HEADER OXIDOREDUCTASE 05-JUL-00 1F8W TITLE CRYSTAL STRUCTURE OF NADH PEROXIDASE MUTANT: R303M COMPND MOL_ID: 1; COMPND 2 MOLECULE: NADH PEROXIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.11.1.1; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROCOCCUS FAECALIS; SOURCE 3 ORGANISM_TAXID: 1351; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PR303M KEYWDS INTERFACE, FAD, NAD-BINDING DOMAINS, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.I.YEH,A.CLAIBORNE,W.G.J.HOL REVDAT 9 03-NOV-21 1F8W 1 REMARK SEQADV LINK REVDAT 8 31-JAN-18 1F8W 1 JRNL REVDAT 7 24-JAN-18 1F8W 1 JRNL REVDAT 6 13-JUL-11 1F8W 1 VERSN REVDAT 5 24-FEB-09 1F8W 1 VERSN REVDAT 4 12-AUG-03 1F8W 1 DBREF REVDAT 3 01-APR-03 1F8W 1 JRNL REVDAT 2 08-MAY-02 1F8W 3 REMARK ATOM HELIX SEQRES REVDAT 2 2 3 HET HETNAM FORMUL MODRES REVDAT 1 05-FEB-01 1F8W 0 JRNL AUTH E.J.CRANE III,J.I.YEH,J.LUBA,A.CLAIBORNE JRNL TITL ANALYSIS OF THE KINETIC AND REDOX PROPERTIES OF THE NADH JRNL TITL 2 PEROXIDASE R303M MUTANT: CORRELATION WITH THE CRYSTAL JRNL TITL 3 STRUCTURE. JRNL REF BIOCHEMISTRY V. 39 10353 2000 JRNL REFN ISSN 0006-2960 JRNL PMID 10956025 JRNL DOI 10.1021/BI000553M REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.I.YEH,A.CLAIBORNE,W.G.HOL REMARK 1 TITL STRUCTURE OF THE NATIVE CYSTEINE-SULFENIC ACID REDOX CENTER REMARK 1 TITL 2 OF ENTEROCOCCAL NADH PEROXIDASE REFINED AT 2.8 A RESOLUTION REMARK 1 REF BIOCHEMISTRY V. 35 9951 1996 REMARK 1 REFN ISSN 0006-2960 REMARK 1 DOI 10.1021/BI961037S REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 86.0 REMARK 3 NUMBER OF REFLECTIONS : 36614 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : X-PLOR FREER REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1821 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3488 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 131 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : 0.26 REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.016 REMARK 3 BOND ANGLES (DEGREES) : 3.000 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1F8W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JUL-00. REMARK 100 THE DEPOSITION ID IS D_1000011387. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-AUG-96 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.08 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE 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 : 36615 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 99.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 85.8 REMARK 200 DATA REDUNDANCY : 5.400 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 71.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.36300 REMARK 200 R SYM FOR SHELL (I) : 0.39000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2% PEG 400, 2.0 M (NH4)2SO4, 100 MM NA REMARK 280 HEPES, PH 7.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 77.59000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 77.59000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 94.70500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 77.59000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 47.35250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 77.59000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 142.05750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 77.59000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 142.05750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 77.59000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 47.35250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 77.59000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 77.59000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 94.70500 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 77.59000 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 77.59000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 94.70500 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 77.59000 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 142.05750 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 77.59000 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 47.35250 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 77.59000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 47.35250 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 77.59000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 142.05750 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 77.59000 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 77.59000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 94.70500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: FUNCTIONAL MOLECULE IS A HOMOTETRAMER 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: TETRAMERIC 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 350 BIOMT1 2 0.000000 -1.000000 0.000000 155.18000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 155.18000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 189.41000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 155.18000 REMARK 350 BIOMT2 3 0.000000 -1.000000 0.000000 155.18000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 189.41000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 8960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 KCAL/MOL 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 189.41000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O PHE A 424 N3 FAD A 448 15556 2.11 REMARK 500 NE2 GLN A 425 O HOH A 506 15556 2.16 REMARK 500 O HOH A 523 O HOH A 550 15556 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 10 NE2 HIS A 10 CD2 -0.069 REMARK 500 HIS A 23 NE2 HIS A 23 CD2 -0.071 REMARK 500 HIS A 87 NE2 HIS A 87 CD2 -0.070 REMARK 500 HIS A 258 NE2 HIS A 258 CD2 -0.066 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 TRP A 30 CD1 - CG - CD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 TRP A 30 CE2 - CD2 - CG ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 132 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 132 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 134 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 TRP A 136 CD1 - CG - CD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 TRP A 136 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 ARG A 183 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 183 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 TRP A 250 CD1 - CG - CD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 TRP A 250 CE2 - CD2 - CG ANGL. DEV. = -5.8 DEGREES REMARK 500 TRP A 374 CD1 - CG - CD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 TRP A 374 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP A 432 CD1 - CG - CD2 ANGL. DEV. = 7.2 DEGREES REMARK 500 TRP A 432 CE2 - CD2 - CG ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG A 447 NE - CZ - NH1 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 HIS A 23 55.93 -143.08 REMARK 500 ASN A 127 35.04 77.88 REMARK 500 THR A 292 -160.97 -128.64 REMARK 500 PRO A 316 79.64 -66.98 REMARK 500 PHE A 332 -124.60 53.22 REMARK 500 ASN A 433 -179.90 -65.42 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 448 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JOA RELATED DB: PDB REMARK 900 ACTIVE, NATIVE FORM WITH CYSTEINE-SULFENIC ACID REMARK 900 RELATED ID: 1NHP RELATED DB: PDB REMARK 900 NADH PEROXIDASE (NPX) (E.C. 1.11.1.1) MUTANT WITH CYS 42 REPLACED REMARK 900 BY ALA (C42A) REMARK 900 RELATED ID: 1NHQ RELATED DB: PDB REMARK 900 NADH PEROXIDASE (NPX) (E.C. 1.11.1.1) MUTANT WITH CYS 42 REPLACED REMARK 900 BY SER (C42S) REMARK 900 RELATED ID: 1NHR RELATED DB: PDB REMARK 900 NADH PEROXIDASE (NPX) (E.C. 1.11.1.1) MUTANT WITH LEU 40 REPLACED REMARK 900 BY CYS (L40C) REMARK 900 RELATED ID: 1NHS RELATED DB: PDB REMARK 900 NADH PEROXIDASE (NPX) (E.C. 1.11.1.1) MUTANT WITH SER 41 REPLACED REMARK 900 BY CYS (S41C) REMARK 900 RELATED ID: 1NPX RELATED DB: PDB REMARK 900 NADH PEROXIDASE (E.C. 1.11.1.1) NON-ACTIVE FORM WITH CYS 42 REMARK 900 OXIDIZED TO A SULFONIC ACID DBREF 1F8W A 1 447 UNP P37062 NAPE_ENTFA 1 447 SEQADV 1F8W MET A 303 UNP P37062 ARG 303 ENGINEERED MUTATION SEQRES 1 A 447 MET LYS VAL ILE VAL LEU GLY SER SER HIS GLY GLY TYR SEQRES 2 A 447 GLU ALA VAL GLU GLU LEU LEU ASN LEU HIS PRO ASP ALA SEQRES 3 A 447 GLU ILE GLN TRP TYR GLU LYS GLY ASP PHE ILE SER PHE SEQRES 4 A 447 LEU SER CSX GLY MET GLN LEU TYR LEU GLU GLY LYS VAL SEQRES 5 A 447 LYS ASP VAL ASN SER VAL ARG TYR MET THR GLY GLU LYS SEQRES 6 A 447 MET GLU SER ARG GLY VAL ASN VAL PHE SER ASN THR GLU SEQRES 7 A 447 ILE THR ALA ILE GLN PRO LYS GLU HIS GLN VAL THR VAL SEQRES 8 A 447 LYS ASP LEU VAL SER GLY GLU GLU ARG VAL GLU ASN TYR SEQRES 9 A 447 ASP LYS LEU ILE ILE SER PRO GLY ALA VAL PRO PHE GLU SEQRES 10 A 447 LEU ASP ILE PRO GLY LYS ASP LEU ASP ASN ILE TYR LEU SEQRES 11 A 447 MET ARG GLY ARG GLN TRP ALA ILE LYS LEU LYS GLN LYS SEQRES 12 A 447 THR VAL ASP PRO GLU VAL ASN ASN VAL VAL VAL ILE GLY SEQRES 13 A 447 SER GLY TYR ILE GLY ILE GLU ALA ALA GLU ALA PHE ALA SEQRES 14 A 447 LYS ALA GLY LYS LYS VAL THR VAL ILE ASP ILE LEU ASP SEQRES 15 A 447 ARG PRO LEU GLY VAL TYR LEU ASP LYS GLU PHE THR ASP SEQRES 16 A 447 VAL LEU THR GLU GLU MET GLU ALA ASN ASN ILE THR ILE SEQRES 17 A 447 ALA THR GLY GLU THR VAL GLU ARG TYR GLU GLY ASP GLY SEQRES 18 A 447 ARG VAL GLN LYS VAL VAL THR ASP LYS ASN ALA TYR ASP SEQRES 19 A 447 ALA ASP LEU VAL VAL VAL ALA VAL GLY VAL ARG PRO ASN SEQRES 20 A 447 THR ALA TRP LEU LYS GLY THR LEU GLU LEU HIS PRO ASN SEQRES 21 A 447 GLY LEU ILE LYS THR ASP GLU TYR MET ARG THR SER GLU SEQRES 22 A 447 PRO ASP VAL PHE ALA VAL GLY ASP ALA THR LEU ILE LYS SEQRES 23 A 447 TYR ASN PRO ALA ASP THR GLU VAL ASN ILE ALA LEU ALA SEQRES 24 A 447 THR ASN ALA MET LYS GLN GLY ARG PHE ALA VAL LYS ASN SEQRES 25 A 447 LEU GLU GLU PRO VAL LYS PRO PHE PRO GLY VAL GLN GLY SEQRES 26 A 447 SER SER GLY LEU ALA VAL PHE ASP TYR LYS PHE ALA SER SEQRES 27 A 447 THR GLY ILE ASN GLU VAL MET ALA GLN LYS LEU GLY LYS SEQRES 28 A 447 GLU THR LYS ALA VAL THR VAL VAL GLU ASP TYR LEU MET SEQRES 29 A 447 ASP PHE ASN PRO ASP LYS GLN LYS ALA TRP PHE LYS LEU SEQRES 30 A 447 VAL TYR ASP PRO GLU THR THR GLN ILE LEU GLY ALA GLN SEQRES 31 A 447 LEU MET SER LYS ALA ASP LEU THR ALA ASN ILE ASN ALA SEQRES 32 A 447 ILE SER LEU ALA ILE GLN ALA LYS MET THR ILE GLU ASP SEQRES 33 A 447 LEU ALA TYR ALA ASP PHE PHE PHE GLN PRO ALA PHE ASP SEQRES 34 A 447 LYS PRO TRP ASN ILE ILE ASN THR ALA ALA LEU GLU ALA SEQRES 35 A 447 VAL LYS GLN GLU ARG MODRES 1F8W CSX A 42 CYS S-OXY CYSTEINE HET CSX A 42 7 HET FAD A 448 53 HETNAM CSX S-OXY CYSTEINE HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE FORMUL 1 CSX C3 H7 N O3 S FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 HOH *131(H2 O) HELIX 1 1 SER A 9 HIS A 23 1 15 HELIX 2 2 LEU A 40 CSX A 42 5 3 HELIX 3 3 GLY A 43 GLU A 49 1 7 HELIX 4 4 ASP A 54 VAL A 58 5 5 HELIX 5 5 THR A 62 SER A 68 1 7 HELIX 6 6 ARG A 132 VAL A 145 1 14 HELIX 7 7 GLY A 158 ALA A 171 1 14 HELIX 8 8 ASP A 190 ALA A 203 1 14 HELIX 9 9 THR A 248 LEU A 251 5 4 HELIX 10 10 ASN A 288 ASP A 291 5 4 HELIX 11 11 LEU A 298 ASN A 312 1 15 HELIX 12 12 ASN A 342 GLY A 350 1 9 HELIX 13 13 ALA A 399 ALA A 410 1 12 HELIX 14 14 THR A 413 TYR A 419 1 7 HELIX 15 15 ASN A 433 GLU A 446 1 14 SHEET 1 A 5 VAL A 71 PHE A 74 0 SHEET 2 A 5 GLU A 27 TYR A 31 1 O ILE A 28 N ASN A 72 SHEET 3 A 5 LYS A 2 LEU A 6 1 N VAL A 3 O GLU A 27 SHEET 4 A 5 LYS A 106 ILE A 109 1 O LYS A 106 N ILE A 4 SHEET 5 A 5 VAL A 276 ALA A 278 1 O PHE A 277 N ILE A 109 SHEET 1 B 3 THR A 77 GLN A 83 0 SHEET 2 B 3 GLN A 88 ASP A 93 -1 O GLN A 88 N GLN A 83 SHEET 3 B 3 GLU A 99 ASN A 103 -1 O ARG A 100 N VAL A 91 SHEET 1 C 2 ALA A 113 PRO A 115 0 SHEET 2 C 2 VAL A 244 PRO A 246 -1 O ARG A 245 N VAL A 114 SHEET 1 D 5 ILE A 128 TYR A 129 0 SHEET 2 D 5 LEU A 237 VAL A 240 1 O VAL A 238 N TYR A 129 SHEET 3 D 5 ASN A 151 ILE A 155 1 O ASN A 151 N LEU A 237 SHEET 4 D 5 LYS A 174 ILE A 178 1 O LYS A 174 N VAL A 152 SHEET 5 D 5 ILE A 206 ALA A 209 1 O THR A 207 N VAL A 177 SHEET 1 E 3 VAL A 214 GLU A 218 0 SHEET 2 E 3 LYS A 225 THR A 228 -1 O LYS A 225 N GLU A 218 SHEET 3 E 3 ALA A 232 ASP A 234 -1 N TYR A 233 O VAL A 226 SHEET 1 F 2 ILE A 285 TYR A 287 0 SHEET 2 F 2 THR A 292 VAL A 294 -1 O THR A 292 N TYR A 287 SHEET 1 G 5 SER A 327 VAL A 331 0 SHEET 2 G 5 TYR A 334 GLY A 340 -1 O TYR A 334 N VAL A 331 SHEET 3 G 5 ILE A 386 SER A 393 -1 N ALA A 389 O THR A 339 SHEET 4 G 5 LYS A 372 TYR A 379 -1 N TRP A 374 O MET A 392 SHEET 5 G 5 LYS A 354 ASP A 361 -1 O LYS A 354 N TYR A 379 LINK C SER A 41 N CSX A 42 1555 1555 1.35 LINK C CSX A 42 N GLY A 43 1555 1555 1.34 SITE 1 AC1 32 LEU A 6 GLY A 7 SER A 9 HIS A 10 SITE 2 AC1 32 GLY A 11 GLU A 32 LYS A 33 SER A 41 SITE 3 AC1 32 CSX A 42 THR A 77 GLU A 78 ILE A 79 SITE 4 AC1 32 SER A 110 PRO A 111 GLY A 112 ALA A 113 SITE 5 AC1 32 MET A 131 ARG A 132 TYR A 159 ASN A 247 SITE 6 AC1 32 GLY A 280 ASP A 281 ALA A 297 LEU A 298 SITE 7 AC1 32 ALA A 299 THR A 300 PHE A 424 GLN A 425 SITE 8 AC1 32 HOH A 451 HOH A 492 HOH A 506 HOH A 567 CRYST1 155.180 155.180 189.410 90.00 90.00 90.00 I 41 2 2 16 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 0.006444 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006444 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005280 0.00000