10 20 30 40 50 60 70 80 1OC3 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER OXIDOREDUCTASE 05-FEB-03 1OC3
TITLE HUMAN PEROXIREDOXIN 5
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEROXIREDOXIN 5; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: PEROXIREDOXIN 5, RESIDUES 54-214; COMPND 5 SYNONYM: MITOCHONDRIAL PRECURSOR, PRX-V, PEROXISOMAL ANTIOXIDANT COMPND 6 ENZYME, PLP, THIOREDOXIN PEROXIDASE PMP20, ANTIOXIDANT ENZYME COMPND 7 B166, AOEB166, TPX TYPE VI, LIVER TISSUE 2D-PAGE SPOT 71B, ALU COMPND 8 CO-REPRESSOR 1, SBBI10; COMPND 9 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 STRAIN: M15; SOURCE 6 ORGAN: LUNG; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: M15; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE-30
KEYWDS OXIDOREDUCTASE, ANTIOXIDANT ENZYME, PEROXIREDOXIN, THIOREDOXIN KEYWDS 2 PEROXIDASE, THIOREDOXIN FOLD, PEROXISOME, MITOCHONDRION, TRANSIT KEYWDS 3 PEPTIDE
EXPDTA X-RAY DIFFRACTION
AUTHOR C.EVRARD,J.-P.DECLERCQ
REVDAT 4 14-DEC-16 1OC3 1 COMPND KEYWDS JRNL REMARK REVDAT 4 2 VERSN FORMUL HELIX SHEET REVDAT 4 3 MASTER REVDAT 3 24-FEB-09 1OC3 1 VERSN REVDAT 2 26-MAY-05 1OC3 1 JRNL REVDAT 1 10-FEB-04 1OC3 0
JRNL AUTH C.EVRARD,A.CAPRON,C.MARCHAND,A.CLIPPE,R.WATTIEZ, JRNL AUTH 2 P.SOUMILLION,B.KNOOPS,J.-P.DECLERCQ JRNL TITL CRYSTAL STRUCTURE OF A DIMERIC OXIDIZED FORM OF HUMAN JRNL TITL 2 PEROXIREDOXIN 5 JRNL REF J.MOL.BIOL. V. 337 1079 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 15046979 JRNL DOI 10.1016/J.JMB.2004.02.017
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.P.DECLERCQ,C.EVRARD,A.CLIPPE,D.V.STRICHT,A.BERNARD, REMARK 1 AUTH 2 B.KNOOPS REMARK 1 TITL CRYSTAL STRUCTURE OF HUMAN PEROXIREDOXIN 5, A NOVEL TYPE OF REMARK 1 TITL 2 MAMMALIAN PEROXIREDOXIN AT 1.5 A RESOLUTION REMARK 1 REF J.MOL.BIOL. V. 311 751 2001 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 11518528 REMARK 1 DOI 10.1006/JMBI.2001.4853 REMARK 1 REFERENCE 2 REMARK 1 AUTH J.P.DECLERCQ,C.EVRARD REMARK 1 TITL A TWINNED MONOCLINIC CRYSTAL FORM OF HUMAN PEROXIREDOXIN 5 REMARK 1 TITL 2 WITH EIGHT MOLECULES IN THE ASYMMETRIC UNIT REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. D57 1829 2001 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 11717495 REMARK 1 DOI 10.1107/S0907444901015475 REMARK 1 REFERENCE 3 REMARK 1 AUTH B.KNOOPS,A.CLIPPE,C.BOGARD,K.ARSALANE,R.WATTIEZ,C.HERMANS, REMARK 1 AUTH 2 E.DUCONSEILLE,P.FALMAGNE,A.BERNARD REMARK 1 TITL CLONING AND CHARACTERIZATION OF AOEB166, A NOVEL MAMMALIAN REMARK 1 TITL 2 ANTIOXIDANT ENZYME OF THE PEROXIREDOXIN FAMILY REMARK 1 REF J.BIOL.CHEM. V. 274 30451 1999 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 10521424 REMARK 1 DOI 10.1074/JBC.274.43.30451
REMARK 2 REMARK 2 RESOLUTION. 2.0 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.0 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 72.55 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 36850 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) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1933 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2654 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2860 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3576 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 62 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.80000 REMARK 3 B22 (A**2) : -1.21000 REMARK 3 B33 (A**2) : -3.59000 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): 0.184 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.168 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.175 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.139 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3657 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3443 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4944 ; 1.945 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8034 ; 0.901 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 481 ; 4.963 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 655 ;18.816 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 571 ; 0.118 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4094 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 676 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 766 ; 0.235 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3341 ; 0.216 ; 0.300 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): 218 ; 0.133 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): 3 ; 0.096 ; 0.500 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): 23 ; 0.397 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 80 ; 0.245 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.227 ; 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): 2396 ; 0.913 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3825 ; 1.554 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1261 ; 2.739 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1119 ; 4.504 ; 4.500 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 0 A 161 REMARK 3 RESIDUE RANGE : A 201 A 201 REMARK 3 ORIGIN FOR THE GROUP (A): 12.1250 7.5750 26.5190 REMARK 3 T TENSOR REMARK 3 T11: 0.1510 T22: 0.1153 REMARK 3 T33: 0.1213 T12: -0.0045 REMARK 3 T13: 0.0269 T23: -0.0184 REMARK 3 L TENSOR REMARK 3 L11: 2.1411 L22: 1.4356 REMARK 3 L33: 1.8217 L12: 0.1133 REMARK 3 L13: -0.9742 L23: -0.4160 REMARK 3 S TENSOR REMARK 3 S11: 0.1489 S12: 0.2075 S13: -0.0332 REMARK 3 S21: -0.0785 S22: -0.0863 S23: -0.1409 REMARK 3 S31: -0.1796 S32: 0.1513 S33: -0.0626 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 161 REMARK 3 RESIDUE RANGE : B 201 B 201 REMARK 3 ORIGIN FOR THE GROUP (A): 16.7580 29.8860 68.4880 REMARK 3 T TENSOR REMARK 3 T11: 0.0456 T22: 0.2116 REMARK 3 T33: 0.2017 T12: -0.0557 REMARK 3 T13: -0.0389 T23: 0.0468 REMARK 3 L TENSOR REMARK 3 L11: 1.1930 L22: 2.8155 REMARK 3 L33: 2.7399 L12: -0.2895 REMARK 3 L13: 0.4779 L23: -1.4381 REMARK 3 S TENSOR REMARK 3 S11: -0.0458 S12: 0.1212 S13: 0.1268 REMARK 3 S21: -0.3370 S22: 0.0092 S23: 0.0165 REMARK 3 S31: 0.0806 S32: -0.0607 S33: 0.0366 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 161 REMARK 3 ORIGIN FOR THE GROUP (A): 22.4240 -6.2980 57.0430 REMARK 3 T TENSOR REMARK 3 T11: 0.0931 T22: 0.2347 REMARK 3 T33: 0.1951 T12: -0.0300 REMARK 3 T13: -0.0200 T23: 0.0075 REMARK 3 L TENSOR REMARK 3 L11: 2.0896 L22: 3.4240 REMARK 3 L33: 2.8394 L12: -0.9457 REMARK 3 L13: 0.5710 L23: -2.5917 REMARK 3 S TENSOR REMARK 3 S11: -0.1356 S12: 0.0504 S13: 0.3052 REMARK 3 S21: 0.2800 S22: -0.0715 S23: -0.2475 REMARK 3 S31: -0.5355 S32: 0.1706 S33: 0.2071 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 REMARK 3 RIDING POSITIONS
REMARK 4 REMARK 4 1OC3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-FEB-03. REMARK 100 THE PDBE ID CODE IS EBI-12060.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUL-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.30 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 : BW7B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8441 REMARK 200 MONOCHROMATOR : TRIANGULAR MONOCHROMATOR REMARK 200 OPTICS : PREMIRROR, BENT MIRROR 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 : 38821 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.33200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1HD2 REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN WAS CRYSTALLIZED FROM REMARK 280 20% PEG 3350, 0.1 M SODIUM CITRATE BUFFER, PH 5.3, REMARK 280 1 MM DTT, 0.02 % (W/V) SODIUM AZIDE
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.53000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.53000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 39.59750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 51.02650 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 39.59750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 51.02650 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 72.53000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 39.59750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 51.02650 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 72.53000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 39.59750 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 51.02650 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: PQS 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 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 REDUCES HYDROGEN PEROXIDE AND HYDROPEROXIDES WITH REMARK 400 REDUCING EQUIVALENTS USING THE THIOREDOXIN SYSTEM.
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 ARG A -10 REMARK 465 GLY A -9 REMARK 465 SER A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 GLY A -1 REMARK 465 ARG B -10 REMARK 465 GLY B -9 REMARK 465 SER B -8 REMARK 465 HIS B -7 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 ARG C -10 REMARK 465 GLY C -9 REMARK 465 SER C -8 REMARK 465 HIS C -7 REMARK 465 HIS C -6 REMARK 465 HIS C -5 REMARK 465 HIS C -4 REMARK 465 HIS C -3 REMARK 465 HIS C -2 REMARK 465 GLY C -1 REMARK 465 SER C 0
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 GLU A 83 CD GLU A 83 OE1 -0.074 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 ASP B 114 CB - CG - OD2 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP B 134 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP C 77 CB - CG - OD2 ANGL. DEV. = 5.7 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 THR A 50 -54.84 -123.18 REMARK 500 ASP A 113 -157.18 -83.30 REMARK 500 THR A 150 -94.90 -132.82 REMARK 500 LYS B 93 -46.53 -132.60 REMARK 500 ASP B 113 -156.62 -88.65 REMARK 500 THR B 150 -99.77 -135.05 REMARK 500 PHE C 43 10.23 56.69 REMARK 500 GLU C 91 120.08 -34.64 REMARK 500 ASP C 145 -2.80 60.11 REMARK 500 THR C 147 47.59 -73.51 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 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED.
REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR PROVIDED.
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEZ A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEZ B 201
DBREF 1OC3 A -10 0 PDB 1OC3 1OC3 -10 0 DBREF 1OC3 A 1 161 UNP P30044 PDX5_HUMAN 54 214 DBREF 1OC3 B -10 0 PDB 1OC3 1OC3 -10 0 DBREF 1OC3 B 1 161 UNP P30044 PDX5_HUMAN 54 214 DBREF 1OC3 C -10 0 PDB 1OC3 1OC3 -10 0 DBREF 1OC3 C 1 161 UNP P30044 PDX5_HUMAN 54 214
SEQRES 1 A 172 ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER ALA PRO SEQRES 2 A 172 ILE LYS VAL GLY ASP ALA ILE PRO ALA VAL GLU VAL PHE SEQRES 3 A 172 GLU GLY GLU PRO GLY ASN LYS VAL ASN LEU ALA GLU LEU SEQRES 4 A 172 PHE LYS GLY LYS LYS GLY VAL LEU PHE GLY VAL PRO GLY SEQRES 5 A 172 ALA PHE THR PRO GLY CYS SER LYS THR HIS LEU PRO GLY SEQRES 6 A 172 PHE VAL GLU GLN ALA GLU ALA LEU LYS ALA LYS GLY VAL SEQRES 7 A 172 GLN VAL VAL ALA CYS LEU SER VAL ASN ASP ALA PHE VAL SEQRES 8 A 172 THR GLY GLU TRP GLY ARG ALA HIS LYS ALA GLU GLY LYS SEQRES 9 A 172 VAL ARG LEU LEU ALA ASP PRO THR GLY ALA PHE GLY LYS SEQRES 10 A 172 GLU THR ASP LEU LEU LEU ASP ASP SER LEU VAL SER ILE SEQRES 11 A 172 PHE GLY ASN ARG ARG LEU LYS ARG PHE SER MET VAL VAL SEQRES 12 A 172 GLN ASP GLY ILE VAL LYS ALA LEU ASN VAL GLU PRO ASP SEQRES 13 A 172 GLY THR GLY LEU THR CYS SER LEU ALA PRO ASN ILE ILE SEQRES 14 A 172 SER GLN LEU SEQRES 1 B 172 ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER ALA PRO SEQRES 2 B 172 ILE LYS VAL GLY ASP ALA ILE PRO ALA VAL GLU VAL PHE SEQRES 3 B 172 GLU GLY GLU PRO GLY ASN LYS VAL ASN LEU ALA GLU LEU SEQRES 4 B 172 PHE LYS GLY LYS LYS GLY VAL LEU PHE GLY VAL PRO GLY SEQRES 5 B 172 ALA PHE THR PRO GLY CYS SER LYS THR HIS LEU PRO GLY SEQRES 6 B 172 PHE VAL GLU GLN ALA GLU ALA LEU LYS ALA LYS GLY VAL SEQRES 7 B 172 GLN VAL VAL ALA CYS LEU SER VAL ASN ASP ALA PHE VAL SEQRES 8 B 172 THR GLY GLU TRP GLY ARG ALA HIS LYS ALA GLU GLY LYS SEQRES 9 B 172 VAL ARG LEU LEU ALA ASP PRO THR GLY ALA PHE GLY LYS SEQRES 10 B 172 GLU THR ASP LEU LEU LEU ASP ASP SER LEU VAL SER ILE SEQRES 11 B 172 PHE GLY ASN ARG ARG LEU LYS ARG PHE SER MET VAL VAL SEQRES 12 B 172 GLN ASP GLY ILE VAL LYS ALA LEU ASN VAL GLU PRO ASP SEQRES 13 B 172 GLY THR GLY LEU THR CYS SER LEU ALA PRO ASN ILE ILE SEQRES 14 B 172 SER GLN LEU SEQRES 1 C 172 ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER ALA PRO SEQRES 2 C 172 ILE LYS VAL GLY ASP ALA ILE PRO ALA VAL GLU VAL PHE SEQRES 3 C 172 GLU GLY GLU PRO GLY ASN LYS VAL ASN LEU ALA GLU LEU SEQRES 4 C 172 PHE LYS GLY LYS LYS GLY VAL LEU PHE GLY VAL PRO GLY SEQRES 5 C 172 ALA PHE THR PRO GLY CYS SER LYS THR HIS LEU PRO GLY SEQRES 6 C 172 PHE VAL GLU GLN ALA GLU ALA LEU LYS ALA LYS GLY VAL SEQRES 7 C 172 GLN VAL VAL ALA CYS LEU SER VAL ASN ASP ALA PHE VAL SEQRES 8 C 172 THR GLY GLU TRP GLY ARG ALA HIS LYS ALA GLU GLY LYS SEQRES 9 C 172 VAL ARG LEU LEU ALA ASP PRO THR GLY ALA PHE GLY LYS SEQRES 10 C 172 GLU THR ASP LEU LEU LEU ASP ASP SER LEU VAL SER ILE SEQRES 11 C 172 PHE GLY ASN ARG ARG LEU LYS ARG PHE SER MET VAL VAL SEQRES 12 C 172 GLN ASP GLY ILE VAL LYS ALA LEU ASN VAL GLU PRO ASP SEQRES 13 C 172 GLY THR GLY LEU THR CYS SER LEU ALA PRO ASN ILE ILE SEQRES 14 C 172 SER GLN LEU
HET BEZ A 201 9 HET BEZ B 201 9
HETNAM BEZ BENZOIC ACID
FORMUL 4 BEZ 2(C7 H6 O2) FORMUL 6 HOH *62(H2 O)
HELIX 1 1 LEU A 25 PHE A 29 1 5 HELIX 2 2 THR A 44 THR A 50 1 7 HELIX 3 3 THR A 50 GLN A 58 1 9 HELIX 4 4 GLN A 58 LYS A 65 1 8 HELIX 5 5 ASP A 77 HIS A 88 1 12 HELIX 6 6 GLY A 102 ASP A 109 1 8 HELIX 7 7 LEU A 116 GLY A 121 1 6 HELIX 8 8 LEU A 153 SER A 159 1 7 HELIX 9 9 LEU B 25 LYS B 30 1 6 HELIX 10 10 THR B 44 THR B 50 1 7 HELIX 11 11 THR B 50 GLN B 58 1 9 HELIX 12 12 GLN B 58 LYS B 65 1 8 HELIX 13 13 ASP B 77 HIS B 88 1 12 HELIX 14 14 GLY B 102 ASP B 109 1 8 HELIX 15 15 LEU B 116 GLY B 121 1 6 HELIX 16 16 LEU B 153 GLN B 160 1 8 HELIX 17 17 LEU C 25 PHE C 29 1 5 HELIX 18 18 CYS C 47 THR C 50 5 4 HELIX 19 19 HIS C 51 GLN C 58 1 8 HELIX 20 20 GLN C 58 LYS C 65 1 8 HELIX 21 21 ASP C 77 HIS C 88 1 12 HELIX 22 22 GLY C 102 ASP C 109 1 8 HELIX 23 23 ASP C 113 SER C 115 5 3 HELIX 24 24 LEU C 116 GLY C 121 1 6 HELIX 25 25 ILE C 157 LEU C 161 5 5
SHEET 1 AA 2 GLU A 13 PHE A 15 0 SHEET 2 AA 2 LYS A 22 ASN A 24 -1 O VAL A 23 N VAL A 14 SHEET 1 AB 5 ARG A 95 ALA A 98 0 SHEET 2 AB 5 VAL A 67 SER A 74 1 O VAL A 70 N ARG A 95 SHEET 3 AB 5 LYS A 33 GLY A 38 1 O LYS A 33 N GLN A 68 SHEET 4 AB 5 PHE A 128 GLN A 133 -1 O PHE A 128 N GLY A 38 SHEET 5 AB 5 ILE A 136 VAL A 142 -1 O ILE A 136 N GLN A 133 SHEET 1 BA 7 LYS B 22 ASN B 24 0 SHEET 2 BA 7 GLU B 13 GLU B 16 -1 O VAL B 14 N VAL B 23 SHEET 3 BA 7 ARG B 95 ALA B 98 -1 O ALA B 98 N PHE B 15 SHEET 4 BA 7 VAL B 69 SER B 74 1 O VAL B 70 N ARG B 95 SHEET 5 BA 7 LYS B 33 VAL B 39 1 O VAL B 35 N ALA B 71 SHEET 6 BA 7 PHE B 128 GLN B 133 -1 O PHE B 128 N GLY B 38 SHEET 7 BA 7 ILE B 136 VAL B 142 -1 O ILE B 136 N GLN B 133 SHEET 1 CA 2 GLU C 13 PHE C 15 0 SHEET 2 CA 2 LYS C 22 ASN C 24 -1 O VAL C 23 N VAL C 14 SHEET 1 CB 5 ARG C 95 ALA C 98 0 SHEET 2 CB 5 VAL C 69 SER C 74 1 O VAL C 70 N ARG C 95 SHEET 3 CB 5 LYS C 33 GLY C 38 1 O VAL C 35 N ALA C 71 SHEET 4 CB 5 PHE C 128 GLN C 133 -1 O PHE C 128 N GLY C 38 SHEET 5 CB 5 ILE C 136 VAL C 142 -1 O ILE C 136 N GLN C 133
SSBOND 1 CYS C 47 CYS C 151 1555 4556 2.43
SITE 1 AC1 6 PRO A 40 THR A 44 GLY A 46 CYS A 47 SITE 2 AC1 6 ARG A 127 ALA C 64 SITE 1 AC2 8 LYS A 63 ALA A 64 GLY A 66 PRO B 40 SITE 2 AC2 8 THR B 44 GLY B 46 CYS B 47 ARG B 127
CRYST1 79.195 102.053 145.060 90.00 90.00 90.00 C 2 2 21 24
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 0.012627 0.000000 0.000000 0.00000
SCALE2 0.000000 0.009799 0.000000 0.00000
SCALE3 0.000000 0.000000 0.006894 0.00000
MTRIX1 1 -0.217500 -0.975800 -0.024300 27.50350 1
MTRIX2 1 0.975600 -0.218100 0.024300 19.09820 1
MTRIX3 1 -0.029000 -0.018400 0.999400 42.49590 1
MTRIX1 2 0.243600 -0.969900 0.005300 26.58770 1
MTRIX2 2 0.969900 0.243600 0.000400 -20.18920 1
MTRIX3 2 -0.001600 0.005100 1.000000 30.41330 1