HEADER STRUCTURAL PROTEIN 05-JAN-06 2FKX TITLE RIBOSOMAL PROTEIN S15 FROM THERMUS THERMOPHILUS, NMR RECALCULATED TITLE 2 STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 30S RIBOSOMAL PROTEIN S15; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; SOURCE 4 GENE: RPSO, RPS15; 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: PET11C KEYWDS RIBOSOMAL PROTEIN, RNA-BINDING PROTEIN, RRNA-BINDING PROTEIN, KEYWDS 2 STRUCTURAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 18 AUTHOR T.E.MALLIAVIN REVDAT 4 24-JAN-18 2FKX 1 JRNL REMARK REVDAT 3 24-FEB-09 2FKX 1 VERSN REVDAT 2 01-MAY-07 2FKX 1 JRNL REVDAT 1 19-DEC-06 2FKX 0 JRNL AUTH T.CRETY,T.E.MALLIAVIN JRNL TITL THE CONFORMATIONAL LANDSCAPE OF THE RIBOSOMAL PROTEIN S15 JRNL TITL 2 AND ITS INFLUENCE ON THE PROTEIN INTERACTION WITH 16S RNA. JRNL REF BIOPHYS.J. V. 92 2647 2007 JRNL REFN ISSN 0006-3495 JRNL PMID 17259282 JRNL DOI 10.1529/BIOPHYSJ.106.092601 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.BERGLUND,A.RAK,A.SERGANOV,M.GARBER,T.HARD REMARK 1 TITL SOLUTION STRUCTURE OF THE RIBOSOMAL RNA BINDING PROTEIN S15 REMARK 1 TITL 2 FROM THERMUS THERMOPHILUS REMARK 1 REF NAT.STRUCT.BIOL. V. 4 20 1997 REMARK 1 REFN ISSN 1072-8368 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1, ARIA 1.2 REMARK 3 AUTHORS : A.T.BRUNGER, P.D.ADAMS, G.M.CLORE, W.L.DELANO, REMARK 3 P.GROS, R.W.GROSSE-KUNSTLEVE, J.-S.JIANG, REMARK 3 J.KUSZEWSKI, M.NILGES, N.S.PANNU, R.J.READ, REMARK 3 L.M.RICE, T.SIMONSON, G.L.WARREN. (CNS), JENS REMARK 3 LINGE, SEAN O'DONOGHUE, MICHAEL NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: SIMULATED ANNEALING IN TORSION ANGLE REMARK 3 SPACE AND IN CARTESIAN COORDINATES. REMARK 4 REMARK 4 2FKX COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1000036000. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT 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 : ARIA 1.2 REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 18 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: AUTHOR USED THE MR DATA FROM ENTRY 1AB3. 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 OE1 GLU A 25 HZ1 LYS A 83 1.56 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 18 ARG A 87 CA - C - N ANGL. DEV. = -12.6 DEGREES 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 PHE A 14 -81.55 -90.19 REMARK 500 1 PRO A 18 70.89 -68.62 REMARK 500 1 ASP A 20 68.12 -68.09 REMARK 500 1 THR A 21 -32.72 -153.20 REMARK 500 1 TYR A 68 -62.35 -105.56 REMARK 500 1 ASP A 73 109.60 178.01 REMARK 500 2 PHE A 14 -71.14 -84.46 REMARK 500 2 PRO A 18 98.62 -58.79 REMARK 500 2 HIS A 45 42.19 -77.92 REMARK 500 2 ASP A 48 -77.95 -113.78 REMARK 500 2 HIS A 49 164.96 65.09 REMARK 500 2 ASP A 73 83.14 -168.07 REMARK 500 3 GLU A 13 -75.88 -78.09 REMARK 500 3 PRO A 18 106.32 -46.22 REMARK 500 3 ASP A 20 106.19 -37.70 REMARK 500 3 VAL A 44 -37.71 -139.11 REMARK 500 3 HIS A 45 104.42 66.65 REMARK 500 3 LYS A 46 -74.47 -89.33 REMARK 500 3 HIS A 49 159.43 75.69 REMARK 500 3 ASP A 73 105.77 173.16 REMARK 500 4 ILE A 2 -47.43 70.92 REMARK 500 4 THR A 3 -51.26 58.90 REMARK 500 4 PHE A 14 134.69 59.11 REMARK 500 4 THR A 21 -2.14 -142.11 REMARK 500 4 ASP A 73 113.05 173.59 REMARK 500 5 ILE A 2 -91.17 -91.30 REMARK 500 5 THR A 3 -48.89 158.19 REMARK 500 5 PHE A 14 -73.91 -143.77 REMARK 500 5 ALA A 15 172.59 156.84 REMARK 500 5 ARG A 16 27.33 -153.46 REMARK 500 5 PRO A 18 100.15 -47.37 REMARK 500 5 VAL A 44 -52.60 -123.16 REMARK 500 5 HIS A 50 79.00 179.98 REMARK 500 5 ASP A 73 101.47 -171.45 REMARK 500 5 ARG A 87 -16.98 76.42 REMARK 500 6 LYS A 46 96.76 61.31 REMARK 500 6 HIS A 52 26.60 -78.27 REMARK 500 6 ASP A 73 88.65 -164.09 REMARK 500 6 ILE A 86 -61.21 -155.81 REMARK 500 7 ILE A 2 141.10 73.36 REMARK 500 7 THR A 3 -92.63 36.86 REMARK 500 7 PHE A 14 143.81 56.66 REMARK 500 7 PRO A 18 -60.34 -12.11 REMARK 500 7 LYS A 47 22.17 -152.35 REMARK 500 7 TYR A 68 -55.02 -128.07 REMARK 500 7 ASP A 73 110.93 -175.25 REMARK 500 8 PHE A 14 -102.13 -99.92 REMARK 500 8 ALA A 15 82.57 35.33 REMARK 500 8 PRO A 18 107.33 -53.66 REMARK 500 8 SER A 23 77.41 -101.21 REMARK 500 REMARK 500 THIS ENTRY HAS 126 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 1 ARG A 76 0.11 SIDE CHAIN REMARK 500 6 ARG A 76 0.11 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AB3 RELATED DB: PDB REMARK 900 RIBOSOMAL PROTEIN S15 FROM THERMUS THERMOPHILUS: NMR STRUCTURE REMARK 900 RELATED ID: 1A32 RELATED DB: PDB REMARK 900 RIBOSOMAL PROTEIN S15 FROM BACILLUS STEAROTHERMOPHILUS: XRAY REMARK 900 STRUCTURE REMARK 950 REMARK 950 THIS ENTRY 2FKX REFLECTS AN ALTERNATIVE MODELING OF THE REMARK 950 STRUCTURAL DATA IN 1AB3.MR ORIGINAL DATA DETERMINED BY REMARK 950 AUTHOR: H.BERGLUND, A.RAK, A.SERGANOV, M.GARBER, T.HARD DBREF 2FKX A 1 88 UNP P80378 RS15_THETH 1 88 SEQRES 1 A 88 PRO ILE THR LYS GLU GLU LYS GLN LYS VAL ILE GLN GLU SEQRES 2 A 88 PHE ALA ARG PHE PRO GLY ASP THR GLY SER THR GLU VAL SEQRES 3 A 88 GLN VAL ALA LEU LEU THR LEU ARG ILE ASN ARG LEU SER SEQRES 4 A 88 GLU HIS LEU LYS VAL HIS LYS LYS ASP HIS HIS SER HIS SEQRES 5 A 88 ARG GLY LEU LEU MET MET VAL GLY GLN ARG ARG ARG LEU SEQRES 6 A 88 LEU ARG TYR LEU GLN ARG GLU ASP PRO GLU ARG TYR ARG SEQRES 7 A 88 ALA LEU ILE GLU LYS LEU GLY ILE ARG GLY HELIX 1 1 THR A 3 PHE A 14 1 12 HELIX 2 2 SER A 23 LYS A 43 1 21 HELIX 3 3 GLY A 54 LEU A 65 1 12 HELIX 4 4 LEU A 65 ASP A 73 1 9 HELIX 5 5 ASP A 73 GLY A 85 1 13 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