HEADER OXIDOREDUCTASE 27-SEP-17 6EKW TITLE DIRECT-EVOLUTIONED UNSPECIFIC PEROXYGENASE FROM AGROCYBE AEGERITA, IN TITLE 2 COMPLEX WITH NAPHTHALENE COMPND MOL_ID: 1; COMPND 2 MOLECULE: AROMATIC PEROXYGENASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AAP, UNSPECIFIC PEROXYGENASE, UPO; COMPND 5 EC: 1.11.2.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AGROCYBE AEGERITA; SOURCE 3 ORGANISM_COMMON: BLACK POPLAR MUSHROOM; SOURCE 4 ORGANISM_TAXID: 5400; SOURCE 5 GENE: APO1; SOURCE 6 EXPRESSION_SYSTEM: KOMAGATAELLA PHAFFII CBS 7435; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 981350; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: X-33; SOURCE 9 EXPRESSION_SYSTEM_ATCC_NUMBER: 76273; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPICZALPHAB KEYWDS DIRECTED EVOLUTION, PADAI, UNSPECIFIC PEROXYGENASE, UPO, HEME- KEYWDS 2 THIOLATE PEROXIDASE, AGROCYBE AEGERITA, NAPHTHALENE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.RAMIREZ-ESCUDERO,J.SANZ-APARICIO REVDAT 6 13-NOV-24 6EKW 1 REMARK REVDAT 5 17-JAN-24 6EKW 1 HETSYN REVDAT 4 29-JUL-20 6EKW 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 03-APR-19 6EKW 1 JRNL REVDAT 2 19-DEC-18 6EKW 1 JRNL REVDAT 1 12-DEC-18 6EKW 0 JRNL AUTH M.RAMIREZ-ESCUDERO,P.MOLINA-ESPEJA,P.GOMEZ DE SANTOS, JRNL AUTH 2 M.HOFRICHTER,J.SANZ-APARICIO,M.ALCALDE JRNL TITL STRUCTURAL INSIGHTS INTO THE SUBSTRATE PROMISCUITY OF A JRNL TITL 2 LABORATORY-EVOLVED PEROXYGENASE. JRNL REF ACS CHEM.BIOL. V. 13 3259 2018 JRNL REFN ESSN 1554-8937 JRNL PMID 30376293 JRNL DOI 10.1021/ACSCHEMBIO.8B00500 REMARK 2 REMARK 2 RESOLUTION. 1.43 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.43 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 57996 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) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3013 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.43 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.47 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4022 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 189 REMARK 3 BIN FREE R VALUE : 0.2440 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2514 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 202 REMARK 3 SOLVENT ATOMS : 447 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.37000 REMARK 3 B22 (A**2) : -0.96000 REMARK 3 B33 (A**2) : 0.84000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.39000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.061 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.062 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.035 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.927 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2835 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2540 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3848 ; 1.405 ; 2.016 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5862 ; 1.243 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 336 ; 5.684 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 132 ;33.423 ;23.864 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 388 ;11.861 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;17.276 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 408 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3181 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 608 ; 0.011 ; 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): 1349 ; 0.592 ; 1.227 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1328 ; 0.575 ; 1.204 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1670 ; 0.976 ; 1.804 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1671 ; 0.976 ; 1.807 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1486 ; 0.854 ; 1.387 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1487 ; 0.853 ; 1.388 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2179 ; 1.408 ; 2.023 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3470 ; 4.399 ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3315 ; 4.123 ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 50 ;39.666 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 45 ; 4.497 ; 5.000 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 : NULL 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 REMARK 4 REMARK 4 6EKW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-SEP-17. REMARK 100 THE DEPOSITION ID IS D_1200006561. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-APR-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 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) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : KB MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 0.72 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61029 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.430 REMARK 200 RESOLUTION RANGE LOW (A) : 48.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.65100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: MOLREP 11.5.02 REMARK 200 STARTING MODEL: 5OXU REMARK 200 REMARK 200 REMARK: CLUSTER OF PLATES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4M SODIUM POTASSIUM PHOSPHATE PH REMARK 280 5.6, 3% MPD, SOAKING 20MM NAPHTHALENE, 20% METHANOL, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 28.87150 REMARK 290 SMTRY3 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 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 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 GLU A 1 REMARK 465 PRO A 2 REMARK 465 ASP A 328 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 C7 NPY A 1009 O HOH A 1150 1.81 REMARK 500 C2 NPY A 1009 O HOH A 1354 2.15 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 THR A 120 -75.15 -92.58 REMARK 500 ASN A 136 107.06 -160.72 REMARK 500 HIS A 138 -34.98 -132.30 REMARK 500 ASP A 187 -121.48 46.97 REMARK 500 SER A 240 -84.10 -141.74 REMARK 500 HIS A 251 77.04 -154.24 REMARK 500 VAL A 259 51.95 -113.92 REMARK 500 ILE A 287 -61.17 -106.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1547 DISTANCE = 6.12 ANGSTROMS 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 HEM A1000 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 36 SG REMARK 620 2 HEM A1000 NA 95.9 REMARK 620 3 HEM A1000 NB 88.4 89.3 REMARK 620 4 HEM A1000 NC 86.3 177.7 90.3 REMARK 620 5 HEM A1000 ND 93.0 91.4 178.4 89.0 REMARK 620 6 HOH A1150 O 177.3 81.5 90.9 96.2 87.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 122 OE2 REMARK 620 2 GLY A 123 O 85.1 REMARK 620 3 SER A 126 OG 174.4 93.2 REMARK 620 4 HEM A1000 O1A 100.4 85.2 84.7 REMARK 620 5 HOH A1211 O 90.4 172.9 91.8 90.3 REMARK 620 6 HOH A1281 O 84.7 90.1 90.0 172.7 94.9 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YOR RELATED DB: PDB REMARK 900 WILD TYPE PROTEIN, UPO REMARK 900 RELATED ID: 2YP1 RELATED DB: PDB REMARK 900 WILD TYPE PROTEIN, UPO REMARK 900 RELATED ID: 5OXU RELATED DB: PDB REMARK 900 UPO-PADAI REMARK 900 RELATED ID: 5OXT RELATED DB: PDB REMARK 900 UPO-PADAI IN COMPLEX WITH ACETATE REMARK 900 RELATED ID: 5OY1 RELATED DB: PDB REMARK 900 UPO-PADAI IN COMPLEX WITH DMSO REMARK 900 RELATED ID: 5YO2 RELATED DB: PDB REMARK 900 UPO-PADAI IN COMPLEX WITH DMP DBREF 6EKW A 1 328 UNP B9W4V6 APO1_AGRAE 44 371 SEQADV 6EKW ALA A 57 UNP B9W4V6 VAL 100 ENGINEERED MUTATION SEQADV 6EKW PHE A 67 UNP B9W4V6 LEU 110 ENGINEERED MUTATION SEQADV 6EKW ILE A 75 UNP B9W4V6 VAL 118 ENGINEERED MUTATION SEQADV 6EKW VAL A 248 UNP B9W4V6 ILE 291 ENGINEERED MUTATION SEQADV 6EKW LEU A 311 UNP B9W4V6 PHE 354 ENGINEERED MUTATION SEQRES 1 A 328 GLU PRO GLY LEU PRO PRO GLY PRO LEU GLU ASN SER SER SEQRES 2 A 328 ALA LYS LEU VAL ASN ASP GLU ALA HIS PRO TRP LYS PRO SEQRES 3 A 328 LEU ARG PRO GLY ASP ILE ARG GLY PRO CYS PRO GLY LEU SEQRES 4 A 328 ASN THR LEU ALA SER HIS GLY TYR LEU PRO ARG ASN GLY SEQRES 5 A 328 VAL ALA THR PRO ALA GLN ILE ILE ASN ALA VAL GLN GLU SEQRES 6 A 328 GLY PHE ASN PHE ASP ASN GLN ALA ALA ILE PHE ALA THR SEQRES 7 A 328 TYR ALA ALA HIS LEU VAL ASP GLY ASN LEU ILE THR ASP SEQRES 8 A 328 LEU LEU SER ILE GLY ARG LYS THR ARG LEU THR GLY PRO SEQRES 9 A 328 ASP PRO PRO PRO PRO ALA SER VAL GLY GLY LEU ASN GLU SEQRES 10 A 328 HIS GLY THR PHE GLU GLY ASP ALA SER MET THR ARG GLY SEQRES 11 A 328 ASP ALA PHE PHE GLY ASN ASN HIS ASP PHE ASN GLU THR SEQRES 12 A 328 LEU PHE GLU GLN LEU VAL ASP TYR SER ASN ARG PHE GLY SEQRES 13 A 328 GLY GLY LYS TYR ASN LEU THR VAL ALA GLY GLU LEU ARG SEQRES 14 A 328 PHE LYS ARG ILE GLN ASP SER ILE ALA THR ASN PRO ASN SEQRES 15 A 328 PHE SER PHE VAL ASP PHE ARG PHE PHE THR ALA TYR GLY SEQRES 16 A 328 GLU THR THR PHE PRO ALA ASN LEU PHE VAL ASP GLY ARG SEQRES 17 A 328 ARG ASP ASP GLY GLN LEU ASP MET ASP ALA ALA ARG SER SEQRES 18 A 328 PHE PHE GLN PHE SER ARG MET PRO ASP ASP PHE PHE ARG SEQRES 19 A 328 ALA PRO SER PRO ARG SER GLY THR GLY VAL GLU VAL VAL SEQRES 20 A 328 VAL GLN ALA HIS PRO MET GLN PRO GLY ARG ASN VAL GLY SEQRES 21 A 328 LYS ILE ASN SER TYR THR VAL ASP PRO THR SER SER ASP SEQRES 22 A 328 PHE SER THR PRO CYS LEU MET TYR GLU LYS PHE VAL ASN SEQRES 23 A 328 ILE THR VAL LYS SER LEU TYR PRO ASN PRO THR VAL GLN SEQRES 24 A 328 LEU ARG LYS ALA LEU ASN THR ASN LEU ASP PHE LEU PHE SEQRES 25 A 328 GLN GLY VAL ALA ALA GLY CYS THR GLN VAL PHE PRO TYR SEQRES 26 A 328 GLY ARG ASP HET HEM A1000 43 HET MG A1001 1 HET CL A1002 1 HET NAG A1003 14 HET NAG A1004 14 HET NAG A1005 14 HET NAG A1006 14 HET NAG A1007 14 HET PO4 A1008 5 HET NPY A1009 10 HET GOL A1010 6 HET GOL A1011 6 HET GOL A1012 6 HET GOL A1013 6 HET GOL A1014 6 HET GOL A1015 6 HET GOL A1016 6 HET MOH A1017 2 HET MOH A1018 2 HET MOH A1019 4 HET MOH A1020 2 HET MOH A1021 2 HET MOH A1022 2 HET MOH A1023 4 HET MOH A1024 2 HET MOH A1025 2 HET MOH A1026 2 HET MOH A1027 4 HET MOH A1028 4 HET MOH A1029 4 HET MOH A1030 2 HET MOH A1031 2 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM PO4 PHOSPHATE ION HETNAM NPY NAPHTHALENE HETNAM GOL GLYCEROL HETNAM MOH METHANOL 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 HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 MG MG 2+ FORMUL 4 CL CL 1- FORMUL 5 NAG 5(C8 H15 N O6) FORMUL 10 PO4 O4 P 3- FORMUL 11 NPY C10 H8 FORMUL 12 GOL 7(C3 H8 O3) FORMUL 19 MOH 15(C H4 O) FORMUL 34 HOH *447(H2 O) HELIX 1 AA1 CYS A 36 HIS A 45 1 10 HELIX 2 AA2 THR A 55 ASN A 68 1 14 HELIX 3 AA3 ASP A 70 GLY A 86 1 17 HELIX 4 AA4 THR A 99 GLY A 103 5 5 HELIX 5 AA5 ASP A 131 GLY A 135 5 5 HELIX 6 AA6 ASN A 141 GLY A 156 1 16 HELIX 7 AA7 ASN A 161 ASN A 180 1 20 HELIX 8 AA8 VAL A 186 GLU A 196 1 11 HELIX 9 AA9 THR A 198 PHE A 204 1 7 HELIX 10 AB1 ASP A 215 SER A 226 1 12 HELIX 11 AB2 GLY A 243 HIS A 251 1 9 HELIX 12 AB3 THR A 276 ILE A 287 1 12 HELIX 13 AB4 ILE A 287 TYR A 293 1 7 HELIX 14 AB5 THR A 297 GLY A 314 1 18 SHEET 1 AA1 2 VAL A 53 ALA A 54 0 SHEET 2 AA1 2 LEU A 93 SER A 94 -1 O LEU A 93 N ALA A 54 SHEET 1 AA2 3 SER A 184 PHE A 185 0 SHEET 2 AA2 3 GLY A 256 ARG A 257 -1 O GLY A 256 N PHE A 185 SHEET 3 AA2 3 THR A 266 VAL A 267 -1 O THR A 266 N ARG A 257 SSBOND 1 CYS A 278 CYS A 319 1555 1555 2.04 LINK ND2 ASN A 11 C1 NAG A1003 1555 1555 1.43 LINK ND2 ASN A 141 C1 NAG A1005 1555 1555 1.44 LINK ND2 ASN A 161 C1 NAG A1006 1555 1555 1.43 LINK ND2 ASN A 182 C1 NAG A1007 1555 1555 1.44 LINK ND2 ASN A 286 C1 NAG A1004 1555 1555 1.43 LINK SG CYS A 36 FE HEM A1000 1555 1555 2.44 LINK OE2 GLU A 122 MG MG A1001 1555 1555 2.09 LINK O GLY A 123 MG MG A1001 1555 1555 2.12 LINK OG SER A 126 MG MG A1001 1555 1555 2.13 LINK O1A HEM A1000 MG MG A1001 1555 1555 2.13 LINK FE HEM A1000 O HOH A1150 1555 1555 2.10 LINK MG MG A1001 O HOH A1211 1555 1555 2.09 LINK MG MG A1001 O HOH A1281 1555 1555 2.02 CISPEP 1 PRO A 108 PRO A 109 0 8.74 CRYST1 51.187 57.743 61.104 90.00 109.46 90.00 P 1 21 1 2 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 0.019536 0.000000 0.006904 0.00000 SCALE2 0.000000 0.017318 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017357 0.00000 CONECT 62 2610 CONECT 254 2607 CONECT 898 2608 CONECT 902 2608 CONECT 921 2608 CONECT 1043 2638 CONECT 1208 2652 CONECT 1390 2666 CONECT 2163 2495 CONECT 2243 2624 CONECT 2495 2163 CONECT 2565 2569 2596 CONECT 2566 2572 2579 CONECT 2567 2582 2586 CONECT 2568 2589 2593 CONECT 2569 2565 2570 2603 CONECT 2570 2569 2571 2574 CONECT 2571 2570 2572 2573 CONECT 2572 2566 2571 2603 CONECT 2573 2571 CONECT 2574 2570 2575 CONECT 2575 2574 2576 CONECT 2576 2575 2577 2578 CONECT 2577 2576 2608 CONECT 2578 2576 CONECT 2579 2566 2580 2604 CONECT 2580 2579 2581 2583 CONECT 2581 2580 2582 2584 CONECT 2582 2567 2581 2604 CONECT 2583 2580 CONECT 2584 2581 2585 CONECT 2585 2584 CONECT 2586 2567 2587 2605 CONECT 2587 2586 2588 2590 CONECT 2588 2587 2589 2591 CONECT 2589 2568 2588 2605 CONECT 2590 2587 CONECT 2591 2588 2592 CONECT 2592 2591 CONECT 2593 2568 2594 2606 CONECT 2594 2593 2595 2597 CONECT 2595 2594 2596 2598 CONECT 2596 2565 2595 2606 CONECT 2597 2594 CONECT 2598 2595 2599 CONECT 2599 2598 2600 CONECT 2600 2599 2601 2602 CONECT 2601 2600 CONECT 2602 2600 CONECT 2603 2569 2572 2607 CONECT 2604 2579 2582 2607 CONECT 2605 2586 2589 2607 CONECT 2606 2593 2596 2607 CONECT 2607 254 2603 2604 2605 CONECT 2607 2606 2826 CONECT 2608 898 902 921 2577 CONECT 2608 2887 2957 CONECT 2610 62 2611 2621 CONECT 2611 2610 2612 2618 CONECT 2612 2611 2613 2619 CONECT 2613 2612 2614 2620 CONECT 2614 2613 2615 2621 CONECT 2615 2614 2622 CONECT 2616 2617 2618 2623 CONECT 2617 2616 CONECT 2618 2611 2616 CONECT 2619 2612 CONECT 2620 2613 CONECT 2621 2610 2614 CONECT 2622 2615 CONECT 2623 2616 CONECT 2624 2243 2625 2635 CONECT 2625 2624 2626 2632 CONECT 2626 2625 2627 2633 CONECT 2627 2626 2628 2634 CONECT 2628 2627 2629 2635 CONECT 2629 2628 2636 CONECT 2630 2631 2632 2637 CONECT 2631 2630 CONECT 2632 2625 2630 CONECT 2633 2626 CONECT 2634 2627 CONECT 2635 2624 2628 CONECT 2636 2629 CONECT 2637 2630 CONECT 2638 1043 2639 2649 CONECT 2639 2638 2640 2646 CONECT 2640 2639 2641 2647 CONECT 2641 2640 2642 2648 CONECT 2642 2641 2643 2649 CONECT 2643 2642 2650 CONECT 2644 2645 2646 2651 CONECT 2645 2644 CONECT 2646 2639 2644 CONECT 2647 2640 CONECT 2648 2641 CONECT 2649 2638 2642 CONECT 2650 2643 CONECT 2651 2644 CONECT 2652 1208 2653 2663 CONECT 2653 2652 2654 2660 CONECT 2654 2653 2655 2661 CONECT 2655 2654 2656 2662 CONECT 2656 2655 2657 2663 CONECT 2657 2656 2664 CONECT 2658 2659 2660 2665 CONECT 2659 2658 CONECT 2660 2653 2658 CONECT 2661 2654 CONECT 2662 2655 CONECT 2663 2652 2656 CONECT 2664 2657 CONECT 2665 2658 CONECT 2666 1390 2667 2677 CONECT 2667 2666 2668 2674 CONECT 2668 2667 2669 2675 CONECT 2669 2668 2670 2676 CONECT 2670 2669 2671 2677 CONECT 2671 2670 2678 CONECT 2672 2673 2674 2679 CONECT 2673 2672 CONECT 2674 2667 2672 CONECT 2675 2668 CONECT 2676 2669 CONECT 2677 2666 2670 CONECT 2678 2671 CONECT 2679 2672 CONECT 2680 2681 2682 2683 2684 CONECT 2681 2680 CONECT 2682 2680 CONECT 2683 2680 CONECT 2684 2680 CONECT 2685 2686 2694 CONECT 2686 2685 2687 CONECT 2687 2686 2688 CONECT 2688 2687 2689 CONECT 2689 2688 2690 2694 CONECT 2690 2689 2691 CONECT 2691 2690 2692 CONECT 2692 2691 2693 CONECT 2693 2692 2694 CONECT 2694 2685 2689 2693 CONECT 2695 2696 2697 CONECT 2696 2695 CONECT 2697 2695 2698 2699 CONECT 2698 2697 CONECT 2699 2697 2700 CONECT 2700 2699 CONECT 2701 2702 2703 CONECT 2702 2701 CONECT 2703 2701 2704 2705 CONECT 2704 2703 CONECT 2705 2703 2706 CONECT 2706 2705 CONECT 2707 2708 2709 CONECT 2708 2707 CONECT 2709 2707 2710 2711 CONECT 2710 2709 CONECT 2711 2709 2712 CONECT 2712 2711 CONECT 2713 2714 2715 CONECT 2714 2713 CONECT 2715 2713 2716 2717 CONECT 2716 2715 CONECT 2717 2715 2718 CONECT 2718 2717 CONECT 2719 2720 2721 CONECT 2720 2719 CONECT 2721 2719 2722 2723 CONECT 2722 2721 CONECT 2723 2721 2724 CONECT 2724 2723 CONECT 2725 2726 2727 CONECT 2726 2725 CONECT 2727 2725 2728 2729 CONECT 2728 2727 CONECT 2729 2727 2730 CONECT 2730 2729 CONECT 2731 2732 2733 CONECT 2732 2731 CONECT 2733 2731 2734 2735 CONECT 2734 2733 CONECT 2735 2733 2736 CONECT 2736 2735 CONECT 2737 2738 CONECT 2738 2737 CONECT 2739 2740 CONECT 2740 2739 CONECT 2741 2743 CONECT 2742 2744 CONECT 2743 2741 CONECT 2744 2742 CONECT 2745 2746 CONECT 2746 2745 CONECT 2747 2748 CONECT 2748 2747 CONECT 2749 2750 CONECT 2750 2749 CONECT 2751 2753 CONECT 2752 2754 CONECT 2753 2751 CONECT 2754 2752 CONECT 2755 2756 CONECT 2756 2755 CONECT 2757 2758 CONECT 2758 2757 CONECT 2759 2760 CONECT 2760 2759 CONECT 2761 2763 CONECT 2762 2764 CONECT 2763 2761 CONECT 2764 2762 CONECT 2765 2767 CONECT 2766 2768 CONECT 2767 2765 CONECT 2768 2766 CONECT 2769 2771 CONECT 2770 2772 CONECT 2771 2769 CONECT 2772 2770 CONECT 2773 2774 CONECT 2774 2773 CONECT 2775 2776 CONECT 2776 2775 CONECT 2826 2607 CONECT 2887 2608 CONECT 2957 2608 MASTER 330 0 32 14 5 0 0 6 3163 1 227 26 END