HEADER STRUCTURAL PROTEIN/RNA 01-AUG-06 2HW8 TITLE STRUCTURE OF RIBOSOMAL PROTEIN L1-MRNA COMPLEX AT 2.1 RESOLUTION. COMPND MOL_ID: 1; COMPND 2 MOLECULE: 36-MER; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 50S RIBOSOMAL PROTEIN L1; COMPND 7 CHAIN: A; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: RNA WAS PREPARED FROM THE PLASMID IN CELL-FREE (IN SOURCE 4 VITRO) SYSTEM WITHOUT LIVING ORGANISM; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 7 ORGANISM_TAXID: 274; SOURCE 8 STRAIN: VK1; SOURCE 9 GENE: RPL1; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PACA-L1 KEYWDS RIBOSOMAL PROTEIN L1, MRNA, RNA-PROTEIN COMPLEX, STRUCTURAL PROTEIN- KEYWDS 2 RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.TISHCHENKO,E.NIKONOVA,A.NIKULIN,N.NEVSKAYA,S.VOLCHKOV,W.PIENDL, AUTHOR 2 M.GARBER,S.NIKONOV REVDAT 4 15-NOV-23 2HW8 1 REMARK REVDAT 3 30-AUG-23 2HW8 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 2HW8 1 VERSN REVDAT 1 19-DEC-06 2HW8 0 JRNL AUTH S.TISHCHENKO,E.NIKONOVA,A.NIKULIN,N.NEVSKAYA,S.VOLCHKOV, JRNL AUTH 2 W.PIENDL,M.GARBER,S.NIKONOV JRNL TITL STRUCTURE OF THE RIBOSOMAL PROTEIN L1-MRNA COMPLEX AT 2.1 A JRNL TITL 2 RESOLUTION: COMMON FEATURES OF CRYSTAL PACKING OF L1-RNA JRNL TITL 3 COMPLEXES. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 62 1545 2006 JRNL REFN ISSN 0907-4449 JRNL PMID 17139090 JRNL DOI 10.1107/S0907444906041655 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 3103802.140 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 28370 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) : 0.212 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1382 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4342 REMARK 3 BIN R VALUE (WORKING SET) : 0.3100 REMARK 3 BIN FREE R VALUE : 0.3470 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 231 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.023 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1742 REMARK 3 NUCLEIC ACID ATOMS : 774 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 163 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.76000 REMARK 3 B22 (A**2) : -5.76000 REMARK 3 B33 (A**2) : 11.51000 REMARK 3 B12 (A**2) : -0.13000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.27 REMARK 3 ESD FROM SIGMAA (A) : 0.27 REMARK 3 LOW RESOLUTION CUTOFF (A) : 25.0 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.32 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.32 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.570 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 3.000 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.930 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.420 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.210 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 41.70 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_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : BU1.PARAM REMARK 3 PARAMETER FILE 6 : 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 : BU1.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2HW8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1000038835. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-DEC-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.843 REMARK 200 MONOCHROMATOR : SI [111], HORIZONTALLY FOCUSSING 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28370 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.9000 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) : 2.22 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : 0.34200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: 1ZHO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG1000, SODIUM CACODYLATE,0.5% REMARK 280 GLYCEROL, 0.2 MM HGCL2 , PH 7.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 226.98000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 113.49000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 170.23500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 56.74500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 283.72500 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 226.98000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 113.49000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 56.74500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 170.23500 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 283.72500 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 APPLY THE FOLLOWING TO CHAINS: B, 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 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 B 2 P G B 2 OP3 -0.088 REMARK 500 REMARK 500 REMARK: NULL 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 B 12 N9 - C1' - C2' ANGL. DEV. = 9.7 DEGREES REMARK 500 U B 17 C2' - C3' - O3' ANGL. DEV. = 14.4 DEGREES 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 46.09 -84.56 REMARK 500 GLU A 88 0.98 -69.58 REMARK 500 TRP A 107 120.23 -31.51 REMARK 500 MET A 108 28.74 -145.31 REMARK 500 ILE A 130 -62.91 -95.37 REMARK 500 ASN A 148 48.89 -89.03 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 C B 32 0.06 SIDE CHAIN 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 K A 229 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B 30 O2' REMARK 620 2 U B 30 O2 80.2 REMARK 620 3 U B 31 O4' 67.4 83.3 REMARK 620 4 GLU A 42 OE1 148.2 113.6 85.3 REMARK 620 5 GLU A 42 OE2 160.7 111.9 127.2 41.9 REMARK 620 6 THR A 216 O 83.0 148.5 114.2 94.5 79.2 REMARK 620 7 THR A 217 O 76.0 80.4 142.0 132.7 90.8 69.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 210 O REMARK 620 2 HOH B 217 O 89.4 REMARK 620 3 HOH B 232 O 170.0 87.4 REMARK 620 4 HOH B 237 O 85.3 85.4 85.0 REMARK 620 5 HOH B 257 O 99.0 169.0 83.1 88.3 REMARK 620 6 HOH B 282 O 99.4 86.3 89.8 170.4 99.1 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 K A 229 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BU1 A 230 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1U63 RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN L1 FROM METHANOCOCCUS REMARK 900 JANNASCHII IN COMPLEX WITH A SPECIFIC FRAGMENT OF ITS MRNA. REMARK 900 RELATED ID: 1ZHO RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE AT 2.6 A OF RIBOSOMAL PROTEIN L1 FROM THERMUS REMARK 900 THERMOPHILUS IN COMPLEX WITH A 38 NT FRAGMENT OF L1 MRNA FROM REMARK 900 METHANOCCOCUS VANNIELII. SPACE GROUP IS P21. DBREF 2HW8 A 1 228 UNP P27150 RL1_THETH 1 228 DBREF 2HW8 B 2 37 PDB 2HW8 2HW8 2 37 SEQADV 2HW8 MSE A 120 UNP P27150 MET 120 MODIFIED RESIDUE SEQADV 2HW8 MSE A 127 UNP P27150 LEU 127 CONFLICT SEQADV 2HW8 MSE A 218 UNP P27150 MET 218 MODIFIED RESIDUE SEQRES 1 B 36 G G G G U G A A G G A G G SEQRES 2 B 36 C U U C G G C C G C G A A SEQRES 3 B 36 A C U U C A C C C C SEQRES 1 A 228 PRO LYS HIS GLY LYS ARG TYR ARG ALA LEU LEU GLU LYS SEQRES 2 A 228 VAL ASP PRO ASN LYS ILE TYR THR ILE ASP GLU ALA ALA SEQRES 3 A 228 HIS LEU VAL LYS GLU LEU ALA THR ALA LYS PHE ASP GLU SEQRES 4 A 228 THR VAL GLU VAL HIS ALA LYS LEU GLY ILE ASP PRO ARG SEQRES 5 A 228 ARG SER ASP GLN ASN VAL ARG GLY THR VAL SER LEU PRO SEQRES 6 A 228 HIS GLY LEU GLY LYS GLN VAL ARG VAL LEU ALA ILE ALA SEQRES 7 A 228 LYS GLY GLU LYS ILE LYS GLU ALA GLU GLU ALA GLY ALA SEQRES 8 A 228 ASP TYR VAL GLY GLY GLU GLU ILE ILE GLN LYS ILE LEU SEQRES 9 A 228 ASP GLY TRP MET ASP PHE ASP ALA VAL VAL ALA THR PRO SEQRES 10 A 228 ASP VAL MSE GLY ALA VAL GLY SER LYS MSE GLY ARG ILE SEQRES 11 A 228 LEU GLY PRO ARG GLY LEU LEU PRO ASN PRO LYS ALA GLY SEQRES 12 A 228 THR VAL GLY PHE ASN ILE GLY GLU ILE ILE ARG GLU ILE SEQRES 13 A 228 LYS ALA GLY ARG ILE GLU PHE ARG ASN ASP LYS THR GLY SEQRES 14 A 228 ALA ILE HIS ALA PRO VAL GLY LYS ALA SER PHE PRO PRO SEQRES 15 A 228 GLU LYS LEU ALA ASP ASN ILE ARG ALA PHE ILE ARG ALA SEQRES 16 A 228 LEU GLU ALA HIS LYS PRO GLU GLY ALA LYS GLY THR PHE SEQRES 17 A 228 LEU ARG SER VAL TYR VAL THR THR THR MSE GLY PRO SER SEQRES 18 A 228 VAL ARG ILE ASN PRO HIS SER MODRES 2HW8 MSE A 120 MET SELENOMETHIONINE MODRES 2HW8 MSE A 127 MET SELENOMETHIONINE MODRES 2HW8 MSE A 218 MET SELENOMETHIONINE HET MSE A 120 8 HET MSE A 127 8 HET MSE A 218 8 HET MG B 202 1 HET K A 229 1 HET BU1 A 230 6 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM K POTASSIUM ION HETNAM BU1 1,4-BUTANEDIOL FORMUL 2 MSE 3(C5 H11 N O2 SE) FORMUL 3 MG MG 2+ FORMUL 4 K K 1+ FORMUL 5 BU1 C4 H10 O2 FORMUL 6 HOH *163(H2 O) HELIX 1 1 GLY A 4 LYS A 13 1 10 HELIX 2 2 THR A 21 VAL A 29 1 9 HELIX 3 3 LYS A 30 LEU A 32 5 3 HELIX 4 4 ARG A 53 ASN A 57 5 5 HELIX 5 5 GLU A 81 GLU A 88 1 8 HELIX 6 6 GLY A 96 GLU A 98 5 3 HELIX 7 7 ILE A 99 GLY A 106 1 8 HELIX 8 8 VAL A 119 GLY A 132 1 14 HELIX 9 9 ASN A 139 GLY A 143 5 5 HELIX 10 10 ASN A 148 ALA A 158 1 11 HELIX 11 11 PRO A 181 ALA A 198 1 18 SHEET 1 A 5 ILE A 19 TYR A 20 0 SHEET 2 A 5 VAL A 222 ILE A 224 1 O ARG A 223 N TYR A 20 SHEET 3 A 5 LEU A 209 THR A 216 -1 N VAL A 214 O VAL A 222 SHEET 4 A 5 THR A 40 LEU A 47 -1 N HIS A 44 O TYR A 213 SHEET 5 A 5 ALA A 170 LYS A 177 -1 O VAL A 175 N VAL A 41 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 GLY A 95 SHEET 3 C 3 ALA A 112 ALA A 115 1 O ALA A 112 N LEU A 75 LINK C VAL A 119 N MSE A 120 1555 1555 1.33 LINK C MSE A 120 N GLY A 121 1555 1555 1.33 LINK C LYS A 126 N MSE A 127 1555 1555 1.33 LINK C MSE A 127 N GLY A 128 1555 1555 1.32 LINK C THR A 217 N MSE A 218 1555 1555 1.32 LINK C MSE A 218 N GLY A 219 1555 1555 1.32 LINK O2' U B 30 K K A 229 1555 1555 2.87 LINK O2 U B 30 K K A 229 1555 1555 2.65 LINK O4' U B 31 K K A 229 1555 1555 3.20 LINK MG MG B 202 O HOH B 210 1555 1555 2.06 LINK MG MG B 202 O HOH B 217 1555 1555 2.22 LINK MG MG B 202 O HOH B 232 1555 1555 2.39 LINK MG MG B 202 O HOH B 237 1555 1555 2.29 LINK MG MG B 202 O HOH B 257 1555 1555 2.14 LINK MG MG B 202 O HOH B 282 1555 1555 1.94 LINK OE1 GLU A 42 K K A 229 1555 1555 3.16 LINK OE2 GLU A 42 K K A 229 1555 1555 2.94 LINK O THR A 216 K K A 229 1555 1555 2.73 LINK O THR A 217 K K A 229 1555 1555 3.25 SITE 1 AC1 5 GLU A 42 THR A 216 THR A 217 U B 30 SITE 2 AC1 5 U B 31 SITE 1 AC2 6 HOH B 210 HOH B 217 HOH B 232 HOH B 237 SITE 2 AC2 6 HOH B 257 HOH B 282 SITE 1 AC3 6 GLY A 69 SER A 179 PHE A 180 PRO A 181 SITE 2 AC3 6 HOH A 276 HOH A 310 CRYST1 67.870 67.870 340.470 90.00 90.00 120.00 P 65 2 2 12 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 0.014734 0.008507 0.000000 0.00000 SCALE2 0.000000 0.017013 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002937 0.00000