 500 3 ARG A 30 165.18 177.77 REMARK 500 3 ASN A 37 96.20 -56.43 REMARK 500 3 LYS A 38 14.29 92.37 REMARK 500 3 ASP A 46 156.23 -45.44 REMARK 500 REMARK 500 THIS ENTRY HAS 229 RAMACHANDRAN OUTLIERS. 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 3 TYR A 41 0.09 SIDE CHAIN REMARK 500 8 TYR A 41 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1OVY A 1 120 UNP P09415 RL18_BACST 1 120 SEQRES 1 A 120 MET ILE THR LYS VAL ASP ARG ASN ALA VAL ARG LYS LYS SEQRES 2 A 120 ARG HIS ALA ARG ILE ARG LYS LYS ILE PHE GLY THR THR SEQRES 3 A 120 GLU ARG PRO ARG LEU SER VAL PHE ARG SER ASN LYS HIS SEQRES 4 A 120 ILE TYR ALA GLN ILE ILE ASP ASP THR LYS SER ALA THR SEQRES 5 A 120 ILE VAL SER ALA SER THR LEU ASP LYS GLU PHE GLY LEU SEQRES 6 A 120 ASP SER THR ASN ASN ILE GLU ALA ALA LYS LYS VAL GLY SEQRES 7 A 120 GLU LEU VAL ALA LYS ARG ALA LEU GLU LYS GLY ILE LYS SEQRES 8 A 120 GLN VAL VAL PHE ASP ARG GLY GLY TYR LEU TYR HIS GLY SEQRES 9 A 120 ARG VAL LYS ALA LEU ALA ASP ALA ALA ARG GLU ALA GLY SEQRES 10 A 120 LEU GLU PHE HELIX 1 1 ASN A 70 GLY A 89 1 20 HELIX 2 2 VAL A 106 LEU A 118 1 13 SHEET 1 A 3 LEU A 31 SER A 36 0 SHEET 2 A 3 HIS A 39 ILE A 45 -1 O GLN A 43 N SER A 32 SHEET 3 A 3 ILE A 53 ALA A 56 -1 O ALA A 56 N ALA A 42 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