HEADER OXIDOREDUCTASE 29-SEP-14 4RG3 TITLE EPSILON-CAPROLACTONE-BOUND CRYSTAL STRUCTURE OF CYCLOHEXANONE TITLE 2 MONOOXYGENASE IN THE TIGHT CONFORMATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLOHEXANONE MONOOXYGENASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.14.13.22; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOCOCCUS SP. HI-31; SOURCE 3 ORGANISM_TAXID: 638919; SOURCE 4 GENE: CHNB, CHNB1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PJW234 KEYWDS BAEYER-VILLIGER MONOOXYGENASE, BAEYER-VILLIGER OXIDATION, KEYWDS 2 BIOCATALYSIS, FLAVOPROTEIN, GREEN CHEMISTRY, PROTEIN ENGINEERING, KEYWDS 3 ROSSMANN FOLD, OXIDOREDUCTASE, FAD, NADPH, CYCLOHEXANONE, OXYGEN, KEYWDS 4 CYTOSOLIC (BACTERIAL) EXPDTA X-RAY DIFFRACTION AUTHOR B.J.YACHNIN,A.M.BERGHUIS REVDAT 4 20-SEP-23 4RG3 1 REMARK SEQADV REVDAT 3 22-NOV-17 4RG3 1 REMARK REVDAT 2 14-JAN-15 4RG3 1 JRNL REVDAT 1 15-OCT-14 4RG3 0 JRNL AUTH B.J.YACHNIN,M.B.MCEVOY,R.J.MACCUISH,K.L.MORLEY,P.C.LAU, JRNL AUTH 2 A.M.BERGHUIS JRNL TITL LACTONE-BOUND STRUCTURES OF CYCLOHEXANONE MONOOXYGENASE JRNL TITL 2 PROVIDE INSIGHT INTO THE STEREOCHEMISTRY OF CATALYSIS. JRNL REF ACS CHEM.BIOL. V. 9 2843 2014 JRNL REFN ISSN 1554-8929 JRNL PMID 25265531 JRNL DOI 10.1021/CB500442E REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.03 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 36235 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3670 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) : 1.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2155 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.64 REMARK 3 BIN R VALUE (WORKING SET) : 0.2150 REMARK 3 BIN FREE R VALUE SET COUNT : 286 REMARK 3 BIN FREE R VALUE : 0.2760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4060 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 120 REMARK 3 SOLVENT ATOMS : 138 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.71000 REMARK 3 B22 (A**2) : -0.45000 REMARK 3 B33 (A**2) : 1.16000 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): 0.178 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.161 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.114 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.038 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4305 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3870 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5895 ; 1.829 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8836 ; 0.911 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 530 ; 6.624 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 190 ;32.707 ;23.211 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 597 ;15.112 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;15.254 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 643 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4911 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1045 ; 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): 2117 ; 2.326 ; 2.803 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2116 ; 2.324 ; 2.802 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2645 ; 3.201 ; 4.191 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 : 1.20 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4RG3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000087302. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97949216062006739 REMARK 200 MONOCHROMATOR : ACCEL/BRUKER DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR (DCM), FEATURING REMARK 200 INDIRECTLY CRYO-COOLED FIRST REMARK 200 CRYSTAL AND SAGITTALLY FOCUSING REMARK 200 SECOND CRYSTAL REMARK 200 OPTICS : VERTICAL FOCUSING MIRROR: ULTRA REMARK 200 -LOW EXPANSION (ULE) TITANIUM REMARK 200 SILIICATE FLAT MIRROR WITH PT, REMARK 200 UNCOATED, AND PD STRIPS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36410 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : 0.11600 REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.4 REMARK 200 DATA REDUNDANCY IN SHELL : 12.70 REMARK 200 R MERGE FOR SHELL (I) : 0.80600 REMARK 200 R SYM FOR SHELL (I) : 0.80600 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: REFMAC REMARK 200 STARTING MODEL: PDB ENTRY 3UCL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 60% PEG 3350, 0.1 M BICINE, 0.1 M REMARK 280 EPSILON-CAPROLACTONE, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 27.84900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.82050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.53000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.82050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.84900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.53000 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYM. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 -7 REMARK 465 SER A -6 REMARK 465 LEU A -5 REMARK 465 GLU A -4 REMARK 465 ALA A -3 REMARK 465 SER A -2 REMARK 465 MET A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 ALA A 3 REMARK 465 GLN A 4 REMARK 465 THR A 5 REMARK 465 ALA A 535 REMARK 465 GLU A 536 REMARK 465 MET A 537 REMARK 465 VAL A 538 REMARK 465 THR A 539 REMARK 465 VAL A 540 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 LYS A 40 CG CD CE NZ REMARK 470 GLU A 76 CD OE1 OE2 REMARK 470 LYS A 80 CE NZ REMARK 470 GLU A 91 CD OE1 OE2 REMARK 470 GLU A 132 CD OE1 OE2 REMARK 470 LYS A 137 CD CE NZ REMARK 470 ASN A 153 CG OD1 ND2 REMARK 470 GLU A 225 CD OE1 OE2 REMARK 470 GLU A 229 CG CD OE1 OE2 REMARK 470 GLU A 239 CD OE1 OE2 REMARK 470 LYS A 242 CE NZ REMARK 470 GLU A 262 CD OE1 OE2 REMARK 470 GLU A 263 CD OE1 OE2 REMARK 470 GLU A 264 CD OE1 OE2 REMARK 470 ARG A 267 CD NE CZ NH1 NH2 REMARK 470 GLU A 271 CD OE1 OE2 REMARK 470 GLU A 293 CD OE1 OE2 REMARK 470 GLU A 297 CD OE1 OE2 REMARK 470 GLU A 309 CD OE1 OE2 REMARK 470 LYS A 323 CD CE NZ REMARK 470 GLU A 338 CD OE1 OE2 REMARK 470 GLU A 346 CD OE1 OE2 REMARK 470 LYS A 351 CE NZ REMARK 470 GLU A 357 CD OE1 OE2 REMARK 470 GLU A 372 CD OE1 OE2 REMARK 470 ARG A 461 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 468 CG CD OE1 OE2 REMARK 470 GLU A 472 CD OE1 OE2 REMARK 470 LYS A 488 CE NZ REMARK 470 LYS A 502 CG CD CE NZ REMARK 470 GLU A 521 CD OE1 OE2 REMARK 470 LYS A 533 CD CE NZ 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 NH2 ARG A 240 OE1 GLU A 251 2.07 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 103 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 180 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 VAL A 505 CB - CA - C ANGL. DEV. = -12.6 DEGREES REMARK 500 ARG A 516 NE - CZ - NH2 ANGL. DEV. = -3.1 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 ALA A 142 65.07 -115.74 REMARK 500 SER A 147 -40.23 -135.06 REMARK 500 ALA A 169 39.90 -143.79 REMARK 500 ALA A 327 18.12 -144.70 REMARK 500 SER A 334 45.12 -108.02 REMARK 500 ALA A 379 56.78 -106.02 REMARK 500 VAL A 385 -68.86 74.88 REMARK 500 ASN A 420 -5.30 84.50 REMARK 500 ASN A 431 39.39 70.62 REMARK 500 REMARK 500 REMARK: NULL 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 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ECE A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BCN A 604 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GWF RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE OPEN CONFORMATION WITH BOUND NADP+ AND FAD. REMARK 900 RELATED ID: 3GWD RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE CLOSED CONFORMATION WITH BOUND NADP+ AND REMARK 900 FAD. REMARK 900 RELATED ID: 3UCL RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE ROTATED CONFORMATION WITH BOUND REMARK 900 CYCLOHEXANONE, NADP+, AND FAD. REMARK 900 RELATED ID: 4RG4 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE LOOSE CONFORMATION WITH BOUND EPSILON- REMARK 900 CAPROLACTONE, NADP+, AND FAD. DBREF 4RG3 A 1 540 UNP C0STX7 C0STX7_9NOCA 1 540 SEQADV 4RG3 GLY A -7 UNP C0STX7 EXPRESSION TAG SEQADV 4RG3 SER A -6 UNP C0STX7 EXPRESSION TAG SEQADV 4RG3 LEU A -5 UNP C0STX7 EXPRESSION TAG SEQADV 4RG3 GLU A -4 UNP C0STX7 EXPRESSION TAG SEQADV 4RG3 ALA A -3 UNP C0STX7 EXPRESSION TAG SEQADV 4RG3 SER A -2 UNP C0STX7 EXPRESSION TAG SEQADV 4RG3 MET A -1 UNP C0STX7 EXPRESSION TAG SEQADV 4RG3 HIS A 0 UNP C0STX7 EXPRESSION TAG SEQRES 1 A 548 GLY SER LEU GLU ALA SER MET HIS MET THR ALA GLN THR SEQRES 2 A 548 THR HIS THR VAL ASP ALA VAL VAL ILE GLY ALA GLY PHE SEQRES 3 A 548 GLY GLY ILE TYR ALA VAL HIS LYS LEU HIS HIS GLU LEU SEQRES 4 A 548 GLY LEU THR THR VAL GLY PHE ASP LYS ALA ASP GLY PRO SEQRES 5 A 548 GLY GLY THR TRP TYR TRP ASN ARG TYR PRO GLY ALA LEU SEQRES 6 A 548 SER ASP THR GLU SER HIS LEU TYR ARG PHE SER PHE ASP SEQRES 7 A 548 ARG ASP LEU LEU GLN GLU SER THR TRP LYS THR THR TYR SEQRES 8 A 548 ILE THR GLN PRO GLU ILE LEU GLU TYR LEU GLU ASP VAL SEQRES 9 A 548 VAL ASP ARG PHE ASP LEU ARG ARG HIS PHE LYS PHE GLY SEQRES 10 A 548 THR GLU VAL THR SER ALA LEU TYR LEU ASP ASP GLU ASN SEQRES 11 A 548 LEU TRP GLU VAL THR THR ASP HIS GLY GLU VAL TYR ARG SEQRES 12 A 548 ALA LYS TYR VAL VAL ASN ALA VAL GLY LEU LEU SER ALA SEQRES 13 A 548 ILE ASN PHE PRO ASN LEU PRO GLY LEU ASP THR PHE GLU SEQRES 14 A 548 GLY GLU THR ILE HIS THR ALA ALA TRP PRO GLU GLY LYS SEQRES 15 A 548 SER LEU ALA GLY ARG ARG VAL GLY VAL ILE GLY THR GLY SEQRES 16 A 548 SER THR GLY GLN GLN VAL ILE THR SER LEU ALA PRO GLU SEQRES 17 A 548 VAL GLU HIS LEU THR VAL PHE VAL ARG THR PRO GLN TYR SEQRES 18 A 548 SER VAL PRO VAL GLY ASN ARG PRO VAL ASN PRO GLU GLN SEQRES 19 A 548 ILE ALA GLU ILE LYS ALA ASP TYR ASP ARG ILE TRP GLU SEQRES 20 A 548 ARG ALA LYS ASN SER ALA VAL ALA PHE GLY PHE GLU GLU SEQRES 21 A 548 SER THR LEU PRO ALA MET SER VAL SER GLU GLU GLU ARG SEQRES 22 A 548 ASN ARG ILE PHE GLN GLU ALA TRP ASP HIS GLY GLY GLY SEQRES 23 A 548 PHE ARG PHE MET PHE GLY THR PHE GLY ASP ILE ALA THR SEQRES 24 A 548 ASP GLU ALA ALA ASN GLU ALA ALA ALA SER PHE ILE ARG SEQRES 25 A 548 ALA LYS VAL ALA GLU ILE ILE GLU ASP PRO GLU THR ALA SEQRES 26 A 548 ARG LYS LEU MET PRO LYS GLY LEU PHE ALA LYS ARG PRO SEQRES 27 A 548 LEU CYS ASP SER GLY TYR TYR GLU VAL TYR ASN ARG PRO SEQRES 28 A 548 ASN VAL GLU ALA VAL ALA ILE LYS GLU ASN PRO ILE ARG SEQRES 29 A 548 GLU VAL THR ALA LYS GLY VAL VAL THR GLU ASP GLY VAL SEQRES 30 A 548 LEU HIS GLU LEU ASP VAL LEU VAL PHE ALA THR GLY PHE SEQRES 31 A 548 ASP ALA VAL ASP GLY ASN TYR ARG ARG ILE GLU ILE ARG SEQRES 32 A 548 GLY ARG ASP GLY LEU HIS ILE ASN ASP HIS TRP ASP GLY SEQRES 33 A 548 GLN PRO THR SER TYR LEU GLY VAL SER THR ALA ASN PHE SEQRES 34 A 548 PRO ASN TRP PHE MET VAL LEU GLY PRO ASN GLY PRO PHE SEQRES 35 A 548 THR ASN LEU PRO PRO SER ILE GLU THR GLN VAL GLU TRP SEQRES 36 A 548 ILE SER ASP THR ILE GLY TYR ALA GLU ARG ASN GLY VAL SEQRES 37 A 548 ARG ALA ILE GLU PRO THR PRO GLU ALA GLU ALA GLU TRP SEQRES 38 A 548 THR GLU THR CYS THR GLU ILE ALA ASN ALA THR LEU PHE SEQRES 39 A 548 THR LYS GLY ASP SER TRP ILE PHE GLY ALA ASN ILE PRO SEQRES 40 A 548 GLY LYS LYS PRO SER VAL LEU PHE TYR LEU GLY GLY LEU SEQRES 41 A 548 ARG ASN TYR ARG ALA VAL MET ALA GLU VAL ALA ALA ASP SEQRES 42 A 548 GLY TYR ARG GLY PHE GLU VAL LYS SER ALA GLU MET VAL SEQRES 43 A 548 THR VAL HET FAD A 601 53 HET NAP A 602 48 HET ECE A 603 8 HET BCN A 604 11 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM ECE CAPROLACTONE HETNAM BCN BICINE HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE HETSYN ECE OXEPAN-2-ONE; EPSILON-CAPROLACTONE FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 NAP C21 H28 N7 O17 P3 FORMUL 4 ECE C6 H10 O2 FORMUL 5 BCN C6 H13 N O4 FORMUL 6 HOH *138(H2 O) HELIX 1 1 GLY A 17 GLU A 30 1 14 HELIX 2 2 GLY A 46 ASN A 51 1 6 HELIX 3 3 GLU A 61 TYR A 65 5 5 HELIX 4 4 ASP A 70 SER A 77 1 8 HELIX 5 5 THR A 85 PHE A 100 1 16 HELIX 6 6 LEU A 102 ARG A 104 5 3 HELIX 7 7 GLY A 156 PHE A 160 5 5 HELIX 8 8 ALA A 168 TRP A 170 5 3 HELIX 9 9 GLY A 187 ALA A 198 1 12 HELIX 10 10 GLU A 225 ASP A 233 1 9 HELIX 11 11 ASP A 233 ASN A 243 1 11 HELIX 12 12 PRO A 256 VAL A 260 5 5 HELIX 13 13 SER A 261 GLY A 276 1 16 HELIX 14 14 GLY A 277 GLY A 284 1 8 HELIX 15 15 ASP A 292 ILE A 311 1 20 HELIX 16 16 ASP A 313 MET A 321 1 9 HELIX 17 17 GLY A 335 TYR A 340 1 6 HELIX 18 18 ASP A 386 ARG A 391 1 6 HELIX 19 19 GLY A 396 LEU A 400 5 5 HELIX 20 20 HIS A 401 TRP A 406 1 6 HELIX 21 21 ASN A 436 ASN A 458 1 23 HELIX 22 22 THR A 466 ALA A 483 1 18 HELIX 23 23 THR A 484 GLY A 489 5 6 HELIX 24 24 SER A 491 GLY A 495 5 5 HELIX 25 25 GLY A 510 ASP A 525 1 16 SHEET 1 A 7 PHE A 106 LYS A 107 0 SHEET 2 A 7 THR A 35 PHE A 38 1 N GLY A 37 O LYS A 107 SHEET 3 A 7 HIS A 7 ILE A 14 1 N VAL A 13 O VAL A 36 SHEET 4 A 7 VAL A 133 ASN A 141 1 O VAL A 140 N VAL A 12 SHEET 5 A 7 LEU A 123 THR A 128 -1 N VAL A 126 O TYR A 134 SHEET 6 A 7 VAL A 112 LEU A 118 -1 N THR A 113 O THR A 127 SHEET 7 A 7 GLU A 393 ARG A 395 1 O GLU A 393 N ALA A 115 SHEET 1 B 5 PHE A 106 LYS A 107 0 SHEET 2 B 5 THR A 35 PHE A 38 1 N GLY A 37 O LYS A 107 SHEET 3 B 5 HIS A 7 ILE A 14 1 N VAL A 13 O VAL A 36 SHEET 4 B 5 VAL A 133 ASN A 141 1 O VAL A 140 N VAL A 12 SHEET 5 B 5 TRP A 424 MET A 426 1 O PHE A 425 N ASN A 141 SHEET 1 C 5 GLU A 163 HIS A 166 0 SHEET 2 C 5 VAL A 375 PHE A 378 1 O PHE A 378 N ILE A 165 SHEET 3 C 5 ARG A 180 ILE A 184 1 N GLY A 182 O VAL A 377 SHEET 4 C 5 HIS A 203 VAL A 208 1 O PHE A 207 N VAL A 183 SHEET 5 C 5 VAL A 345 ALA A 349 1 O VAL A 348 N VAL A 206 SHEET 1 D 2 SER A 214 PRO A 216 0 SHEET 2 D 2 LEU A 331 ASP A 333 1 O LEU A 331 N VAL A 215 SHEET 1 E 3 ILE A 355 THR A 359 0 SHEET 2 E 3 GLY A 362 THR A 365 -1 O VAL A 364 N ARG A 356 SHEET 3 E 3 LEU A 370 GLU A 372 -1 O HIS A 371 N VAL A 363 SHEET 1 F 2 GLY A 432 PRO A 433 0 SHEET 2 F 2 PHE A 507 TYR A 508 1 O TYR A 508 N GLY A 432 SHEET 1 G 2 ALA A 462 PRO A 465 0 SHEET 2 G 2 PHE A 530 LYS A 533 -1 O GLU A 531 N GLU A 464 SITE 1 AC1 36 ILE A 14 GLY A 15 GLY A 17 PHE A 18 SITE 2 AC1 36 GLY A 19 ASP A 39 LYS A 40 GLY A 46 SITE 3 AC1 36 THR A 47 TRP A 48 TRP A 50 ASN A 51 SITE 4 AC1 36 TYR A 53 SER A 58 ASP A 59 THR A 60 SITE 5 AC1 36 TYR A 65 GLU A 111 VAL A 112 ALA A 142 SITE 6 AC1 36 VAL A 143 GLY A 144 ASN A 388 ILE A 392 SITE 7 AC1 36 LEU A 428 ASN A 436 LEU A 437 NAP A 602 SITE 8 AC1 36 ECE A 603 BCN A 604 HOH A 703 HOH A 720 SITE 9 AC1 36 HOH A 732 HOH A 744 HOH A 768 HOH A 799 SITE 1 AC2 34 TYR A 53 LEU A 57 SER A 58 ASP A 59 SITE 2 AC2 34 LEU A 146 PRO A 152 ILE A 184 GLY A 185 SITE 3 AC2 34 THR A 186 GLY A 187 SER A 188 THR A 189 SITE 4 AC2 34 GLN A 192 ARG A 209 THR A 210 ARG A 329 SITE 5 AC2 34 ILE A 350 ALA A 379 THR A 380 GLY A 381 SITE 6 AC2 34 TRP A 492 FAD A 601 ECE A 603 HOH A 707 SITE 7 AC2 34 HOH A 709 HOH A 718 HOH A 726 HOH A 730 SITE 8 AC2 34 HOH A 734 HOH A 738 HOH A 739 HOH A 740 SITE 9 AC2 34 HOH A 778 HOH A 779 SITE 1 AC3 6 PHE A 279 ARG A 329 PHE A 434 THR A 435 SITE 2 AC3 6 FAD A 601 NAP A 602 SITE 1 AC4 6 LYS A 40 TRP A 50 SER A 147 ALA A 168 SITE 2 AC4 6 ASN A 388 FAD A 601 CRYST1 55.698 67.060 131.641 90.00 90.00 90.00 P 21 21 21 4 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 0.017954 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014912 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007596 0.00000