HEADER RIBOSOME 31-MAY-04 1WKI TITLE SOLUTION STRUCTURE OF RIBOSOMAL PROTEIN L16 FROM THERMUS THERMOPHILUS TITLE 2 HB8 COMPND MOL_ID: 1; COMPND 2 MOLECULE: LSU RIBOSOMAL PROTEIN L16P; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 300852; SOURCE 4 STRAIN: HB8; SOURCE 5 GENE: RPLP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET26B KEYWDS MIXED ALPHA/BETA, RIBOSOME, STRUCTURAL GENOMICS, RIKEN STRUCTURAL KEYWDS 2 GENOMICS/PROTEOMICS INITIATIVE, RSGI EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR M.NISHIMURA,T.YOSHIDA,M.SHIROUZU,T.TERADA,S.KURAMITSU,S.YOKOYAMA, AUTHOR 2 T.OHKUBO,Y.KOBAYASHI,RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE AUTHOR 3 (RSGI) REVDAT 3 13-JUL-11 1WKI 1 VERSN REVDAT 2 24-FEB-09 1WKI 1 VERSN REVDAT 1 14-DEC-04 1WKI 0 JRNL AUTH M.NISHIMURA,T.YOSHIDA,M.SHIROUZU,T.TERADA,S.KURAMITSU, JRNL AUTH 2 S.YOKOYAMA,T.OHKUBO,Y.KOBAYASHI JRNL TITL SOLUTION STRUCTURE OF RIBOSOMAL PROTEIN L16 FROM THERMUS JRNL TITL 2 THERMOPHILUS HB8 JRNL REF J.MOL.BIOL. V. 344 1369 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 15561149 JRNL DOI 10.1016/J.JMB.2004.10.011 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURE ARE BASED ON A TOTAL OF 2590 RESTRAINTS, REMARK 3 2364 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 162 DIHEDRAL ANGLE REMARK 3 RESTRAINTS, 64 DISTANCE RESTRAINTS FROM HYDROGEN BONDS. REMARK 4 REMARK 4 1WKI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-JUN-04. REMARK 100 THE RCSB ID CODE IS RCSB023675. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 5.4 REMARK 210 IONIC STRENGTH : 100MM NACL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.5MM L16 U-15N, 13C; 0.5MM L16 REMARK 210 U-15N, 13C; 0.5MM L16 U-15N REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; TRIPLE REMARK 210 RESONANCE EXPERIMENTS FOR REMARK 210 ASSIGNMENTS; 3D_13C-SEPARATED_ REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.1 REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 700 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL 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 O TYR A 26 HH TYR A 137 1.59 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 PRO A 4 171.23 -51.78 REMARK 500 1 ARG A 6 -44.45 -157.43 REMARK 500 1 ARG A 14 160.69 60.62 REMARK 500 1 VAL A 27 -68.14 -161.60 REMARK 500 1 ALA A 28 118.01 61.72 REMARK 500 1 PHE A 29 142.45 62.30 REMARK 500 1 PHE A 58 98.86 -52.71 REMARK 500 1 ASP A 71 -46.94 -140.26 REMARK 500 1 LYS A 76 31.35 -98.73 REMARK 500 1 GLU A 80 33.43 -167.71 REMARK 500 1 LYS A 87 128.94 -176.14 REMARK 500 1 GLU A 91 46.44 -93.72 REMARK 500 1 ARG A 134 89.71 -47.04 REMARK 500 2 ARG A 5 113.12 59.27 REMARK 500 2 TYR A 9 44.46 -153.12 REMARK 500 2 ARG A 14 46.13 -94.42 REMARK 500 2 LEU A 17 85.03 -165.87 REMARK 500 2 VAL A 27 -41.64 -164.79 REMARK 500 2 ALA A 28 -73.82 74.84 REMARK 500 2 PHE A 58 108.84 -53.43 REMARK 500 2 ARG A 60 32.96 -98.21 REMARK 500 2 LYS A 87 -45.76 -149.00 REMARK 500 2 GLU A 91 43.59 -94.65 REMARK 500 2 ARG A 134 90.05 -47.40 REMARK 500 3 LEU A 2 99.25 59.47 REMARK 500 3 ARG A 6 32.38 -140.35 REMARK 500 3 LYS A 11 33.71 -98.99 REMARK 500 3 TYR A 26 -75.60 -83.53 REMARK 500 3 VAL A 27 -83.12 -157.36 REMARK 500 3 ALA A 28 -173.56 50.29 REMARK 500 3 PHE A 29 -78.88 64.71 REMARK 500 3 PHE A 58 106.14 -48.10 REMARK 500 3 GLU A 80 84.50 60.14 REMARK 500 3 LYS A 87 118.68 -162.77 REMARK 500 3 GLU A 91 46.17 -93.80 REMARK 500 3 ARG A 134 3.12 -56.88 REMARK 500 3 ASP A 135 26.44 -164.12 REMARK 500 4 LEU A 2 82.64 -160.33 REMARK 500 4 ARG A 5 96.40 61.17 REMARK 500 4 ARG A 6 89.17 -164.47 REMARK 500 4 LYS A 8 117.62 62.26 REMARK 500 4 ARG A 14 -76.28 -77.49 REMARK 500 4 LYS A 22 178.49 65.42 REMARK 500 4 ALA A 28 -72.20 -91.79 REMARK 500 4 PHE A 29 -56.04 -138.59 REMARK 500 4 PHE A 58 103.91 -52.48 REMARK 500 4 GLU A 80 75.75 60.64 REMARK 500 4 GLU A 91 52.00 -90.67 REMARK 500 4 ARG A 134 89.56 -46.84 REMARK 500 5 TYR A 9 35.11 -165.42 REMARK 500 REMARK 500 THIS ENTRY HAS 394 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR DETERMINED REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR DETERMINED REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: TTK003000816.1 RELATED DB: TARGETDB DBREF 1WKI A 1 141 UNP P60489 RL16_THET8 1 141 SEQRES 1 A 141 MET LEU MET PRO ARG ARG MET LYS TYR ARG LYS GLN GLN SEQRES 2 A 141 ARG GLY ARG LEU LYS GLY ALA THR LYS GLY GLY ASP TYR SEQRES 3 A 141 VAL ALA PHE GLY ASP TYR GLY LEU VAL ALA LEU GLU PRO SEQRES 4 A 141 ALA TRP ILE THR ALA GLN GLN ILE GLU ALA ALA ARG VAL SEQRES 5 A 141 ALA MET VAL ARG HIS PHE ARG ARG GLY GLY LYS ILE PHE SEQRES 6 A 141 ILE ARG ILE PHE PRO ASP LYS PRO TYR THR LYS LYS PRO SEQRES 7 A 141 LEU GLU VAL ARG MET GLY LYS GLY LYS GLY ASN VAL GLU SEQRES 8 A 141 GLY TYR VAL ALA VAL VAL LYS PRO GLY ARG VAL MET PHE SEQRES 9 A 141 GLU VAL ALA GLY VAL THR GLU GLU GLN ALA MET GLU ALA SEQRES 10 A 141 LEU ARG ILE ALA GLY HIS LYS LEU PRO ILE LYS THR LYS SEQRES 11 A 141 ILE VAL ARG ARG ASP ALA TYR ASP GLU ALA GLN HELIX 1 1 ALA A 44 HIS A 57 1 14 HELIX 2 2 GLU A 111 LYS A 124 1 14 SHEET 1 A 4 LYS A 63 PHE A 65 0 SHEET 2 A 4 PHE A 104 ALA A 107 -1 O ALA A 107 N LYS A 63 SHEET 3 A 4 TYR A 32 ALA A 36 -1 N PHE A 104 O LEU A 34 SHEET 4 A 4 THR A 129 ARG A 133 -1 O ARG A 133 N TYR A 32 SHEET 1 B 3 THR A 129 ARG A 133 0 SHEET 2 B 3 TYR A 32 ALA A 36 -1 O ALA A 36 N THR A 129 SHEET 3 B 3 ARG A 101 VAL A 102 -1 N ARG A 101 O ALA A 36 SHEET 1 C 3 ALA A 40 THR A 43 0 SHEET 2 C 3 GLY A 92 VAL A 97 -1 O VAL A 97 N ALA A 40 SHEET 3 C 3 LYS A 72 TYR A 74 -1 N LYS A 72 O VAL A 94 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