HEADER LIGASE 01-JUL-13 4BWA TITLE PYLRS Y306G, Y384F, I405R MUTANT IN COMPLEX WITH ADENYLATED NORBORNENE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRROLYSINE--TRNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SYNTHETASE DOMAIN, RESIDUES 185-454; COMPND 5 SYNONYM: PYRROLYSINE--TRNA(PYL) LIGASE, PYRROLYSYL-TRNA SYNTHETASE, COMPND 6 PYLRS; COMPND 7 EC: 6.1.1.26; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOSARCINA MAZEI; SOURCE 3 ORGANISM_TAXID: 2209; SOURCE 4 ATCC: BAA-159; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA 2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET28 KEYWDS LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR S.SCHNEIDER,M.VRABEL,M.J.GATTNER,V.FLUEGEL,V.LOPEZ-CARILLO,T.CARELL REVDAT 4 20-DEC-23 4BWA 1 REMARK LINK REVDAT 3 25-DEC-13 4BWA 1 JRNL REVDAT 2 25-SEP-13 4BWA 1 JRNL REVDAT 1 31-JUL-13 4BWA 0 JRNL AUTH S.SCHNEIDER,M.J.GATTNER,M.VRABEL,V.FLUGEL,V.LOPEZ-CARRILLO, JRNL AUTH 2 S.PRILL,T.CARELL JRNL TITL STRUCTURAL INSIGHTS INTO INCORPORATION OF NORBORNENE AMINO JRNL TITL 2 ACIDS FOR CLICK MODIFICATION OF PROTEINS JRNL REF CHEM.BIO.CHEM. V. 14 2114 2013 JRNL REFN ISSN 1439-4227 JRNL PMID 24027216 JRNL DOI 10.1002/CBIC.201300435 REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.42 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 16038 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 + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 834 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1150 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2077 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 59 REMARK 3 SOLVENT ATOMS : 33 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.56000 REMARK 3 B22 (A**2) : -1.56000 REMARK 3 B33 (A**2) : 5.07000 REMARK 3 B12 (A**2) : -1.56000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.247 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.196 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.142 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.557 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2174 ; 0.010 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 2087 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2927 ; 1.475 ; 2.015 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4809 ; 0.965 ; 3.008 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 257 ; 6.445 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 104 ;34.818 ;23.846 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 385 ;15.971 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;17.100 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 320 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2394 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 480 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1037 ; 2.253 ; 3.756 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1036 ; 2.250 ; 3.755 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1291 ; 3.694 ; 5.617 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1137 ; 2.518 ; 4.008 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1637 ; 4.043 ; 5.927 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 187 A 205 REMARK 3 ORIGIN FOR THE GROUP (A): 24.2919 102.5135 -8.3078 REMARK 3 T TENSOR REMARK 3 T11: 0.1764 T22: 0.1448 REMARK 3 T33: 0.4512 T12: -0.0389 REMARK 3 T13: -0.0953 T23: -0.0611 REMARK 3 L TENSOR REMARK 3 L11: 7.0364 L22: 4.8627 REMARK 3 L33: 5.9219 L12: 0.1925 REMARK 3 L13: 0.3843 L23: 1.3929 REMARK 3 S TENSOR REMARK 3 S11: 0.4635 S12: -0.4147 S13: -0.3887 REMARK 3 S21: 0.4960 S22: -0.3084 S23: -0.6084 REMARK 3 S31: 0.1508 S32: 0.3145 S33: -0.1551 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 206 A 212 REMARK 3 ORIGIN FOR THE GROUP (A): 27.3118 99.7748 0.3115 REMARK 3 T TENSOR REMARK 3 T11: 1.4254 T22: 1.1233 REMARK 3 T33: 0.7097 T12: 0.2071 REMARK 3 T13: -0.3350 T23: 0.0728 REMARK 3 L TENSOR REMARK 3 L11: 4.3604 L22: 0.6596 REMARK 3 L33: 9.0913 L12: -1.6623 REMARK 3 L13: 6.2737 L23: -2.4238 REMARK 3 S TENSOR REMARK 3 S11: 0.7077 S12: 1.5537 S13: -0.1988 REMARK 3 S21: -0.0842 S22: -0.5635 S23: 0.0334 REMARK 3 S31: 0.7484 S32: 2.3246 S33: -0.1442 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 213 A 239 REMARK 3 ORIGIN FOR THE GROUP (A): 17.1487 108.6399 1.5560 REMARK 3 T TENSOR REMARK 3 T11: 0.2740 T22: 0.1161 REMARK 3 T33: 0.3096 T12: -0.0733 REMARK 3 T13: -0.0282 T23: 0.0065 REMARK 3 L TENSOR REMARK 3 L11: 1.8043 L22: 12.0705 REMARK 3 L33: 5.1680 L12: -2.8656 REMARK 3 L13: -2.0257 L23: 7.4026 REMARK 3 S TENSOR REMARK 3 S11: -0.1906 S12: -0.0303 S13: -0.3755 REMARK 3 S21: 1.1701 S22: 0.3219 S23: 0.2137 REMARK 3 S31: 0.7158 S32: 0.1542 S33: -0.1313 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 240 A 278 REMARK 3 ORIGIN FOR THE GROUP (A): 34.4914 138.0336 -4.4051 REMARK 3 T TENSOR REMARK 3 T11: 0.0301 T22: 0.1005 REMARK 3 T33: 0.0781 T12: -0.0331 REMARK 3 T13: 0.0345 T23: -0.0089 REMARK 3 L TENSOR REMARK 3 L11: 2.5906 L22: 5.0403 REMARK 3 L33: 2.9921 L12: 0.5006 REMARK 3 L13: 0.3388 L23: 0.1000 REMARK 3 S TENSOR REMARK 3 S11: 0.0343 S12: 0.2674 S13: 0.1283 REMARK 3 S21: -0.2317 S22: 0.1105 S23: -0.3086 REMARK 3 S31: -0.1101 S32: 0.1303 S33: -0.1448 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 279 A 286 REMARK 3 ORIGIN FOR THE GROUP (A): 42.0260 134.6897 -27.5741 REMARK 3 T TENSOR REMARK 3 T11: 1.0640 T22: 0.9880 REMARK 3 T33: 0.6947 T12: -0.3547 REMARK 3 T13: 0.5281 T23: 0.0699 REMARK 3 L TENSOR REMARK 3 L11: 21.9312 L22: 13.0157 REMARK 3 L33: 9.2239 L12: 16.7799 REMARK 3 L13: 14.1441 L23: 10.9558 REMARK 3 S TENSOR REMARK 3 S11: -0.4501 S12: 1.1241 S13: -0.1932 REMARK 3 S21: 0.0722 S22: 0.5260 S23: -0.0146 REMARK 3 S31: 0.0294 S32: 0.5064 S33: -0.0759 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 287 A 335 REMARK 3 ORIGIN FOR THE GROUP (A): 37.3879 141.2494 -11.1241 REMARK 3 T TENSOR REMARK 3 T11: 0.1617 T22: 0.1908 REMARK 3 T33: 0.1168 T12: -0.0763 REMARK 3 T13: 0.1008 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 3.4334 L22: 4.1654 REMARK 3 L33: 4.2937 L12: 1.6122 REMARK 3 L13: 1.6391 L23: 2.1160 REMARK 3 S TENSOR REMARK 3 S11: -0.1206 S12: 0.5346 S13: -0.0969 REMARK 3 S21: -0.5973 S22: 0.2704 S23: -0.3903 REMARK 3 S31: -0.1118 S32: 0.3105 S33: -0.1498 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 336 A 340 REMARK 3 ORIGIN FOR THE GROUP (A): 34.9824 122.0222 -13.5132 REMARK 3 T TENSOR REMARK 3 T11: 0.2330 T22: 0.2489 REMARK 3 T33: 0.2986 T12: -0.0080 REMARK 3 T13: 0.1021 T23: -0.0950 REMARK 3 L TENSOR REMARK 3 L11: 8.2658 L22: 26.0576 REMARK 3 L33: 15.0652 L12: -8.4395 REMARK 3 L13: 6.9313 L23: -6.3092 REMARK 3 S TENSOR REMARK 3 S11: 0.3790 S12: 0.7759 S13: 0.0482 REMARK 3 S21: -0.6196 S22: -0.8438 S23: -1.4087 REMARK 3 S31: 0.9248 S32: 0.8152 S33: 0.4648 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 341 A 406 REMARK 3 ORIGIN FOR THE GROUP (A): 47.0984 131.1875 -1.4521 REMARK 3 T TENSOR REMARK 3 T11: 0.0726 T22: 0.1912 REMARK 3 T33: 0.3874 T12: -0.0071 REMARK 3 T13: 0.0409 T23: -0.0578 REMARK 3 L TENSOR REMARK 3 L11: 2.4901 L22: 2.5424 REMARK 3 L33: 1.8930 L12: 0.1825 REMARK 3 L13: 0.6414 L23: -0.7178 REMARK 3 S TENSOR REMARK 3 S11: 0.0802 S12: 0.2329 S13: -0.1924 REMARK 3 S21: -0.2638 S22: -0.0386 S23: -0.7384 REMARK 3 S31: 0.1490 S32: 0.2892 S33: -0.0416 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 407 A 454 REMARK 3 ORIGIN FOR THE GROUP (A): 34.8764 127.5150 -5.6502 REMARK 3 T TENSOR REMARK 3 T11: 0.0797 T22: 0.0974 REMARK 3 T33: 0.1558 T12: -0.0167 REMARK 3 T13: 0.0084 T23: -0.0795 REMARK 3 L TENSOR REMARK 3 L11: 2.7902 L22: 3.4008 REMARK 3 L33: 1.5161 L12: 1.4469 REMARK 3 L13: -0.1756 L23: -0.3143 REMARK 3 S TENSOR REMARK 3 S11: 0.0273 S12: 0.2618 S13: -0.4098 REMARK 3 S21: -0.2352 S22: 0.0596 S23: -0.4759 REMARK 3 S31: 0.1062 S32: 0.0888 S33: -0.0869 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 4BWA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1290057547. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.873 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17790 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 45.380 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.70 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 10.70 REMARK 200 R MERGE FOR SHELL (I) : 0.58000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 4BW9 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE, 15% PEG3350 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 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 24.28667 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 48.57333 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 0.00000 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 24.28667 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 48.57333 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: 6110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.3 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 52.40000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 272.27839 REMARK 350 BIOMT3 2 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 164 REMARK 465 GLY A 165 REMARK 465 SER A 166 REMARK 465 SER A 167 REMARK 465 HIS A 168 REMARK 465 HIS A 169 REMARK 465 HIS A 170 REMARK 465 HIS A 171 REMARK 465 HIS A 172 REMARK 465 HIS A 173 REMARK 465 SER A 174 REMARK 465 SER A 175 REMARK 465 GLY A 176 REMARK 465 LEU A 177 REMARK 465 VAL A 178 REMARK 465 PRO A 179 REMARK 465 ARG A 180 REMARK 465 GLY A 181 REMARK 465 SER A 182 REMARK 465 HIS A 183 REMARK 465 MET A 184 REMARK 465 ALA A 185 REMARK 465 SER A 186 REMARK 465 THR A 282 REMARK 465 GLU A 283 REMARK 465 SER A 380 REMARK 465 CYS A 381 REMARK 465 MET A 382 REMARK 465 VAL A 383 REMARK 465 PHE A 384 REMARK 465 GLY A 385 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 LYS A 205 CG CD CE NZ REMARK 470 ASN A 211 CG OD1 ND2 REMARK 470 LEU A 284 CG CD1 CD2 REMARK 470 LYS A 286 CG CD CE NZ REMARK 470 LYS A 293 CG CD CE NZ REMARK 470 SER A 333 OG REMARK 470 LYS A 336 CG CD CE NZ REMARK 470 ASP A 379 CG OD1 OD2 REMARK 470 ARG A 409 CD NE CZ NH1 NH2 REMARK 470 LYS A 435 CE NZ 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 GLU A 238 -70.01 -80.81 REMARK 500 ARG A 239 -1.68 80.33 REMARK 500 MET A 276 32.52 -85.08 REMARK 500 ASN A 280 2.39 -69.74 REMARK 500 ASP A 334 -80.89 -113.61 REMARK 500 VAL A 377 -89.90 -120.41 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 A1455 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 396 OE2 REMARK 620 2 SER A 399 OG 69.4 REMARK 620 3 N0B A1456 O2A 73.5 75.7 REMARK 620 4 HOH A2031 O 86.0 145.8 74.7 REMARK 620 N 1 2 3 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 1455 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE N0B A 1456 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1457 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1458 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1459 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4BW9 RELATED DB: PDB REMARK 900 PYLRS Y306G, Y384F, I405R MUTANT IN COMPLEX WITH AMP- PNP DBREF 4BWA A 185 454 UNP Q8PWY1 PYLS_METMA 185 454 SEQADV 4BWA MET A 164 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA GLY A 165 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA SER A 166 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA SER A 167 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA HIS A 168 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA HIS A 169 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA HIS A 170 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA HIS A 171 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA HIS A 172 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA HIS A 173 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA SER A 174 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA SER A 175 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA GLY A 176 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA LEU A 177 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA VAL A 178 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA PRO A 179 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA ARG A 180 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA GLY A 181 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA SER A 182 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA HIS A 183 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA MET A 184 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BWA GLY A 306 UNP Q8PWY1 TYR 306 ENGINEERED MUTATION SEQADV 4BWA PHE A 384 UNP Q8PWY1 TYR 384 ENGINEERED MUTATION SEQADV 4BWA ARG A 405 UNP Q8PWY1 ILE 405 ENGINEERED MUTATION SEQRES 1 A 291 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 291 LEU VAL PRO ARG GLY SER HIS MET ALA SER ALA PRO ALA SEQRES 3 A 291 LEU THR LYS SER GLN THR ASP ARG LEU GLU VAL LEU LEU SEQRES 4 A 291 ASN PRO LYS ASP GLU ILE SER LEU ASN SER GLY LYS PRO SEQRES 5 A 291 PHE ARG GLU LEU GLU SER GLU LEU LEU SER ARG ARG LYS SEQRES 6 A 291 LYS ASP LEU GLN GLN ILE TYR ALA GLU GLU ARG GLU ASN SEQRES 7 A 291 TYR LEU GLY LYS LEU GLU ARG GLU ILE THR ARG PHE PHE SEQRES 8 A 291 VAL ASP ARG GLY PHE LEU GLU ILE LYS SER PRO ILE LEU SEQRES 9 A 291 ILE PRO LEU GLU TYR ILE GLU ARG MET GLY ILE ASP ASN SEQRES 10 A 291 ASP THR GLU LEU SER LYS GLN ILE PHE ARG VAL ASP LYS SEQRES 11 A 291 ASN PHE CYS LEU ARG PRO MET LEU ALA PRO ASN LEU GLY SEQRES 12 A 291 ASN TYR LEU ARG LYS LEU ASP ARG ALA LEU PRO ASP PRO SEQRES 13 A 291 ILE LYS ILE PHE GLU ILE GLY PRO CYS TYR ARG LYS GLU SEQRES 14 A 291 SER ASP GLY LYS GLU HIS LEU GLU GLU PHE THR MET LEU SEQRES 15 A 291 ASN PHE CYS GLN MET GLY SER GLY CYS THR ARG GLU ASN SEQRES 16 A 291 LEU GLU SER ILE ILE THR ASP PHE LEU ASN HIS LEU GLY SEQRES 17 A 291 ILE ASP PHE LYS ILE VAL GLY ASP SER CYS MET VAL PHE SEQRES 18 A 291 GLY ASP THR LEU ASP VAL MET HIS GLY ASP LEU GLU LEU SEQRES 19 A 291 SER SER ALA VAL VAL GLY PRO ARG PRO LEU ASP ARG GLU SEQRES 20 A 291 TRP GLY ILE ASP LYS PRO TRP ILE GLY ALA GLY PHE GLY SEQRES 21 A 291 LEU GLU ARG LEU LEU LYS VAL LYS HIS ASP PHE LYS ASN SEQRES 22 A 291 ILE LYS ARG ALA ALA ARG SER GLU SER TYR TYR ASN GLY SEQRES 23 A 291 ILE SER THR ASN LEU HET MG A1455 1 HET N0B A1456 43 HET PEG A1457 7 HET EDO A1458 4 HET EDO A1459 4 HETNAM MG MAGNESIUM ION HETNAM N0B ADENYLATED NORBORNENE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MG MG 2+ FORMUL 3 N0B C25 H36 N7 O10 P FORMUL 4 PEG C4 H10 O3 FORMUL 5 EDO 2(C2 H6 O2) FORMUL 7 HOH *33(H2 O) HELIX 1 1 THR A 191 LEU A 202 1 12 HELIX 2 2 ASN A 203 GLU A 207 5 5 HELIX 3 3 PRO A 215 GLU A 237 1 23 HELIX 4 4 ASN A 241 ARG A 257 1 17 HELIX 5 5 LEU A 270 ARG A 275 1 6 HELIX 6 6 LEU A 284 ILE A 288 5 5 HELIX 7 7 LEU A 301 ASP A 313 1 13 HELIX 8 8 THR A 355 GLY A 371 1 17 HELIX 9 9 ARG A 405 GLY A 412 5 8 HELIX 10 10 LEU A 424 HIS A 432 1 9 HELIX 11 11 ASN A 436 ALA A 441 5 6 SHEET 1 AA 7 LEU A 260 ILE A 262 0 SHEET 2 AA 7 ILE A 320 TYR A 329 1 O LYS A 321 N LEU A 260 SHEET 3 AA 7 GLU A 341 MET A 350 -1 O PHE A 342 N CYS A 328 SHEET 4 AA 7 TRP A 417 GLY A 423 -1 O ILE A 418 N GLN A 349 SHEET 5 AA 7 LEU A 395 VAL A 402 -1 O LEU A 397 N GLY A 423 SHEET 6 AA 7 THR A 387 HIS A 392 -1 O LEU A 388 N ALA A 400 SHEET 7 AA 7 LYS A 375 ILE A 376 -1 O LYS A 375 N MET A 391 SHEET 1 AB 2 LEU A 267 PRO A 269 0 SHEET 2 AB 2 PHE A 295 LEU A 297 -1 O CYS A 296 N ILE A 268 SHEET 1 AC 2 TYR A 446 TYR A 447 0 SHEET 2 AC 2 ILE A 450 SER A 451 -1 O ILE A 450 N TYR A 447 LINK OE2 GLU A 396 MG MG A1455 1555 1555 2.61 LINK OG SER A 399 MG MG A1455 1555 1555 2.43 LINK MG MG A1455 O2A N0B A1456 1555 1555 2.37 LINK MG MG A1455 O HOH A2031 1555 1555 2.74 CISPEP 1 ASP A 318 PRO A 319 0 -2.02 CISPEP 2 GLY A 403 PRO A 404 0 3.50 SITE 1 AC1 4 GLU A 396 SER A 399 N0B A1456 HOH A2031 SITE 1 AC2 21 ALA A 302 GLY A 306 LEU A 309 ARG A 330 SITE 2 AC2 21 GLU A 332 LEU A 339 PHE A 342 MET A 344 SITE 3 AC2 21 ASN A 346 GLU A 396 LEU A 397 SER A 398 SITE 4 AC2 21 SER A 399 TRP A 417 GLY A 419 GLY A 421 SITE 5 AC2 21 GLY A 423 ARG A 426 MG A1455 HOH A2031 SITE 6 AC2 21 HOH A2032 SITE 1 AC3 7 LEU A 243 GLU A 247 LYS A 263 ILE A 325 SITE 2 AC3 7 GLY A 326 THR A 343 ARG A 442 SITE 1 AC4 5 TYR A 242 LYS A 245 GLU A 249 LYS A 431 SITE 2 AC4 5 HIS A 432 SITE 1 AC5 7 ASN A 241 ARG A 439 ALA A 440 ALA A 441 SITE 2 AC5 7 TYR A 446 ASN A 448 GLY A 449 CRYST1 104.800 104.800 72.860 90.00 90.00 120.00 P 64 6 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 0.009542 0.005509 0.000000 0.00000 SCALE2 0.000000 0.011018 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013725 0.00000