HEADER OXIDOREDUCTASE 15-DEC-08 3FJW TITLE CRYSTAL STRUCTURE ANALYSIS OF FUNGAL VERSATILE PEROXIDASE FROM TITLE 2 PLEUROTUS ERYNGII COMPND MOL_ID: 1; COMPND 2 MOLECULE: VERSATILE PEROXIDASE VPL2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: VERSATILE LIQUID PHASE PEROXIDASE 2; COMPND 5 EC: 1.11.1.16 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLEUROTUS ERYNGII; SOURCE 3 ORGANISM_COMMON: BOLETUS OF THE STEPPES; SOURCE 4 ORGANISM_TAXID: 5323; SOURCE 5 STRAIN: IJFM A169 KEYWDS CLASS II (FUNGAL) PEROXIDASES, PROTOPORPHYRIN IX, GLYCOPROTEIN KEYWDS 2 ELECTRON TRANSFER, LIGNIN PEROXIDASE, LIGNIN DEGRADATION, MANGANESE KEYWDS 3 PEROXIDASE, MN-INDEPENDENT OXIDATION PHENOLIC NON-PHENOLIC KEYWDS 4 AROMATICS, MNII OXIDATION, PEROXIDASE, POLYVALENT PEROXIDASE, KEYWDS 5 OXIDOREDUCTASE, HEME, GLYCOPROTEIN, HYDROGEN PEROXIDE, IRON, KEYWDS 6 MANGANESE, METAL-BINDING, SECRETED, ZYMOGEN EXPDTA X-RAY DIFFRACTION AUTHOR K.PIONTEK,A.T.MARTINEZ,T.CHOINOWSKI,D.A.PLATTNER REVDAT 4 01-NOV-23 3FJW 1 HETSYN REVDAT 3 29-JUL-20 3FJW 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 13-JUL-11 3FJW 1 VERSN REVDAT 1 15-DEC-09 3FJW 0 JRNL AUTH K.PIONTEK,T.CHOINOWSKI,M.PEREZ-BOADA,F.J.RUIZ-DUENAS, JRNL AUTH 2 M.J.MARTINEZ,D.A.PLATTNER,A.T.MARTINEZ JRNL TITL STRUCTURAL AND SITE-DIRECTED MUTAGENESIS STUDY OF VERSATILE JRNL TITL 2 PEROXIDASE OXIDIZING BOTH MN(II) AND AROMATIC SUBSTRATES JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.80 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 LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 3 NUMBER OF REFLECTIONS : 17415 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) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 942 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3150 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.1420 REMARK 3 BIN FREE R VALUE SET COUNT : 159 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4866 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 230 REMARK 3 SOLVENT ATOMS : 452 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.36000 REMARK 3 B22 (A**2) : 0.66000 REMARK 3 B33 (A**2) : -2.02000 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): 0.405 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.124 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.741 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.863 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5266 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7210 ; 0.747 ; 2.046 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 660 ; 6.221 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 208 ;36.090 ;25.385 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 714 ;16.346 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;17.672 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 820 ; 0.049 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4012 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2795 ; 0.234 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3730 ; 0.326 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 588 ; 0.221 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 6 ; 0.163 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 54 ; 0.295 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 12 ; 0.277 ; 0.500 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): 3358 ; 0.675 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5338 ; 1.186 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2047 ; 0.642 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1868 ; 1.016 ; 3.000 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: NULL REMARK 4 REMARK 4 3FJW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-DEC-08. REMARK 100 THE DEPOSITION ID IS D_1000050679. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-AUG-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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) : 0.8499 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19316 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 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 (%) : 93.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11200 REMARK 200 FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL 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: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1QPA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8.0MG/ML PROTEIN IN 10MM NA-CITRATE PH REMARK 280 4.0, 1.9M AMMONIUM SULPHATE, 6% PEG 400, 100MM HEPES PH 7.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 36.57050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.63900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.38100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.63900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.57050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.38100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 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, C 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 REMARK 350 BIOMOLECULE: 2 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: B, D 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 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 OD2 ASP B 237 O HOH B 516 1.97 REMARK 500 OG1 THR A 310 O5 MAN A 371 2.03 REMARK 500 ND2 ASN B 96 C2 NAG B 361 2.07 REMARK 500 OD2 ASP A 280 O HOH A 422 2.11 REMARK 500 OD1 ASP B 146 O HOH B 433 2.14 REMARK 500 OG SER B 324 C2 MAN B 381 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 NZ LYS A 204 OE1 GLN B 223 2575 2.14 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 4 -1.58 -54.93 REMARK 500 ASN A 96 56.34 -108.31 REMARK 500 ASP A 213 38.86 -94.97 REMARK 500 THR B 9 144.32 -171.37 REMARK 500 ALA B 61 75.13 -68.40 REMARK 500 THR B 73 3.60 -67.19 REMARK 500 HIS B 169 1.95 -69.52 REMARK 500 PRO B 179 0.35 -65.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 353 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 36 OE2 REMARK 620 2 GLU A 40 OE2 96.7 REMARK 620 3 ASP A 175 OD2 91.7 100.9 REMARK 620 4 HEM A 350 O1D 98.5 88.2 165.5 REMARK 620 5 HOH A 451 O 165.7 96.7 90.6 76.9 REMARK 620 6 HOH A 482 O 83.1 171.0 88.1 83.0 82.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 351 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 48 O REMARK 620 2 ASP A 48 OD1 92.0 REMARK 620 3 GLY A 60 O 69.8 105.3 REMARK 620 4 ASP A 62 OD1 146.1 88.1 77.4 REMARK 620 5 SER A 64 OG 142.6 88.2 145.5 71.3 REMARK 620 6 HOH A 415 O 78.2 87.3 145.8 135.6 64.4 REMARK 620 7 HOH A 507 O 99.5 162.2 91.5 89.7 74.4 81.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A 350 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 169 NE2 REMARK 620 2 HEM A 350 NA 103.8 REMARK 620 3 HEM A 350 NB 95.0 88.5 REMARK 620 4 HEM A 350 NC 90.2 165.8 88.0 REMARK 620 5 HEM A 350 ND 102.8 90.9 161.8 88.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 352 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 170 O REMARK 620 2 SER A 170 OG 68.6 REMARK 620 3 ASP A 187 OD1 79.1 110.2 REMARK 620 4 ASP A 187 OD2 84.8 67.1 49.3 REMARK 620 5 THR A 189 O 79.6 142.3 81.8 130.7 REMARK 620 6 THR A 189 OG1 148.4 141.6 79.5 98.5 74.5 REMARK 620 7 VAL A 192 O 84.5 79.4 155.9 146.5 78.0 107.1 REMARK 620 8 ASP A 194 OD1 134.1 66.6 125.8 86.9 135.6 77.5 78.2 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 353 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 36 OE2 REMARK 620 2 GLU B 40 OE1 68.4 REMARK 620 3 ASP B 175 OD2 94.8 122.8 REMARK 620 4 HOH B 338 O 167.0 117.0 91.7 REMARK 620 5 HOH B 346 O 86.1 141.3 86.7 83.0 REMARK 620 6 HEM B 350 O1D 92.5 68.1 168.6 79.5 85.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 351 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 48 O REMARK 620 2 ASP B 48 OD1 76.0 REMARK 620 3 GLY B 60 O 69.4 87.4 REMARK 620 4 ASP B 62 OD1 127.7 85.7 61.0 REMARK 620 5 SER B 64 OG 149.8 100.6 140.8 81.1 REMARK 620 6 HOH B 365 O 104.3 178.9 93.7 94.9 78.7 REMARK 620 7 HOH B 425 O 75.0 93.7 143.0 156.0 75.3 85.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 350 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 169 NE2 REMARK 620 2 HEM B 350 NA 95.1 REMARK 620 3 HEM B 350 NB 98.7 89.2 REMARK 620 4 HEM B 350 NC 95.6 169.1 91.5 REMARK 620 5 HEM B 350 ND 95.6 87.9 165.6 88.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 352 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 170 O REMARK 620 2 SER B 170 OG 70.6 REMARK 620 3 ASP B 187 OD1 81.3 122.9 REMARK 620 4 ASP B 187 OD2 86.3 81.3 47.5 REMARK 620 5 THR B 189 O 76.6 139.0 73.8 120.8 REMARK 620 6 THR B 189 OG1 141.9 147.2 71.6 94.1 70.6 REMARK 620 7 VAL B 192 O 87.5 79.6 148.5 160.9 75.0 101.9 REMARK 620 8 ASP B 194 OD1 148.5 79.4 124.3 98.3 124.8 69.1 78.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BOQ RELATED DB: PDB REMARK 900 RECOMBINANTE VERSATILE PEROXIDASE WILD TYPE INCUBATED WITH H2O2 REMARK 900 RELATED ID: 3FKG RELATED DB: PDB REMARK 900 RECOMBINANTE VERSATILE PEROXIDASE Q33N, G191E VARIANT REMARK 900 RELATED ID: 3FM1 RELATED DB: PDB REMARK 900 RECOMBINANTE VERSATILE PEROXIDASE G191Q VARIANT, CRYSTALS SOAKED REMARK 900 WITH MN2+ REMARK 900 RELATED ID: 3FM4 RELATED DB: PDB REMARK 900 RECOMBINANTE VERSATILE PEROXIDASE D175A VARIANT REMARK 900 RELATED ID: 3FM6 RELATED DB: PDB REMARK 900 RECOMBINANTE VERSATILE PEROXIDASE F142Q VARIANT REMARK 900 RELATED ID: 3FMU RELATED DB: PDB REMARK 900 RECOMBINANTE VERSATILE PEROXIDASE W164S VARIANT DBREF 3FJW A 1 331 UNP O94753 VPL2_PLEER 31 361 DBREF 3FJW B 1 331 UNP O94753 VPL2_PLEER 31 361 SEQRES 1 A 331 ALA THR CYS ASP ASP GLY ARG THR THR ALA ASN ALA ALA SEQRES 2 A 331 CYS CYS ILE LEU PHE PRO ILE LEU ASP ASP ILE GLN GLU SEQRES 3 A 331 ASN LEU PHE ASP GLY ALA GLN CYS GLY GLU GLU VAL HIS SEQRES 4 A 331 GLU SER LEU ARG LEU THR PHE HIS ASP ALA ILE GLY PHE SEQRES 5 A 331 SER PRO THR LEU GLY GLY GLY GLY ALA ASP GLY SER ILE SEQRES 6 A 331 ILE ALA PHE ASP THR ILE GLU THR ASN PHE PRO ALA ASN SEQRES 7 A 331 ALA GLY ILE ASP GLU ILE VAL SER ALA GLN LYS PRO PHE SEQRES 8 A 331 VAL ALA LYS HIS ASN ILE SER ALA GLY ASP PHE ILE GLN SEQRES 9 A 331 PHE ALA GLY ALA VAL GLY VAL SER ASN CYS PRO GLY GLY SEQRES 10 A 331 VAL ARG ILE PRO PHE PHE LEU GLY ARG PRO ASP ALA VAL SEQRES 11 A 331 ALA ALA SER PRO ASP HIS LEU VAL PRO GLU PRO PHE ASP SEQRES 12 A 331 SER VAL ASP SER ILE LEU ALA ARG MET GLY ASP ALA GLY SEQRES 13 A 331 PHE SER PRO VAL GLU VAL VAL TRP LEU LEU ALA SER HIS SEQRES 14 A 331 SER ILE ALA ALA ALA ASP LYS VAL ASP PRO SER ILE PRO SEQRES 15 A 331 GLY THR PRO PHE ASP SER THR PRO GLY VAL PHE ASP SER SEQRES 16 A 331 GLN PHE PHE ILE GLU THR GLN LEU LYS GLY ARG LEU PHE SEQRES 17 A 331 PRO GLY THR ALA ASP ASN LYS GLY GLU ALA GLN SER PRO SEQRES 18 A 331 LEU GLN GLY GLU ILE ARG LEU GLN SER ASP HIS LEU LEU SEQRES 19 A 331 ALA ARG ASP PRO GLN THR ALA CYS GLU TRP GLN SER MET SEQRES 20 A 331 VAL ASN ASN GLN PRO LYS ILE GLN ASN ARG PHE ALA ALA SEQRES 21 A 331 THR MET SER LYS MET ALA LEU LEU GLY GLN ASP LYS THR SEQRES 22 A 331 LYS LEU ILE ASP CYS SER ASP VAL ILE PRO THR PRO PRO SEQRES 23 A 331 ALA LEU VAL GLY ALA ALA HIS LEU PRO ALA GLY PHE SER SEQRES 24 A 331 LEU SER ASP VAL GLU GLN ALA CYS ALA ALA THR PRO PHE SEQRES 25 A 331 PRO ALA LEU THR ALA ASP PRO GLY PRO VAL THR SER VAL SEQRES 26 A 331 PRO PRO VAL PRO GLY SER SEQRES 1 B 331 ALA THR CYS ASP ASP GLY ARG THR THR ALA ASN ALA ALA SEQRES 2 B 331 CYS CYS ILE LEU PHE PRO ILE LEU ASP ASP ILE GLN GLU SEQRES 3 B 331 ASN LEU PHE ASP GLY ALA GLN CYS GLY GLU GLU VAL HIS SEQRES 4 B 331 GLU SER LEU ARG LEU THR PHE HIS ASP ALA ILE GLY PHE SEQRES 5 B 331 SER PRO THR LEU GLY GLY GLY GLY ALA ASP GLY SER ILE SEQRES 6 B 331 ILE ALA PHE ASP THR ILE GLU THR ASN PHE PRO ALA ASN SEQRES 7 B 331 ALA GLY ILE ASP GLU ILE VAL SER ALA GLN LYS PRO PHE SEQRES 8 B 331 VAL ALA LYS HIS ASN ILE SER ALA GLY ASP PHE ILE GLN SEQRES 9 B 331 PHE ALA GLY ALA VAL GLY VAL SER ASN CYS PRO GLY GLY SEQRES 10 B 331 VAL ARG ILE PRO PHE PHE LEU GLY ARG PRO ASP ALA VAL SEQRES 11 B 331 ALA ALA SER PRO ASP HIS LEU VAL PRO GLU PRO PHE ASP SEQRES 12 B 331 SER VAL ASP SER ILE LEU ALA ARG MET GLY ASP ALA GLY SEQRES 13 B 331 PHE SER PRO VAL GLU VAL VAL TRP LEU LEU ALA SER HIS SEQRES 14 B 331 SER ILE ALA ALA ALA ASP LYS VAL ASP PRO SER ILE PRO SEQRES 15 B 331 GLY THR PRO PHE ASP SER THR PRO GLY VAL PHE ASP SER SEQRES 16 B 331 GLN PHE PHE ILE GLU THR GLN LEU LYS GLY ARG LEU PHE SEQRES 17 B 331 PRO GLY THR ALA ASP ASN LYS GLY GLU ALA GLN SER PRO SEQRES 18 B 331 LEU GLN GLY GLU ILE ARG LEU GLN SER ASP HIS LEU LEU SEQRES 19 B 331 ALA ARG ASP PRO GLN THR ALA CYS GLU TRP GLN SER MET SEQRES 20 B 331 VAL ASN ASN GLN PRO LYS ILE GLN ASN ARG PHE ALA ALA SEQRES 21 B 331 THR MET SER LYS MET ALA LEU LEU GLY GLN ASP LYS THR SEQRES 22 B 331 LYS LEU ILE ASP CYS SER ASP VAL ILE PRO THR PRO PRO SEQRES 23 B 331 ALA LEU VAL GLY ALA ALA HIS LEU PRO ALA GLY PHE SER SEQRES 24 B 331 LEU SER ASP VAL GLU GLN ALA CYS ALA ALA THR PRO PHE SEQRES 25 B 331 PRO ALA LEU THR ALA ASP PRO GLY PRO VAL THR SER VAL SEQRES 26 B 331 PRO PRO VAL PRO GLY SER MODRES 3FJW ASN A 96 ASN GLYCOSYLATION SITE MODRES 3FJW THR A 310 THR GLYCOSYLATION SITE MODRES 3FJW SER A 324 SER GLYCOSYLATION SITE MODRES 3FJW THR A 284 THR GLYCOSYLATION SITE MODRES 3FJW THR A 323 THR GLYCOSYLATION SITE MODRES 3FJW ASN B 96 ASN GLYCOSYLATION SITE MODRES 3FJW THR B 310 THR GLYCOSYLATION SITE MODRES 3FJW SER B 324 SER GLYCOSYLATION SITE MODRES 3FJW THR B 284 THR GLYCOSYLATION SITE MODRES 3FJW THR B 323 THR GLYCOSYLATION SITE HET BMA C 1 11 HET MAN C 2 11 HET BMA D 1 11 HET MAN D 2 11 HET HEM A 350 43 HET CA A 351 1 HET CA A 352 1 HET MN A 353 1 HET NAG A 361 14 HET MAN A 371 11 HET MAN A 381 11 HET MAN A 401 11 HET HEM B 350 43 HET CA B 351 1 HET CA B 352 1 HET MN B 353 1 HET NAG B 361 14 HET MAN B 371 11 HET MAN B 381 11 HET MAN B 401 11 HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM CA CALCIUM ION HETNAM MN MANGANESE (II) ION HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN HEM HEME HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 3 BMA 2(C6 H12 O6) FORMUL 3 MAN 8(C6 H12 O6) FORMUL 5 HEM 2(C34 H32 FE N4 O4) FORMUL 6 CA 4(CA 2+) FORMUL 8 MN 2(MN 2+) FORMUL 9 NAG 2(C8 H15 N O6) FORMUL 21 HOH *452(H2 O) HELIX 1 1 ALA A 12 CYS A 15 5 4 HELIX 2 2 ILE A 16 LEU A 28 1 13 HELIX 3 3 GLY A 35 ILE A 50 1 16 HELIX 4 4 GLY A 63 PHE A 68 1 6 HELIX 5 5 PHE A 68 THR A 73 1 6 HELIX 6 6 ASN A 74 ALA A 79 5 6 HELIX 7 7 ILE A 81 HIS A 95 1 15 HELIX 8 8 SER A 98 SER A 112 1 15 HELIX 9 9 SER A 144 GLY A 156 1 13 HELIX 10 10 SER A 158 LEU A 166 1 9 HELIX 11 11 ALA A 167 ILE A 171 5 5 HELIX 12 12 SER A 195 THR A 201 1 7 HELIX 13 13 GLN A 229 ALA A 235 1 7 HELIX 14 14 THR A 240 MET A 247 1 8 HELIX 15 15 ASN A 250 LEU A 267 1 18 HELIX 16 16 ASP A 271 LEU A 275 5 5 HELIX 17 17 SER A 299 VAL A 303 5 5 HELIX 18 18 ASN B 11 CYS B 15 5 5 HELIX 19 19 ILE B 16 LEU B 28 1 13 HELIX 20 20 GLY B 35 ILE B 50 1 16 HELIX 21 21 GLY B 63 PHE B 68 1 6 HELIX 22 22 PHE B 68 THR B 73 1 6 HELIX 23 23 ASN B 74 ALA B 79 5 6 HELIX 24 24 ILE B 81 HIS B 95 1 15 HELIX 25 25 SER B 98 SER B 112 1 15 HELIX 26 26 SER B 144 GLY B 156 1 13 HELIX 27 27 SER B 158 ALA B 167 1 10 HELIX 28 28 SER B 168 ILE B 171 5 4 HELIX 29 29 SER B 195 THR B 201 1 7 HELIX 30 30 GLN B 229 ALA B 235 1 7 HELIX 31 31 THR B 240 MET B 247 1 8 HELIX 32 32 ASN B 250 ALA B 266 1 17 HELIX 33 33 ASP B 271 LEU B 275 5 5 HELIX 34 34 SER B 279 ILE B 282 5 4 HELIX 35 35 SER B 299 VAL B 303 5 5 SHEET 1 A 2 PHE A 123 LEU A 124 0 SHEET 2 A 2 ILE A 276 ASP A 277 -1 O ILE A 276 N LEU A 124 SHEET 1 B 2 ALA A 173 ALA A 174 0 SHEET 2 B 2 THR A 184 PRO A 185 -1 O THR A 184 N ALA A 174 SHEET 1 C 2 GLU A 217 ALA A 218 0 SHEET 2 C 2 ARG A 227 LEU A 228 -1 O ARG A 227 N ALA A 218 SHEET 1 D 2 PHE B 123 LEU B 124 0 SHEET 2 D 2 ILE B 276 ASP B 277 -1 O ILE B 276 N LEU B 124 SHEET 1 E 2 ALA B 173 ALA B 174 0 SHEET 2 E 2 THR B 184 PRO B 185 -1 O THR B 184 N ALA B 174 SHEET 1 F 2 GLU B 217 ALA B 218 0 SHEET 2 F 2 ARG B 227 LEU B 228 -1 O ARG B 227 N ALA B 218 SSBOND 1 CYS A 3 CYS A 15 1555 1555 2.04 SSBOND 2 CYS A 14 CYS A 278 1555 1555 2.04 SSBOND 3 CYS A 34 CYS A 114 1555 1555 2.04 SSBOND 4 CYS A 242 CYS A 307 1555 1555 2.08 SSBOND 5 CYS B 3 CYS B 15 1555 1555 2.06 SSBOND 6 CYS B 14 CYS B 278 1555 1555 2.05 SSBOND 7 CYS B 34 CYS B 114 1555 1555 2.07 SSBOND 8 CYS B 242 CYS B 307 1555 1555 2.07 LINK ND2 ASN A 96 C1 NAG A 361 1555 1555 1.45 LINK OG1 THR A 284 C1 MAN A 401 1555 1555 1.45 LINK OG1 THR A 310 C1 MAN A 371 1555 1555 1.44 LINK OG1 THR A 323 C1 BMA C 1 1555 1555 1.45 LINK OG SER A 324 C1 MAN A 381 1555 1555 1.42 LINK ND2 ASN B 96 C1 NAG B 361 1555 1555 1.44 LINK OG1 THR B 284 C1 MAN B 401 1555 1555 1.45 LINK OG1 THR B 310 C1 MAN B 371 1555 1555 1.46 LINK OG1 THR B 323 C1 BMA D 1 1555 1555 1.45 LINK OG SER B 324 C1 MAN B 381 1555 1555 1.45 LINK O2 BMA C 1 C1 MAN C 2 1555 1555 1.44 LINK O2 BMA D 1 C1 MAN D 2 1555 1555 1.45 LINK OE2 GLU A 36 MN MN A 353 1555 1555 2.22 LINK OE2 GLU A 40 MN MN A 353 1555 1555 2.21 LINK O ASP A 48 CA CA A 351 1555 1555 2.33 LINK OD1 ASP A 48 CA CA A 351 1555 1555 2.42 LINK O GLY A 60 CA CA A 351 1555 1555 2.32 LINK OD1 ASP A 62 CA CA A 351 1555 1555 2.52 LINK OG SER A 64 CA CA A 351 1555 1555 2.68 LINK NE2 HIS A 169 FE HEM A 350 1555 1555 2.10 LINK O SER A 170 CA CA A 352 1555 1555 2.41 LINK OG SER A 170 CA CA A 352 1555 1555 2.61 LINK OD2 ASP A 175 MN MN A 353 1555 1555 2.20 LINK OD1 ASP A 187 CA CA A 352 1555 1555 2.69 LINK OD2 ASP A 187 CA CA A 352 1555 1555 2.59 LINK O THR A 189 CA CA A 352 1555 1555 2.40 LINK OG1 THR A 189 CA CA A 352 1555 1555 2.33 LINK O VAL A 192 CA CA A 352 1555 1555 2.56 LINK OD1 ASP A 194 CA CA A 352 1555 1555 2.48 LINK O1D HEM A 350 MN MN A 353 1555 1555 2.20 LINK CA CA A 351 O HOH A 415 1555 1555 2.51 LINK CA CA A 351 O HOH A 507 1555 1555 2.18 LINK MN MN A 353 O HOH A 451 1555 1555 2.22 LINK MN MN A 353 O HOH A 482 1555 1555 2.11 LINK OE2 GLU B 36 MN MN B 353 1555 1555 2.23 LINK OE1 GLU B 40 MN MN B 353 1555 1555 2.44 LINK O ASP B 48 CA CA B 351 1555 1555 2.53 LINK OD1 ASP B 48 CA CA B 351 1555 1555 2.41 LINK O GLY B 60 CA CA B 351 1555 1555 2.32 LINK OD1 ASP B 62 CA CA B 351 1555 1555 2.41 LINK OG SER B 64 CA CA B 351 1555 1555 2.37 LINK NE2 HIS B 169 FE HEM B 350 1555 1555 2.11 LINK O SER B 170 CA CA B 352 1555 1555 2.39 LINK OG SER B 170 CA CA B 352 1555 1555 2.51 LINK OD2 ASP B 175 MN MN B 353 1555 1555 2.19 LINK OD1 ASP B 187 CA CA B 352 1555 1555 2.92 LINK OD2 ASP B 187 CA CA B 352 1555 1555 2.33 LINK O THR B 189 CA CA B 352 1555 1555 2.41 LINK OG1 THR B 189 CA CA B 352 1555 1555 2.57 LINK O VAL B 192 CA CA B 352 1555 1555 2.39 LINK OD1 ASP B 194 CA CA B 352 1555 1555 2.40 LINK O HOH B 338 MN MN B 353 1555 1555 2.07 LINK O HOH B 346 MN MN B 353 1555 1555 2.30 LINK O1D HEM B 350 MN MN B 353 1555 1555 2.20 LINK CA CA B 351 O HOH B 365 1555 1555 2.52 LINK CA CA B 351 O HOH B 425 1555 1555 2.10 CRYST1 73.141 92.762 113.278 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 0.013672 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010780 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008828 0.00000