HEADER RNA/RNA BINDING PROTEIN 11-OCT-11 3U56 TITLE CRYSTAL STRUCTURE OF MUTANT RIBOSOMAL PROTEIN T217V TTHL1 IN COMPLEX TITLE 2 WITH 80NT 23S 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 T217V; 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, RIBOSOME, L1 PROTUBERANCE IN KEYWDS 2 THE RIBOSOME, RNA-RNA BINDING PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.G.GABDULKHAKOV,N.A.NEVSKAYA,S.V.NIKONOV REVDAT 2 13-SEP-23 3U56 1 REMARK SEQADV LINK REVDAT 1 31-OCT-12 3U56 0 JRNL AUTH S.V.TISHCHENKO,E.Y.NIKONOVA,O.S.KOSTAREVA,A.G.GABDULKHAKOV, JRNL AUTH 2 A.V.SARSKIKH,W.PIENDL,S.V.NIKONOV,M.B.GARBER,N.A.NEVSKAYA JRNL TITL CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN TTHL1 IN COMPLEX WITH JRNL TITL 2 80NT 23S RNA FROM THERMUS THERMOPHILUS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.30 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.050 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 28129 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1407 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 28.3351 - 4.5289 0.99 2829 149 0.1576 0.1882 REMARK 3 2 4.5289 - 3.5970 1.00 2730 144 0.1365 0.1649 REMARK 3 3 3.5970 - 3.1430 1.00 2709 142 0.1689 0.2200 REMARK 3 4 3.1430 - 2.8559 1.00 2685 142 0.1957 0.2500 REMARK 3 5 2.8559 - 2.6514 1.00 2677 140 0.2227 0.2752 REMARK 3 6 2.6514 - 2.4952 1.00 2678 141 0.2426 0.3401 REMARK 3 7 2.4952 - 2.3703 1.00 2647 140 0.2418 0.3041 REMARK 3 8 2.3703 - 2.2671 1.00 2642 139 0.2451 0.3009 REMARK 3 9 2.2671 - 2.1799 1.00 2664 140 0.2447 0.3024 REMARK 3 10 2.1799 - 2.1047 0.94 2461 130 0.2763 0.2976 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 : 0.43 REMARK 3 B_SOL : 27.72 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.120 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.91570 REMARK 3 B22 (A**2) : 4.49210 REMARK 3 B33 (A**2) : -2.57640 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 : 0.006 3722 REMARK 3 ANGLE : 0.935 5432 REMARK 3 CHIRALITY : 0.059 670 REMARK 3 PLANARITY : 0.005 399 REMARK 3 DIHEDRAL : 15.520 1646 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 3U56 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_1000068319. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JAN-11 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 : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28142 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 28.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.09900 REMARK 200 R SYM (I) : 0.12600 REMARK 200 FOR THE DATA SET : 12.5700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.01 REMARK 200 R MERGE FOR SHELL (I) : 0.40800 REMARK 200 R SYM FOR SHELL (I) : 0.34100 REMARK 200 FOR SHELL : 3.380 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: 1AD2, 1MZP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 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 36.84500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.94000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.70500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.94000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.84500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.70500 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: 4230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -128.0 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: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 G B2105 P G B2105 OP3 -0.128 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 LYS A 36 48.73 -85.95 REMARK 500 GLU A 97 -16.05 -49.34 REMARK 500 ASN A 148 62.02 -68.88 REMARK 500 HIS A 227 54.60 -110.62 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 MG A 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 215 OG1 REMARK 620 2 THR A 216 O 90.0 REMARK 620 3 GLY A 219 O 71.7 91.8 REMARK 620 4 HOH A 404 O 126.1 88.2 162.1 REMARK 620 5 C B2175 O2' 132.5 108.3 64.5 98.6 REMARK 620 6 A B2176 O4' 94.8 160.5 107.7 73.7 82.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2203 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C B2111 OP1 REMARK 620 2 HOH B2310 O 156.8 REMARK 620 3 HOH B2312 O 96.7 95.1 REMARK 620 4 HOH B2313 O 102.3 94.0 104.7 REMARK 620 5 HOH B2314 O 70.0 87.8 103.7 151.2 REMARK 620 6 HOH B2316 O 84.7 81.9 174.6 80.1 71.7 REMARK 620 N 1 2 3 4 5 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 U B2122 O4 REMARK 620 2 G B2123 O6 73.2 REMARK 620 3 HOH B2375 O 156.1 88.9 REMARK 620 4 HOH B2381 O 91.2 87.1 71.8 REMARK 620 5 HOH B2382 O 75.1 89.6 121.6 166.2 REMARK 620 N 1 2 3 4 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 B2125 O6 REMARK 620 2 HOH B2376 O 95.1 REMARK 620 3 HOH B2383 O 77.8 94.7 REMARK 620 4 HOH B2394 O 144.9 84.5 67.3 REMARK 620 5 HOH B2395 O 80.5 165.9 71.4 91.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2205 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C B2139 OP1 REMARK 620 2 HOH B2358 O 90.5 REMARK 620 3 HOH B2359 O 81.6 108.4 REMARK 620 4 HOH B2360 O 74.0 159.0 56.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2210 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B2149 O6 REMARK 620 2 U B2150 O4 80.4 REMARK 620 3 HOH B2326 O 154.1 74.6 REMARK 620 4 HOH B2378 O 98.7 97.3 91.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2211 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B2150 O4 REMARK 620 2 G B2151 O6 83.7 REMARK 620 3 HOH B2318 O 153.9 77.2 REMARK 620 4 HOH B2326 O 79.2 110.4 124.0 REMARK 620 5 HOH B2341 O 81.4 84.4 79.2 153.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2204 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B2156 O6 REMARK 620 2 HOH B2351 O 85.6 REMARK 620 3 HOH B2352 O 78.4 111.5 REMARK 620 4 HOH B2353 O 90.5 174.5 71.4 REMARK 620 5 HOH B2371 O 87.6 89.8 153.1 86.1 REMARK 620 N 1 2 3 4 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 G B2156 O6 REMARK 620 2 G B2157 O6 81.3 REMARK 620 3 HOH B2371 O 89.3 166.1 REMARK 620 4 HOH B2372 O 99.0 86.2 105.5 REMARK 620 5 HOH B2373 O 106.5 94.6 78.2 154.3 REMARK 620 N 1 2 3 4 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 G B2157 O6 REMARK 620 2 HOH B2372 O 82.3 REMARK 620 3 HOH B2385 O 90.2 95.2 REMARK 620 4 HOH B2386 O 87.6 168.1 78.5 REMARK 620 5 HOH B2387 O 168.6 106.4 81.8 82.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2307 O REMARK 620 2 HOH B2308 O 94.5 REMARK 620 3 HOH B2309 O 88.9 173.4 REMARK 620 4 HOH B2310 O 168.7 95.7 80.5 REMARK 620 5 HOH B2311 O 101.4 97.1 87.7 82.3 REMARK 620 6 HOH B2313 O 93.5 80.1 94.1 83.4 165.1 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 MG A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI B 2201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2208 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2209 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2210 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2211 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: 3U4M RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN TTHL1 IN COMPLEX WITH 80NT REMARK 900 23S RNA FROM THERMUS THERMOPHILUS REMARK 900 RELATED ID: 3U42 RELATED DB: PDB DBREF 3U56 A 0 228 UNP P27150 RL1_THETH 1 229 DBREF 3U56 B 2105 2184 PDB 3U56 3U56 2105 2184 SEQADV 3U56 VAL A 217 UNP P27150 THR 218 ENGINEERED MUTATION 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 VAL 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 MG A 301 1 HET MLI B2201 7 HET MG B2202 1 HET MG B2203 1 HET MG B2204 1 HET MG B2205 1 HET MG B2206 1 HET MG B2207 1 HET MG B2208 1 HET MG B2209 1 HET MG B2210 1 HET MG B2211 1 HETNAM MG MAGNESIUM ION HETNAM MLI MALONATE ION FORMUL 3 MG 11(MG 2+) FORMUL 4 MLI C3 H2 O4 2- FORMUL 15 HOH *147(H2 O) HELIX 1 1 GLY A 4 GLU A 12 1 9 HELIX 2 2 THR A 21 LEU A 32 1 12 HELIX 3 3 ARG A 53 ASN A 57 5 5 HELIX 4 4 GLU A 81 GLY A 90 1 10 HELIX 5 5 GLY A 96 GLY A 106 1 11 HELIX 6 6 VAL A 119 GLY A 132 1 14 HELIX 7 7 ASN A 148 ALA A 158 1 11 HELIX 8 8 PRO A 181 ALA A 198 1 18 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 TYR A 213 N HIS A 44 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 95 0 SHEET 2 C 3 VAL A 74 ILE A 77 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 OG1 THR A 215 MG MG A 301 1555 1555 2.45 LINK O THR A 216 MG MG A 301 1555 1555 2.36 LINK O GLY A 219 MG MG A 301 1555 1555 2.64 LINK MG MG A 301 O HOH A 404 1555 1555 2.46 LINK MG MG A 301 O2' C B2175 1555 1555 2.21 LINK MG MG A 301 O4' A B2176 1555 1555 2.88 LINK OP1 C B2111 MG MG B2203 1555 1555 2.33 LINK O4 U B2122 MG MG B2207 1555 1555 2.85 LINK O6 G B2123 MG MG B2207 1555 1555 2.73 LINK O6 G B2125 MG MG B2208 1555 1555 2.37 LINK OP1 C B2139 MG MG B2205 1555 1555 2.45 LINK O6 G B2149 MG MG B2210 1555 1555 2.44 LINK O4 U B2150 MG MG B2210 1555 1555 2.62 LINK O4 U B2150 MG MG B2211 1555 1555 2.67 LINK O6 G B2151 MG MG B2211 1555 1555 2.62 LINK O6 G B2156 MG MG B2204 1555 1555 2.61 LINK O6 G B2156 MG MG B2206 1555 1555 2.50 LINK O6 G B2157 MG MG B2206 1555 1555 2.50 LINK O6 G B2157 MG MG B2209 1555 1555 2.53 LINK MG MG B2202 O HOH B2307 1555 1555 2.43 LINK MG MG B2202 O HOH B2308 1555 1555 2.50 LINK MG MG B2202 O HOH B2309 1555 1555 2.54 LINK MG MG B2202 O HOH B2310 1555 1555 2.69 LINK MG MG B2202 O HOH B2311 1555 1555 2.52 LINK MG MG B2202 O HOH B2313 1555 1555 2.69 LINK MG MG B2203 O HOH B2310 1555 1555 2.46 LINK MG MG B2203 O HOH B2312 1555 1555 2.28 LINK MG MG B2203 O HOH B2313 1555 1555 2.44 LINK MG MG B2203 O HOH B2314 1555 1555 2.74 LINK MG MG B2203 O HOH B2316 1555 1555 2.72 LINK MG MG B2204 O HOH B2351 1555 1555 2.46 LINK MG MG B2204 O HOH B2352 1555 1555 2.65 LINK MG MG B2204 O HOH B2353 1555 1555 2.47 LINK MG MG B2204 O HOH B2371 1555 1555 2.49 LINK MG MG B2205 O HOH B2358 1555 1555 2.70 LINK MG MG B2205 O HOH B2359 1555 1555 2.72 LINK MG MG B2205 O HOH B2360 1555 1555 2.93 LINK MG MG B2206 O HOH B2371 1555 1555 2.52 LINK MG MG B2206 O HOH B2372 1555 1555 2.45 LINK MG MG B2206 O HOH B2373 1555 1555 2.74 LINK MG MG B2207 O HOH B2375 1555 1555 2.65 LINK MG MG B2207 O HOH B2381 1555 1555 2.50 LINK MG MG B2207 O HOH B2382 1555 1555 2.39 LINK MG MG B2208 O HOH B2376 1555 1555 2.62 LINK MG MG B2208 O HOH B2383 1555 1555 2.69 LINK MG MG B2208 O HOH B2394 1555 1555 2.61 LINK MG MG B2208 O HOH B2395 1555 1555 2.51 LINK MG MG B2209 O HOH B2372 1555 1555 2.61 LINK MG MG B2209 O HOH B2385 1555 1555 2.60 LINK MG MG B2209 O HOH B2386 1555 1555 2.76 LINK MG MG B2209 O HOH B2387 1555 1555 2.52 LINK MG MG B2210 O HOH B2326 1555 1555 2.77 LINK MG MG B2210 O HOH B2378 1555 1555 2.44 LINK MG MG B2211 O HOH B2318 1555 1555 2.38 LINK MG MG B2211 O HOH B2326 1555 1555 2.45 LINK MG MG B2211 O HOH B2341 1555 1555 2.61 SITE 1 AC1 6 THR A 215 THR A 216 GLY A 219 HOH A 404 SITE 2 AC1 6 C B2175 A B2176 SITE 1 AC2 6 U B2109 G B2110 G B2120 C B2178 SITE 2 AC2 6 HOH B2336 HOH B2339 SITE 1 AC3 7 MG B2203 HOH B2307 HOH B2308 HOH B2309 SITE 2 AC3 7 HOH B2310 HOH B2311 HOH B2313 SITE 1 AC4 8 G B2110 C B2111 MG B2202 HOH B2310 SITE 2 AC4 8 HOH B2312 HOH B2313 HOH B2314 HOH B2316 SITE 1 AC5 6 G B2156 MG B2206 HOH B2351 HOH B2352 SITE 2 AC5 6 HOH B2353 HOH B2371 SITE 1 AC6 6 ALA A 33 C B2138 C B2139 HOH B2358 SITE 2 AC6 6 HOH B2359 HOH B2360 SITE 1 AC7 8 HOH A 426 G B2156 G B2157 MG B2204 SITE 2 AC7 8 MG B2209 HOH B2371 HOH B2372 HOH B2373 SITE 1 AC8 5 U B2122 G B2123 HOH B2375 HOH B2381 SITE 2 AC8 5 HOH B2382 SITE 1 AC9 5 G B2125 HOH B2376 HOH B2383 HOH B2394 SITE 2 AC9 5 HOH B2395 SITE 1 BC1 8 GLU A 202 HOH A 426 G B2157 MG B2206 SITE 2 BC1 8 HOH B2372 HOH B2385 HOH B2386 HOH B2387 SITE 1 BC2 5 G B2149 U B2150 HOH B2326 HOH B2342 SITE 2 BC2 5 HOH B2378 SITE 1 BC3 5 U B2150 G B2151 HOH B2318 HOH B2326 SITE 2 BC3 5 HOH B2341 CRYST1 73.690 75.410 85.880 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 0.013570 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013261 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011644 0.00000