HEADER RNA/RNA BINDING PROTEIN 10-OCT-11 3U4M TITLE CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN TTHL1 IN COMPLEX WITH 80NT 23S TITLE 2 RNA FROM THERMUS THERMOPHILUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 50S RIBOSOMAL PROTEIN L1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: RNA (80-MER); COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: FRAGMENT OF 23S RRNA SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; SOURCE 4 GENE: RPLA, RPL1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL11(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET11A-PL/TTHL1; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 12 ORGANISM_TAXID: 274; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 EXPRESSION_SYSTEM_STRAIN: BL11(DE3); SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 17 EXPRESSION_SYSTEM_PLASMID: PUC18/RRNATTH KEYWDS ROSSMANN FOLD, RIBOSOMAL PROTEIN, RRNA, RRNA BINDING, RIBOSOME, RNA- KEYWDS 2 RNA BINDING PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.G.GABDULKHAKOV,N.A.NEVSKAYA,S.V.NIKONOV REVDAT 3 13-SEP-23 3U4M 1 REMARK LINK REVDAT 2 23-JAN-13 3U4M 1 JRNL REVDAT 1 08-AUG-12 3U4M 0 JRNL AUTH S.TISHCHENKO,A.GABDULKHAKOV,N.NEVSKAYA,A.SARSKIKH, JRNL AUTH 2 O.KOSTAREVA,E.NIKONOVA,A.SYCHEVA,S.MOSHKOVSKII,M.GARBER, JRNL AUTH 3 S.NIKONOV JRNL TITL HIGH-RESOLUTION CRYSTAL STRUCTURE OF THE ISOLATED RIBOSOMAL JRNL TITL 2 L1 STALK. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 68 1051 2012 JRNL REFN ISSN 0907-4449 JRNL PMID 22868771 JRNL DOI 10.1107/S0907444912020136 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.68 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.080 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 33346 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1668 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 19.6758 - 4.2866 0.97 3442 182 0.1647 0.1853 REMARK 3 2 4.2866 - 3.4081 0.97 3288 173 0.1446 0.1565 REMARK 3 3 3.4081 - 2.9790 0.97 3232 170 0.1806 0.2182 REMARK 3 4 2.9790 - 2.7074 0.96 3217 169 0.2140 0.2471 REMARK 3 5 2.7074 - 2.5138 0.95 3155 166 0.2067 0.2235 REMARK 3 6 2.5138 - 2.3658 0.95 3160 167 0.1916 0.2405 REMARK 3 7 2.3658 - 2.2475 0.94 3131 164 0.1836 0.2012 REMARK 3 8 2.2475 - 2.1498 0.94 3069 162 0.1847 0.2465 REMARK 3 9 2.1498 - 2.0671 0.93 3062 161 0.1894 0.2345 REMARK 3 10 2.0671 - 1.9959 0.88 2922 154 0.2045 0.2485 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.45 REMARK 3 B_SOL : 27.59 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.440 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.39810 REMARK 3 B22 (A**2) : -1.03430 REMARK 3 B33 (A**2) : 1.43240 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.007 3781 REMARK 3 ANGLE : 1.007 5507 REMARK 3 CHIRALITY : 0.067 671 REMARK 3 PLANARITY : 0.006 415 REMARK 3 DIHEDRAL : 15.761 1661 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: NULL REMARK 4 REMARK 4 3U4M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000068299. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-DEC-10 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MONTEL 200 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER PLATINUM 135 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33346 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.670 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 3.990 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : 0.06400 REMARK 200 FOR THE DATA SET : 19.1400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.75 REMARK 200 R MERGE FOR SHELL (I) : 0.20400 REMARK 200 R SYM FOR SHELL (I) : 0.16900 REMARK 200 FOR SHELL : 6.680 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 ENTRIES 1AD2, 1MZP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50MM NACL, 2.5M AMMONIUM SULFATE, 50MM REMARK 280 MES, 10MM MAGNESIUM ACETATE, PH 5.6, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+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 31.27500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.78000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.45000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.78000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.27500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.45000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -150.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 0 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 LYS A 36 49.29 -83.06 REMARK 500 TRP A 107 35.84 -85.07 REMARK 500 MET A 108 57.51 -106.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 308 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 6 O REMARK 620 2 THR A 34 OG1 103.7 REMARK 620 3 HOH A 408 O 133.3 109.5 REMARK 620 4 HOH A 409 O 119.8 89.1 93.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 309 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 32 O REMARK 620 2 GLU A 39 OE2 95.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 305 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 33 O REMARK 620 2 ALA A 35 O 107.5 REMARK 620 3 PHE A 37 O 163.5 88.1 REMARK 620 4 GLU A 39 OE1 74.9 93.0 110.4 REMARK 620 5 MLI A 302 O7 78.5 94.1 95.4 153.4 REMARK 620 6 MLI A 302 O8 83.9 161.7 79.7 103.9 73.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 311 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 42 OE2 REMARK 620 2 GLU A 42 OE1 42.9 REMARK 620 3 THR A 216 O 81.8 109.4 REMARK 620 4 C B2175 O2 105.6 107.7 130.8 REMARK 620 5 C B2175 O2' 149.0 167.1 75.0 76.0 REMARK 620 6 A B2176 O4' 134.1 91.2 124.7 85.0 76.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B2210 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 42 OE1 REMARK 620 2 G B2123 O2' 150.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 310 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 466 O REMARK 620 2 C B2129 OP1 116.0 REMARK 620 3 U B2130 OP2 100.7 121.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2208 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B2120 OP1 REMARK 620 2 HOH B2304 O 101.8 REMARK 620 3 HOH B2376 O 170.9 86.6 REMARK 620 4 HOH B2377 O 92.0 162.6 79.2 REMARK 620 5 HOH B2378 O 115.8 99.8 65.6 83.5 REMARK 620 6 HOH B2424 O 94.6 84.2 82.6 84.1 147.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2206 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B2122 O4 REMARK 620 2 G B2123 O6 88.0 REMARK 620 3 HOH B2302 O 96.2 92.6 REMARK 620 4 HOH B2321 O 88.5 91.1 174.1 REMARK 620 5 HOH B2325 O 93.5 178.1 86.1 90.1 REMARK 620 6 HOH B2326 O 168.0 81.4 89.9 86.2 97.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2209 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B2172 O2 REMARK 620 2 HOH B2341 O 93.7 REMARK 620 3 HOH B2379 O 100.9 76.1 REMARK 620 4 HOH B2380 O 84.3 178.0 104.5 REMARK 620 5 HOH B2381 O 96.5 103.4 162.5 76.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2207 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2304 O REMARK 620 2 HOH B2315 O 95.4 REMARK 620 3 HOH B2321 O 87.8 73.5 REMARK 620 4 HOH B2325 O 164.1 91.9 80.9 REMARK 620 5 HOH B2363 O 89.1 77.7 150.6 106.2 REMARK 620 6 HOH B2399 O 91.9 170.5 100.7 79.5 108.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 2201 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI B 2202 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI B 2203 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI B 2204 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI B 2205 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2206 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2207 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2208 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2209 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 2210 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1U63 RELATED DB: PDB REMARK 900 THE STRUCTURE OF A RIBOSOMAL PROTEIN L1-MRNA COMPLEX REMARK 900 RELATED ID: 2VPL RELATED DB: PDB REMARK 900 THE STRUCTURE OF THE COMPLEX BETWEEN THE FIRST DOMAIN OF L1 PROTEIN REMARK 900 FROM THERMUS THERMOPHILUS AND MRNA FROM METHANOCOCCUS JANNASCHII REMARK 900 RELATED ID: 2HW8 RELATED DB: PDB REMARK 900 STRUCTURE OF RIBOSOMAL PROTEIN L1-MRNA COMPLEX AT 2.1 RESOLUTION. REMARK 900 RELATED ID: 1ZHO RELATED DB: PDB REMARK 900 THE STRUCTURE OF A RIBOSOMAL PROTEIN L1 IN COMPLEX WITH MRNA REMARK 900 RELATED ID: 1MZP RELATED DB: PDB REMARK 900 STRUCTURE OF THE L1 PROTUBERANCE IN THE RIBOSOME REMARK 900 RELATED ID: 3U42 RELATED DB: PDB DBREF 3U4M A 0 228 UNP P27150 RL1_THETH 1 229 DBREF 3U4M B 2105 2184 PDB 3U4M 3U4M 2105 2184 SEQRES 1 A 229 MET PRO LYS HIS GLY LYS ARG TYR ARG ALA LEU LEU GLU SEQRES 2 A 229 LYS VAL ASP PRO ASN LYS ILE TYR THR ILE ASP GLU ALA SEQRES 3 A 229 ALA HIS LEU VAL LYS GLU LEU ALA THR ALA LYS PHE ASP SEQRES 4 A 229 GLU THR VAL GLU VAL HIS ALA LYS LEU GLY ILE ASP PRO SEQRES 5 A 229 ARG ARG SER ASP GLN ASN VAL ARG GLY THR VAL SER LEU SEQRES 6 A 229 PRO HIS GLY LEU GLY LYS GLN VAL ARG VAL LEU ALA ILE SEQRES 7 A 229 ALA LYS GLY GLU LYS ILE LYS GLU ALA GLU GLU ALA GLY SEQRES 8 A 229 ALA ASP TYR VAL GLY GLY GLU GLU ILE ILE GLN LYS ILE SEQRES 9 A 229 LEU ASP GLY TRP MET ASP PHE ASP ALA VAL VAL ALA THR SEQRES 10 A 229 PRO ASP VAL MET GLY ALA VAL GLY SER LYS LEU GLY ARG SEQRES 11 A 229 ILE LEU GLY PRO ARG GLY LEU LEU PRO ASN PRO LYS ALA SEQRES 12 A 229 GLY THR VAL GLY PHE ASN ILE GLY GLU ILE ILE ARG GLU SEQRES 13 A 229 ILE LYS ALA GLY ARG ILE GLU PHE ARG ASN ASP LYS THR SEQRES 14 A 229 GLY ALA ILE HIS ALA PRO VAL GLY LYS ALA SER PHE PRO SEQRES 15 A 229 PRO GLU LYS LEU ALA ASP ASN ILE ARG ALA PHE ILE ARG SEQRES 16 A 229 ALA LEU GLU ALA HIS LYS PRO GLU GLY ALA LYS GLY THR SEQRES 17 A 229 PHE LEU ARG SER VAL TYR VAL THR THR THR MET GLY PRO SEQRES 18 A 229 SER VAL ARG ILE ASN PRO HIS SER SEQRES 1 B 80 G G G A U G C G U A G G A SEQRES 2 B 80 U A G G U G G G A G C C U SEQRES 3 B 80 G U G A A C C C C C G C C SEQRES 4 B 80 U C C G G G U G G G G G G SEQRES 5 B 80 G A G G C G C C G G U G A SEQRES 6 B 80 A A U A C C A C C C U U C SEQRES 7 B 80 C C HET SO4 A 301 5 HET MLI A 302 7 HET MLI A 303 7 HET MLI A 304 7 HET MG A 305 1 HET CL A 306 1 HET CL A 307 1 HET NA A 308 1 HET NA A 309 1 HET NA A 310 1 HET NA A 311 1 HET SO4 B2201 5 HET MLI B2202 7 HET MLI B2203 7 HET MLI B2204 7 HET MLI B2205 7 HET MG B2206 1 HET MG B2207 1 HET MG B2208 1 HET MG B2209 1 HET NA B2210 1 HETNAM SO4 SULFATE ION HETNAM MLI MALONATE ION HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 3 SO4 2(O4 S 2-) FORMUL 4 MLI 7(C3 H2 O4 2-) FORMUL 7 MG 5(MG 2+) FORMUL 8 CL 2(CL 1-) FORMUL 10 NA 5(NA 1+) FORMUL 24 HOH *203(H2 O) HELIX 1 1 GLY A 4 GLU A 12 1 9 HELIX 2 2 THR A 21 LYS A 30 1 10 HELIX 3 3 ARG A 53 ASN A 57 5 5 HELIX 4 4 GLU A 81 ALA A 89 1 9 HELIX 5 5 ILE A 99 GLY A 106 1 8 HELIX 6 6 VAL A 119 GLY A 132 1 14 HELIX 7 7 PRO A 133 GLY A 135 5 3 HELIX 8 8 ASN A 139 GLY A 143 5 5 HELIX 9 9 ASN A 148 ALA A 158 1 11 HELIX 10 10 PRO A 181 HIS A 199 1 19 SHEET 1 A 4 ALA A 170 LYS A 177 0 SHEET 2 A 4 THR A 40 LEU A 47 -1 N VAL A 41 O VAL A 175 SHEET 3 A 4 LEU A 209 THR A 216 -1 O THR A 215 N GLU A 42 SHEET 4 A 4 SER A 221 ARG A 223 -1 O VAL A 222 N VAL A 214 SHEET 1 B 2 ARG A 59 SER A 63 0 SHEET 2 B 2 ARG A 160 ARG A 164 -1 O ILE A 161 N VAL A 62 SHEET 1 C 3 TYR A 93 GLY A 96 0 SHEET 2 C 3 VAL A 74 ALA A 78 1 N ALA A 76 O TYR A 93 SHEET 3 C 3 ALA A 112 ALA A 115 1 O ALA A 112 N LEU A 75 LINK O ARG A 6 NA NA A 308 1555 1555 2.85 LINK O LEU A 32 NA NA A 309 1555 1555 2.97 LINK O ALA A 33 MG MG A 305 1555 1555 2.54 LINK OG1 THR A 34 NA NA A 308 1555 1555 2.97 LINK O ALA A 35 MG MG A 305 1555 1555 2.40 LINK O PHE A 37 MG MG A 305 1555 1555 2.41 LINK OE1 GLU A 39 MG MG A 305 1555 1555 2.55 LINK OE2 GLU A 39 NA NA A 309 1555 1555 2.84 LINK OE2 GLU A 42 NA NA A 311 1555 1555 2.92 LINK OE1 GLU A 42 NA NA A 311 1555 1555 3.07 LINK OE1 GLU A 42 NA NA B2210 1555 1555 2.80 LINK O THR A 216 NA NA A 311 1555 1555 2.78 LINK O7 MLI A 302 MG MG A 305 1555 1555 2.37 LINK O8 MLI A 302 MG MG A 305 1555 1555 2.50 LINK NA NA A 308 O HOH A 408 1555 1555 2.88 LINK NA NA A 308 O HOH A 409 1555 1555 3.02 LINK NA NA A 310 O HOH A 466 1555 1555 3.00 LINK NA NA A 310 OP1 C B2129 1555 1555 2.86 LINK NA NA A 310 OP2 U B2130 1555 1555 2.60 LINK NA NA A 311 O2 C B2175 1555 1555 2.79 LINK NA NA A 311 O2' C B2175 1555 1555 2.92 LINK NA NA A 311 O4' A B2176 1555 1555 2.98 LINK OP1 G B2120 MG MG B2208 1555 1555 2.37 LINK O4 U B2122 MG MG B2206 1555 1555 2.39 LINK O6 G B2123 MG MG B2206 1555 1555 2.57 LINK O2' G B2123 NA NA B2210 1555 1555 2.69 LINK O2 U B2172 MG MG B2209 1555 1555 2.69 LINK MG MG B2206 O HOH B2302 1555 1555 2.45 LINK MG MG B2206 O HOH B2321 1555 1555 2.42 LINK MG MG B2206 O HOH B2325 1555 1555 2.54 LINK MG MG B2206 O HOH B2326 1555 1555 2.50 LINK MG MG B2207 O HOH B2304 1555 1555 2.45 LINK MG MG B2207 O HOH B2315 1555 1555 2.39 LINK MG MG B2207 O HOH B2321 1555 1555 2.79 LINK MG MG B2207 O HOH B2325 1555 1555 2.62 LINK MG MG B2207 O HOH B2363 1555 1555 2.65 LINK MG MG B2207 O HOH B2399 1555 1555 2.50 LINK MG MG B2208 O HOH B2304 1555 1555 2.47 LINK MG MG B2208 O HOH B2376 1555 1555 2.59 LINK MG MG B2208 O HOH B2377 1555 1555 2.60 LINK MG MG B2208 O HOH B2378 1555 1555 2.85 LINK MG MG B2208 O HOH B2424 1555 1555 2.53 LINK MG MG B2209 O HOH B2341 1555 1555 2.40 LINK MG MG B2209 O HOH B2379 1555 1555 2.47 LINK MG MG B2209 O HOH B2380 1555 1555 2.64 LINK MG MG B2209 O HOH B2381 1555 1555 2.54 SITE 1 AC1 4 GLU A 197 THR A 207 PHE A 208 LEU A 209 SITE 1 AC2 12 ALA A 33 ALA A 35 PHE A 37 ASP A 38 SITE 2 AC2 12 GLU A 39 ILE A 83 LYS A 84 GLU A 87 SITE 3 AC2 12 ALA A 178 SER A 179 MG A 305 HOH A 417 SITE 1 AC3 7 ALA A 112 ILE A 156 ARG A 160 ILE A 161 SITE 2 AC3 7 GLU A 162 HOH A 453 HOH A 457 SITE 1 AC4 8 PHE A 37 ASP A 38 ALA A 78 GLY A 80 SITE 2 AC4 8 GLY A 96 GLU A 97 GLU A 98 HOH A 474 SITE 1 AC5 5 ALA A 33 ALA A 35 PHE A 37 GLU A 39 SITE 2 AC5 5 MLI A 302 SITE 1 AC6 1 GLU A 81 SITE 1 AC7 3 GLY A 60 THR A 61 HIS A 199 SITE 1 AC8 5 ARG A 6 LEU A 10 THR A 34 HOH A 408 SITE 2 AC8 5 HOH A 409 SITE 1 AC9 8 ARG A 6 LEU A 10 LEU A 32 ALA A 33 SITE 2 AC9 8 THR A 34 GLU A 39 MET A 218 GLY A 219 SITE 1 BC1 4 ARG A 6 HOH A 466 C B2129 U B2130 SITE 1 BC2 6 GLU A 42 THR A 216 THR A 217 G B2123 SITE 2 BC2 6 C B2175 A B2176 SITE 1 BC3 9 C B2175 A B2176 HOH B2304 HOH B2321 SITE 2 BC3 9 HOH B2372 HOH B2375 HOH B2376 HOH B2383 SITE 3 BC3 9 HOH B2388 SITE 1 BC4 4 A B2134 A B2135 G B2156 G B2157 SITE 1 BC5 6 C B2178 C B2179 HOH B2361 HOH B2362 SITE 2 BC5 6 HOH B2370 HOH B2391 SITE 1 BC6 7 U B2130 G B2131 C B2139 C B2140 SITE 2 BC6 7 G B2152 G B2159 HOH B2371 SITE 1 BC7 9 A B2119 G B2121 A B2170 HOH B2325 SITE 2 BC7 9 HOH B2334 HOH B2400 HOH B2410 HOH B2414 SITE 3 BC7 9 HOH B2416 SITE 1 BC8 6 U B2122 G B2123 HOH B2302 HOH B2321 SITE 2 BC8 6 HOH B2325 HOH B2326 SITE 1 BC9 6 HOH B2304 HOH B2315 HOH B2321 HOH B2325 SITE 2 BC9 6 HOH B2363 HOH B2399 SITE 1 CC1 6 G B2120 HOH B2304 HOH B2376 HOH B2377 SITE 2 CC1 6 HOH B2378 HOH B2424 SITE 1 CC2 5 U B2172 HOH B2341 HOH B2379 HOH B2380 SITE 2 CC2 5 HOH B2381 SITE 1 CC3 4 GLU A 42 HIS A 44 G B2123 G B2124 CRYST1 62.550 68.900 117.560 90.00 90.00 90.00 P 21 21 21 4 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 0.015987 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014514 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008506 0.00000