HEADER OXIDOREDUCTASE 02-MAR-16 5FXP TITLE CRYSTAL STRUCTURE OF EUGENOL OXIDASE IN COMPLEX WITH VANILLIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: EUGENOL OXIDASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.1.3.38; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: COVALENT BOND BETWEEN THE FAD AND HIS390 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOCOCCUS JOSTII RHA1; SOURCE 3 ORGANISM_TAXID: 101510; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PBAD KEYWDS OXIDOREDUCTASE, BIOCATALYSIS, SELECTIVE OXIDATION, KINETIC KEYWDS 2 RESOLUTION, OXIDASES, EUGENOL EXPDTA X-RAY DIFFRACTION AUTHOR Q.-T.NGUYEN,G.DE GONZALO,C.BINDA,A.R.MARTINEZ,A.MATTEVI,M.W.FRAAIJE REVDAT 2 10-JAN-24 5FXP 1 REMARK HETSYN LINK REVDAT 1 27-JUL-16 5FXP 0 JRNL AUTH Q.NGUYEN,G.DE GONZALO,C.BINDA,A.RIOZ-MARTINEZ,A.MATTEVI, JRNL AUTH 2 M.W.FRAAIJE JRNL TITL BIOCATALYTIC PROPERTIES AND STRUCTURAL ANALYSIS OF EUGENOL JRNL TITL 2 OXIDASE FROM RHODOCOCCUS JOSTII RHA1: A VERSATILE OXIDATIVE JRNL TITL 3 BIOCATALYST. JRNL REF CHEMBIOCHEM V. 17 1359 2016 JRNL REFN ISSN 1439-4227 JRNL PMID 27123962 JRNL DOI 10.1002/CBIC.201600148 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 90.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 3 NUMBER OF REFLECTIONS : 27913 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1417 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1736 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 78.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.2650 REMARK 3 BIN FREE R VALUE SET COUNT : 114 REMARK 3 BIN FREE R VALUE : 0.3610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8243 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 134 REMARK 3 SOLVENT ATOMS : 30 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.58000 REMARK 3 B22 (A**2) : 2.23000 REMARK 3 B33 (A**2) : -2.81000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.392 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.288 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.076 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.938 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.865 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 8602 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 7959 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 11683 ; 1.545 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 18323 ; 0.993 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1048 ; 6.605 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 411 ;38.952 ;24.063 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1366 ;15.428 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 58 ;19.864 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1213 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 9810 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1998 ; 0.002 ; 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): 4198 ; 1.272 ; 2.343 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 4197 ; 1.272 ; 2.343 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5244 ; 2.147 ; 3.513 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 4404 ; 1.538 ; 2.515 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 : 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 5FXP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1290066318. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PIXEL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29395 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 66.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 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 2VAO REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% PEG6000, 0.1 M TRIS/HCL PH 8.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 28.96000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 90.10500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.72500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 90.10500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.96000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.72500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 11020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -76.2 KCAL/MOL 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 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 1 REMARK 465 MET B 1 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 2 CG2 REMARK 470 ASP B 297 CB CG OD1 OD2 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 44 76.20 -117.62 REMARK 500 SER A 84 -84.70 -102.69 REMARK 500 ASN A 88 48.82 -82.39 REMARK 500 TYR A 171 35.76 -96.59 REMARK 500 ALA A 510 60.82 21.09 REMARK 500 ASN A 525 72.86 51.96 REMARK 500 TYR B 44 70.96 -117.89 REMARK 500 SER B 84 -76.06 -104.54 REMARK 500 LYS B 87 32.89 -99.64 REMARK 500 MET B 268 17.57 55.17 REMARK 500 PHE B 294 105.59 -169.77 REMARK 500 TRP B 384 -47.10 -10.10 REMARK 500 ALA B 476 -48.71 -19.64 REMARK 500 TRP B 487 133.70 -39.40 REMARK 500 ALA B 510 66.71 0.09 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 A2014 DISTANCE = 6.22 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 FLAVIN-ADENINE DINUCLEOTIDE (FAD): COVALENT BOND BETWEEN REMARK 600 FAD AND HIS390 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE V55 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD B 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE V55 B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1527 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FXD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF EUGENOL OXIDASE IN COMPLEX WITH ISOEUGENOL REMARK 900 RELATED ID: 5FXE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF EUGENOL OXIDASE IN COMPLEX WITH CONIFERYL REMARK 900 ALCOHOL REMARK 900 RELATED ID: 5FXF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF EUGENOL OXIDASE IN COMPLEX WITH BENZOATE DBREF 5FXP A 1 526 UNP Q0SBK1 Q0SBK1_RHOJR 1 526 DBREF 5FXP B 1 526 UNP Q0SBK1 Q0SBK1_RHOJR 1 526 SEQRES 1 A 526 MET THR ARG THR LEU PRO PRO GLY VAL SER ASP GLU ARG SEQRES 2 A 526 PHE ASP ALA ALA LEU GLN ARG PHE ARG ASP VAL VAL GLY SEQRES 3 A 526 ASP LYS TRP VAL LEU SER THR ALA ASP GLU LEU GLU ALA SEQRES 4 A 526 PHE ARG ASP PRO TYR PRO VAL GLY ALA ALA GLU ALA ASN SEQRES 5 A 526 LEU PRO SER ALA VAL VAL SER PRO GLU SER THR GLU GLN SEQRES 6 A 526 VAL GLN ASP ILE VAL ARG ILE ALA ASN GLU TYR GLY ILE SEQRES 7 A 526 PRO LEU SER PRO VAL SER THR GLY LYS ASN ASN GLY TYR SEQRES 8 A 526 GLY GLY ALA ALA PRO ARG LEU SER GLY SER VAL ILE VAL SEQRES 9 A 526 LYS THR GLY GLU ARG MET ASN ARG ILE LEU GLU VAL ASN SEQRES 10 A 526 GLU LYS TYR GLY TYR ALA LEU LEU GLU PRO GLY VAL THR SEQRES 11 A 526 TYR PHE ASP LEU TYR GLU TYR LEU GLN SER HIS ASP SER SEQRES 12 A 526 GLY LEU MET LEU ASP CYS PRO ASP LEU GLY TRP GLY SER SEQRES 13 A 526 VAL VAL GLY ASN THR LEU ASP ARG GLY VAL GLY TYR THR SEQRES 14 A 526 PRO TYR GLY ASP HIS PHE MET TRP GLN THR GLY LEU GLU SEQRES 15 A 526 VAL VAL LEU PRO GLN GLY GLU VAL MET ARG THR GLY MET SEQRES 16 A 526 GLY ALA LEU PRO GLY SER ASP ALA TRP GLN LEU PHE PRO SEQRES 17 A 526 TYR GLY PHE GLY PRO PHE PRO ASP GLY MET PHE THR GLN SEQRES 18 A 526 SER ASN LEU GLY ILE VAL THR LYS MET GLY ILE ALA LEU SEQRES 19 A 526 MET GLN ARG PRO PRO ALA SER GLN SER PHE LEU ILE THR SEQRES 20 A 526 PHE ASP LYS GLU GLU ASP LEU GLU GLN ILE VAL ASP ILE SEQRES 21 A 526 MET LEU PRO LEU ARG ILE ASN MET ALA PRO LEU GLN ASN SEQRES 22 A 526 VAL PRO VAL LEU ARG ASN ILE PHE MET ASP ALA ALA ALA SEQRES 23 A 526 VAL SER LYS ARG THR GLU TRP PHE ASP GLY ASP GLY PRO SEQRES 24 A 526 MET PRO ALA GLU ALA ILE GLU ARG MET LYS LYS ASP LEU SEQRES 25 A 526 ASP LEU GLY PHE TRP ASN PHE TYR GLY THR LEU TYR GLY SEQRES 26 A 526 PRO PRO PRO LEU ILE GLU MET TYR TYR GLY MET ILE LYS SEQRES 27 A 526 GLU ALA PHE GLY LYS ILE PRO GLY ALA ARG PHE PHE THR SEQRES 28 A 526 HIS GLU GLU ARG ASP ASP ARG GLY GLY HIS VAL LEU GLN SEQRES 29 A 526 ASP ARG HIS LYS ILE ASN ASN GLY ILE PRO SER LEU ASP SEQRES 30 A 526 GLU LEU GLN LEU LEU ASP TRP VAL PRO ASN GLY GLY HIS SEQRES 31 A 526 ILE GLY PHE SER PRO VAL SER ALA PRO ASP GLY ARG GLU SEQRES 32 A 526 ALA MET LYS GLN PHE GLU MET VAL ARG ASN ARG ALA ASN SEQRES 33 A 526 GLU TYR ASN LYS ASP TYR ALA ALA GLN PHE ILE ILE GLY SEQRES 34 A 526 LEU ARG GLU MET HIS HIS VAL CYS LEU PHE ILE TYR ASP SEQRES 35 A 526 THR ALA ILE PRO GLU ALA ARG GLU GLU ILE LEU GLN MET SEQRES 36 A 526 THR LYS VAL LEU VAL ARG GLU ALA ALA GLU ALA GLY TYR SEQRES 37 A 526 GLY GLU TYR ARG THR HIS ASN ALA LEU MET ASP ASP VAL SEQRES 38 A 526 MET ALA THR PHE ASN TRP GLY ASP GLY ALA LEU LEU LYS SEQRES 39 A 526 PHE HIS GLU LYS ILE LYS ASP ALA LEU ASP PRO ASN GLY SEQRES 40 A 526 ILE ILE ALA PRO GLY LYS SER GLY ILE TRP SER GLN ARG SEQRES 41 A 526 PHE ARG GLY GLN ASN LEU SEQRES 1 B 526 MET THR ARG THR LEU PRO PRO GLY VAL SER ASP GLU ARG SEQRES 2 B 526 PHE ASP ALA ALA LEU GLN ARG PHE ARG ASP VAL VAL GLY SEQRES 3 B 526 ASP LYS TRP VAL LEU SER THR ALA ASP GLU LEU GLU ALA SEQRES 4 B 526 PHE ARG ASP PRO TYR PRO VAL GLY ALA ALA GLU ALA ASN SEQRES 5 B 526 LEU PRO SER ALA VAL VAL SER PRO GLU SER THR GLU GLN SEQRES 6 B 526 VAL GLN ASP ILE VAL ARG ILE ALA ASN GLU TYR GLY ILE SEQRES 7 B 526 PRO LEU SER PRO VAL SER THR GLY LYS ASN ASN GLY TYR SEQRES 8 B 526 GLY GLY ALA ALA PRO ARG LEU SER GLY SER VAL ILE VAL SEQRES 9 B 526 LYS THR GLY GLU ARG MET ASN ARG ILE LEU GLU VAL ASN SEQRES 10 B 526 GLU LYS TYR GLY TYR ALA LEU LEU GLU PRO GLY VAL THR SEQRES 11 B 526 TYR PHE ASP LEU TYR GLU TYR LEU GLN SER HIS ASP SER SEQRES 12 B 526 GLY LEU MET LEU ASP CYS PRO ASP LEU GLY TRP GLY SER SEQRES 13 B 526 VAL VAL GLY ASN THR LEU ASP ARG GLY VAL GLY TYR THR SEQRES 14 B 526 PRO TYR GLY ASP HIS PHE MET TRP GLN THR GLY LEU GLU SEQRES 15 B 526 VAL VAL LEU PRO GLN GLY GLU VAL MET ARG THR GLY MET SEQRES 16 B 526 GLY ALA LEU PRO GLY SER ASP ALA TRP GLN LEU PHE PRO SEQRES 17 B 526 TYR GLY PHE GLY PRO PHE PRO ASP GLY MET PHE THR GLN SEQRES 18 B 526 SER ASN LEU GLY ILE VAL THR LYS MET GLY ILE ALA LEU SEQRES 19 B 526 MET GLN ARG PRO PRO ALA SER GLN SER PHE LEU ILE THR SEQRES 20 B 526 PHE ASP LYS GLU GLU ASP LEU GLU GLN ILE VAL ASP ILE SEQRES 21 B 526 MET LEU PRO LEU ARG ILE ASN MET ALA PRO LEU GLN ASN SEQRES 22 B 526 VAL PRO VAL LEU ARG ASN ILE PHE MET ASP ALA ALA ALA SEQRES 23 B 526 VAL SER LYS ARG THR GLU TRP PHE ASP GLY ASP GLY PRO SEQRES 24 B 526 MET PRO ALA GLU ALA ILE GLU ARG MET LYS LYS ASP LEU SEQRES 25 B 526 ASP LEU GLY PHE TRP ASN PHE TYR GLY THR LEU TYR GLY SEQRES 26 B 526 PRO PRO PRO LEU ILE GLU MET TYR TYR GLY MET ILE LYS SEQRES 27 B 526 GLU ALA PHE GLY LYS ILE PRO GLY ALA ARG PHE PHE THR SEQRES 28 B 526 HIS GLU GLU ARG ASP ASP ARG GLY GLY HIS VAL LEU GLN SEQRES 29 B 526 ASP ARG HIS LYS ILE ASN ASN GLY ILE PRO SER LEU ASP SEQRES 30 B 526 GLU LEU GLN LEU LEU ASP TRP VAL PRO ASN GLY GLY HIS SEQRES 31 B 526 ILE GLY PHE SER PRO VAL SER ALA PRO ASP GLY ARG GLU SEQRES 32 B 526 ALA MET LYS GLN PHE GLU MET VAL ARG ASN ARG ALA ASN SEQRES 33 B 526 GLU TYR ASN LYS ASP TYR ALA ALA GLN PHE ILE ILE GLY SEQRES 34 B 526 LEU ARG GLU MET HIS HIS VAL CYS LEU PHE ILE TYR ASP SEQRES 35 B 526 THR ALA ILE PRO GLU ALA ARG GLU GLU ILE LEU GLN MET SEQRES 36 B 526 THR LYS VAL LEU VAL ARG GLU ALA ALA GLU ALA GLY TYR SEQRES 37 B 526 GLY GLU TYR ARG THR HIS ASN ALA LEU MET ASP ASP VAL SEQRES 38 B 526 MET ALA THR PHE ASN TRP GLY ASP GLY ALA LEU LEU LYS SEQRES 39 B 526 PHE HIS GLU LYS ILE LYS ASP ALA LEU ASP PRO ASN GLY SEQRES 40 B 526 ILE ILE ALA PRO GLY LYS SER GLY ILE TRP SER GLN ARG SEQRES 41 B 526 PHE ARG GLY GLN ASN LEU HET FAD A 600 53 HET V55 A 601 11 HET GOL A1527 6 HET FAD B 600 53 HET V55 B 601 11 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM V55 4-HYDROXY-3-METHOXYBENZALDEHYDE HETNAM GOL GLYCEROL HETSYN V55 P-VANILLIN HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 V55 2(C8 H8 O3) FORMUL 5 GOL C3 H8 O3 FORMUL 8 HOH *30(H2 O) HELIX 1 1 SER A 10 GLY A 26 1 17 HELIX 2 2 THR A 33 ALA A 39 1 7 HELIX 3 3 SER A 62 GLY A 77 1 16 HELIX 4 4 THR A 130 HIS A 141 1 12 HELIX 5 5 SER A 156 ASP A 163 1 8 HELIX 6 6 ASP A 173 TRP A 177 1 5 HELIX 7 7 GLY A 194 LEU A 198 5 5 HELIX 8 8 PRO A 215 THR A 220 5 6 HELIX 9 9 LYS A 250 GLU A 252 5 3 HELIX 10 10 ASP A 253 ILE A 266 1 14 HELIX 11 11 ILE A 280 ALA A 286 1 7 HELIX 12 12 LYS A 289 TRP A 293 5 5 HELIX 13 13 PRO A 301 LEU A 312 1 12 HELIX 14 14 PRO A 326 GLY A 342 1 17 HELIX 15 15 GLY A 360 ASN A 370 1 11 HELIX 16 16 LEU A 376 TRP A 384 5 9 HELIX 17 17 ASP A 400 TYR A 418 1 19 HELIX 18 18 ILE A 445 ALA A 466 1 22 HELIX 19 19 HIS A 474 ALA A 476 5 3 HELIX 20 20 LEU A 477 PHE A 485 1 9 HELIX 21 21 ASN A 486 ASP A 504 1 19 HELIX 22 22 GLY A 512 ILE A 516 5 5 HELIX 23 23 SER B 10 GLY B 26 1 17 HELIX 24 24 GLU B 36 ARG B 41 5 6 HELIX 25 25 SER B 62 GLY B 77 1 16 HELIX 26 26 THR B 130 HIS B 141 1 12 HELIX 27 27 SER B 156 ASP B 163 1 8 HELIX 28 28 GLY B 194 LEU B 198 5 5 HELIX 29 29 PRO B 215 THR B 220 5 6 HELIX 30 30 LYS B 250 GLU B 252 5 3 HELIX 31 31 ASP B 253 ILE B 266 1 14 HELIX 32 32 ILE B 280 SER B 288 1 9 HELIX 33 33 LYS B 289 TRP B 293 5 5 HELIX 34 34 PRO B 301 ASP B 313 1 13 HELIX 35 35 PRO B 326 GLY B 342 1 17 HELIX 36 36 GLY B 360 ASN B 370 1 11 HELIX 37 37 LEU B 376 VAL B 385 5 10 HELIX 38 38 ASP B 400 TYR B 418 1 19 HELIX 39 39 ILE B 445 ALA B 466 1 22 HELIX 40 40 HIS B 474 ALA B 476 5 3 HELIX 41 41 LEU B 477 PHE B 485 1 9 HELIX 42 42 ASN B 486 ASP B 504 1 19 HELIX 43 43 GLY B 512 ILE B 516 5 5 HELIX 44 44 SER B 518 ARG B 522 5 5 SHEET 1 AA 4 VAL A 30 LEU A 31 0 SHEET 2 AA 4 ALA A 56 VAL A 58 -1 O VAL A 57 N LEU A 31 SHEET 3 AA 4 VAL A 102 LYS A 105 1 O ILE A 103 N VAL A 58 SHEET 4 AA 4 LEU A 80 VAL A 83 1 O SER A 81 N VAL A 104 SHEET 1 AB 5 ILE A 113 ASN A 117 0 SHEET 2 AB 5 TYR A 122 LEU A 125 -1 O TYR A 122 N ASN A 117 SHEET 3 AB 5 ILE A 226 ALA A 233 -1 O MET A 230 N LEU A 125 SHEET 4 AB 5 GLN A 178 VAL A 184 -1 N THR A 179 O GLY A 231 SHEET 5 AB 5 VAL A 190 ARG A 192 -1 O MET A 191 N VAL A 183 SHEET 1 AC 2 LEU A 145 MET A 146 0 SHEET 2 AC 2 MET A 235 GLN A 236 -1 O MET A 235 N MET A 146 SHEET 1 AD 7 ARG A 348 THR A 351 0 SHEET 2 AD 7 SER A 241 PHE A 248 -1 O LEU A 245 N PHE A 350 SHEET 3 AD 7 TRP A 317 TYR A 324 -1 O TRP A 317 N PHE A 248 SHEET 4 AD 7 VAL A 276 ASN A 279 -1 O VAL A 276 N TYR A 320 SHEET 5 AD 7 ASP A 421 ILE A 428 -1 O ALA A 424 N ASN A 279 SHEET 6 AD 7 MET A 433 ASP A 442 -1 O HIS A 434 N ILE A 427 SHEET 7 AD 7 VAL A 396 SER A 397 1 O SER A 397 N MET A 433 SHEET 1 AE 7 ARG A 348 THR A 351 0 SHEET 2 AE 7 SER A 241 PHE A 248 -1 O LEU A 245 N PHE A 350 SHEET 3 AE 7 TRP A 317 TYR A 324 -1 O TRP A 317 N PHE A 248 SHEET 4 AE 7 VAL A 276 ASN A 279 -1 O VAL A 276 N TYR A 320 SHEET 5 AE 7 ASP A 421 ILE A 428 -1 O ALA A 424 N ASN A 279 SHEET 6 AE 7 MET A 433 ASP A 442 -1 O HIS A 434 N ILE A 427 SHEET 7 AE 7 GLY A 388 PHE A 393 -1 O GLY A 389 N TYR A 441 SHEET 1 AF 2 VAL A 396 SER A 397 0 SHEET 2 AF 2 MET A 433 ASP A 442 1 O MET A 433 N SER A 397 SHEET 1 BA 4 VAL B 30 LEU B 31 0 SHEET 2 BA 4 ALA B 56 VAL B 58 -1 O VAL B 57 N LEU B 31 SHEET 3 BA 4 VAL B 102 LYS B 105 1 O ILE B 103 N VAL B 58 SHEET 4 BA 4 LEU B 80 VAL B 83 1 O SER B 81 N VAL B 104 SHEET 1 BB 5 ILE B 113 ASN B 117 0 SHEET 2 BB 5 TYR B 122 LEU B 125 -1 O TYR B 122 N ASN B 117 SHEET 3 BB 5 ILE B 226 ALA B 233 -1 O MET B 230 N LEU B 125 SHEET 4 BB 5 GLN B 178 VAL B 184 -1 N THR B 179 O GLY B 231 SHEET 5 BB 5 VAL B 190 ARG B 192 -1 O MET B 191 N VAL B 183 SHEET 1 BC 2 LEU B 145 MET B 146 0 SHEET 2 BC 2 MET B 235 GLN B 236 -1 O MET B 235 N MET B 146 SHEET 1 BD 7 ARG B 348 THR B 351 0 SHEET 2 BD 7 SER B 241 PHE B 248 -1 O LEU B 245 N PHE B 350 SHEET 3 BD 7 TRP B 317 TYR B 324 -1 O TRP B 317 N PHE B 248 SHEET 4 BD 7 VAL B 276 ASN B 279 -1 O VAL B 276 N TYR B 320 SHEET 5 BD 7 ASP B 421 ILE B 428 -1 O ALA B 424 N ASN B 279 SHEET 6 BD 7 MET B 433 ASP B 442 -1 O HIS B 434 N ILE B 427 SHEET 7 BD 7 VAL B 396 SER B 397 1 O SER B 397 N MET B 433 SHEET 1 BE 7 ARG B 348 THR B 351 0 SHEET 2 BE 7 SER B 241 PHE B 248 -1 O LEU B 245 N PHE B 350 SHEET 3 BE 7 TRP B 317 TYR B 324 -1 O TRP B 317 N PHE B 248 SHEET 4 BE 7 VAL B 276 ASN B 279 -1 O VAL B 276 N TYR B 320 SHEET 5 BE 7 ASP B 421 ILE B 428 -1 O ALA B 424 N ASN B 279 SHEET 6 BE 7 MET B 433 ASP B 442 -1 O HIS B 434 N ILE B 427 SHEET 7 BE 7 GLY B 388 PHE B 393 -1 O GLY B 389 N TYR B 441 SHEET 1 BF 2 VAL B 396 SER B 397 0 SHEET 2 BF 2 MET B 433 ASP B 442 1 O MET B 433 N SER B 397 LINK NE2 HIS A 390 C8M FAD A 600 1555 1555 1.38 LINK NE2 HIS B 390 C8M FAD B 600 1555 1555 1.36 CISPEP 1 ALA A 269 PRO A 270 0 14.15 CISPEP 2 ALA B 269 PRO B 270 0 -0.84 SITE 1 AC1 27 PRO A 82 VAL A 83 SER A 84 THR A 85 SITE 2 AC1 27 GLY A 86 LYS A 87 ASN A 88 ASN A 89 SITE 3 AC1 27 THR A 106 PRO A 150 ASP A 151 GLY A 155 SITE 4 AC1 27 SER A 156 GLY A 159 ASN A 160 LEU A 162 SITE 5 AC1 27 GLY A 165 VAL A 166 TYR A 168 GLY A 225 SITE 6 AC1 27 ILE A 226 VAL A 227 LEU A 381 HIS A 390 SITE 7 AC1 27 ARG A 472 LYS A 513 V55 A 601 SITE 1 AC2 10 TYR A 91 ASP A 151 TYR A 168 GLN A 425 SITE 2 AC2 10 ILE A 427 VAL A 436 LEU A 438 TYR A 471 SITE 3 AC2 10 ARG A 472 FAD A 600 SITE 1 AC3 28 PRO B 82 VAL B 83 SER B 84 THR B 85 SITE 2 AC3 28 GLY B 86 LYS B 87 ASN B 88 ASN B 89 SITE 3 AC3 28 THR B 106 PRO B 150 ASP B 151 LEU B 152 SITE 4 AC3 28 GLY B 155 SER B 156 GLY B 159 ASN B 160 SITE 5 AC3 28 ASP B 163 GLY B 165 VAL B 166 TYR B 168 SITE 6 AC3 28 GLY B 225 ILE B 226 VAL B 227 LEU B 381 SITE 7 AC3 28 HIS B 390 ARG B 472 LYS B 513 V55 B 601 SITE 1 AC4 7 TYR B 91 ASP B 151 GLN B 425 VAL B 436 SITE 2 AC4 7 TYR B 471 ARG B 472 FAD B 600 SITE 1 AC5 4 ASP A 479 TRP A 517 GLY A 523 ASN A 525 CRYST1 57.920 97.450 180.210 90.00 90.00 90.00 P 21 21 21 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 0.017265 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010262 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005549 0.00000 MTRIX1 1 -0.999100 0.027630 -0.031750 13.41000 1 MTRIX2 1 0.035230 0.136400 -0.990000 25.38000 1 MTRIX3 1 -0.023020 -0.990300 -0.137300 29.53000 1