HEADER RIBOSOME 28-OCT-99 1C59 OBSLTE 02-FEB-00 1C59 1DV4 TITLE PARTIAL STRUCTURE OF 16S RNA OF THE SMALL RIBOSOMAL SUBUNIT TITLE 2 FROM THERMUS THERMOPHILUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 16S RIBOSOMAL RNA; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_COMMON: BACTERIA KEYWDS RIBOSOMES, 30S, THERMUS THERMOPHILUS, 16S RNA EXPDTA X-RAY DIFFRACTION AUTHOR A.TOCILJ,F.SCHLUNZEN,D.JANELL,M.GLUHMANN,H.HANSEN,J.HARMS, AUTHOR 2 A.BASHAN,H.BARTELS,I.AGMON,F.FRANCESCHI,A.YONATH REVDAT 2 02-FEB-00 1C59 1 OBSLTE REVDAT 1 02-DEC-99 1C59 0 JRNL AUTH A.TOCILJ,F.SCHLUNZEN,D.JANELL,M.GLUHMANN,H.HANSEN, JRNL AUTH 2 J.HARMS,A.BASHAN,H.BARTELS,I.AGMON,F.FRANCESCHI, JRNL AUTH 3 A.YONATH JRNL TITL THE SMALL RIBOSOMAL SUBUNIT FROM THERMUS JRNL TITL 2 THERMOPHILUS AT 4.5 A RESOLUTION: PATTERN FITTINGS JRNL TITL 3 AND THE IDENTIFICATION OF FUNCTIONAL SITE JRNL REF PROC.NATL.ACAD.SCI.USA V. 96 14252 1999 JRNL REFN ASTM PNASA6 US ISSN 0027-8424 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 4.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : O REMARK 3 AUTHORS : JONES,ZOU,COWAN,KJELDGAARD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 4.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 85991 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 3376 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: A-RNA FRAGMENTS WERE FITTED MANUALLY REMARK 3 INTO ELECTRON DENSITY. NO OTHER REFINEMENT WAS CARRIED OUT REMARK 4 REMARK 4 1C59 COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY THE NUCLEIC ACID DATABASE REMARK 100 ON 02-NOV-1999. REMARK 100 THE NDB ID CODE IS RR0004. REMARK 105 REMARK 105 THE PROTEIN DATA BANK HAS ADOPTED THE SACCHARIDE CHEMISTS REMARK 105 NOMENCLATURE FOR ATOMS OF THE DEOXYRIBOSE/RIBOSE MOIETY REMARK 105 RATHER THAN THAT OF THE NUCLEOSIDE CHEMISTS. THE RING REMARK 105 OXYGEN ATOM IS LABELLED O4* INSTEAD OF O1*. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-1999 REMARK 200 TEMPERATURE (KELVIN) : 85.0 REMARK 200 PH : 7.80 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y; Y; Y; Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG; EMBL/ REMARK 200 DESY, HAMBURG; CHESS; APS; ESRF REMARK 200 BEAMLINE : BW7B; BW6; F1; ID19; ID2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.850-1.300; 0.850-1.300; REMARK 200 0.850-1.300; 0.850-1.300; REMARK 200 0.850-1.300 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : QUANTUM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 85991 REMARK 200 RESOLUTION RANGE HIGH (A) : 4.500 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.2 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 12.50000 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 4.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 91.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIRAS REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.80 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,1/2+Z REMARK 290 3555 1/2-Y,1/2+X,1/4+Z REMARK 290 4555 1/2+Y,1/2-X,3/4+Z REMARK 290 5555 1/2-X,1/2+Y,1/4-Z REMARK 290 6555 1/2+X,1/2-Y,3/4-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,1/2-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 88.00400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 203.55000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 203.55000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 44.00200 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 203.55000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 203.55000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 132.00600 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 203.55000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 203.55000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 44.00200 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 203.55000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 203.55000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 132.00600 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 88.00400 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 1 CHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 350 REMARK 350 GENERATING THE BIOMOLECULE 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 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 999 REMARK 999 ALL NUCLEOTIDES ARE CALLED 'N' AND HAVE ARBITRARY SEQUENCE REMARK 999 NUMBERS. REMARK 999 REMARK 999 ONLY SUGAR-PHOSPHATE BACKBONE IS DEPOSITED SINCE AT CURRENT REMARK 999 RESOLUTION THE INDIVIDUAL RNA BASES COULD NOT BE REMARK 999 DISTINGUISHED. SEQRES 1 A 362 N N N N N N N N N N N N N SEQRES 2 A 362 N N N N N N N N N N N N N SEQRES 3 A 362 N N N N N N N N N N N N N SEQRES 4 A 362 N N N N N N N N N N N N N SEQRES 5 A 362 N N N N N N N N N N N N N SEQRES 6 A 362 N N N N N N N N N N N N N SEQRES 7 A 362 N N N N N N N N N N N N N SEQRES 8 A 362 N N N N N N N N N N N N N SEQRES 9 A 362 N N N N N N N N N N N N N SEQRES 10 A 362 N N N N N N N N N N N N N SEQRES 11 A 362 N N N N N N N N N N N N N SEQRES 12 A 362 N N N N N N N N N N N N N SEQRES 13 A 362 N N N N N N N N N N N N N SEQRES 14 A 362 N N N N N N N N N N N N N SEQRES 15 A 362 N N N N N N N N N N N N N SEQRES 16 A 362 N N N N N N N N N N N N N SEQRES 17 A 362 N N N N N N N N N N N N N SEQRES 18 A 362 N N N N N N N N N N N N N SEQRES 19 A 362 N N N N N N N N N N N N N SEQRES 20 A 362 N N N N N N N N N N N N N SEQRES 21 A 362 N N N N N N N N N N N N N SEQRES 22 A 362 N N N N N N N N N N N N N SEQRES 23 A 362 N N N N N N N N N N N N N SEQRES 24 A 362 N N N N N N N N N N N N N SEQRES 25 A 362 N N N N N N N N N N N N N SEQRES 26 A 362 N N N N N N N N N N N N N SEQRES 27 A 362 N N N N N N N N N N N N N SEQRES 28 A 362 N N N N N N N N N N N CRYST1 407.100 407.100 176.008 90.00 90.00 90.00 P 41 21 2 8 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 0.002456 0.000000 0.000000 0.00000 SCALE2 0.000000 0.002456 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005682 0.00000