HEADER OXIDOREDUCTASE 29-SEP-14 4RG4 TITLE EPSILON-CAPROLACTONE-BOUND CRYSTAL STRUCTURE OF CYCLOHEXANONE TITLE 2 MONOOXYGENASE IN THE LOOSE 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 GLUTARALDEHYDE CRYSTAL CROSS-LINKING, CYTOSOLIC (BACTERIAL) EXPDTA X-RAY DIFFRACTION AUTHOR B.J.YACHNIN,A.M.BERGHUIS REVDAT 4 20-SEP-23 4RG4 1 REMARK SEQADV LINK REVDAT 3 22-NOV-17 4RG4 1 REMARK REVDAT 2 14-JAN-15 4RG4 1 JRNL REVDAT 1 15-OCT-14 4RG4 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. 2.51 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) : 2.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 66.79 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 16591 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1678 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) : 2.51 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 872 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.3260 REMARK 3 BIN FREE R VALUE SET COUNT : 99 REMARK 3 BIN FREE R VALUE : 0.4010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3872 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 119 REMARK 3 SOLVENT ATOMS : 53 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 50.03 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.13000 REMARK 3 B22 (A**2) : -1.39000 REMARK 3 B33 (A**2) : 2.52000 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): 0.365 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.284 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.466 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4107 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3646 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5632 ; 1.795 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8322 ; 0.909 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 509 ; 6.833 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 175 ;36.159 ;23.657 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 545 ;16.455 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;17.769 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 620 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4697 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 980 ; 0.003 ; 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): 2042 ; 2.752 ; 3.827 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2041 ; 2.750 ; 3.827 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2549 ; 4.206 ; 5.735 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 4RG4 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_1000087303. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAR-12 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : ROTATING COPPER ANODE REMARK 200 OPTICS : VARIMAX HF REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16633 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 66.790 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : 0.06400 REMARK 200 FOR THE DATA SET : 11.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.5 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : 0.50000 REMARK 200 R SYM FOR SHELL (I) : 0.50000 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 4RG3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40% PEG 3350, 0.1 M IMIDAZOLE, 0.2 M REMARK 280 EPSILON-CAPROLACTONE; CRYSTALS WERE TRANSFERRED TO A FRESH DROP REMARK 280 AND CROSS-LINKED WITH GLUTARALDEHYDE, PH 8, VAPOR DIFFUSION, REMARK 280 SITTING DROP, 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 27.57250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.78800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.51400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.78800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.57250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.51400 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 GLY A 489 REMARK 465 ASP A 490 REMARK 465 SER A 491 REMARK 465 TRP A 492 REMARK 465 ILE A 493 REMARK 465 PHE A 494 REMARK 465 GLY A 495 REMARK 465 ALA A 496 REMARK 465 ASN A 497 REMARK 465 ILE A 498 REMARK 465 PRO A 499 REMARK 465 GLY A 500 REMARK 465 LYS A 501 REMARK 465 LYS A 502 REMARK 465 PRO A 503 REMARK 465 SER A 504 REMARK 465 VAL A 505 REMARK 465 SER A 534 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 ARG A 71 CD NE CZ NH1 NH2 REMARK 470 ASP A 72 CG OD1 OD2 REMARK 470 LYS A 80 CG CD CE NZ REMARK 470 ARG A 103 CZ NH1 NH2 REMARK 470 LEU A 116 CG CD1 CD2 REMARK 470 ARG A 135 CG CD NE CZ NH1 NH2 REMARK 470 SER A 147 OG REMARK 470 ASN A 153 CG OD1 ND2 REMARK 470 GLU A 172 CG CD OE1 OE2 REMARK 470 GLU A 225 CD OE1 OE2 REMARK 470 GLN A 226 CG CD OE1 NE2 REMARK 470 GLU A 229 CG CD OE1 OE2 REMARK 470 ARG A 236 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 239 CD OE1 OE2 REMARK 470 GLU A 262 CG CD OE1 OE2 REMARK 470 GLU A 263 CG CD OE1 OE2 REMARK 470 ARG A 267 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 271 CG CD OE1 OE2 REMARK 470 GLU A 297 CD OE1 OE2 REMARK 470 GLU A 309 CG CD OE1 OE2 REMARK 470 LYS A 323 CD CE NZ REMARK 470 LYS A 328 CE NZ REMARK 470 GLU A 338 CG CD OE1 OE2 REMARK 470 LYS A 351 CG CD CE NZ REMARK 470 ARG A 356 CD NE CZ NH1 NH2 REMARK 470 GLU A 366 CD OE1 OE2 REMARK 470 GLU A 372 CD OE1 OE2 REMARK 470 ASP A 383 CG OD1 OD2 REMARK 470 ASP A 386 CG OD1 OD2 REMARK 470 ARG A 390 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 393 CG CD OE1 OE2 REMARK 470 ASP A 407 CG OD1 OD2 REMARK 470 GLN A 409 CG CD OE1 NE2 REMARK 470 ARG A 461 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 468 CG CD OE1 OE2 REMARK 470 THR A 487 OG1 CG2 REMARK 470 LYS A 488 CG CD CE NZ REMARK 470 LEU A 506 CG CD1 CD2 REMARK 470 GLU A 521 CD OE1 OE2 REMARK 470 ARG A 528 CZ NH1 NH2 REMARK 470 GLU A 531 CG CD OE1 OE2 REMARK 470 LYS A 533 CG 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 NZ LYS A 174 C2 PTD A 605 2.06 REMARK 500 NH1 ARG A 179 C2 PTD A 605 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 179 NE - CZ - NH1 ANGL. DEV. = 4.9 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 ASP A 101 42.51 74.82 REMARK 500 ALA A 142 53.99 -99.52 REMARK 500 SER A 147 -145.42 -130.78 REMARK 500 PHE A 151 77.25 -158.79 REMARK 500 ALA A 177 123.87 -36.71 REMARK 500 THR A 285 -66.83 -98.36 REMARK 500 ALA A 379 52.79 -106.49 REMARK 500 ALA A 384 167.98 93.19 REMARK 500 ASP A 386 -40.98 -23.30 REMARK 500 ARG A 391 34.99 -96.03 REMARK 500 ASN A 423 33.47 36.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PTD A 604 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 PTD A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PTD A 605 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: 4RG3 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE TIGHT CONFORMATION WITH BOUND EPSILON- REMARK 900 CAPROLACTONE, NADP+, AND FAD. DBREF 4RG4 A 1 540 UNP C0STX7 C0STX7_9NOCA 1 540 SEQADV 4RG4 GLY A -7 UNP C0STX7 EXPRESSION TAG SEQADV 4RG4 SER A -6 UNP C0STX7 EXPRESSION TAG SEQADV 4RG4 LEU A -5 UNP C0STX7 EXPRESSION TAG SEQADV 4RG4 GLU A -4 UNP C0STX7 EXPRESSION TAG SEQADV 4RG4 ALA A -3 UNP C0STX7 EXPRESSION TAG SEQADV 4RG4 SER A -2 UNP C0STX7 EXPRESSION TAG SEQADV 4RG4 MET A -1 UNP C0STX7 EXPRESSION TAG SEQADV 4RG4 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 PTD A 604 5 HET PTD A 605 5 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM ECE CAPROLACTONE HETNAM PTD PENTANEDIAL 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 PTD 2(C5 H8 O2) FORMUL 7 HOH *53(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 ASN A 223 ALA A 232 1 10 HELIX 11 11 ASP A 233 LYS A 242 1 10 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 LEU A 320 1 8 HELIX 17 17 GLY A 335 TYR A 340 1 6 HELIX 18 18 VAL A 385 ARG A 391 1 7 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 ASN A 482 1 17 HELIX 23 23 GLY A 511 ASP A 525 1 15 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 LEU A 116 O GLU A 125 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 HIS A 203 N VAL A 181 SHEET 5 C 5 VAL A 345 ALA A 349 1 O GLU A 346 N LEU A 204 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 GLU A 357 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 LINK NZ LYS A 40 C1 PTD A 604 1555 1555 1.26 LINK NZ LYS A 174 C1 PTD A 605 1555 1555 1.25 LINK NH1 ARG A 179 C5 PTD A 605 1555 1555 1.30 LINK CZ ARG A 179 C2 PTD A 605 1555 1555 1.33 SITE 1 AC1 34 GLY A 15 GLY A 17 PHE A 18 GLY A 19 SITE 2 AC1 34 ASP A 39 LYS A 40 GLY A 46 THR A 47 SITE 3 AC1 34 TRP A 48 TRP A 50 ASN A 51 TYR A 53 SITE 4 AC1 34 SER A 58 ASP A 59 THR A 60 TYR A 65 SITE 5 AC1 34 THR A 110 GLU A 111 VAL A 112 ALA A 142 SITE 6 AC1 34 VAL A 143 GLY A 144 ASN A 388 ILE A 392 SITE 7 AC1 34 LEU A 428 ASN A 436 LEU A 437 ILE A 441 SITE 8 AC1 34 NAP A 602 ECE A 603 HOH A 710 HOH A 715 SITE 9 AC1 34 HOH A 734 HOH A 741 SITE 1 AC2 28 TYR A 53 LEU A 57 SER A 58 ASP A 59 SITE 2 AC2 28 PRO A 152 ILE A 184 GLY A 185 THR A 186 SITE 3 AC2 28 GLY A 187 SER A 188 THR A 189 GLN A 192 SITE 4 AC2 28 ARG A 209 THR A 210 ARG A 329 ILE A 350 SITE 5 AC2 28 ALA A 379 THR A 380 GLY A 381 FAD A 601 SITE 6 AC2 28 ECE A 603 HOH A 702 HOH A 703 HOH A 718 SITE 7 AC2 28 HOH A 721 HOH A 728 HOH A 747 HOH A 748 SITE 1 AC3 5 PHE A 279 THR A 435 LEU A 437 FAD A 601 SITE 2 AC3 5 NAP A 602 SITE 1 AC4 2 LYS A 40 ASN A 388 SITE 1 AC5 6 GLU A 163 LYS A 174 SER A 175 ARG A 179 SITE 2 AC5 6 ASP A 367 GLY A 368 CRYST1 55.145 67.028 133.576 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 0.018134 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014919 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007486 0.00000