HEADER OXIDOREDUCTASE 07-AUG-15 5ABN TITLE CRYSTAL STRUCTURE ANALYSIS OF FUNGAL VERSATILE PEROXIDASE FROM TITLE 2 PLEUROTUS ERYNGII. MUTANT VPI. MUTATED RESIDUES D69S, T70D, S86E, TITLE 3 D146T, Q202L, H232E, Q239R AND S301K. COMPND MOL_ID: 1; COMPND 2 MOLECULE: VERSATILE PEROXIDASE VPL2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: VERSATILE PEROXIDASE, VERSATILE LIQUID PHASE PEROXIDASE 2; COMPND 5 EC: 1.11.1.16; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES 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; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 316407; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: W3110 KEYWDS CLASS II (FUNGAL) PEROXIDASES, PROTOPORPHYRIN IX, ELECTRON TRANSFER, KEYWDS 2 LIGNIN PEROXIDASE, LIGNIN DEGRADATION, MANGANESE PEROXIDASE, MN- KEYWDS 3 INDEPENDENT OXIDATION PHENOLIC NON-PHENOLIC AROMATICS, MNII KEYWDS 4 OXIDATION, PEROXIDASE, POLYVALENT PEROXIDASE, OXIDOREDUCTASE, HEME, KEYWDS 5 HYDROGEN PEROXIDE, IRON, MANGANESE, METAL-BINDING, SECRETED, ZYMOGEN EXPDTA X-RAY DIFFRACTION AUTHOR F.J.MEDRANO,A.ROMERO REVDAT 3 13-NOV-24 5ABN 1 REMARK REVDAT 2 10-JAN-24 5ABN 1 REMARK LINK REVDAT 1 04-NOV-15 5ABN 0 JRNL AUTH V.SAEZ-JIMENEZ,E.FERNENDEZ-FUEYO,F.J.MEDRANO,A.ROMERO, JRNL AUTH 2 A.T.MARTINEZ,F.J.RUIZ-DUENAS JRNL TITL IMPROVING THE PH-STABILITY OF VERSATILE PEROXIDASE BY JRNL TITL 2 COMPARATIVE STRUCTURAL ANALYSIS WITH A NATURALLY-STABLE JRNL TITL 3 MANGANESE PEROXIDASE. JRNL REF PLOS ONE V. 10 40984 2015 JRNL REFN ESSN 1932-6203 JRNL PMID 26496708 JRNL DOI 10.1371/JOURNAL.PONE.0140984 REMARK 2 REMARK 2 RESOLUTION. 2.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.50 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 14361 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.275 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1432 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 38.5051 - 4.7238 1.00 1399 155 0.1864 0.2586 REMARK 3 2 4.7238 - 3.7505 1.00 1329 148 0.1650 0.2334 REMARK 3 3 3.7505 - 3.2767 1.00 1302 144 0.1992 0.2474 REMARK 3 4 3.2767 - 2.9772 1.00 1297 143 0.2339 0.2859 REMARK 3 5 2.9772 - 2.7639 1.00 1281 143 0.2296 0.3389 REMARK 3 6 2.7639 - 2.6010 0.99 1283 139 0.2368 0.3377 REMARK 3 7 2.6010 - 2.4707 0.99 1269 142 0.2470 0.3085 REMARK 3 8 2.4707 - 2.3632 0.99 1254 139 0.2589 0.3464 REMARK 3 9 2.3632 - 2.2722 0.98 1262 139 0.2712 0.3041 REMARK 3 10 2.2722 - 2.1938 0.98 1253 140 0.3003 0.3542 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.320 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.490 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.93 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 2520 REMARK 3 ANGLE : 1.337 3449 REMARK 3 CHIRALITY : 0.049 381 REMARK 3 PLANARITY : 0.008 463 REMARK 3 DIHEDRAL : 15.873 894 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 27 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.9367 17.0135 2.1527 REMARK 3 T TENSOR REMARK 3 T11: 0.9019 T22: 0.5137 REMARK 3 T33: 0.5338 T12: 0.0906 REMARK 3 T13: 0.0705 T23: 0.2470 REMARK 3 L TENSOR REMARK 3 L11: 0.2504 L22: 0.3467 REMARK 3 L33: 0.9343 L12: -0.3001 REMARK 3 L13: -0.4867 L23: 0.5706 REMARK 3 S TENSOR REMARK 3 S11: 0.6377 S12: 0.1695 S13: 0.4120 REMARK 3 S21: -0.5857 S22: 0.2781 S23: 0.0609 REMARK 3 S31: -0.8084 S32: 0.3259 S33: 0.1148 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 28 THROUGH 49 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.4118 5.0383 14.9830 REMARK 3 T TENSOR REMARK 3 T11: 0.3580 T22: 0.4207 REMARK 3 T33: 0.4136 T12: 0.0151 REMARK 3 T13: 0.0928 T23: 0.0919 REMARK 3 L TENSOR REMARK 3 L11: 0.1721 L22: 0.2129 REMARK 3 L33: 0.0280 L12: -0.1664 REMARK 3 L13: 0.0565 L23: 0.0114 REMARK 3 S TENSOR REMARK 3 S11: -0.0454 S12: -0.1476 S13: 0.4188 REMARK 3 S21: -0.4255 S22: -0.1175 S23: -0.3139 REMARK 3 S31: 0.0170 S32: 0.1607 S33: -0.0007 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 50 THROUGH 158 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.1551 0.8445 17.9031 REMARK 3 T TENSOR REMARK 3 T11: 0.2800 T22: 0.3182 REMARK 3 T33: 0.3572 T12: -0.0026 REMARK 3 T13: -0.0500 T23: -0.0040 REMARK 3 L TENSOR REMARK 3 L11: 0.9610 L22: 2.3653 REMARK 3 L33: 0.4838 L12: -0.8631 REMARK 3 L13: -0.8382 L23: 0.3969 REMARK 3 S TENSOR REMARK 3 S11: 0.0300 S12: 0.0347 S13: -0.0053 REMARK 3 S21: -0.0517 S22: -0.0272 S23: 0.4662 REMARK 3 S31: 0.0019 S32: -0.0868 S33: -0.0003 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 159 THROUGH 250 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.8653 -11.1075 15.8977 REMARK 3 T TENSOR REMARK 3 T11: 0.4135 T22: 0.4181 REMARK 3 T33: 0.6061 T12: 0.0430 REMARK 3 T13: 0.2027 T23: 0.0553 REMARK 3 L TENSOR REMARK 3 L11: 0.7235 L22: 1.8976 REMARK 3 L33: 0.5454 L12: -0.5125 REMARK 3 L13: -0.2552 L23: -0.2127 REMARK 3 S TENSOR REMARK 3 S11: 0.1866 S12: -0.1343 S13: -0.0284 REMARK 3 S21: -0.9308 S22: -0.3442 S23: -1.4625 REMARK 3 S31: 0.0591 S32: 0.1812 S33: -0.0098 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 251 THROUGH 296 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.8082 -1.8450 3.4374 REMARK 3 T TENSOR REMARK 3 T11: 0.9696 T22: 0.4271 REMARK 3 T33: 0.0310 T12: 0.0829 REMARK 3 T13: -0.0607 T23: 0.0642 REMARK 3 L TENSOR REMARK 3 L11: 0.1803 L22: 1.7209 REMARK 3 L33: 0.1056 L12: 0.4887 REMARK 3 L13: 0.1169 L23: 0.1326 REMARK 3 S TENSOR REMARK 3 S11: -0.0267 S12: -0.0436 S13: 0.0178 REMARK 3 S21: -1.7028 S22: -0.2499 S23: 0.0935 REMARK 3 S31: 0.0093 S32: 0.1378 S33: -0.3469 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 297 THROUGH 327 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.6171 -16.7277 7.8833 REMARK 3 T TENSOR REMARK 3 T11: 1.0315 T22: 0.8818 REMARK 3 T33: 0.9867 T12: 0.1744 REMARK 3 T13: 0.2872 T23: -0.0796 REMARK 3 L TENSOR REMARK 3 L11: 0.2007 L22: 0.1354 REMARK 3 L33: 0.2124 L12: -0.0117 REMARK 3 L13: -0.1561 L23: -0.0750 REMARK 3 S TENSOR REMARK 3 S11: -0.0508 S12: 0.3844 S13: -0.4595 REMARK 3 S21: 0.2066 S22: 0.2906 S23: 0.2958 REMARK 3 S31: 0.2917 S32: 0.6422 S33: 0.0009 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5ABN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1290064626. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14447 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 12.70 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 13.00 REMARK 200 R MERGE FOR SHELL (I) : 0.77000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3FMU REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM MES BUFFER AT PH 6.5, 25% REMARK 280 PEG 4000, 0.2 M MGCL2 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 23.27350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.45800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.24900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.45800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.27350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.24900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 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 ALA A 1 REMARK 465 VAL A 328 REMARK 465 PRO A 329 REMARK 465 GLY A 330 REMARK 465 SER A 331 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 CB CYS A 3 SG CYS A 15 1.93 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 CYS A 3 CB CYS A 3 SG -0.105 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 CYS A 3 -41.11 -145.49 REMARK 500 ASP A 4 -62.29 -173.27 REMARK 500 ALA A 32 101.74 62.69 REMARK 500 ALA A 131 147.92 -172.77 REMARK 500 ILE A 171 69.42 -116.51 REMARK 500 SER A 246 -33.36 -37.96 REMARK 500 ASN A 249 93.62 -3.36 REMARK 500 ASN A 250 89.10 -154.08 REMARK 500 GLN A 251 -37.39 -36.96 REMARK 500 PRO A 252 -70.21 -29.97 REMARK 500 PRO A 295 106.79 -57.05 REMARK 500 ALA A 296 -123.22 -22.68 REMARK 500 SER A 299 -158.42 -98.41 REMARK 500 PHE A 312 135.14 -21.43 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASN A 249 ASN A 250 134.20 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 MG A1329 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 40 OE2 REMARK 620 2 ASP A 175 OD2 85.0 REMARK 620 3 HEM A 500 O1D 104.7 147.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 48 O REMARK 620 2 ASP A 48 OD1 88.0 REMARK 620 3 GLY A 60 O 68.9 98.5 REMARK 620 4 ASP A 62 OD1 136.4 79.3 71.9 REMARK 620 5 SER A 64 OG 144.8 88.1 146.1 76.8 REMARK 620 6 HOH A2006 O 75.7 89.7 143.3 144.7 69.3 REMARK 620 7 HOH A2009 O 102.8 167.3 91.6 96.7 79.2 86.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1328 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 96 OD1 REMARK 620 2 GLU A 140 OE1 102.3 REMARK 620 3 ASP A 143 OD1 78.2 101.0 REMARK 620 4 ASP A 143 OD2 128.6 98.3 51.7 REMARK 620 5 HOH A2024 O 79.2 80.8 157.2 151.0 REMARK 620 6 HOH A2026 O 79.6 166.4 92.6 90.7 86.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A 500 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 169 NE2 REMARK 620 2 HEM A 500 NA 93.7 REMARK 620 3 HEM A 500 NB 95.5 86.3 REMARK 620 4 HEM A 500 NC 96.8 168.6 88.3 REMARK 620 5 HEM A 500 ND 98.3 92.3 166.1 90.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 170 OG REMARK 620 2 SER A 170 O 78.3 REMARK 620 3 ASP A 187 OD2 86.4 93.7 REMARK 620 4 ASP A 187 OD1 128.3 78.0 50.5 REMARK 620 5 THR A 189 O 142.8 86.3 128.6 79.7 REMARK 620 6 THR A 189 OG1 135.7 145.4 94.9 81.9 62.5 REMARK 620 7 VAL A 192 O 76.2 90.0 161.1 148.2 70.2 92.6 REMARK 620 8 ASP A 194 OD1 76.7 154.4 90.0 122.5 110.9 59.0 79.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1328 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1329 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5ABO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE ANALYSIS OF FUNGAL VERSATILE PEROXIDASE FROM REMARK 900 PLEUROTUS ERYNGII. MUTANT VPI-BR. MUTATED RESIDUES T2K, D69S, T70D, REMARK 900 S86E, A131K, D146T, Q202L, Q219K, H232E, Q239R, L288R, S301K, A308R, REMARK 900 A309K AND A314R. REMARK 900 RELATED ID: 5ABQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE ANALYSIS OF FUNGAL VERSATILE PEROXIDASE FROM REMARK 900 PLEUROTUS ERYNGII. MUTANT VPI-SS. MUTATED RESIDUES T2K, A49C, A61C, REMARK 900 D69S, T70D, S86E, A131K, D146T, Q202L, Q219K, H232E, Q239R, L288R, REMARK 900 S301K, A308R, A309K AND A314R. DBREF 5ABN A 1 331 UNP O94753 VPL2_PLEER 31 361 SEQADV 5ABN SER A 69 UNP O94753 ASP 99 ENGINEERED MUTATION SEQADV 5ABN ASP A 70 UNP O94753 THR 100 ENGINEERED MUTATION SEQADV 5ABN GLU A 86 UNP O94753 SER 116 ENGINEERED MUTATION SEQADV 5ABN THR A 146 UNP O94753 ASP 176 ENGINEERED MUTATION SEQADV 5ABN LEU A 202 UNP O94753 GLN 232 ENGINEERED MUTATION SEQADV 5ABN GLU A 232 UNP O94753 HIS 262 ENGINEERED MUTATION SEQADV 5ABN ARG A 239 UNP O94753 GLN 269 ENGINEERED MUTATION SEQADV 5ABN LYS A 301 UNP O94753 SER 331 ENGINEERED MUTATION 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 SER ASP ILE GLU THR ASN PHE PRO ALA ASN SEQRES 7 A 331 ALA GLY ILE ASP GLU ILE VAL GLU 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 THR 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 LEU 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 GLU LEU LEU SEQRES 19 A 331 ALA ARG ASP PRO ARG 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 LYS 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 HET CA A 401 1 HET CA A 402 1 HET HEM A 500 43 HET MG A1328 1 HET MG A1329 1 HETNAM CA CALCIUM ION HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM MG MAGNESIUM ION HETSYN HEM HEME FORMUL 2 CA 2(CA 2+) FORMUL 4 HEM C34 H32 FE N4 O4 FORMUL 5 MG 2(MG 2+) FORMUL 7 HOH *31(H2 O) HELIX 1 1 ASN A 11 CYS A 15 5 5 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 ASN A 113 1 16 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 ASP A 237 1 9 HELIX 14 14 THR A 240 MET A 247 1 8 HELIX 15 15 ASN A 250 ALA A 266 1 17 HELIX 16 16 ASP A 271 LEU A 275 5 5 HELIX 17 17 SER A 279 ILE A 282 5 4 HELIX 18 18 SER A 299 ASP A 302 5 4 SHEET 1 AA 2 PHE A 52 SER A 53 0 SHEET 2 AA 2 GLY A 57 GLY A 59 -1 O GLY A 57 N SER A 53 SHEET 1 AB 2 PHE A 123 LEU A 124 0 SHEET 2 AB 2 ILE A 276 ASP A 277 -1 O ILE A 276 N LEU A 124 SHEET 1 AC 2 ALA A 173 ALA A 174 0 SHEET 2 AC 2 THR A 184 PRO A 185 -1 O THR A 184 N ALA A 174 SHEET 1 AD 2 GLU A 217 ALA A 218 0 SHEET 2 AD 2 ARG A 227 LEU A 228 -1 O ARG A 227 N ALA A 218 SSBOND 1 CYS A 3 CYS A 15 1555 1555 2.09 SSBOND 2 CYS A 14 CYS A 278 1555 1555 2.03 SSBOND 3 CYS A 34 CYS A 114 1555 1555 2.04 SSBOND 4 CYS A 242 CYS A 307 1555 1555 2.04 LINK OE2 GLU A 40 MG MG A1329 1555 1555 2.53 LINK O ASP A 48 CA CA A 401 1555 1555 2.42 LINK OD1 ASP A 48 CA CA A 401 1555 1555 2.38 LINK O GLY A 60 CA CA A 401 1555 1555 2.44 LINK OD1 ASP A 62 CA CA A 401 1555 1555 2.50 LINK OG SER A 64 CA CA A 401 1555 1555 2.56 LINK OD1 ASN A 96 MG MG A1328 3445 1555 2.38 LINK OE1 GLU A 140 MG MG A1328 1555 1555 2.49 LINK OD1 ASP A 143 MG MG A1328 1555 1555 2.52 LINK OD2 ASP A 143 MG MG A1328 1555 1555 2.49 LINK NE2 HIS A 169 FE HEM A 500 1555 1555 2.37 LINK OG SER A 170 CA CA A 402 1555 1555 2.43 LINK O SER A 170 CA CA A 402 1555 1555 2.37 LINK OD2 ASP A 175 MG MG A1329 1555 1555 2.39 LINK OD2 ASP A 187 CA CA A 402 1555 1555 2.32 LINK OD1 ASP A 187 CA CA A 402 1555 1555 2.75 LINK O THR A 189 CA CA A 402 1555 1555 2.56 LINK OG1 THR A 189 CA CA A 402 1555 1555 2.73 LINK O VAL A 192 CA CA A 402 1555 1555 2.60 LINK OD1 ASP A 194 CA CA A 402 1555 1555 2.58 LINK CA CA A 401 O HOH A2006 1555 1555 2.44 LINK CA CA A 401 O HOH A2009 1555 1555 2.36 LINK O1D HEM A 500 MG MG A1329 1555 1555 2.06 LINK MG MG A1328 O HOH A2024 1555 1555 2.49 LINK MG MG A1328 O HOH A2026 1555 1555 2.22 CISPEP 1 THR A 2 CYS A 3 0 -16.11 SITE 1 AC1 6 ASP A 48 GLY A 60 ASP A 62 SER A 64 SITE 2 AC1 6 HOH A2006 HOH A2009 SITE 1 AC2 5 SER A 170 ASP A 187 THR A 189 VAL A 192 SITE 2 AC2 5 ASP A 194 SITE 1 AC3 19 HIS A 39 GLU A 40 LEU A 42 ARG A 43 SITE 2 AC3 19 PHE A 46 GLU A 140 PRO A 141 SER A 168 SITE 3 AC3 19 HIS A 169 ALA A 172 ALA A 173 ALA A 174 SITE 4 AC3 19 ASP A 175 LYS A 176 VAL A 177 PHE A 186 SITE 5 AC3 19 LEU A 228 SER A 230 MG A1329 SITE 1 AC4 5 ASN A 96 GLU A 140 ASP A 143 HOH A2024 SITE 2 AC4 5 HOH A2026 SITE 1 AC5 4 GLU A 36 GLU A 40 ASP A 175 HEM A 500 CRYST1 46.547 68.498 84.916 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 0.021484 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014599 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011776 0.00000