HEADER HYDROLASE 19-SEP-06 2J5S TITLE STRUCTURAL OF ABDH, A BETA-DIKETONE HYDROLASE FROM THE CYANOBACTERIUM TITLE 2 ANABAENA SP. PCC 7120 BOUND TO (S)-3-OXOCYCLOHEXYL ACETIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-DIKETONE HYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.7.1.7; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: PROTEIN WAS CO-CRYSTALLISED WITH SUBSTRATE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ANABAENA SP.; SOURCE 3 ORGANISM_TAXID: 103690; SOURCE 4 STRAIN: PCC 7120; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS ENZYME EVOLUTION, C-C BOND HYDROLASE, HYDROLASE, LYASE, CROTONASE, KEYWDS 2 BIOCATALYSIS, BETA-DIKETONE EXPDTA X-RAY DIFFRACTION AUTHOR J.P.BENNETT,J.L.WHITTINGHAM,A.M.BRZOZOWSKI,P.M.LEONARD,G.GROGAN REVDAT 3 13-DEC-23 2J5S 1 LINK REVDAT 2 24-FEB-09 2J5S 1 VERSN REVDAT 1 08-JAN-07 2J5S 0 JRNL AUTH J.P.BENNETT,J.L.WHITTINGHAM,A.M.BRZOZOWSKI,P.M.LEONARD, JRNL AUTH 2 G.GROGAN JRNL TITL STRUCTURAL CHARACTERISATION OF A BETA DIKETONE HYDROLASE JRNL TITL 2 FROM THE CYANOBACTERIUM ANABAENA SP. PCC 7120 IN NATIVE AND JRNL TITL 3 PRODUCT BOUND FORMS, A COENZYME A-INDEPENDENT MEMBER OF THE JRNL TITL 4 CROTONASE SUPRAFAMILY JRNL REF BIOCHEMISTRY V. 46 137 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17198383 JRNL DOI 10.1021/BI061900G REMARK 2 REMARK 2 RESOLUTION. 1.57 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) : 1.57 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 60411 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) : 0.140 REMARK 3 R VALUE (WORKING SET) : 0.138 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3228 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) : 1.57 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.61 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3922 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 200 REMARK 3 BIN FREE R VALUE : 0.2710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4016 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 490 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.49000 REMARK 3 B22 (A**2) : 0.49000 REMARK 3 B33 (A**2) : -0.74000 REMARK 3 B12 (A**2) : 0.25000 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): 0.074 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.076 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.045 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.227 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4301 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5884 ; 1.518 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 540 ; 5.986 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 214 ;36.768 ;23.832 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 727 ;11.806 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;14.640 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 655 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3356 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2177 ; 0.226 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2967 ; 0.317 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 405 ; 0.134 ; 0.200 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): 150 ; 0.171 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 55 ; 0.156 ; 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): 2637 ; 0.792 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4193 ; 1.146 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1880 ; 1.755 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1680 ; 2.542 ; 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 : 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 : 1.40 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 2J5S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1290029949. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAY-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07 REMARK 200 MONOCHROMATOR : SILICON (1 1 1) CHANNEL- CUT REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64435 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.570 REMARK 200 RESOLUTION RANGE LOW (A) : 40.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 10.10 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.0400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.57 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.27000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.930 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: PDB ENTRY 1O8U REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS PROPANE PH 7.5, 20% PEG REMARK 280 3350, 0.2 M SODIUM MALONATE, 0.01 M BICYCLO[2.2.2]OCTANE-2,6- REMARK 280 DIONE, PH 7.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 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 0.00000 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 0.00000 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 62.94100 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 62.94100 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 62.94100 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 BIOMT1 2 -0.500000 0.866025 0.000000 40.19350 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 -69.61718 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 -0.866025 0.000000 -40.19350 REMARK 350 BIOMT2 3 0.866025 -0.500000 0.000000 -69.61718 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 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 NI NI A1254 LIES ON A SPECIAL POSITION. REMARK 375 NI NI B1254 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2064 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2222 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2224 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2043 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2107 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2221 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2222 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 MET A -9 REMARK 465 GLY A -8 REMARK 465 SER A -7 REMARK 465 SER A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 MET B -9 REMARK 465 GLY B -8 REMARK 465 SER B -7 REMARK 465 SER B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 LEU B 3 REMARK 465 ASN B 4 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 THR A 253 CA C O CB OG1 CG2 REMARK 470 THR B 253 CA C O CB OG1 CG2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 13 CD REMARK 480 GLU B 7 CG CD OE1 OE2 REMARK 480 LYS B 197 CE NZ REMARK 480 ARG B 251 NH2 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 ND2 ASN B 233 O HOH B 2229 2.13 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 13 CG GLU A 13 CD 0.220 REMARK 500 GLU A 13 CD GLU A 13 OE2 0.396 REMARK 500 ARG B 251 CZ ARG B 251 NH2 0.135 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 GLU A 13 CB - CG - CD ANGL. DEV. = -19.0 DEGREES REMARK 500 LYS B 197 CD - CE - NZ ANGL. DEV. = -17.9 DEGREES REMARK 500 ARG B 251 NE - CZ - NH2 ANGL. DEV. = -3.5 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 TYR A 166 -69.59 -109.25 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 A2008 DISTANCE = 5.87 ANGSTROMS REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 HOH A 2078 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 NI A1254 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2221 O REMARK 620 2 HOH A2221 O 121.9 REMARK 620 3 HOH A2221 O 118.7 118.6 REMARK 620 4 HOH A2222 O 87.4 87.3 86.0 REMARK 620 5 HOH A2222 O 87.4 87.5 85.9 0.2 REMARK 620 6 HOH A2222 O 87.5 87.4 85.8 0.2 0.2 REMARK 620 7 HOH A2224 O 93.7 93.6 91.9 177.9 177.8 177.7 REMARK 620 8 HOH A2224 O 93.6 93.5 92.1 178.1 178.0 177.9 0.2 REMARK 620 9 HOH A2224 O 93.5 93.7 92.0 178.0 177.9 177.8 0.2 0.2 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B1254 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2219 O REMARK 620 2 HOH B2219 O 118.0 REMARK 620 3 HOH B2219 O 121.2 120.0 REMARK 620 4 HOH B2221 O 87.1 86.5 88.1 REMARK 620 5 HOH B2221 O 87.1 86.5 88.0 0.1 REMARK 620 6 HOH B2221 O 87.1 86.6 88.1 0.1 0.1 REMARK 620 7 HOH B2222 O 92.7 91.8 93.7 178.0 178.0 178.0 REMARK 620 8 HOH B2222 O 92.7 92.1 93.5 178.3 178.3 178.3 0.3 REMARK 620 9 HOH B2222 O 92.4 92.1 93.7 178.1 178.1 178.1 0.3 0.3 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A1254 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B1254 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KTA A1253 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KTA B1253 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J5G RELATED DB: PDB REMARK 900 THE NATIVE STRUCTURE OF A BETA-DIKETONE HYDROLASE FROM THE REMARK 900 CYANOBACTERIUM ANABAENA SP. PCC 7120 REMARK 900 RELATED ID: 2J5J RELATED DB: PDB REMARK 900 STRUCTURAL OF ABDH, A BETA-DIKETONE HYDROLASE FROM THE REMARK 900 CYANOBACTERIUM ANABAENA SP. PCC 7120 BOUND TO 3-PROPYL GLUTARIC ACID REMARK 999 REMARK 999 SEQUENCE REMARK 999 SEQUENCE CONTAINS N-TERMINAL CLEAVABLE HIS TAG OF SIX REMARK 999 HISTIDINE RESIDUES. DBREF 2J5S A -9 0 PDB 2J5S 2J5S -9 0 DBREF 2J5S A 1 253 UNP Q8YNV6 Q8YNV6_ANASP 1 253 DBREF 2J5S B -9 0 PDB 2J5S 2J5S -9 0 DBREF 2J5S B 1 253 UNP Q8YNV6 Q8YNV6_ANASP 1 253 SEQRES 1 A 263 MET GLY SER SER HIS HIS HIS HIS HIS HIS MET THR LEU SEQRES 2 A 263 ASN GLN PRO GLU TYR PHE THR LYS TYR GLU ASN LEU HIS SEQRES 3 A 263 PHE HIS ARG ASP GLU ASN GLY ILE LEU GLU VAL ARG MET SEQRES 4 A 263 HIS THR ASN GLY SER SER LEU VAL PHE THR GLY LYS THR SEQRES 5 A 263 HIS ARG GLU PHE PRO ASP ALA PHE TYR ASP ILE SER ARG SEQRES 6 A 263 ASP ARG ASP ASN ARG VAL VAL ILE LEU THR GLY SER GLY SEQRES 7 A 263 ASP ALA TRP MET ALA GLU ILE ASP PHE PRO SER LEU GLY SEQRES 8 A 263 ASP VAL THR ASN PRO ARG GLU TRP ASP LYS THR TYR TRP SEQRES 9 A 263 GLU GLY LYS LYS VAL LEU GLN ASN LEU LEU ASP ILE GLU SEQRES 10 A 263 VAL PRO VAL ILE SER ALA VAL ASN GLY ALA ALA LEU LEU SEQRES 11 A 263 HIS SER GLU TYR ILE LEU THR THR ASP ILE ILE LEU ALA SEQRES 12 A 263 SER GLU ASN THR VAL PHE GLN ASP MET PRO HIS LEU ASN SEQRES 13 A 263 ALA GLY ILE VAL PRO GLY ASP GLY VAL HIS ILE LEU TRP SEQRES 14 A 263 PRO LEU ALA LEU GLY LEU TYR ARG GLY ARG TYR PHE LEU SEQRES 15 A 263 PHE THR GLN GLU LYS LEU THR ALA GLN GLN ALA TYR GLU SEQRES 16 A 263 LEU ASN VAL VAL HIS GLU VAL LEU PRO GLN SER LYS LEU SEQRES 17 A 263 MET GLU ARG ALA TRP GLU ILE ALA ARG THR LEU ALA LYS SEQRES 18 A 263 GLN PRO THR LEU ASN LEU ARG TYR THR ARG VAL ALA LEU SEQRES 19 A 263 THR GLN ARG LEU LYS ARG LEU VAL ASN GLU GLY ILE GLY SEQRES 20 A 263 TYR GLY LEU ALA LEU GLU GLY ILE THR ALA THR ASP LEU SEQRES 21 A 263 ARG ASN THR SEQRES 1 B 263 MET GLY SER SER HIS HIS HIS HIS HIS HIS MET THR LEU SEQRES 2 B 263 ASN GLN PRO GLU TYR PHE THR LYS TYR GLU ASN LEU HIS SEQRES 3 B 263 PHE HIS ARG ASP GLU ASN GLY ILE LEU GLU VAL ARG MET SEQRES 4 B 263 HIS THR ASN GLY SER SER LEU VAL PHE THR GLY LYS THR SEQRES 5 B 263 HIS ARG GLU PHE PRO ASP ALA PHE TYR ASP ILE SER ARG SEQRES 6 B 263 ASP ARG ASP ASN ARG VAL VAL ILE LEU THR GLY SER GLY SEQRES 7 B 263 ASP ALA TRP MET ALA GLU ILE ASP PHE PRO SER LEU GLY SEQRES 8 B 263 ASP VAL THR ASN PRO ARG GLU TRP ASP LYS THR TYR TRP SEQRES 9 B 263 GLU GLY LYS LYS VAL LEU GLN ASN LEU LEU ASP ILE GLU SEQRES 10 B 263 VAL PRO VAL ILE SER ALA VAL ASN GLY ALA ALA LEU LEU SEQRES 11 B 263 HIS SER GLU TYR ILE LEU THR THR ASP ILE ILE LEU ALA SEQRES 12 B 263 SER GLU ASN THR VAL PHE GLN ASP MET PRO HIS LEU ASN SEQRES 13 B 263 ALA GLY ILE VAL PRO GLY ASP GLY VAL HIS ILE LEU TRP SEQRES 14 B 263 PRO LEU ALA LEU GLY LEU TYR ARG GLY ARG TYR PHE LEU SEQRES 15 B 263 PHE THR GLN GLU LYS LEU THR ALA GLN GLN ALA TYR GLU SEQRES 16 B 263 LEU ASN VAL VAL HIS GLU VAL LEU PRO GLN SER LYS LEU SEQRES 17 B 263 MET GLU ARG ALA TRP GLU ILE ALA ARG THR LEU ALA LYS SEQRES 18 B 263 GLN PRO THR LEU ASN LEU ARG TYR THR ARG VAL ALA LEU SEQRES 19 B 263 THR GLN ARG LEU LYS ARG LEU VAL ASN GLU GLY ILE GLY SEQRES 20 B 263 TYR GLY LEU ALA LEU GLU GLY ILE THR ALA THR ASP LEU SEQRES 21 B 263 ARG ASN THR HET KTA A1253 11 HET NI A1254 1 HET KTA B1253 11 HET NI B1254 1 HETNAM KTA (S)-CYCLOHEXANONE-2-ACETATE HETNAM NI NICKEL (II) ION FORMUL 3 KTA 2(C8 H12 O3) FORMUL 4 NI 2(NI 2+) FORMUL 7 HOH *490(H2 O) HELIX 1 1 PRO A 6 LYS A 11 5 6 HELIX 2 2 THR A 39 ASP A 56 1 18 HELIX 3 3 PHE A 77 GLY A 81 5 5 HELIX 4 4 ASN A 85 ASP A 105 1 21 HELIX 5 5 HIS A 121 THR A 128 5 8 HELIX 6 6 MET A 142 GLY A 148 1 7 HELIX 7 7 GLY A 154 GLY A 164 1 11 HELIX 8 8 TYR A 166 THR A 174 1 9 HELIX 9 9 ALA A 180 LEU A 186 1 7 HELIX 10 10 PRO A 194 SER A 196 5 3 HELIX 11 11 LYS A 197 LYS A 211 1 15 HELIX 12 12 PRO A 213 LEU A 250 1 38 HELIX 13 13 PRO B 6 LYS B 11 5 6 HELIX 14 14 THR B 39 ASP B 56 1 18 HELIX 15 15 PHE B 77 GLY B 81 5 5 HELIX 16 16 ASN B 85 ASP B 105 1 21 HELIX 17 17 HIS B 121 THR B 128 5 8 HELIX 18 18 MET B 142 GLY B 148 1 7 HELIX 19 19 GLY B 154 THR B 174 1 21 HELIX 20 20 ALA B 180 LEU B 186 1 7 HELIX 21 21 PRO B 194 SER B 196 5 3 HELIX 22 22 LYS B 197 LYS B 211 1 15 HELIX 23 23 PRO B 213 LEU B 250 1 38 SHEET 1 AA 6 LEU A 15 ARG A 19 0 SHEET 2 AA 6 ILE A 24 MET A 29 -1 O GLU A 26 N HIS A 18 SHEET 3 AA 6 VAL A 61 THR A 65 1 O VAL A 61 N LEU A 25 SHEET 4 AA 6 VAL A 110 VAL A 114 1 O ILE A 111 N LEU A 64 SHEET 5 AA 6 ILE A 130 SER A 134 1 O ILE A 130 N SER A 112 SHEET 6 AA 6 GLU A 191 LEU A 193 1 O GLU A 191 N ALA A 133 SHEET 1 AB 2 VAL A 37 PHE A 38 0 SHEET 2 AB 2 GLU A 74 ILE A 75 1 O GLU A 74 N PHE A 38 SHEET 1 AC 2 ALA A 70 MET A 72 0 SHEET 2 AC 2 ALA A 117 ALA A 118 1 O ALA A 117 N MET A 72 SHEET 1 AD 2 VAL A 138 PHE A 139 0 SHEET 2 AD 2 LEU A 178 THR A 179 -1 O LEU A 178 N PHE A 139 SHEET 1 BA 6 LEU B 15 ARG B 19 0 SHEET 2 BA 6 ILE B 24 MET B 29 -1 O GLU B 26 N HIS B 18 SHEET 3 BA 6 VAL B 61 THR B 65 1 O VAL B 61 N LEU B 25 SHEET 4 BA 6 VAL B 110 VAL B 114 1 O ILE B 111 N LEU B 64 SHEET 5 BA 6 ILE B 130 SER B 134 1 O ILE B 130 N SER B 112 SHEET 6 BA 6 GLU B 191 LEU B 193 1 O GLU B 191 N ALA B 133 SHEET 1 BB 2 VAL B 37 PHE B 38 0 SHEET 2 BB 2 GLU B 74 ILE B 75 1 O GLU B 74 N PHE B 38 SHEET 1 BC 2 ALA B 70 MET B 72 0 SHEET 2 BC 2 ALA B 117 ALA B 118 1 O ALA B 117 N MET B 72 SHEET 1 BD 2 VAL B 138 PHE B 139 0 SHEET 2 BD 2 LEU B 178 THR B 179 -1 O LEU B 178 N PHE B 139 LINK NI NI A1254 O HOH A2221 1555 2445 1.55 LINK NI NI A1254 O HOH A2221 1555 1555 1.55 LINK NI NI A1254 O HOH A2221 1555 3545 1.60 LINK NI NI A1254 O HOH A2222 1555 1555 1.84 LINK NI NI A1254 O HOH A2222 1555 2445 1.84 LINK NI NI A1254 O HOH A2222 1555 3545 1.84 LINK NI NI A1254 O HOH A2224 1555 1555 1.92 LINK NI NI A1254 O HOH A2224 1555 2445 1.92 LINK NI NI A1254 O HOH A2224 1555 3545 1.92 LINK NI NI B1254 O HOH B2219 1555 3545 1.54 LINK NI NI B1254 O HOH B2219 1555 1555 1.56 LINK NI NI B1254 O HOH B2219 1555 2445 1.51 LINK NI NI B1254 O HOH B2221 1555 1555 1.78 LINK NI NI B1254 O HOH B2221 1555 2445 1.78 LINK NI NI B1254 O HOH B2221 1555 3545 1.78 LINK NI NI B1254 O HOH B2222 1555 1555 1.86 LINK NI NI B1254 O HOH B2222 1555 2445 1.86 LINK NI NI B1254 O HOH B2222 1555 3545 1.86 SITE 1 AC1 3 HOH A2221 HOH A2222 HOH A2224 SITE 1 AC2 3 HOH B2219 HOH B2221 HOH B2222 SITE 1 AC3 7 PHE A 38 HIS A 43 PHE A 77 HIS A 121 SITE 2 AC3 7 PRO A 143 HOH A2051 HOH A2247 SITE 1 AC4 9 PHE B 38 PHE B 77 LEU B 80 TRP B 89 SITE 2 AC4 9 HIS B 121 PRO B 143 ILE B 149 HOH B2061 SITE 3 AC4 9 HOH B2235 CRYST1 80.387 80.387 125.882 90.00 90.00 120.00 P 63 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 0.012440 0.007182 0.000000 0.00000 SCALE2 0.000000 0.014364 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007944 0.00000