HEADER RIBOSOME 14-SEP-11 4A1D OBSLTE 10-DEC-14 4A1D 4V8P TITLE T.THERMOPHILA 60S RIBOSOMAL SUBUNIT IN COMPLEX WITH INITIATION TITLE 2 FACTOR 6. THIS FILE CONTAINS 26S RRNA AND PROTEINS OF TITLE 3 MOLECULE 4. SPLIT 4A18 4A1E 4A17 4A19 4A1A 4A1B 4A1C 4A1D COMPND MOL_ID: 1; COMPND 2 MOLECULE: 26S RRNA; COMPND 3 CHAIN: 1; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: RIBOSOMAL PROTEIN L37; COMPND 6 CHAIN: A; COMPND 7 SYNONYM: RPL37; COMPND 8 MOL_ID: 3; COMPND 9 MOLECULE: RPL39; COMPND 10 CHAIN: B; COMPND 11 MOL_ID: 4; COMPND 12 MOLECULE: 60S RIBOSOMAL PROTEIN L36A; COMPND 13 CHAIN: C; COMPND 14 SYNONYM: 60S RIBOSOMAL PROTEIN L44; COMPND 15 MOL_ID: 5; COMPND 16 MOLECULE: RPL6; COMPND 17 CHAIN: E; COMPND 18 MOL_ID: 6; COMPND 19 MOLECULE: RPL14; COMPND 20 CHAIN: F; COMPND 21 MOL_ID: 7; COMPND 22 MOLECULE: RPL30; COMPND 23 CHAIN: G; COMPND 24 MOL_ID: 8; COMPND 25 MOLECULE: RPL35A; COMPND 26 CHAIN: H; COMPND 27 MOL_ID: 9; COMPND 28 MOLECULE: TRANSLATION INITIATION FACTOR EIF-6, PUTATIVE FAMILY COMPND 29 PROTEIN; COMPND 30 CHAIN: J; COMPND 31 SYNONYM: EIF6; COMPND 32 MOL_ID: 10; COMPND 33 MOLECULE: UBIQUITIN-60S RIBOSOMAL PROTEIN L40; COMPND 34 CHAIN: K; COMPND 35 SYNONYM: UBIQUITIN, 60S RIBOSOMAL PROTEIN L40, CEP52, CEP53 RPL40; COMPND 36 MOL_ID: 11; COMPND 37 MOLECULE: RPL34; COMPND 38 CHAIN: L; COMPND 39 MOL_ID: 12; COMPND 40 MOLECULE: RIBOSOMAL PROTEIN L22; COMPND 41 CHAIN: M; COMPND 42 SYNONYM: RPL22; COMPND 43 MOL_ID: 13; COMPND 44 MOLECULE: RPL27; COMPND 45 CHAIN: N; COMPND 46 MOL_ID: 14; COMPND 47 MOLECULE: RPL28; COMPND 48 CHAIN: O; COMPND 49 MOL_ID: 15; COMPND 50 MOLECULE: RPL38; COMPND 51 CHAIN: P; COMPND 52 MOL_ID: 16; COMPND 53 MOLECULE: 60S RIBOSOMAL PROTEIN L36; COMPND 54 CHAIN: Q; COMPND 55 SYNONYM: RPL36; COMPND 56 MOL_ID: 17; COMPND 57 MOLECULE: RPL29; COMPND 58 CHAIN: T; COMPND 59 MOL_ID: 18; COMPND 60 MOLECULE: RPL13; COMPND 61 CHAIN: U; COMPND 62 MOL_ID: 19; COMPND 63 MOLECULE: RPL18A; COMPND 64 CHAIN: X SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 3 ORGANISM_TAXID: 5911; SOURCE 4 ATCC: 30382; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 7 ORGANISM_TAXID: 5911; SOURCE 8 ATCC: 30382; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 11 ORGANISM_TAXID: 5911; SOURCE 12 ATCC: 30382; SOURCE 13 MOL_ID: 4; SOURCE 14 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 15 ORGANISM_TAXID: 5911; SOURCE 16 ATCC: 30382; SOURCE 17 MOL_ID: 5; SOURCE 18 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 19 ORGANISM_TAXID: 5911; SOURCE 20 ATCC: 30382; SOURCE 21 MOL_ID: 6; SOURCE 22 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 23 ORGANISM_TAXID: 5911; SOURCE 24 ATCC: 30382; SOURCE 25 MOL_ID: 7; SOURCE 26 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 27 ORGANISM_TAXID: 5911; SOURCE 28 ATCC: 30382; SOURCE 29 MOL_ID: 8; SOURCE 30 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 31 ORGANISM_TAXID: 5911; SOURCE 32 ATCC: 30382; SOURCE 33 MOL_ID: 9; SOURCE 34 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 35 ORGANISM_TAXID: 5911; SOURCE 36 ATCC: 30382; SOURCE 37 MOL_ID: 10; SOURCE 38 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 39 ORGANISM_TAXID: 5911; SOURCE 40 ATCC: 30382; SOURCE 41 MOL_ID: 11; SOURCE 42 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 43 ORGANISM_TAXID: 5911; SOURCE 44 ATCC: 30382; SOURCE 45 MOL_ID: 12; SOURCE 46 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 47 ORGANISM_TAXID: 5911; SOURCE 48 ATCC: 30382; SOURCE 49 MOL_ID: 13; SOURCE 50 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 51 ORGANISM_TAXID: 5911; SOURCE 52 ATCC: 30382; SOURCE 53 MOL_ID: 14; SOURCE 54 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 55 ORGANISM_TAXID: 5911; SOURCE 56 ATCC: 30382; SOURCE 57 MOL_ID: 15; SOURCE 58 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 59 ORGANISM_TAXID: 5911; SOURCE 60 ATCC: 30382; SOURCE 61 MOL_ID: 16; SOURCE 62 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 63 ORGANISM_TAXID: 5911; SOURCE 64 ATCC: 30382; SOURCE 65 MOL_ID: 17; SOURCE 66 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 67 ORGANISM_TAXID: 5911; SOURCE 68 ATCC: 30382; SOURCE 69 MOL_ID: 18; SOURCE 70 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 71 ORGANISM_TAXID: 5911; SOURCE 72 ATCC: 30382; SOURCE 73 MOL_ID: 19; SOURCE 74 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 75 ORGANISM_TAXID: 5911; SOURCE 76 ATCC: 30382 KEYWDS RIBOSOME, EUKARYOTIC INITIATION FACTOR 6, EIF6, 60S, TRANSLATION, KEYWDS 2 LARGE RIBOSOMAL SUBUNIT, RRNA, RIBOSOMAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.KLINGE,F.VOIGTS-HOFFMANN,M.LEIBUNDGUT,S.ARPAGAUS,N.BAN REVDAT 3 10-DEC-14 4A1D 1 OBSLTE REVDAT 2 07-DEC-11 4A1D 1 ANISOU REVDAT 1 30-NOV-11 4A1D 0 JRNL AUTH S.KLINGE,F.VOIGTS-HOFFMANN,M.LEIBUNDGUT,S.ARPAGAUS,N.BAN JRNL TITL CRYSTAL STRUCTURE OF THE EUKARYOTIC 60S RIBOSOMAL SUBUNIT JRNL TITL 2 IN COMPLEX WITH INITIATION FACTOR 6. JRNL REF SCIENCE V. 334 941 2011 JRNL REFN ISSN 0036-8075 JRNL PMID 22052974 JRNL DOI 10.1126/SCIENCE.1211204 REMARK 2 REMARK 2 RESOLUTION. 3.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.998 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.99 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.42 REMARK 3 NUMBER OF REFLECTIONS : 1186656 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.2163 REMARK 3 R VALUE (WORKING SET) : 0.2161 REMARK 3 FREE R VALUE : 0.2445 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 0.8 REMARK 3 FREE R VALUE TEST SET COUNT : 9951 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 19.9980 - 10.4150 0.98 39065 330 0.1982 0.2293 REMARK 3 2 10.4150 - 8.4707 0.98 38920 329 0.1737 0.2026 REMARK 3 3 8.4707 - 7.4634 0.99 39278 333 0.1694 0.1887 REMARK 3 4 7.4634 - 6.8106 1.00 39409 333 0.1748 0.2127 REMARK 3 5 6.8106 - 6.3391 1.00 39354 333 0.1847 0.2097 REMARK 3 6 6.3391 - 5.9760 0.99 39340 333 0.1914 0.2482 REMARK 3 7 5.9760 - 5.6839 0.99 39192 331 0.1895 0.2374 REMARK 3 8 5.6839 - 5.4416 1.00 39381 333 0.1859 0.2213 REMARK 3 9 5.4416 - 5.2361 1.00 39325 332 0.1800 0.2146 REMARK 3 10 5.2361 - 5.0584 0.99 38944 329 0.1888 0.2198 REMARK 3 11 5.0584 - 4.9026 0.99 38934 331 0.1915 0.2134 REMARK 3 12 4.9026 - 4.7644 0.99 39301 331 0.1997 0.2349 REMARK 3 13 4.7644 - 4.6406 1.00 39145 332 0.2072 0.2472 REMARK 3 14 4.6406 - 4.5287 1.00 39234 332 0.2117 0.2157 REMARK 3 15 4.5287 - 4.4269 1.00 39335 332 0.2199 0.2492 REMARK 3 16 4.4269 - 4.3336 1.00 39225 332 0.2265 0.2612 REMARK 3 17 4.3336 - 4.2478 1.00 39304 332 0.2244 0.2333 REMARK 3 18 4.2478 - 4.1684 1.00 39289 332 0.2258 0.2319 REMARK 3 19 4.1684 - 4.0946 1.00 39371 334 0.2373 0.2621 REMARK 3 20 4.0946 - 4.0257 1.00 39182 331 0.2456 0.2611 REMARK 3 21 4.0257 - 3.9613 1.00 39201 331 0.2534 0.2958 REMARK 3 22 3.9613 - 3.9008 1.00 39273 332 0.2651 0.3049 REMARK 3 23 3.9008 - 3.8438 1.00 39259 332 0.2718 0.2744 REMARK 3 24 3.8438 - 3.7901 1.00 39247 333 0.2789 0.3060 REMARK 3 25 3.7901 - 3.7392 1.00 39308 331 0.2877 0.3260 REMARK 3 26 3.7392 - 3.6909 1.00 39235 332 0.2894 0.3215 REMARK 3 27 3.6909 - 3.6451 0.99 39012 330 0.3089 0.3076 REMARK 3 28 3.6451 - 3.6014 1.00 39184 332 0.3206 0.3593 REMARK 3 29 3.6014 - 3.5598 1.00 39222 332 0.3230 0.3283 REMARK 3 30 3.5598 - 3.5200 1.00 39236 331 0.3314 0.3523 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.50 REMARK 3 SHRINKAGE RADIUS : 0.16 REMARK 3 K_SOL : 0.316 REMARK 3 B_SOL : 63.324 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.89 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.46 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 96.88 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 108.2 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -6.7797 REMARK 3 B22 (A**2) : 13.1600 REMARK 3 B33 (A**2) : 6.6885 REMARK 3 B12 (A**2) : -0.0000 REMARK 3 B13 (A**2) : -13.5499 REMARK 3 B23 (A**2) : 0.0000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 NULL REMARK 3 ANGLE : 1.144 NULL REMARK 3 CHIRALITY : 0.075 99993 REMARK 3 PLANARITY : 0.006 50698 REMARK 3 DIHEDRAL : 19.426 NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NUMBER OF TLS GROUPS 1472 REMARK 4 REMARK 4 4A1D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 5 REMARK 5 THIS ENTRY WITH OTHER SPLIT ENTRIES HAVE BEEN CONSOLIDATED INTO A REMARK 5 COMBINED FILE FOR COMPLETE REPRESENTATION. NO COORDINATES HAVE BEEN REMARK 5 CHANGED. REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-NOV-11. REMARK 100 THE PDBE ID CODE IS EBI-49638. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-AUG-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PILATUS 6M REMARK 200 DETECTOR MANUFACTURER : DECTRIS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 1192534 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.52 REMARK 200 RESOLUTION RANGE LOW (A) : 40.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 3.7 REMARK 200 R MERGE (I) : 0.13 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.80 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.6 REMARK 200 R MERGE FOR SHELL (I) : 0.81 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.60 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1JJ2 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 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 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM ->