HEADER OXIDOREDUCTASE 27-NOV-06 2JAE TITLE THE STRUCTURE OF L-AMINO ACID OXIDASE FROM RHODOCOCCUS OPACUS IN THE TITLE 2 UNBOUND STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-AMINO ACID OXIDASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 46-534; COMPND 5 EC: 1.4.3.2 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOCOCCUS OPACUS; SOURCE 3 ORGANISM_TAXID: 37919; SOURCE 4 ATCC: 51882; SOURCE 5 OTHER_DETAILS: DSM 43250 KEYWDS OXIDOREDUCTASE, DIMERISATION MODE, L-AMINO ACID OXIDASE, HYDRIDE KEYWDS 2 TRANSFER MECHANISM, GR2-FAMILY, FLAVOENZYME, FAD CONTAINING EXPDTA X-RAY DIFFRACTION AUTHOR A.FAUST,K.NIEFIND,W.HUMMEL,D.SCHOMBURG REVDAT 4 24-JUL-19 2JAE 1 REMARK REVDAT 3 24-FEB-09 2JAE 1 VERSN REVDAT 2 06-MAR-07 2JAE 1 JRNL REVDAT 1 30-JAN-07 2JAE 0 JRNL AUTH A.FAUST,K.NIEFIND,W.HUMMEL,D.SCHOMBURG JRNL TITL THE STRUCTURE OF A BACTERIAL L-AMINO ACID OXIDASE FROM JRNL TITL 2 RHODOCOCCUS OPACUS GIVES NEW EVIDENCE FOR THE HYDRIDE JRNL TITL 3 MECHANISM FOR DEHYDROGENATION. JRNL REF J.MOL.BIOL. V. 367 234 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17234209 JRNL DOI 10.1016/J.JMB.2006.11.071 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.FAUST,B.GEUEKE,K.NIEFIND,W.HUMMEL,D.SCHOMBURG REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF A REMARK 1 TITL 2 BACTERIAL L-AMINO-ACID OXIDASE FROM RHODOCOCCUS OPACUS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 62 279 2006 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 16511322 REMARK 1 DOI 10.1107/S1744309106005689 REMARK 2 REMARK 2 RESOLUTION. 1.25 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 LIKELIHOODWITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 252619 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) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 13406 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) : 1.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 18255 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2110 REMARK 3 BIN FREE R VALUE SET COUNT : 974 REMARK 3 BIN FREE R VALUE : 0.2650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7397 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 106 REMARK 3 SOLVENT ATOMS : 993 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.01000 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): 0.043 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.043 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.021 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.032 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7674 ; 0.060 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 5183 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10381 ; 1.082 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12535 ; 1.069 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 950 ; 5.489 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 364 ;32.900 ;23.571 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1241 ;10.668 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 56 ;16.785 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1087 ; 0.062 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8676 ; 0.039 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1654 ; 0.221 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1515 ; 0.202 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 5625 ; 0.166 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3836 ; 0.180 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 3729 ; 0.082 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 708 ; 0.115 ; 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): 10 ; 0.182 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 30 ; 0.156 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 28 ; 0.141 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.40 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 2JAE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1290030638. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.80 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.816 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 290588 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.210 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 34.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.21 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.22 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.5 REMARK 200 DATA REDUNDANCY IN SHELL : 8.40 REMARK 200 R MERGE FOR SHELL (I) : 0.60000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM HEPES PH 7.8 10% 2-PROPANOL 10% REMARK 280 PEG4000, PH 7.80 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 32.84800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.20100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.85250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 67.20100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.84800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.85250 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: 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 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 ALA A 2 REMARK 465 GLY A 3 REMARK 465 GLY A 433 REMARK 465 GLY A 434 REMARK 465 SER A 435 REMARK 465 HIS A 436 REMARK 465 GLY A 437 REMARK 465 GLY A 438 REMARK 465 ALA A 439 REMARK 465 ALA A 490 REMARK 465 ALA B 2 REMARK 465 GLY B 3 REMARK 465 SER B 432 REMARK 465 GLY B 433 REMARK 465 GLY B 434 REMARK 465 SER B 435 REMARK 465 HIS B 436 REMARK 465 GLY B 437 REMARK 465 GLY B 438 REMARK 465 ALA B 439 REMARK 465 GLU B 489 REMARK 465 ALA B 490 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 GLU A 489 CA C O CB CG CD OE1 REMARK 470 GLU A 489 OE2 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 SD MET B 208 O HOH B 2179 0.08 REMARK 500 O HOH B 2048 O HOH B 2049 1.54 REMARK 500 CE MET B 208 O HOH B 2179 1.75 REMARK 500 CG MET B 208 O HOH B 2179 1.78 REMARK 500 O HOH B 2049 O HOH B 2050 1.94 REMARK 500 O HOH B 2010 O HOH B 2041 2.03 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 LYS A 8 112.24 61.63 REMARK 500 ASP A 119 53.73 -94.67 REMARK 500 SER A 351 -46.58 76.04 REMARK 500 SER A 422 -64.53 -121.54 REMARK 500 SER A 424 146.18 177.95 REMARK 500 ASP A 452 -104.18 52.45 REMARK 500 LEU A 461 40.84 -100.69 REMARK 500 GLN A 488 -80.77 80.77 REMARK 500 ASP B 119 50.77 -90.53 REMARK 500 SER B 351 -47.63 74.88 REMARK 500 SER B 422 -65.56 -121.74 REMARK 500 SER B 424 145.85 177.37 REMARK 500 ASP B 452 -99.59 51.13 REMARK 500 LEU B 461 40.58 -101.17 REMARK 500 ALA B 464 56.11 -140.07 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 A2044 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH B2056 DISTANCE = 6.19 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A1490 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD B1489 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2JB1 RELATED DB: PDB REMARK 900 THE L-AMINO ACID OXIDASE FROM RHODOCOCCUS OPACUS IN COMPLEX WITH L- REMARK 900 ALANINE REMARK 900 RELATED ID: 2JB2 RELATED DB: PDB REMARK 900 THE STRUCTURE OF L-AMINO ACID OXIDASE FROM RHODOCOCCUS OPACUS IN REMARK 900 COMPLEX WITH L- PHENYLALANINE. REMARK 900 RELATED ID: 2JB3 RELATED DB: PDB REMARK 900 THE STRUCTURE OF L-AMINO ACID OXIDASE FROM RHODOCOCCUS OPACUS IN REMARK 900 COMPLEX WITH O- AMINOBENZOATE DBREF 2JAE A 2 490 UNP Q8VPD4 Q8VPD4_RHOOP 46 534 DBREF 2JAE B 2 490 UNP Q8VPD4 Q8VPD4_RHOOP 46 534 SEQRES 1 A 489 ALA GLY ASP LEU ILE GLY LYS VAL LYS GLY SER HIS SER SEQRES 2 A 489 VAL VAL VAL LEU GLY GLY GLY PRO ALA GLY LEU CYS SER SEQRES 3 A 489 ALA PHE GLU LEU GLN LYS ALA GLY TYR LYS VAL THR VAL SEQRES 4 A 489 LEU GLU ALA ARG THR ARG PRO GLY GLY ARG VAL TRP THR SEQRES 5 A 489 ALA ARG GLY GLY SER GLU GLU THR ASP LEU SER GLY GLU SEQRES 6 A 489 THR GLN LYS CYS THR PHE SER GLU GLY HIS PHE TYR ASN SEQRES 7 A 489 VAL GLY ALA THR ARG ILE PRO GLN SER HIS ILE THR LEU SEQRES 8 A 489 ASP TYR CYS ARG GLU LEU GLY VAL GLU ILE GLN GLY PHE SEQRES 9 A 489 GLY ASN GLN ASN ALA ASN THR PHE VAL ASN TYR GLN SER SEQRES 10 A 489 ASP THR SER LEU SER GLY GLN SER VAL THR TYR ARG ALA SEQRES 11 A 489 ALA LYS ALA ASP THR PHE GLY TYR MET SER GLU LEU LEU SEQRES 12 A 489 LYS LYS ALA THR ASP GLN GLY ALA LEU ASP GLN VAL LEU SEQRES 13 A 489 SER ARG GLU ASP LYS ASP ALA LEU SER GLU PHE LEU SER SEQRES 14 A 489 ASP PHE GLY ASP LEU SER ASP ASP GLY ARG TYR LEU GLY SEQRES 15 A 489 SER SER ARG ARG GLY TYR ASP SER GLU PRO GLY ALA GLY SEQRES 16 A 489 LEU ASN PHE GLY THR GLU LYS LYS PRO PHE ALA MET GLN SEQRES 17 A 489 GLU VAL ILE ARG SER GLY ILE GLY ARG ASN PHE SER PHE SEQRES 18 A 489 ASP PHE GLY TYR ASP GLN ALA MET MET MET PHE THR PRO SEQRES 19 A 489 VAL GLY GLY MET ASP ARG ILE TYR TYR ALA PHE GLN ASP SEQRES 20 A 489 ARG ILE GLY THR ASP ASN ILE VAL PHE GLY ALA GLU VAL SEQRES 21 A 489 THR SER MET LYS ASN VAL SER GLU GLY VAL THR VAL GLU SEQRES 22 A 489 TYR THR ALA GLY GLY SER LYS LYS SER ILE THR ALA ASP SEQRES 23 A 489 TYR ALA ILE CYS THR ILE PRO PRO HIS LEU VAL GLY ARG SEQRES 24 A 489 LEU GLN ASN ASN LEU PRO GLY ASP VAL LEU THR ALA LEU SEQRES 25 A 489 LYS ALA ALA LYS PRO SER SER SER GLY LYS LEU GLY ILE SEQRES 26 A 489 GLU TYR SER ARG ARG TRP TRP GLU THR GLU ASP ARG ILE SEQRES 27 A 489 TYR GLY GLY ALA SER ASN THR ASP LYS ASP ILE SER GLN SEQRES 28 A 489 ILE MET PHE PRO TYR ASP HIS TYR ASN SER ASP ARG GLY SEQRES 29 A 489 VAL VAL VAL ALA TYR TYR SER SER GLY LYS ARG GLN GLU SEQRES 30 A 489 ALA PHE GLU SER LEU THR HIS ARG GLN ARG LEU ALA LYS SEQRES 31 A 489 ALA ILE ALA GLU GLY SER GLU ILE HIS GLY GLU LYS TYR SEQRES 32 A 489 THR ARG ASP ILE SER SER SER PHE SER GLY SER TRP ARG SEQRES 33 A 489 ARG THR LYS TYR SER GLU SER ALA TRP ALA ASN TRP ALA SEQRES 34 A 489 GLY SER GLY GLY SER HIS GLY GLY ALA ALA THR PRO GLU SEQRES 35 A 489 TYR GLU LYS LEU LEU GLU PRO VAL ASP LYS ILE TYR PHE SEQRES 36 A 489 ALA GLY ASP HIS LEU SER ASN ALA ILE ALA TRP GLN HIS SEQRES 37 A 489 GLY ALA LEU THR SER ALA ARG ASP VAL VAL THR HIS ILE SEQRES 38 A 489 HIS GLU ARG VAL ALA GLN GLU ALA SEQRES 1 B 489 ALA GLY ASP LEU ILE GLY LYS VAL LYS GLY SER HIS SER SEQRES 2 B 489 VAL VAL VAL LEU GLY GLY GLY PRO ALA GLY LEU CYS SER SEQRES 3 B 489 ALA PHE GLU LEU GLN LYS ALA GLY TYR LYS VAL THR VAL SEQRES 4 B 489 LEU GLU ALA ARG THR ARG PRO GLY GLY ARG VAL TRP THR SEQRES 5 B 489 ALA ARG GLY GLY SER GLU GLU THR ASP LEU SER GLY GLU SEQRES 6 B 489 THR GLN LYS CYS THR PHE SER GLU GLY HIS PHE TYR ASN SEQRES 7 B 489 VAL GLY ALA THR ARG ILE PRO GLN SER HIS ILE THR LEU SEQRES 8 B 489 ASP TYR CYS ARG GLU LEU GLY VAL GLU ILE GLN GLY PHE SEQRES 9 B 489 GLY ASN GLN ASN ALA ASN THR PHE VAL ASN TYR GLN SER SEQRES 10 B 489 ASP THR SER LEU SER GLY GLN SER VAL THR TYR ARG ALA SEQRES 11 B 489 ALA LYS ALA ASP THR PHE GLY TYR MET SER GLU LEU LEU SEQRES 12 B 489 LYS LYS ALA THR ASP GLN GLY ALA LEU ASP GLN VAL LEU SEQRES 13 B 489 SER ARG GLU ASP LYS ASP ALA LEU SER GLU PHE LEU SER SEQRES 14 B 489 ASP PHE GLY ASP LEU SER ASP ASP GLY ARG TYR LEU GLY SEQRES 15 B 489 SER SER ARG ARG GLY TYR ASP SER GLU PRO GLY ALA GLY SEQRES 16 B 489 LEU ASN PHE GLY THR GLU LYS LYS PRO PHE ALA MET GLN SEQRES 17 B 489 GLU VAL ILE ARG SER GLY ILE GLY ARG ASN PHE SER PHE SEQRES 18 B 489 ASP PHE GLY TYR ASP GLN ALA MET MET MET PHE THR PRO SEQRES 19 B 489 VAL GLY GLY MET ASP ARG ILE TYR TYR ALA PHE GLN ASP SEQRES 20 B 489 ARG ILE GLY THR ASP ASN ILE VAL PHE GLY ALA GLU VAL SEQRES 21 B 489 THR SER MET LYS ASN VAL SER GLU GLY VAL THR VAL GLU SEQRES 22 B 489 TYR THR ALA GLY GLY SER LYS LYS SER ILE THR ALA ASP SEQRES 23 B 489 TYR ALA ILE CYS THR ILE PRO PRO HIS LEU VAL GLY ARG SEQRES 24 B 489 LEU GLN ASN ASN LEU PRO GLY ASP VAL LEU THR ALA LEU SEQRES 25 B 489 LYS ALA ALA LYS PRO SER SER SER GLY LYS LEU GLY ILE SEQRES 26 B 489 GLU TYR SER ARG ARG TRP TRP GLU THR GLU ASP ARG ILE SEQRES 27 B 489 TYR GLY GLY ALA SER ASN THR ASP LYS ASP ILE SER GLN SEQRES 28 B 489 ILE MET PHE PRO TYR ASP HIS TYR ASN SER ASP ARG GLY SEQRES 29 B 489 VAL VAL VAL ALA TYR TYR SER SER GLY LYS ARG GLN GLU SEQRES 30 B 489 ALA PHE GLU SER LEU THR HIS ARG GLN ARG LEU ALA LYS SEQRES 31 B 489 ALA ILE ALA GLU GLY SER GLU ILE HIS GLY GLU LYS TYR SEQRES 32 B 489 THR ARG ASP ILE SER SER SER PHE SER GLY SER TRP ARG SEQRES 33 B 489 ARG THR LYS TYR SER GLU SER ALA TRP ALA ASN TRP ALA SEQRES 34 B 489 GLY SER GLY GLY SER HIS GLY GLY ALA ALA THR PRO GLU SEQRES 35 B 489 TYR GLU LYS LEU LEU GLU PRO VAL ASP LYS ILE TYR PHE SEQRES 36 B 489 ALA GLY ASP HIS LEU SER ASN ALA ILE ALA TRP GLN HIS SEQRES 37 B 489 GLY ALA LEU THR SER ALA ARG ASP VAL VAL THR HIS ILE SEQRES 38 B 489 HIS GLU ARG VAL ALA GLN GLU ALA HET FAD A1490 53 HET FAD B1489 53 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 5 HOH *993(H2 O) HELIX 1 1 GLY A 21 ALA A 34 1 14 HELIX 2 2 ILE A 90 GLY A 99 1 10 HELIX 3 3 TYR A 129 GLY A 151 1 23 HELIX 4 4 SER A 158 GLY A 173 1 16 HELIX 5 5 SER A 184 ARG A 187 5 4 HELIX 6 6 ALA A 207 GLY A 215 1 9 HELIX 7 7 ASN A 219 GLY A 225 5 7 HELIX 8 8 ASP A 240 GLY A 251 1 12 HELIX 9 9 PRO A 294 GLY A 299 1 6 HELIX 10 10 PRO A 306 ALA A 315 1 10 HELIX 11 11 ARG A 331 GLU A 336 1 6 HELIX 12 12 GLY A 374 SER A 382 1 9 HELIX 13 13 THR A 384 GLY A 401 1 18 HELIX 14 14 GLU A 402 ARG A 406 5 5 HELIX 15 15 ARG A 417 THR A 419 5 3 HELIX 16 16 THR A 441 LEU A 448 1 8 HELIX 17 17 GLY A 458 LEU A 461 5 4 HELIX 18 18 TRP A 467 GLN A 488 1 22 HELIX 19 19 GLY B 21 ALA B 34 1 14 HELIX 20 20 HIS B 89 GLY B 99 1 11 HELIX 21 21 TYR B 129 GLN B 150 1 22 HELIX 22 22 SER B 158 ASP B 174 1 17 HELIX 23 23 SER B 184 ARG B 187 5 4 HELIX 24 24 ALA B 207 GLY B 215 1 9 HELIX 25 25 ASN B 219 GLY B 225 5 7 HELIX 26 26 ASP B 240 GLY B 251 1 12 HELIX 27 27 PRO B 294 GLY B 299 1 6 HELIX 28 28 PRO B 306 ALA B 315 1 10 HELIX 29 29 ARG B 331 GLU B 336 1 6 HELIX 30 30 GLY B 374 SER B 382 1 9 HELIX 31 31 THR B 384 GLY B 401 1 18 HELIX 32 32 GLU B 402 ARG B 406 5 5 HELIX 33 33 ARG B 417 THR B 419 5 3 HELIX 34 34 THR B 441 LEU B 448 1 8 HELIX 35 35 GLY B 458 LEU B 461 5 4 HELIX 36 36 TRP B 467 GLN B 488 1 22 SHEET 1 AA 5 ILE A 255 VAL A 256 0 SHEET 2 AA 5 LYS A 37 LEU A 41 1 O VAL A 40 N VAL A 256 SHEET 3 AA 5 SER A 14 LEU A 18 1 O VAL A 15 N THR A 39 SHEET 4 AA 5 TYR A 288 CYS A 291 1 O TYR A 288 N VAL A 16 SHEET 5 AA 5 ILE A 454 PHE A 456 1 O TYR A 455 N CYS A 291 SHEET 1 AB 2 THR A 53 ARG A 55 0 SHEET 2 AB 2 PHE A 77 ASN A 79 -1 O TYR A 78 N ALA A 54 SHEET 1 AC 2 GLU A 59 THR A 61 0 SHEET 2 AC 2 THR A 67 LYS A 69 -1 O GLN A 68 N GLU A 60 SHEET 1 AD 3 ILE A 85 PRO A 86 0 SHEET 2 AD 3 MET A 232 PRO A 235 -1 O PHE A 233 N ILE A 85 SHEET 3 AD 3 ILE A 102 PHE A 105 -1 O GLN A 103 N THR A 234 SHEET 1 AE 4 VAL A 127 THR A 128 0 SHEET 2 AE 4 PHE A 113 ASN A 115 -1 O VAL A 114 N VAL A 127 SHEET 3 AE 4 ALA A 343 THR A 346 1 O ASN A 345 N ASN A 115 SHEET 4 AE 4 GLN A 352 MET A 354 -1 O ILE A 353 N SER A 344 SHEET 1 AF 2 TYR A 189 SER A 191 0 SHEET 2 AF 2 THR A 201 GLU A 202 -1 O THR A 201 N ASP A 190 SHEET 1 AG 4 SER A 280 ALA A 286 0 SHEET 2 AG 4 GLY A 270 ALA A 277 -1 O VAL A 271 N ALA A 286 SHEET 3 AG 4 GLU A 260 VAL A 267 -1 O GLU A 260 N THR A 276 SHEET 4 AG 4 GLN A 302 ASN A 303 1 O GLN A 302 N MET A 264 SHEET 1 AH 2 ALA A 316 LYS A 317 0 SHEET 2 AH 2 ASN A 428 TRP A 429 -1 O ASN A 428 N LYS A 317 SHEET 1 AI 3 GLY A 365 SER A 373 0 SHEET 2 AI 3 SER A 321 TYR A 328 -1 O GLY A 322 N SER A 372 SHEET 3 AI 3 ILE A 408 SER A 415 -1 N SER A 409 O GLU A 327 SHEET 1 BA 5 ILE B 255 VAL B 256 0 SHEET 2 BA 5 LYS B 37 LEU B 41 1 O VAL B 40 N VAL B 256 SHEET 3 BA 5 SER B 14 LEU B 18 1 O VAL B 15 N THR B 39 SHEET 4 BA 5 TYR B 288 CYS B 291 1 O TYR B 288 N VAL B 16 SHEET 5 BA 5 ILE B 454 PHE B 456 1 O TYR B 455 N CYS B 291 SHEET 1 BB 2 THR B 53 ARG B 55 0 SHEET 2 BB 2 PHE B 77 ASN B 79 -1 O TYR B 78 N ALA B 54 SHEET 1 BC 2 GLU B 59 THR B 61 0 SHEET 2 BC 2 THR B 67 LYS B 69 -1 O GLN B 68 N GLU B 60 SHEET 1 BD 3 ILE B 85 PRO B 86 0 SHEET 2 BD 3 MET B 232 PRO B 235 -1 O PHE B 233 N ILE B 85 SHEET 3 BD 3 ILE B 102 PHE B 105 -1 O GLN B 103 N THR B 234 SHEET 1 BE 4 VAL B 127 THR B 128 0 SHEET 2 BE 4 PHE B 113 ASN B 115 -1 O VAL B 114 N VAL B 127 SHEET 3 BE 4 ALA B 343 THR B 346 1 O ASN B 345 N ASN B 115 SHEET 4 BE 4 GLN B 352 MET B 354 -1 O ILE B 353 N SER B 344 SHEET 1 BF 2 TYR B 189 SER B 191 0 SHEET 2 BF 2 THR B 201 GLU B 202 -1 O THR B 201 N ASP B 190 SHEET 1 BG 4 SER B 280 ALA B 286 0 SHEET 2 BG 4 GLY B 270 ALA B 277 -1 O VAL B 271 N ALA B 286 SHEET 3 BG 4 ALA B 259 VAL B 267 -1 O GLU B 260 N THR B 276 SHEET 4 BG 4 GLN B 302 ASN B 303 1 O GLN B 302 N MET B 264 SHEET 1 BH 2 ALA B 316 LYS B 317 0 SHEET 2 BH 2 ASN B 428 TRP B 429 -1 O ASN B 428 N LYS B 317 SHEET 1 BI 3 GLY B 365 SER B 373 0 SHEET 2 BI 3 SER B 321 TYR B 328 -1 O GLY B 322 N SER B 372 SHEET 3 BI 3 ILE B 408 SER B 415 -1 N SER B 409 O GLU B 327 CISPEP 1 MET A 230 MET A 231 0 5.18 CISPEP 2 MET B 230 MET B 231 0 4.39 SITE 1 AC1 35 GLY A 19 GLY A 21 PRO A 22 ALA A 23 SITE 2 AC1 35 LEU A 41 GLU A 42 ALA A 43 ARG A 44 SITE 3 AC1 35 GLY A 49 ARG A 50 ALA A 82 THR A 83 SITE 4 AC1 35 ARG A 84 ALA A 259 VAL A 261 THR A 292 SITE 5 AC1 35 ILE A 293 TYR A 371 TRP A 416 TYR A 421 SITE 6 AC1 35 ALA A 425 GLY A 458 ASP A 459 ALA A 466 SITE 7 AC1 35 TRP A 467 GLN A 468 ALA A 471 HOH A2034 SITE 8 AC1 35 HOH A2095 HOH A2320 HOH A2321 HOH A2346 SITE 9 AC1 35 HOH A2439 HOH A2488 HOH A2489 SITE 1 AC2 36 GLY B 19 GLY B 21 PRO B 22 ALA B 23 SITE 2 AC2 36 LEU B 41 GLU B 42 ALA B 43 ARG B 44 SITE 3 AC2 36 GLY B 49 ARG B 50 ALA B 82 THR B 83 SITE 4 AC2 36 ARG B 84 ALA B 259 VAL B 261 THR B 292 SITE 5 AC2 36 ILE B 293 SER B 321 TYR B 371 TRP B 416 SITE 6 AC2 36 TYR B 421 ALA B 425 GLY B 458 ASP B 459 SITE 7 AC2 36 ALA B 466 TRP B 467 GLN B 468 ALA B 471 SITE 8 AC2 36 HOH B2010 HOH B2041 HOH B2120 HOH B2335 SITE 9 AC2 36 HOH B2355 HOH B2502 HOH B2503 HOH B2504 CRYST1 65.696 109.705 134.402 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 0.015222 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009115 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007440 0.00000