HEADER HYDROLASE 20-SEP-14 4RE0 TITLE CRYSTAL STRUCTURE OF VMOLAC IN P622 SPACE GROUP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PARATHION HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VULCANISAETA MOUTNOVSKIA; SOURCE 3 ORGANISM_TAXID: 985053; SOURCE 4 STRAIN: 768-28; SOURCE 5 GENE: VMUT_2255; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LACTONASE, QUORUM SENSING, PARATHION HYDROLASE, ARYLDIALKYLESTERASE, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.HIBLOT,J.BZDRENGA,C.CHAMPION,G.GOTTHARD,D.GONZALEZ,E.CHABRIERE, AUTHOR 2 M.ELIAS REVDAT 1 25-FEB-15 4RE0 0 JRNL AUTH J.HIBLOT,J.BZDRENGA,C.CHAMPION,E.CHABRIERE,M.ELIAS JRNL TITL CRYSTAL STRUCTURE OF VMOLAC, A TENTATIVE QUORUM QUENCHING JRNL TITL 2 LACTONASE FROM THE EXTREMOPHILIC CRENARCHAEON VULCANISAETA JRNL TITL 3 MOUTNOVSKIA. JRNL REF SCI REP V. 5 8372 2015 JRNL REFN ESSN 2045-2322 JRNL PMID 25670483 JRNL DOI 10.1038/SREP08372 REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON 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) : 46.08 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 27274 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) : 0.141 REMARK 3 R VALUE (WORKING SET) : 0.140 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1435 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) : 1966 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2250 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.2740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2492 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 288 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.00000 REMARK 3 B22 (A**2) : -0.00000 REMARK 3 B33 (A**2) : 0.01000 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): 0.143 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.132 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.081 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.432 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2636 ; 0.024 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2598 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3569 ; 2.242 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5970 ; 0.962 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 325 ; 6.647 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 118 ;31.195 ;23.051 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 458 ;15.544 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;18.229 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 411 ; 0.127 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2901 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 600 ; 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): 1267 ; 2.935 ; 2.936 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1266 ; 2.923 ; 2.930 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1585 ; 3.973 ; 4.387 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1586 ; 4.010 ; 4.391 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1367 ; 5.390 ; 3.518 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1360 ; 5.204 ; 3.497 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1966 ; 7.503 ; 4.975 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3262 ; 9.629 ;25.742 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3127 ; 9.501 ;24.923 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 : NULL 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 4RE0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-SEP-14. REMARK 100 THE RCSB ID CODE IS RCSB087228. 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 : 8.5 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) : 0.95373 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28744 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 46.080 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN CONCENTRATION 20MG/ML, 100 MM REMARK 280 TRIS, PH 8.5, 1.5 M AMMONIUM SULPHATE, 12 % V/V GLYCEROL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 42.13333 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 84.26667 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 63.20000 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 105.33333 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 21.06667 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 42.13333 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 84.26667 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 105.33333 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 63.20000 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 21.06667 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: 7050 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -124.0 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 0.500000 0.866025 0.000000 67.33500 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -116.62764 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 21.06667 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 576 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 713 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 718 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 711 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 558 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 758 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 582 LIES ON A SPECIAL POSITION. 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 GLY A 0 REMARK 465 ARG A 315 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O1 MYR A 407 O HOH A 788 1.63 REMARK 500 O HOH A 685 O HOH A 773 1.96 REMARK 500 NH2 ARG A 184 O HOH A 700 1.97 REMARK 500 O HOH A 676 O HOH A 759 2.00 REMARK 500 CB SER A 179 O HOH A 774 2.09 REMARK 500 O HOH A 561 O HOH A 775 2.09 REMARK 500 NH1 ARG A 309 O HOH A 771 2.11 REMARK 500 NH1 ARG A 289 O HOH A 709 2.15 REMARK 500 O HOH A 642 O HOH A 652 2.18 REMARK 500 O HOH A 585 O HOH A 783 2.18 REMARK 500 NH2 ARG A 49 OG1 THR A 261 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 755 O HOH A 773 12545 2.06 REMARK 500 O HOH A 676 O HOH A 770 12545 2.07 REMARK 500 O HOH A 570 O HOH A 726 8555 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 268 CD GLU A 268 OE1 0.092 REMARK 500 GLU A 298 CD GLU A 298 OE1 0.074 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 ARG A 78 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ASP A 113 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 155 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP A 228 CB - CG - OD1 ANGL. DEV. = -8.2 DEGREES REMARK 500 ARG A 246 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 289 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 306 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG A 309 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 310 NE - CZ - NH1 ANGL. DEV. = -3.0 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 THR A 101 -63.29 -141.49 REMARK 500 ILE A 125 -51.87 -121.43 REMARK 500 ASP A 142 -145.56 -137.14 REMARK 500 ASN A 176 -159.23 -139.68 REMARK 500 TYR A 230 -74.59 99.14 REMARK 500 ILE A 305 -55.33 -124.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 776 DISTANCE = 5.51 ANGSTROMS 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 CO A 401 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 788 O REMARK 620 2 HIS A 25 NE2 151.3 REMARK 620 3 MYR A 407 O1 45.4 106.5 REMARK 620 4 ASP A 257 OD1 87.1 86.9 89.9 REMARK 620 5 HIS A 23 NE2 90.0 117.4 135.3 85.0 REMARK 620 6 KCX A 138 OQ1 91.9 91.7 86.0 175.1 99.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO A 402 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 788 O REMARK 620 2 HIS A 171 ND1 158.1 REMARK 620 3 MYR A 407 O2 76.6 90.1 REMARK 620 4 HIS A 200 NE2 85.3 87.3 122.1 REMARK 620 5 KCX A 138 OQ2 89.2 112.1 113.5 120.9 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYR A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 409 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4RDY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CMOLAC BOUND TO 3-OXO-C10 AHL REMARK 900 RELATED ID: 4RDZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VMOLAC IN P64 SPACE GROUP DBREF 4RE0 A 1 315 UNP F0QXN6 F0QXN6_VULM7 1 315 SEQADV 4RE0 GLY A 0 UNP F0QXN6 EXPRESSION TAG SEQRES 1 A 316 GLY MET VAL ARG ILE SER ILE ALA GLY GLY ASN GLU ILE SEQRES 2 A 316 ASP PRO GLY SER MET GLY LEU THR LEU PHE HIS GLU HIS SEQRES 3 A 316 LEU ARG LEU ILE THR GLU VAL VAL ARG TRP ASN TRP PRO SEQRES 4 A 316 HIS LEU TYR ASN GLU ASP GLU GLU LEU LYS ARG ALA ILE SEQRES 5 A 316 ASP ALA VAL ASN ALA ALA LYS LYS TYR GLY VAL LYS THR SEQRES 6 A 316 ILE ILE ASP LEU THR VAL ALA GLY ILE GLY CYS ASP VAL SEQRES 7 A 316 ARG PHE ASN GLU LYS VAL ALA LYS ALA THR GLY VAL ASN SEQRES 8 A 316 ILE ILE MET GLY THR GLY PHE TYR THR TYR THR GLU ILE SEQRES 9 A 316 PRO PHE TYR PHE LYS ASN ARG GLY ILE ASP SER LEU VAL SEQRES 10 A 316 ASP ALA PHE VAL HIS ASP ILE THR ILE GLY ILE GLN GLY SEQRES 11 A 316 THR ASN THR ARG ALA ALA PHE VAL KCX ALA VAL ILE ASP SEQRES 12 A 316 SER SER GLY LEU THR LYS ASP VAL GLU MET ALA ILE ARG SEQRES 13 A 316 ALA ALA ALA LYS ALA HIS ILE LYS THR ASP VAL PRO ILE SEQRES 14 A 316 ILE THR HIS SER PHE VAL GLY ASN LYS SER SER LEU ASP SEQRES 15 A 316 LEU ILE ARG ILE PHE LYS GLU GLU GLY VAL ASP LEU ALA SEQRES 16 A 316 ARG THR VAL ILE GLY HIS VAL GLY ASP THR ASP ASP ILE SEQRES 17 A 316 SER PHE ILE GLU GLN ILE LEU ARG GLU GLY ALA PHE ILE SEQRES 18 A 316 GLY LEU ASP ARG PHE GLY LEU ASP ILE TYR LEU PRO LEU SEQRES 19 A 316 ASP LYS ARG VAL LYS THR ALA ILE GLU LEU ILE LYS ARG SEQRES 20 A 316 GLY TRP ILE ASP GLN LEU LEU LEU SER HIS ASP TYR CYS SEQRES 21 A 316 PRO THR ILE ASP TRP TYR PRO PRO GLU VAL VAL ARG SER SEQRES 22 A 316 THR VAL PRO ASP TRP THR MET THR LEU ILE PHE GLU LYS SEQRES 23 A 316 VAL ILE PRO ARG MET ARG SER GLU GLY ILE THR GLU GLU SEQRES 24 A 316 GLN ILE ASN ARG VAL LEU ILE ASP ASN PRO ARG ARG LEU SEQRES 25 A 316 PHE THR GLY ARG MODRES 4RE0 KCX A 138 LYS LYSINE NZ-CARBOXYLIC ACID HET KCX A 138 12 HET CO A 401 1 HET CO A 402 1 HET GOL A 403 6 HET GOL A 404 6 HET GOL A 405 6 HET GOL A 406 6 HET MYR A 407 16 HET SO4 A 408 5 HET SO4 A 409 5 HETNAM KCX LYSINE NZ-CARBOXYLIC ACID HETNAM CO COBALT (II) ION HETNAM GOL GLYCEROL HETNAM MYR MYRISTIC ACID HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 KCX C7 H14 N2 O4 FORMUL 2 CO 2(CO 2+) FORMUL 4 GOL 4(C3 H8 O3) FORMUL 8 MYR C14 H28 O2 FORMUL 9 SO4 2(O4 S 2-) FORMUL 11 HOH *288(H2 O) HELIX 1 1 ASP A 13 MET A 17 5 5 HELIX 2 2 THR A 30 TRP A 37 1 8 HELIX 3 3 PRO A 38 TYR A 41 5 4 HELIX 4 4 ASN A 42 TYR A 60 1 19 HELIX 5 5 ASP A 76 GLY A 88 1 13 HELIX 6 6 PRO A 104 GLY A 111 1 8 HELIX 7 7 GLY A 111 ILE A 125 1 15 HELIX 8 8 GLY A 126 THR A 130 5 5 HELIX 9 9 THR A 147 ASP A 165 1 19 HELIX 10 10 LYS A 177 GLU A 189 1 13 HELIX 11 11 ASP A 192 ALA A 194 5 3 HELIX 12 12 HIS A 200 THR A 204 5 5 HELIX 13 13 ASP A 206 ARG A 215 1 10 HELIX 14 14 PRO A 232 ARG A 246 1 15 HELIX 15 15 TRP A 248 ASP A 250 5 3 HELIX 16 16 PRO A 266 VAL A 274 1 9 HELIX 17 17 THR A 280 LYS A 285 1 6 HELIX 18 18 LYS A 285 GLU A 293 1 9 HELIX 19 19 THR A 296 ILE A 305 1 10 HELIX 20 20 ILE A 305 PHE A 312 1 8 SHEET 1 A 2 ILE A 4 SER A 5 0 SHEET 2 A 2 GLU A 11 ILE A 12 -1 O ILE A 12 N ILE A 4 SHEET 1 B 3 THR A 20 GLU A 24 0 SHEET 2 B 3 THR A 64 ASP A 67 1 O ILE A 66 N LEU A 21 SHEET 3 B 3 ASN A 90 ILE A 92 1 O ASN A 90 N ILE A 65 SHEET 1 C 6 THR A 95 GLY A 96 0 SHEET 2 C 6 VAL A 137 VAL A 140 1 SHEET 3 C 6 ILE A 168 HIS A 171 1 O ILE A 169 N VAL A 137 SHEET 4 C 6 THR A 196 ILE A 198 1 O VAL A 197 N ILE A 168 SHEET 5 C 6 PHE A 219 LEU A 222 1 O PHE A 219 N ILE A 198 SHEET 6 C 6 LEU A 252 LEU A 254 1 O LEU A 253 N LEU A 222 LINK CO CO A 401 O HOH A 788 1555 1555 1.95 LINK CO CO A 402 O HOH A 788 1555 1555 2.12 LINK ND1 HIS A 171 CO CO A 402 1555 1555 2.14 LINK NE2 HIS A 25 CO CO A 401 1555 1555 2.16 LINK CO CO A 402 O2 MYR A 407 1555 1555 2.18 LINK NE2 HIS A 200 CO CO A 402 1555 1555 2.19 LINK CO CO A 401 O1 MYR A 407 1555 1555 2.22 LINK OD1 ASP A 257 CO CO A 401 1555 1555 2.26 LINK NE2 HIS A 23 CO CO A 401 1555 1555 2.30 LINK C VAL A 137 N KCX A 138 1555 1555 1.34 LINK C KCX A 138 N ALA A 139 1555 1555 1.33 LINK OQ2 KCX A 138 CO CO A 402 1555 1555 2.07 LINK OQ1 KCX A 138 CO CO A 401 1555 1555 2.11 SITE 1 AC1 6 HIS A 23 HIS A 25 ASP A 257 CO A 402 SITE 2 AC1 6 MYR A 407 HOH A 788 SITE 1 AC2 5 HIS A 171 HIS A 200 CO A 401 MYR A 407 SITE 2 AC2 5 HOH A 788 SITE 1 AC3 3 PHE A 173 ASP A 203 TYR A 230 SITE 1 AC4 5 PHE A 105 LYS A 108 ASN A 109 TYR A 265 SITE 2 AC4 5 HOH A 762 SITE 1 AC5 1 TRP A 248 SITE 1 AC6 3 LYS A 177 ASP A 234 ARG A 289 SITE 1 AC7 11 HIS A 25 TYR A 98 HIS A 171 ARG A 224 SITE 2 AC7 11 ASP A 257 TYR A 265 THR A 273 CO A 401 SITE 3 AC7 11 CO A 402 HOH A 772 HOH A 788 SITE 1 AC8 3 SER A 208 GLU A 211 ARG A 215 SITE 1 AC9 7 HIS A 161 ILE A 162 GLY A 190 VAL A 191 SITE 2 AC9 7 ASP A 192 HOH A 642 HOH A 652 CRYST1 134.670 134.670 126.400 90.00 90.00 120.00 P 61 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 0.007426 0.004287 0.000000 0.00000 SCALE2 0.000000 0.008574 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007911 0.00000