HEADER LIGASE 01-JUL-13 4BW9 TITLE PYLRS Y306G, Y384F, I405R MUTANT IN COMPLEX WITH AMP-PNP 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_PLASMID: 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 4BW9 1 REMARK LINK REVDAT 3 25-DEC-13 4BW9 1 JRNL REVDAT 2 25-SEP-13 4BW9 1 JRNL REVDAT 1 31-JUL-13 4BW9 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. 2.35 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) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 17669 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) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 914 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) : 2.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1289 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.63 REMARK 3 BIN R VALUE (WORKING SET) : 0.3980 REMARK 3 BIN FREE R VALUE SET COUNT : 64 REMARK 3 BIN FREE R VALUE : 0.4470 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2115 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 44 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.62000 REMARK 3 B22 (A**2) : -0.62000 REMARK 3 B33 (A**2) : 2.02000 REMARK 3 B12 (A**2) : -0.62000 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): 0.210 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.173 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.125 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.389 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.957 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2216 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2120 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2981 ; 1.701 ; 2.011 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4881 ; 1.156 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 263 ; 6.516 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 106 ;30.924 ;23.679 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 393 ;15.045 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;17.336 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 321 ; 0.164 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2442 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 497 ; 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): 1058 ; 2.693 ; 3.997 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1057 ; 2.679 ; 3.994 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1319 ; 4.102 ; 5.984 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1158 ; 3.978 ; 4.468 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 109.2647 -30.4374 -7.3363 REMARK 3 T TENSOR REMARK 3 T11: 0.1654 T22: 0.1086 REMARK 3 T33: 0.3201 T12: -0.0210 REMARK 3 T13: 0.0448 T23: -0.0663 REMARK 3 L TENSOR REMARK 3 L11: 5.5739 L22: 3.8232 REMARK 3 L33: 6.9142 L12: -1.2516 REMARK 3 L13: -2.2868 L23: -2.5962 REMARK 3 S TENSOR REMARK 3 S11: 0.1302 S12: -0.3979 S13: 0.6948 REMARK 3 S21: 0.3840 S22: 0.0824 S23: -0.3585 REMARK 3 S31: -0.7661 S32: 0.1467 S33: -0.2126 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): 108.6349 -26.7372 2.1929 REMARK 3 T TENSOR REMARK 3 T11: 0.5541 T22: 0.8319 REMARK 3 T33: 0.9418 T12: 0.3038 REMARK 3 T13: -0.2486 T23: -0.5120 REMARK 3 L TENSOR REMARK 3 L11: 1.7905 L22: 1.8954 REMARK 3 L33: 10.7978 L12: -1.7739 REMARK 3 L13: -4.2231 L23: 4.4992 REMARK 3 S TENSOR REMARK 3 S11: 0.0971 S12: -0.1539 S13: 0.0914 REMARK 3 S21: -0.3345 S22: -0.1559 S23: 0.0998 REMARK 3 S31: -0.9065 S32: -0.1770 S33: 0.0588 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): 107.3627 -39.6780 2.6098 REMARK 3 T TENSOR REMARK 3 T11: 0.0659 T22: 0.2958 REMARK 3 T33: 0.2015 T12: -0.0668 REMARK 3 T13: -0.0221 T23: 0.0027 REMARK 3 L TENSOR REMARK 3 L11: 6.3578 L22: 5.3527 REMARK 3 L33: 5.3264 L12: 5.7479 REMARK 3 L13: -5.1794 L23: -4.3900 REMARK 3 S TENSOR REMARK 3 S11: 0.4587 S12: -0.8151 S13: -0.2178 REMARK 3 S21: 0.3617 S22: -0.6028 S23: -0.2173 REMARK 3 S31: -0.4889 S32: 0.6621 S33: 0.1440 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): 73.5602 -39.6551 -3.7079 REMARK 3 T TENSOR REMARK 3 T11: 0.1032 T22: 0.1350 REMARK 3 T33: 0.1902 T12: 0.0728 REMARK 3 T13: 0.0078 T23: -0.0064 REMARK 3 L TENSOR REMARK 3 L11: 1.3941 L22: 0.3015 REMARK 3 L33: 0.9847 L12: 0.5504 REMARK 3 L13: -0.4679 L23: 0.0326 REMARK 3 S TENSOR REMARK 3 S11: 0.0774 S12: -0.0782 S13: 0.1183 REMARK 3 S21: 0.0281 S22: -0.0362 S23: 0.0037 REMARK 3 S31: -0.0172 S32: -0.1169 S33: -0.0412 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): 73.4153 -29.3226 -24.0879 REMARK 3 T TENSOR REMARK 3 T11: 0.6288 T22: 0.5120 REMARK 3 T33: 1.5488 T12: -0.2808 REMARK 3 T13: -0.4979 T23: 0.8141 REMARK 3 L TENSOR REMARK 3 L11: 39.5474 L22: 12.2035 REMARK 3 L33: 13.9801 L12: -15.9436 REMARK 3 L13: -14.7782 L23: -0.3747 REMARK 3 S TENSOR REMARK 3 S11: -0.8522 S12: 0.6074 S13: 0.9636 REMARK 3 S21: -0.1088 S22: 0.3683 S23: 0.1977 REMARK 3 S31: 0.3304 S32: -0.1184 S33: 0.4840 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): 69.2606 -38.7762 -10.3415 REMARK 3 T TENSOR REMARK 3 T11: 0.0888 T22: 0.1472 REMARK 3 T33: 0.1813 T12: 0.0827 REMARK 3 T13: 0.0006 T23: 0.0379 REMARK 3 L TENSOR REMARK 3 L11: 1.4903 L22: 0.4428 REMARK 3 L33: 1.4532 L12: 0.4117 REMARK 3 L13: -0.7186 L23: 0.0754 REMARK 3 S TENSOR REMARK 3 S11: -0.0213 S12: 0.1613 S13: 0.1599 REMARK 3 S21: -0.0881 S22: 0.0243 S23: 0.1378 REMARK 3 S31: -0.0398 S32: -0.0884 S33: -0.0029 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): 87.3061 -31.4303 -12.7364 REMARK 3 T TENSOR REMARK 3 T11: 0.2116 T22: 0.1953 REMARK 3 T33: 0.2162 T12: -0.0291 REMARK 3 T13: 0.0846 T23: 0.0538 REMARK 3 L TENSOR REMARK 3 L11: 12.0161 L22: 2.2501 REMARK 3 L33: 1.7607 L12: 5.1853 REMARK 3 L13: 4.5953 L23: 1.9891 REMARK 3 S TENSOR REMARK 3 S11: -0.3655 S12: 0.7167 S13: -0.0066 REMARK 3 S21: -0.2175 S22: 0.3547 S23: -0.0208 REMARK 3 S31: -0.1737 S32: 0.2808 S33: 0.0108 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): 72.7277 -25.0604 -2.3359 REMARK 3 T TENSOR REMARK 3 T11: 0.1084 T22: 0.0639 REMARK 3 T33: 0.2239 T12: 0.0667 REMARK 3 T13: 0.0060 T23: 0.0103 REMARK 3 L TENSOR REMARK 3 L11: 2.5841 L22: 1.4078 REMARK 3 L33: 1.2187 L12: -0.1984 REMARK 3 L13: 0.3012 L23: 0.7585 REMARK 3 S TENSOR REMARK 3 S11: -0.0142 S12: -0.0032 S13: 0.3216 REMARK 3 S21: -0.1677 S22: -0.0314 S23: 0.0659 REMARK 3 S31: -0.2146 S32: -0.0229 S33: 0.0455 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): 81.6720 -33.9736 -5.1529 REMARK 3 T TENSOR REMARK 3 T11: 0.1024 T22: 0.1153 REMARK 3 T33: 0.1870 T12: 0.0357 REMARK 3 T13: 0.0105 T23: -0.0105 REMARK 3 L TENSOR REMARK 3 L11: 3.0744 L22: 0.1693 REMARK 3 L33: 0.3303 L12: -0.3494 REMARK 3 L13: -0.0929 L23: 0.0832 REMARK 3 S TENSOR REMARK 3 S11: 0.1010 S12: -0.0138 S13: 0.1458 REMARK 3 S21: -0.1111 S22: -0.0490 S23: -0.0578 REMARK 3 S31: -0.1079 S32: 0.0363 S33: -0.0520 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. U VALUES WITH TLS ADDED REMARK 4 REMARK 4 4BW9 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_1290057519. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18610 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 8.400 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.60 REMARK 200 R MERGE FOR SHELL (I) : 0.70000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.600 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 1Q7E 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 23.22467 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 46.44933 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 23.22467 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 46.44933 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: 10290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.6 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 158.61300 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -91.57526 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 SER A 209 REMARK 465 LEU A 210 REMARK 465 ASN A 211 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 GLU A 207 CG CD OE1 OE2 REMARK 470 ASP A 281 CG OD1 OD2 REMARK 470 GLU A 283 CG CD OE1 OE2 REMARK 470 LYS A 286 CG CD CE NZ REMARK 470 LYS A 293 CG CD CE NZ REMARK 470 LYS A 336 CG CD CE NZ REMARK 470 LYS A 435 CG CD 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 237 -85.86 -114.96 REMARK 500 ASP A 292 -165.76 -111.54 REMARK 500 ASP A 414 43.17 -145.11 REMARK 500 ASN A 453 73.85 -101.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 1PE A 1455 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 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 396 OE2 REMARK 620 2 SER A 399 OG 86.6 REMARK 620 3 ANP A 900 O1A 81.1 91.5 REMARK 620 4 ANP A 900 O1B 89.5 174.2 83.5 REMARK 620 5 HOH A2035 O 98.6 86.1 177.7 98.8 REMARK 620 6 HOH A2036 O 169.5 83.8 94.7 99.6 85.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ANP A 900 O2G REMARK 620 2 ANP A 900 O2B 82.2 REMARK 620 3 HOH A2017 O 167.9 85.9 REMARK 620 4 HOH A2018 O 103.7 174.0 88.2 REMARK 620 5 HOH A2024 O 95.9 95.4 83.2 83.2 REMARK 620 6 HOH A2043 O 93.8 86.4 87.5 94.0 170.3 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ANP A 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1PE A 1455 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1456 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1457 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1458 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 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: 4BWA RELATED DB: PDB REMARK 900 PYLRS Y306G, Y384F, I405R MUTANT IN COMPLEX WITH ADENYLATED REMARK 900 NORBORNENE DBREF 4BW9 A 185 454 UNP Q8PWY1 PYLS_METMA 185 454 SEQADV 4BW9 MET A 164 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 GLY A 165 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 SER A 166 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 SER A 167 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 HIS A 168 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 HIS A 169 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 HIS A 170 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 HIS A 171 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 HIS A 172 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 HIS A 173 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 SER A 174 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 SER A 175 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 GLY A 176 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 LEU A 177 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 VAL A 178 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 PRO A 179 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 ARG A 180 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 GLY A 181 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 SER A 182 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 HIS A 183 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 MET A 184 UNP Q8PWY1 EXPRESSION TAG SEQADV 4BW9 GLY A 306 UNP Q8PWY1 TYR 306 ENGINEERED MUTATION SEQADV 4BW9 PHE A 384 UNP Q8PWY1 TYR 384 ENGINEERED MUTATION SEQADV 4BW9 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 A 501 1 HET MG A 502 1 HET ANP A 900 31 HET 1PE A1455 13 HET EDO A1456 4 HET EDO A1457 4 HET EDO A1458 4 HET EDO A1459 4 HETNAM MG MAGNESIUM ION HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM 1PE PENTAETHYLENE GLYCOL HETNAM EDO 1,2-ETHANEDIOL HETSYN 1PE PEG400 HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MG 2(MG 2+) FORMUL 4 ANP C10 H17 N6 O12 P3 FORMUL 5 1PE C10 H22 O6 FORMUL 6 EDO 4(C2 H6 O2) FORMUL 10 HOH *44(H2 O) HELIX 1 1 THR A 191 LEU A 202 1 12 HELIX 2 2 PRO A 215 GLU A 237 1 23 HELIX 3 3 ASN A 241 ARG A 257 1 17 HELIX 4 4 LEU A 270 MET A 276 1 7 HELIX 5 5 THR A 282 GLN A 287 1 6 HELIX 6 6 LEU A 301 ASP A 313 1 13 HELIX 7 7 THR A 355 GLY A 371 1 17 HELIX 8 8 ARG A 405 GLY A 412 5 8 HELIX 9 9 LEU A 424 HIS A 432 1 9 HELIX 10 10 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 GLY A 385 HIS A 392 -1 O LEU A 388 N ALA A 400 SHEET 7 AA 7 LYS A 375 CYS A 381 -1 O LYS A 375 N MET A 391 SHEET 1 AB 3 LEU A 267 PRO A 269 0 SHEET 2 AB 3 PHE A 295 LEU A 297 -1 O CYS A 296 N ILE A 268 SHEET 3 AB 3 PHE A 289 ARG A 290 -1 O PHE A 289 N LEU A 297 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 A 501 1555 1555 2.26 LINK OG SER A 399 MG MG A 501 1555 1555 2.15 LINK MG MG A 501 O1A ANP A 900 1555 1555 2.02 LINK MG MG A 501 O1B ANP A 900 1555 1555 1.80 LINK MG MG A 501 O HOH A2035 1555 1555 2.03 LINK MG MG A 501 O HOH A2036 1555 1555 2.03 LINK MG MG A 502 O2G ANP A 900 1555 1555 1.77 LINK MG MG A 502 O2B ANP A 900 1555 1555 2.09 LINK MG MG A 502 O HOH A2017 1555 1555 2.05 LINK MG MG A 502 O HOH A2018 1555 1555 2.09 LINK MG MG A 502 O HOH A2024 1555 1555 2.05 LINK MG MG A 502 O HOH A2043 1555 1555 2.16 CISPEP 1 ASP A 318 PRO A 319 0 -0.92 CISPEP 2 GLY A 403 PRO A 404 0 3.15 SITE 1 AC1 5 GLU A 396 SER A 399 ANP A 900 HOH A2035 SITE 2 AC1 5 HOH A2036 SITE 1 AC2 5 ANP A 900 HOH A2017 HOH A2018 HOH A2024 SITE 2 AC2 5 HOH A2043 SITE 1 AC3 24 ARG A 330 GLU A 332 HIS A 338 LEU A 339 SITE 2 AC3 24 PHE A 342 MET A 344 GLU A 396 LEU A 397 SITE 3 AC3 24 SER A 398 SER A 399 GLY A 423 ARG A 426 SITE 4 AC3 24 MG A 501 MG A 502 EDO A1458 EDO A1459 SITE 5 AC3 24 HOH A2017 HOH A2018 HOH A2024 HOH A2035 SITE 6 AC3 24 HOH A2036 HOH A2037 HOH A2043 HOH A2044 SITE 1 AC4 3 MET A 300 ALA A 302 ASN A 346 SITE 1 AC5 5 TYR A 242 GLU A 249 LEU A 428 LYS A 431 SITE 2 AC5 5 HIS A 432 SITE 1 AC6 7 ASN A 241 ARG A 439 ALA A 440 ALA A 441 SITE 2 AC6 7 TYR A 446 ASN A 448 GLY A 449 SITE 1 AC7 5 ASP A 379 ASP A 389 GLU A 396 ANP A 900 SITE 2 AC7 5 HOH A2035 SITE 1 AC8 5 HIS A 338 ASP A 394 GLU A 396 ARG A 426 SITE 2 AC8 5 ANP A 900 CRYST1 105.742 105.742 69.674 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 0.009457 0.005460 0.000000 0.00000 SCALE2 0.000000 0.010920 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014353 0.00000