HEADER RIBOSOME 27-APR-01 1HC8 TITLE CRYSTAL STRUCTURE OF A CONSERVED RIBOSOMAL PROTEIN-RNA TITLE 2 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBOSOMAL PROTEIN L11; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN OF RIBOSOMAL PROTEIN L11; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 58 NUCLEOTIDE RIBOSOMAL 23S RNA DOMAIN; COMPND 8 CHAIN: C, D; COMPND 9 FRAGMENT: NTS 1051-1108 FROM E. COLI 23S RRNA; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS STEAROTHERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 1422; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET11; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 11 ORGANISM_TAXID: 562; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 OTHER_DETAILS: RNA SYNTHESIZED BY IN VITRO TRANSCRIPTION SOURCE 14 USING T7 RNA POLYMERASE KEYWDS RIBOSOME, RIBOSOMAL RNA, TERTIARY STRUCTURE, RNA-PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.L.CONN,D.E.DRAPER,E.E.LATTMAN,A.G.GITTIS REVDAT 4 24-FEB-09 1HC8 1 VERSN REVDAT 3 10-SEP-04 1HC8 1 CONECT REVDAT 2 11-OCT-02 1HC8 1 REMARK ATOM REVDAT 1 23-MAY-02 1HC8 0 JRNL AUTH G.L.CONN,A.G.GITTIS,E.E.LATTMAN,V.K.MISRA, JRNL AUTH 2 D.E.DRAPER JRNL TITL A COMPACT RNA TERTIARY STRUCTURE CONTAINS A BURIED JRNL TITL 2 BACKBONE-K+ COMPLEX JRNL REF J.MOL.BIOL. V. 318 963 2002 JRNL REFN ISSN 0022-2836 JRNL PMID 12054794 JRNL DOI 10.1016/S0022-2836(02)00147-X REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.L.CONN,D.E.DRAPER,E.E.LATTMAN,A.G.GITTIS REMARK 1 TITL CRYSTAL STRUCTURE OF A CONSERVED RIBOSOMAL REMARK 1 TITL 2 PROTEIN-RNA COMPLEX REMARK 1 REF SCIENCE V. 284 1171 1999 REMARK 1 REFN ISSN 0036-8075 REMARK 1 PMID 10325228 REMARK 1 DOI 10.1126/SCIENCE.284.5417.1171 REMARK 2 REMARK 2 RESOLUTION. 2.8 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD USING AMPLITUDES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 10000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 94.5 REMARK 3 NUMBER OF REFLECTIONS : 17542 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.80 REMARK 3 FREE R VALUE TEST SET COUNT : 1373 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 : 27 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.84 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.7 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 525 REMARK 3 BIN R VALUE (WORKING SET) : 0.368 REMARK 3 BIN FREE R VALUE : 0.425 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.8 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 48 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 : 1065 REMARK 3 NUCLEIC ACID ATOMS : 2504 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 13 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 75.50 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) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.030 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : CNS REMARK 3 KSOL : NULL REMARK 3 BSOL : 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 : PROTEIN.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA.PARAM REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1HC8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-APR-01. REMARK 100 THE PDBE ID CODE IS EBI-6152. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-SEP-98 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.13951 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17542 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.24000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.27000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 600, MAGNESIUM ACETATE, REMARK 280 COBALT HEXAMINE CHLORIDE, SODIUM CACODYLATE, KCL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 31.92050 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 75.33750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 75.33750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 47.88075 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 75.33750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 75.33750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 15.96025 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 75.33750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 75.33750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 47.88075 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 75.33750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 75.33750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 15.96025 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 31.92050 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK 300 DETAILS:COMPLEX OF THE RIBOSOMAL PROTEIN L11 AND REMARK 300 THERIBOSOMAL 23S RNA FRAGMENT 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 400 REMARK 400 COMPOUND REMARK 400 CHAIN C, D ENGINEERED MUTATION U1601A 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 PHE A 1 REMARK 465 ASN A 76 REMARK 465 PHE B 201 REMARK 465 THR B 202 REMARK 465 PHE B 203 REMARK 465 ILE B 204 REMARK 465 THR B 205 REMARK 465 ASN B 276 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 THR A 2 OG1 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 A C 153 O3' - P - OP1 ANGL. DEV. = -7.0 DEGREES REMARK 500 A C 153 O3' - P - OP2 ANGL. DEV. = -7.0 DEGREES REMARK 500 G C 156 O3' - P - OP1 ANGL. DEV. = -7.4 DEGREES REMARK 500 G C 156 O3' - P - OP2 ANGL. DEV. = -7.4 DEGREES 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 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 ALA A 33 143.61 -176.27 REMARK 500 SER A 55 159.66 178.29 REMARK 500 ALA B 233 161.98 175.14 REMARK 500 ARG B 237 -11.52 -49.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 A C 119 0.07 SIDE CHAIN REMARK 500 A C 136 0.06 SIDE CHAIN REMARK 500 G C 137 0.06 SIDE CHAIN REMARK 500 U C 147 0.07 SIDE CHAIN REMARK 500 U D 328 0.07 SIDE CHAIN REMARK 500 U D 344 0.06 SIDE CHAIN REMARK 500 A D 345 0.06 SIDE CHAIN REMARK 500 U D 347 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): 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 C1163 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A C 120 OP2 REMARK 620 2 C C 122 OP1 80.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C1165 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U C 116 OP1 REMARK 620 2 A D 336 OP1 79.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C1166 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP C 101 O1B REMARK 620 2 U D 358 O4 62.2 REMARK 620 3 GTP C 101 O3B 53.5 111.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C1167 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A C 123 OP2 REMARK 620 2 U C 144 O4 169.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D1363 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C D 322 OP1 REMARK 620 2 A D 320 OP2 68.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D1364 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP D 301 O1B REMARK 620 2 GTP C 101 N7 121.5 REMARK 620 3 GTP C 101 O2B 141.6 96.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D1366 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP D 301 O1G REMARK 620 2 U C 158 O4 98.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D1367 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A D 323 OP2 REMARK 620 2 U D 344 O4 156.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D1372 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G D 313 N7 REMARK 620 2 A D 320 OP1 111.7 REMARK 620 3 G D 313 OP2 93.8 147.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K C1162 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A C 119 O3' REMARK 620 2 A C 120 OP2 46.2 REMARK 620 3 C C 122 OP1 110.9 64.9 REMARK 620 4 C C 122 OP2 106.3 83.1 53.8 REMARK 620 5 C C 122 O5' 150.5 110.6 48.1 46.0 REMARK 620 6 A C 123 OP1 141.8 147.7 98.8 110.6 67.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K D1362 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C D 322 OP1 REMARK 620 2 C D 322 O5' 45.3 REMARK 620 3 A D 323 OP1 95.1 64.7 REMARK 620 4 A D 319 O3' 105.2 142.1 152.9 REMARK 620 5 A D 320 OP2 56.5 100.0 142.0 49.5 REMARK 620 6 C D 322 OP2 47.9 42.5 105.3 101.6 75.5 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 C1159 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C1161 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K C1162 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C1163 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C1164 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C1165 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C1166 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C1167 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C1168 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OS C1169 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C1172 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1360 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1361 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K D1362 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1363 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1364 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1365 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1366 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1367 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1368 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D1372 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ACI RELATED DB: PDB REMARK 900 L11 RIBOSOMAL PROTEIN RNA BINDING DOMAIN, REMARK 900 NMR, 20 STRUCTURES REMARK 900 RELATED ID: 1C04 RELATED DB: PDB REMARK 900 IDENTIFICATION OF KNOWN PROTEIN AND RNA REMARK 900 STRUCTURES IN A 5 AMAP OF THE LARGE REMARK 900 RIBOSOMAL SUBUNIT FROM HALOARCULAMARISMORTUI REMARK 900 RELATED ID: 1FOW RELATED DB: PDB REMARK 900 NMR STRUCTURE OF L11-C76, THE C-TERMINAL REMARK 900 DOMAIN OF50S RIBOSOMAL PROTEIN L11, MINIMIZED REMARK 900 AVERAGE STRUCTURE REMARK 900 RELATED ID: 1FOX RELATED DB: PDB REMARK 900 NMR STRUCTURE OF L11-C76, THE C-TERMINAL REMARK 900 DOMAIN OF50S RIBOSOMAL PROTEIN L11, 33 REMARK 900 STRUCTURES REMARK 900 RELATED ID: 1FOY RELATED DB: PDB REMARK 900 THE RNA BINDING DOMAIN OF RIBOSOMAL PROTEIN REMARK 900 L11:THREE-DIMENSIONAL STRUCTURE OF THE RNA REMARK 900 -BOUND FORM OF THEPROTEIN, NMR, MINIMIZED REMARK 900 AVERAGE STRUCTURE REMARK 900 RELATED ID: 1QA6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A CONSERVED RIBOSOMAL REMARK 900 PROTEIN-RNACOMPLEX REMARK 900 RELATED ID: 2FOW RELATED DB: PDB REMARK 900 THE RNA BINDING DOMAIN OF RIBOSOMAL PROTEIN REMARK 900 L11:THREE-DIMENSIONAL STRUCTURE OF THE RNA REMARK 900 -BOUND FORM OF THEPROTEIN, NMR, 26 REMARK 900 STRUCTURES DBREF 1HC8 A 1 76 UNP P56210 RL11_BACST 58 133 DBREF 1HC8 B 201 276 UNP P56210 RL11_BACST 58 133 DBREF 1HC8 C 101 158 PDB 1HC8 1HC8 101 158 DBREF 1HC8 D 301 358 PDB 1HC8 1HC8 301 358 SEQRES 1 C 58 GTP C C A G G A U G U A G G SEQRES 2 C 58 C U U A G A A G C A G C C SEQRES 3 C 58 A U C A U U U A A A G A A SEQRES 4 C 58 A G C G U A A U A G C U C SEQRES 5 C 58 A C U G G U SEQRES 1 D 58 GTP C C A G G A U G U A G G SEQRES 2 D 58 C U U A G A A G C A G C C SEQRES 3 D 58 A U C A U U U A A A G A A SEQRES 4 D 58 A G C G U A A U A G C U C SEQRES 5 D 58 A C U G G U SEQRES 1 A 76 PHE THR PHE ILE THR LYS THR PRO PRO ALA ALA VAL LEU SEQRES 2 A 76 LEU LYS LYS ALA ALA GLY ILE GLU SER GLY SER GLY GLU SEQRES 3 A 76 PRO ASN ARG ASN LYS VAL ALA THR ILE LYS ARG ASP LYS SEQRES 4 A 76 VAL ARG GLU ILE ALA GLU LEU LYS MET PRO ASP LEU ASN SEQRES 5 A 76 ALA ALA SER ILE GLU ALA ALA MET ARG MET ILE GLU GLY SEQRES 6 A 76 THR ALA ARG SER MET GLY ILE VAL VAL GLU ASN SEQRES 1 B 76 PHE THR PHE ILE THR LYS THR PRO PRO ALA ALA VAL LEU SEQRES 2 B 76 LEU LYS LYS ALA ALA GLY ILE GLU SER GLY SER GLY GLU SEQRES 3 B 76 PRO ASN ARG ASN LYS VAL ALA THR ILE LYS ARG ASP LYS SEQRES 4 B 76 VAL ARG GLU ILE ALA GLU LEU LYS MET PRO ASP LEU ASN SEQRES 5 B 76 ALA ALA SER ILE GLU ALA ALA MET ARG MET ILE GLU GLY SEQRES 6 B 76 THR ALA ARG SER MET GLY ILE VAL VAL GLU ASN HET GTP C 101 32 HET GTP D 301 32 HET MG C1159 1 HET MG C1160 1 HET MG C1161 1 HET K C1162 1 HET MG C1163 1 HET MG C1164 1 HET MG C1165 1 HET MG C1166 1 HET MG C1167 1 HET MG C1168 1 HET OS C1169 1 HET OS C1170 1 HET MG C1172 1 HET MG D1359 1 HET MG D1360 1 HET MG D1361 1 HET K D1362 1 HET MG D1363 1 HET MG D1364 1 HET MG D1365 1 HET MG D1366 1 HET MG D1367 1 HET MG D1368 1 HET MG D1369 1 HET OS D1370 1 HET OS D1371 1 HET MG D1372 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM K POTASSIUM ION HETNAM OS OSMIUM ION FORMUL 1 GTP 2(C10 H16 N5 O14 P3) FORMUL 5 MG 21(MG 2+) FORMUL 8 K 2(K 1+) FORMUL 15 OS 4(OS 3+) FORMUL 32 HOH *13(H2 O1) HELIX 1 1 ALA A 10 ALA A 17 1 8 HELIX 2 2 ARG A 37 MET A 48 1 12 HELIX 4 4 GLU A 57 SER A 69 1 13 HELIX 5 5 ALA B 210 ALA B 217 1 8 HELIX 6 6 ARG B 237 MET B 248 1 12 HELIX 8 8 GLU B 257 SER B 269 1 13 SHEET 1 AA 2 VAL A 32 THR A 34 0 SHEET 2 AA 2 ILE A 72 GLU A 75 1 O VAL A 73 N ILE A 35 SHEET 1 BA 2 VAL B 232 THR B 234 0 SHEET 2 BA 2 ILE B 272 GLU B 275 1 O VAL B 273 N ILE B 235 LINK O3' GTP C 101 P C C 102 1555 1555 1.61 LINK MG MG C1161 OP1 A C 148 1555 1555 2.21 LINK K K C1162 O3' A C 119 1555 1555 3.35 LINK K K C1162 OP2 A C 120 1555 1555 2.82 LINK K K C1162 OP1 C C 122 1555 1555 2.63 LINK K K C1162 OP2 C C 122 1555 1555 2.98 LINK K K C1162 O5' C C 122 1555 1555 3.32 LINK K K C1162 OP1 A C 123 1555 1555 2.71 LINK MG MG C1163 OP2 A C 120 1555 1555 2.38 LINK MG MG C1163 OP1 C C 122 1555 1555 2.17 LINK MG MG C1164 O HOH C2001 1555 1555 2.46 LINK MG MG C1165 OP1 U C 116 1555 1555 2.18 LINK MG MG C1165 OP1 A D 336 1555 1555 2.32 LINK MG MG C1166 O3B GTP C 101 1555 1555 2.87 LINK MG MG C1166 O4 U D 358 1555 7556 2.56 LINK MG MG C1166 O1B GTP C 101 1555 1555 2.81 LINK MG MG C1167 OP2 A C 123 1555 1555 2.12 LINK MG MG C1167 O4 U C 144 1555 1555 2.01 LINK O3' GTP D 301 P C D 302 1555 1555 1.60 LINK MG MG D1361 OP1 A D 348 1555 1555 2.20 LINK K K D1362 OP1 C D 322 1555 1555 2.92 LINK K K D1362 OP1 A D 323 1555 1555 2.77 LINK K K D1362 O5' C D 322 1555 1555 3.46 LINK K K D1362 OP2 C D 322 1555 1555 3.34 LINK K K D1362 OP2 A D 320 1555 1555 2.74 LINK K K D1362 O3' A D 319 1555 1555 3.17 LINK MG MG D1363 OP2 A D 320 1555 1555 2.39 LINK MG MG D1363 OP1 C D 322 1555 1555 2.38 LINK MG MG D1364 O2B GTP C 101 1555 7556 2.79 LINK MG MG D1364 N7 GTP C 101 1555 7556 2.99 LINK MG MG D1364 O1B GTP D 301 1555 1555 2.36 LINK MG MG D1365 OP2 A D 311 1555 1555 2.19 LINK MG MG D1366 O4 U C 158 1555 7556 2.49 LINK MG MG D1366 O1G GTP D 301 1555 1555 2.12 LINK MG MG D1367 O4 U D 344 1555 1555 1.91 LINK MG MG D1367 OP2 A D 323 1555 1555 2.23 LINK MG MG D1372 OP2 G D 313 1555 1555 2.73 LINK MG MG D1372 OP1 A D 320 1555 1555 3.00 LINK MG MG D1372 N7 G D 313 1555 1555 3.09 SITE 1 AC1 1 U C 108 SITE 1 AC2 1 A C 148 SITE 1 AC3 4 A C 119 A C 120 C C 122 A C 123 SITE 1 AC4 3 A C 120 G C 121 C C 122 SITE 1 AC5 2 C C 152 HOH C2001 SITE 1 AC6 3 U C 115 U C 116 A D 336 SITE 1 AC7 2 GTP C 101 U D 358 SITE 1 AC8 3 A C 123 G C 143 U C 144 SITE 1 AC9 1 A C 111 SITE 1 BC1 1 G C 137 SITE 1 BC2 1 G C 113 SITE 1 BC3 1 G D 321 SITE 1 BC4 2 G D 321 A D 348 SITE 1 BC5 4 A D 319 A D 320 C D 322 A D 323 SITE 1 BC6 3 G D 313 A D 320 C D 322 SITE 1 BC7 2 GTP C 101 GTP D 301 SITE 1 BC8 1 A D 311 SITE 1 BC9 2 U C 158 GTP D 301 SITE 1 CC1 2 A D 323 U D 344 SITE 1 CC2 1 G D 306 SITE 1 CC3 3 G D 312 G D 313 A D 320 CRYST1 150.675 150.675 63.841 90.00 90.00 90.00 P 43 21 2 16 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 0.006637 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006637 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015664 0.00000 MTRIX1 1 0.043157 -0.998994 -0.012207 166.83000 1 MTRIX2 1 -0.392208 -0.005704 -0.919859 180.47920 1 MTRIX3 1 0.918863 0.044486 -0.392060 -58.80740 1