HEADER HYDROLASE 16-APR-09 2WG8 TITLE STRUCTURE OF ORYZA SATIVA (RICE) PLA2, ORTHORHOMBIC CRYSTAL FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE PHOSPHOLIPASE A2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PLA2; COMPND 5 EC: 3.1.1.4; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PUTATIVE PHOSPHOLIPASE A2; COMPND 9 CHAIN: B, C; COMPND 10 SYNONYM: PLA2; COMPND 11 EC: 3.1.1.4; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYZA SATIVA; SOURCE 3 ORGANISM_COMMON: RICE; SOURCE 4 ORGANISM_TAXID: 4530; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: TUNER DE3; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: ORYZA SATIVA; SOURCE 10 ORGANISM_COMMON: RICE; SOURCE 11 ORGANISM_TAXID: 4530; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 14 EXPRESSION_SYSTEM_STRAIN: TUNER DE3 KEYWDS HYDROLASE, SECRETORY PLA2 EXPDTA X-RAY DIFFRACTION AUTHOR J.E.GUY,U.STAHL,Y.LINDQVIST REVDAT 5 08-MAY-19 2WG8 1 REMARK REVDAT 4 06-MAR-19 2WG8 1 REMARK REVDAT 3 13-JUL-11 2WG8 1 VERSN REVDAT 2 21-JUL-09 2WG8 1 JRNL REVDAT 1 02-JUN-09 2WG8 0 JRNL AUTH J.E.GUY,U.STAHL,Y.LINDQVIST JRNL TITL CRYSTAL STRUCTURE OF A CLASS XIB PHOSPHOLIPASE A2 (PLA2): JRNL TITL 2 RICE (ORYZA SATIVA) ISOFORM-2 PLA2 AND AN OCTANOATE COMPLEX. JRNL REF J.BIOL.CHEM. V. 284 19371 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19457861 JRNL DOI 10.1074/JBC.M109.008466 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 15584 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) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 846 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1091 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.78 REMARK 3 BIN R VALUE (WORKING SET) : 0.2060 REMARK 3 BIN FREE R VALUE SET COUNT : 55 REMARK 3 BIN FREE R VALUE : 0.2370 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2459 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 206 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.60000 REMARK 3 B22 (A**2) : -0.09000 REMARK 3 B33 (A**2) : 0.70000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.337 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.243 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.152 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.555 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.891 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2538 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3456 ; 1.195 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 335 ; 4.973 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 108 ;31.581 ;24.352 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 405 ;13.209 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;10.666 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 394 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1914 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1235 ; 0.189 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1782 ; 0.292 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 154 ; 0.141 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 8 ; 0.131 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 78 ; 0.192 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.147 ; 0.200 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): 1644 ; 0.394 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2640 ; 0.755 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 906 ; 1.296 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 812 ; 2.092 ; 4.500 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 : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 15 A 119 5 REMARK 3 1 B 15 B 119 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 412 ; 0.20 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 B (A): 412 ; 0.20 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 A (A): 358 ; 0.46 ; 5.00 REMARK 3 LOOSE POSITIONAL 1 B (A): 358 ; 0.46 ; 5.00 REMARK 3 MEDIUM THERMAL 1 A (A**2): 412 ; 0.49 ; 2.00 REMARK 3 MEDIUM THERMAL 1 B (A**2): 412 ; 0.49 ; 2.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 358 ; 1.16 ; 10.00 REMARK 3 LOOSE THERMAL 1 B (A**2): 358 ; 1.16 ; 10.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 17 A 119 6 REMARK 3 1 C 17 C 119 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 2 A (A): 770 ; 0.45 ; 5.00 REMARK 3 LOOSE POSITIONAL 2 C (A): 770 ; 0.45 ; 5.00 REMARK 3 LOOSE THERMAL 2 A (A**2): 770 ; 2.00 ; 10.00 REMARK 3 LOOSE THERMAL 2 C (A**2): 770 ; 2.00 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 15 A 122 REMARK 3 RESIDUE RANGE : A 201 A 201 REMARK 3 ORIGIN FOR THE GROUP (A): -16.8663 6.3797 -20.3666 REMARK 3 T TENSOR REMARK 3 T11: -0.1548 T22: -0.1515 REMARK 3 T33: -0.0843 T12: 0.0031 REMARK 3 T13: -0.0075 T23: 0.0006 REMARK 3 L TENSOR REMARK 3 L11: 3.8205 L22: 2.7515 REMARK 3 L33: 2.5912 L12: -0.3899 REMARK 3 L13: -0.7024 L23: -0.9733 REMARK 3 S TENSOR REMARK 3 S11: 0.0523 S12: 0.0897 S13: 0.1061 REMARK 3 S21: -0.1084 S22: -0.0183 S23: -0.0651 REMARK 3 S31: 0.0283 S32: 0.2546 S33: -0.0341 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 7 REMARK 3 RESIDUE RANGE : B 14 B 121 REMARK 3 RESIDUE RANGE : B 201 B 201 REMARK 3 ORIGIN FOR THE GROUP (A): -25.4751 25.5468 -25.4951 REMARK 3 T TENSOR REMARK 3 T11: -0.0901 T22: -0.1106 REMARK 3 T33: -0.0701 T12: 0.0130 REMARK 3 T13: 0.0108 T23: 0.0647 REMARK 3 L TENSOR REMARK 3 L11: 2.6507 L22: 4.0968 REMARK 3 L33: 1.9721 L12: -0.5105 REMARK 3 L13: -0.9174 L23: 1.0269 REMARK 3 S TENSOR REMARK 3 S11: 0.0275 S12: 0.4177 S13: 0.1407 REMARK 3 S21: -0.3755 S22: -0.0210 S23: -0.1916 REMARK 3 S31: -0.0865 S32: 0.0463 S33: -0.0064 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 : C 15 C 121 REMARK 3 ORIGIN FOR THE GROUP (A): -32.7992 41.7770 -47.8242 REMARK 3 T TENSOR REMARK 3 T11: -0.1209 T22: -0.1345 REMARK 3 T33: -0.0288 T12: -0.0070 REMARK 3 T13: 0.0312 T23: -0.0467 REMARK 3 L TENSOR REMARK 3 L11: 2.6807 L22: 1.2594 REMARK 3 L33: 4.9966 L12: 0.4164 REMARK 3 L13: 0.3524 L23: -0.3569 REMARK 3 S TENSOR REMARK 3 S11: 0.0233 S12: -0.0276 S13: 0.1900 REMARK 3 S21: -0.0051 S22: 0.1018 S23: -0.2736 REMARK 3 S31: 0.1197 S32: 0.5642 S33: -0.1251 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 2WG8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-APR-09. REMARK 100 THE DEPOSITION ID IS D_1290039486. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL 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 : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15584 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.01000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.33000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: P62 CRYSTAL FORM REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VAPOUR DIFFUSION, 20 DEGREES. WELL REMARK 280 CONTAINED 0.75ML OF SOLN A (16-18% PEG3350, 0.1M BISTRISPROPANE REMARK 280 PH 6.5, 0.2M POTASSIUM THIOCYANATE) AND 0.25ML OF SOLN B (0.1M REMARK 280 SODIUM ACETATE PH 4.6, 2M SODIUM CHLORIDE), VAPOR DIFFUSION, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 84.54700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 20.74550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 84.54700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 20.74550 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 0 REMARK 465 LEU A 1 REMARK 465 ASN A 2 REMARK 465 ILE A 3 REMARK 465 GLY A 4 REMARK 465 ASP A 5 REMARK 465 LEU A 6 REMARK 465 LEU A 7 REMARK 465 GLY A 8 REMARK 465 SER A 9 REMARK 465 THR A 10 REMARK 465 PRO A 11 REMARK 465 ALA A 12 REMARK 465 LYS A 13 REMARK 465 ASP A 14 REMARK 465 LYS A 123 REMARK 465 ARG A 124 REMARK 465 ASP A 125 REMARK 465 ASP A 126 REMARK 465 GLY A 127 REMARK 465 GLN A 128 REMARK 465 MET B 0 REMARK 465 SER B 9 REMARK 465 THR B 10 REMARK 465 PRO B 11 REMARK 465 ALA B 12 REMARK 465 LYS B 13 REMARK 465 HIS B 122 REMARK 465 LYS B 123 REMARK 465 ARG B 124 REMARK 465 ASP B 125 REMARK 465 ASP B 126 REMARK 465 GLY B 127 REMARK 465 GLN B 128 REMARK 465 MET C 0 REMARK 465 LEU C 1 REMARK 465 ASN C 2 REMARK 465 ILE C 3 REMARK 465 GLY C 4 REMARK 465 ASP C 5 REMARK 465 LEU C 6 REMARK 465 LEU C 7 REMARK 465 GLY C 8 REMARK 465 SER C 9 REMARK 465 THR C 10 REMARK 465 PRO C 11 REMARK 465 ALA C 12 REMARK 465 LYS C 13 REMARK 465 ASP C 14 REMARK 465 HIS C 122 REMARK 465 LYS C 123 REMARK 465 ARG C 124 REMARK 465 ASP C 125 REMARK 465 ASP C 126 REMARK 465 GLY C 127 REMARK 465 GLN C 128 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 GLN A 15 CG CD OE1 NE2 REMARK 470 LEU B 1 CG CD1 CD2 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 ALA A 16 39.78 -85.40 REMARK 500 SER B 23 75.74 -160.04 REMARK 500 ASP B 52 -177.84 -172.96 REMARK 500 SER C 23 69.52 -158.40 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 CA A 201 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 39 O REMARK 620 2 TYR A 42 O 92.1 REMARK 620 3 HOH A2026 O 83.5 91.0 REMARK 620 4 TYR A 37 O 109.4 82.7 165.7 REMARK 620 5 ASP A 62 OD1 132.4 132.4 80.5 94.4 REMARK 620 6 ASP A 62 OD2 175.3 92.5 97.5 70.1 43.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 201 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR B 37 O REMARK 620 2 GLY B 39 O 106.2 REMARK 620 3 TYR B 42 O 86.6 81.3 REMARK 620 4 ASP B 62 OD1 107.8 133.3 131.5 REMARK 620 5 ASP B 62 OD2 79.8 169.9 91.0 49.3 REMARK 620 6 HOH B2037 O 170.2 77.3 84.9 74.6 95.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2026 O REMARK 620 2 ARG A 87 O 82.2 REMARK 620 3 HOH B2028 O 113.8 95.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 201 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 62 OD2 REMARK 620 2 GLY C 39 O 161.4 REMARK 620 3 TYR C 37 O 81.7 116.7 REMARK 620 4 TYR C 42 O 90.9 86.3 90.5 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 CA A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WG7 RELATED DB: PDB REMARK 900 STRUCTURE OF ORYZA SATIVA (RICE) PLA2 REMARK 900 RELATED ID: 2WG9 RELATED DB: PDB REMARK 900 STRUCTURE OF ORYZA SATIVA (RICE) PLA2, COMPLEX WITH OCTANOIC ACID REMARK 999 REMARK 999 SEQUENCE REMARK 999 ACCESSION NUMBER PROVIDED BY AUTHOR IS NCBI REMARK 999 REFERENCE NP_001049620.1. THE DEPOSITED SEQUENCE INCLUDES REMARK 999 THE SIGNAL SEQUENCE, OUR CONSTRUCT DOES NOT. DBREF 2WG8 A 0 0 PDB 2WG8 2WG8 0 0 DBREF 2WG8 A 1 128 UNP Q9XG81 Q9XG81_ORYSA 26 153 DBREF 2WG8 B 0 0 PDB 2WG8 2WG8 0 0 DBREF 2WG8 B 1 128 UNP Q9XG81 Q9XG81_ORYSA 26 153 DBREF 2WG8 C 0 0 PDB 2WG8 2WG8 0 0 DBREF 2WG8 C 1 128 UNP Q9XG81 Q9XG81_ORYSA 26 153 SEQADV 2WG8 ALA A 16 UNP Q9XG81 GLY 41 CONFLICT SEQRES 1 A 129 MET LEU ASN ILE GLY ASP LEU LEU GLY SER THR PRO ALA SEQRES 2 A 129 LYS ASP GLN ALA CYS SER ARG THR CYS GLU SER GLN PHE SEQRES 3 A 129 CYS THR ILE ALA PRO LEU LEU ARG TYR GLY LYS TYR CYS SEQRES 4 A 129 GLY ILE LEU TYR SER GLY CYS PRO GLY GLU ARG PRO CYS SEQRES 5 A 129 ASP ALA LEU ASP ALA CYS CYS MET VAL HIS ASP HIS CYS SEQRES 6 A 129 VAL ASP THR HIS ASN ASP ASP TYR LEU ASN THR MET CYS SEQRES 7 A 129 ASN GLU ASN LEU LEU SER CYS ILE ASP ARG VAL SER GLY SEQRES 8 A 129 ALA THR PHE PRO GLY ASN LYS CYS ASN VAL GLY GLN THR SEQRES 9 A 129 ALA SER VAL ILE ARG GLY VAL ILE GLU THR ALA VAL PHE SEQRES 10 A 129 ALA GLY LYS ILE LEU HIS LYS ARG ASP ASP GLY GLN SEQRES 1 B 129 MET LEU ASN ILE GLY ASP LEU LEU GLY SER THR PRO ALA SEQRES 2 B 129 LYS ASP GLN GLY CYS SER ARG THR CYS GLU SER GLN PHE SEQRES 3 B 129 CYS THR ILE ALA PRO LEU LEU ARG TYR GLY LYS TYR CYS SEQRES 4 B 129 GLY ILE LEU TYR SER GLY CYS PRO GLY GLU ARG PRO CYS SEQRES 5 B 129 ASP ALA LEU ASP ALA CYS CYS MET VAL HIS ASP HIS CYS SEQRES 6 B 129 VAL ASP THR HIS ASN ASP ASP TYR LEU ASN THR MET CYS SEQRES 7 B 129 ASN GLU ASN LEU LEU SER CYS ILE ASP ARG VAL SER GLY SEQRES 8 B 129 ALA THR PHE PRO GLY ASN LYS CYS ASN VAL GLY GLN THR SEQRES 9 B 129 ALA SER VAL ILE ARG GLY VAL ILE GLU THR ALA VAL PHE SEQRES 10 B 129 ALA GLY LYS ILE LEU HIS LYS ARG ASP ASP GLY GLN SEQRES 1 C 129 MET LEU ASN ILE GLY ASP LEU LEU GLY SER THR PRO ALA SEQRES 2 C 129 LYS ASP GLN GLY CYS SER ARG THR CYS GLU SER GLN PHE SEQRES 3 C 129 CYS THR ILE ALA PRO LEU LEU ARG TYR GLY LYS TYR CYS SEQRES 4 C 129 GLY ILE LEU TYR SER GLY CYS PRO GLY GLU ARG PRO CYS SEQRES 5 C 129 ASP ALA LEU ASP ALA CYS CYS MET VAL HIS ASP HIS CYS SEQRES 6 C 129 VAL ASP THR HIS ASN ASP ASP TYR LEU ASN THR MET CYS SEQRES 7 C 129 ASN GLU ASN LEU LEU SER CYS ILE ASP ARG VAL SER GLY SEQRES 8 C 129 ALA THR PHE PRO GLY ASN LYS CYS ASN VAL GLY GLN THR SEQRES 9 C 129 ALA SER VAL ILE ARG GLY VAL ILE GLU THR ALA VAL PHE SEQRES 10 C 129 ALA GLY LYS ILE LEU HIS LYS ARG ASP ASP GLY GLN HET CA A 201 1 HET CA B 201 1 HET NA B 202 1 HET CA C 201 1 HETNAM CA CALCIUM ION HETNAM NA SODIUM ION FORMUL 4 CA 3(CA 2+) FORMUL 6 NA NA 1+ FORMUL 8 HOH *206(H2 O) HELIX 1 1 ASP A 52 THR A 67 1 16 HELIX 2 2 ASN A 74 ASP A 86 1 13 HELIX 3 3 ASN A 99 HIS A 122 1 24 HELIX 4 4 ASN B 2 LEU B 7 5 6 HELIX 5 5 ASP B 52 THR B 67 1 16 HELIX 6 6 ASN B 74 ARG B 87 1 14 HELIX 7 7 ASN B 99 LEU B 121 1 23 HELIX 8 8 ASP C 52 HIS C 68 1 17 HELIX 9 9 ASN C 74 ASP C 86 1 13 HELIX 10 10 ASN C 99 LEU C 121 1 23 SHEET 1 AA 2 GLU A 22 GLN A 24 0 SHEET 2 AA 2 ARG A 33 GLY A 35 -1 O ARG A 33 N GLN A 24 SHEET 1 BA 2 GLU B 22 GLN B 24 0 SHEET 2 BA 2 ARG B 33 GLY B 35 -1 O ARG B 33 N GLN B 24 SHEET 1 CA 2 GLU C 22 GLN C 24 0 SHEET 2 CA 2 ARG C 33 GLY C 35 -1 O ARG C 33 N GLN C 24 SSBOND 1 CYS A 17 CYS A 45 1555 1555 2.04 SSBOND 2 CYS A 21 CYS A 51 1555 1555 2.05 SSBOND 3 CYS A 26 CYS A 98 1555 1555 2.03 SSBOND 4 CYS A 38 CYS A 58 1555 1555 2.05 SSBOND 5 CYS A 57 CYS A 84 1555 1555 2.02 SSBOND 6 CYS A 64 CYS A 77 1555 1555 2.06 SSBOND 7 CYS B 17 CYS B 45 1555 1555 2.05 SSBOND 8 CYS B 21 CYS B 51 1555 1555 2.03 SSBOND 9 CYS B 26 CYS B 98 1555 1555 2.03 SSBOND 10 CYS B 38 CYS B 58 1555 1555 2.03 SSBOND 11 CYS B 57 CYS B 84 1555 1555 2.03 SSBOND 12 CYS B 64 CYS B 77 1555 1555 2.04 SSBOND 13 CYS C 17 CYS C 45 1555 1555 2.06 SSBOND 14 CYS C 21 CYS C 51 1555 1555 2.05 SSBOND 15 CYS C 26 CYS C 98 1555 1555 2.03 SSBOND 16 CYS C 38 CYS C 58 1555 1555 2.05 SSBOND 17 CYS C 57 CYS C 84 1555 1555 2.06 SSBOND 18 CYS C 64 CYS C 77 1555 1555 2.05 LINK CA CA A 201 O GLY A 39 1555 1555 2.43 LINK CA CA A 201 O TYR A 42 1555 1555 2.22 LINK CA CA A 201 O HOH A2026 1555 1555 2.70 LINK CA CA A 201 O TYR A 37 1555 1555 2.41 LINK CA CA A 201 OD1 ASP A 62 1555 1555 3.06 LINK CA CA A 201 OD2 ASP A 62 1555 1555 2.75 LINK CA CA B 201 O TYR B 37 1555 1555 2.25 LINK CA CA B 201 O GLY B 39 1555 1555 2.56 LINK CA CA B 201 O TYR B 42 1555 1555 2.21 LINK CA CA B 201 OD1 ASP B 62 1555 1555 2.58 LINK CA CA B 201 OD2 ASP B 62 1555 1555 2.70 LINK CA CA B 201 O HOH B2037 1555 1555 2.57 LINK NA NA B 202 O HOH B2026 1555 1555 2.45 LINK NA NA B 202 O ARG A 87 1555 1555 2.37 LINK NA NA B 202 O HOH B2028 1555 1555 2.31 LINK CA CA C 201 OD2 ASP C 62 1555 1555 2.91 LINK CA CA C 201 O GLY C 39 1555 1555 2.45 LINK CA CA C 201 O TYR C 37 1555 1555 2.41 LINK CA CA C 201 O TYR C 42 1555 1555 2.32 SITE 1 AC1 5 TYR A 37 GLY A 39 TYR A 42 ASP A 62 SITE 2 AC1 5 HOH A2026 SITE 1 AC2 5 TYR B 37 GLY B 39 TYR B 42 ASP B 62 SITE 2 AC2 5 HOH B2037 SITE 1 AC3 4 ARG A 87 SER A 89 HOH B2026 HOH B2028 SITE 1 AC4 4 TYR C 37 GLY C 39 TYR C 42 ASP C 62 CRYST1 169.094 41.491 53.124 90.00 90.00 90.00 P 21 21 2 8 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 0.005914 0.000000 0.000000 0.00000 SCALE2 0.000000 0.024102 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018824 0.00000