HEADER OXIDOREDUCTASE 22-AUG-06 2J3K TITLE CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA DOUBLE BOND REDUCTASE TITLE 2 (AT5G16970)-TERNARY COMPLEX II COMPND MOL_ID: 1; COMPND 2 MOLECULE: NADPH-DEPENDENT OXIDOREDUCTASE 2-ALKENAL REDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ATAER,NADP-DEPENDENT ALKENAL DOUBLE BOND REDUCTASE P1,DBR1, COMPND 5 NADPH-AZODICARBONYL/QUINONE REDUCTASE,NADPH:2-ALKENAL/ONE ALPHA,BETA- COMPND 6 HYDROGENASE,ALH,P1-ZETA-CRYSTALLIN PROTEIN,P1-ZCR; COMPND 7 EC: 1.3.1.-,1.3.1.74; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: TOP10 KEYWDS OXIDOREDUCTASE, ARABIDOPSIS THALIANA, 4-HYDROXY-2- NONENAL, NADP, KEYWDS 2 TERNARY COMPLEX II, DOUBLE BOND REDUCTASE (AT5G16970) EXPDTA X-RAY DIFFRACTION AUTHOR B.YOUN,S.J.KIM,S.G.MOINUDDIN,C.LEE,D.L.BEDGAR,A.R.HARPER,L.B.DAVIN, AUTHOR 2 N.G.LEWIS,C.KANG REVDAT 8 08-MAY-24 2J3K 1 REMARK REVDAT 7 29-JUL-20 2J3K 1 COMPND REVDAT 6 16-OCT-19 2J3K 1 SOURCE REMARK REVDAT 5 05-DEC-18 2J3K 1 COMPND SOURCE JRNL DBREF REVDAT 4 24-FEB-09 2J3K 1 VERSN REVDAT 3 02-JAN-07 2J3K 1 JRNL REVDAT 2 11-OCT-06 2J3K 1 AUTHOR JRNL REVDAT 1 05-OCT-06 2J3K 0 JRNL AUTH B.YOUN,S.J.KIM,S.G.MOINUDDIN,C.LEE,D.L.BEDGAR,A.R.HARPER, JRNL AUTH 2 L.B.DAVIN,N.G.LEWIS,C.KANG JRNL TITL MECHANISTIC AND STRUCTURAL STUDIES OF APOFORM, BINARY, AND JRNL TITL 2 TERNARY COMPLEXES OF THE ARABIDOPSIS ALKENAL DOUBLE BOND JRNL TITL 3 REDUCTASE AT5G16970. JRNL REF J. BIOL. CHEM. V. 281 40076 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 17028190 JRNL DOI 10.1074/JBC.M605900200 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 82.6 REMARK 3 NUMBER OF REFLECTIONS : 20187 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5304 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 118 REMARK 3 SOLVENT ATOMS : 134 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.025 REMARK 3 BOND ANGLES (DEGREES) : 4.600 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2J3K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1290029789. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 277.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07812 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23815 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 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 (%) : 82.6 REMARK 200 DATA REDUNDANCY : 5.380 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: RESERVOIR SOLUTION CONTAINING 20% REMARK 280 (W/V) POLYETHYLENE GLYCOL 3350 AND 0.2 M POTASSIUM CHLORIDE, REMARK 280 VAPOR DIFFUSION, HANGING DROP 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 24.54000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 73.92000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 61.22500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 73.92000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.54000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 61.22500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 PRO A 61 REMARK 465 ASP A 62 REMARK 465 PRO A 63 REMARK 465 SER A 64 REMARK 465 THR A 65 REMARK 465 ALA A 66 REMARK 465 ALA A 67 REMARK 465 LEU A 68 REMARK 465 ALA A 69 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 OH TYR B 1208 O3X NAP B 2346 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 91 NE2 HIS A 91 CD2 -0.081 REMARK 500 HIS A 119 NE2 HIS A 119 CD2 -0.076 REMARK 500 HIS A 248 NE2 HIS A 248 CD2 -0.068 REMARK 500 HIS A 269 NE2 HIS A 269 CD2 -0.068 REMARK 500 HIS A 303 NE2 HIS A 303 CD2 -0.075 REMARK 500 HIS A 331 NE2 HIS A 331 CD2 -0.069 REMARK 500 HIS B1091 NE2 HIS B1091 CD2 -0.077 REMARK 500 HIS B1119 NE2 HIS B1119 CD2 -0.088 REMARK 500 HIS B1248 NE2 HIS B1248 CD2 -0.075 REMARK 500 HIS B1269 NE2 HIS B1269 CD2 -0.079 REMARK 500 HIS B1303 NE2 HIS B1303 CD2 -0.073 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 LYS A 6 CA - CB - CG ANGL. DEV. = 13.7 DEGREES REMARK 500 VAL A 8 CG1 - CB - CG2 ANGL. DEV. = -10.6 DEGREES REMARK 500 VAL A 30 CG1 - CB - CG2 ANGL. DEV. = -12.4 DEGREES REMARK 500 ARG A 33 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 55 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 57 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 TYR A 72 CB - CG - CD2 ANGL. DEV. = 4.4 DEGREES REMARK 500 TYR A 72 CB - CG - CD1 ANGL. DEV. = -7.0 DEGREES REMARK 500 PRO A 74 C - N - CA ANGL. DEV. = 9.4 DEGREES REMARK 500 PRO A 74 CA - N - CD ANGL. DEV. = -8.7 DEGREES REMARK 500 ARG A 85 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 LEU A 99 CA - CB - CG ANGL. DEV. = 19.7 DEGREES REMARK 500 LEU A 100 CA - CB - CG ANGL. DEV. = 17.1 DEGREES REMARK 500 TRP A 101 CA - CB - CG ANGL. DEV. = 11.9 DEGREES REMARK 500 TRP A 101 CD1 - CG - CD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 TRP A 101 CB - CG - CD1 ANGL. DEV. = -8.5 DEGREES REMARK 500 TRP A 101 CE2 - CD2 - CG ANGL. DEV. = -6.3 DEGREES REMARK 500 TRP A 101 CG - CD2 - CE3 ANGL. DEV. = 5.7 DEGREES REMARK 500 ILE A 103 CA - C - N ANGL. DEV. = -15.8 DEGREES REMARK 500 TRP A 106 CD1 - CG - CD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 TRP A 106 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 LEU A 129 CA - CB - CG ANGL. DEV. = 21.1 DEGREES REMARK 500 TYR A 131 CB - CG - CD2 ANGL. DEV. = 4.2 DEGREES REMARK 500 TYR A 131 CB - CG - CD1 ANGL. DEV. = -4.4 DEGREES REMARK 500 CYS A 151 CA - CB - SG ANGL. DEV. = 7.2 DEGREES REMARK 500 TYR A 160 CB - CG - CD2 ANGL. DEV. = -5.2 DEGREES REMARK 500 TYR A 160 CB - CG - CD1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ALA A 163 CA - C - N ANGL. DEV. = -17.0 DEGREES REMARK 500 VAL A 168 CG1 - CB - CG2 ANGL. DEV. = -11.0 DEGREES REMARK 500 MET A 179 CG - SD - CE ANGL. DEV. = -9.7 DEGREES REMARK 500 CYS A 181 CA - CB - SG ANGL. DEV. = 6.9 DEGREES REMARK 500 VAL A 193 CG1 - CB - CG2 ANGL. DEV. = -9.9 DEGREES REMARK 500 THR A 198 CA - CB - CG2 ANGL. DEV. = 11.5 DEGREES REMARK 500 PHE A 200 CB - CG - CD2 ANGL. DEV. = -4.6 DEGREES REMARK 500 PHE A 202 CB - CG - CD2 ANGL. DEV. = 4.6 DEGREES REMARK 500 PHE A 202 CB - CG - CD1 ANGL. DEV. = -4.6 DEGREES REMARK 500 GLU A 211 CA - C - N ANGL. DEV. = -14.7 DEGREES REMARK 500 LYS A 219 CA - CB - CG ANGL. DEV. = 15.0 DEGREES REMARK 500 GLU A 231 CA - CB - CG ANGL. DEV. = 15.1 DEGREES REMARK 500 MET A 237 CA - CB - CG ANGL. DEV. = -10.8 DEGREES REMARK 500 VAL A 243 CG1 - CB - CG2 ANGL. DEV. = -9.9 DEGREES REMARK 500 HIS A 248 CA - C - N ANGL. DEV. = -12.0 DEGREES REMARK 500 ARG A 250 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 250 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 VAL A 253 CG1 - CB - CG2 ANGL. DEV. = -11.3 DEGREES REMARK 500 TYR A 260 CB - CG - CD2 ANGL. DEV. = 4.7 DEGREES REMARK 500 TYR A 260 CB - CG - CD1 ANGL. DEV. = -3.7 DEGREES REMARK 500 ASN A 264 CA - C - N ANGL. DEV. = -14.7 DEGREES REMARK 500 VAL A 268 CG1 - CB - CG2 ANGL. DEV. = -12.1 DEGREES REMARK 500 ILE A 274 CG1 - CB - CG2 ANGL. DEV. = -21.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 128 ANGLE DEVIATIONS. 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 GLU A 36 88.05 -53.22 REMARK 500 THR A 38 55.22 -67.26 REMARK 500 ASN A 39 -5.54 -145.71 REMARK 500 LEU A 46 -60.56 -90.80 REMARK 500 ALA A 71 147.10 78.89 REMARK 500 PRO A 74 113.98 -28.52 REMARK 500 ASP A 93 40.35 -109.78 REMARK 500 HIS A 117 58.60 -117.00 REMARK 500 ALA A 118 -50.38 -154.90 REMARK 500 SER A 152 75.90 32.18 REMARK 500 ALA A 167 -68.08 -11.34 REMARK 500 LYS A 177 39.91 -94.17 REMARK 500 MET A 178 -27.62 -140.74 REMARK 500 VAL A 233 -73.74 -102.26 REMARK 500 MET A 256 60.46 -150.61 REMARK 500 ALA A 316 80.31 8.13 REMARK 500 LYS A 321 73.51 -106.77 REMARK 500 ALA A 322 -27.76 -143.39 REMARK 500 LEU B1032 23.79 -76.47 REMARK 500 VAL B1034 76.48 -67.95 REMARK 500 THR B1038 123.59 169.88 REMARK 500 PRO B1052 0.64 -69.61 REMARK 500 PRO B1061 102.46 -44.38 REMARK 500 ALA B1066 29.51 -68.59 REMARK 500 ALA B1071 142.69 64.86 REMARK 500 PRO B1074 -16.44 -34.52 REMARK 500 PRO B1077 158.67 -48.80 REMARK 500 ILE B1087 79.42 -119.17 REMARK 500 GLU B1088 128.31 74.81 REMARK 500 LYS B1096 -2.64 -31.61 REMARK 500 ALA B1118 -48.51 -140.78 REMARK 500 GLN B1123 36.26 -141.57 REMARK 500 ASP B1126 -24.63 -163.06 REMARK 500 SER B1152 62.25 23.29 REMARK 500 ALA B1167 -44.36 -18.92 REMARK 500 MET B1179 -169.39 -117.34 REMARK 500 THR B1198 -76.19 -104.63 REMARK 500 VAL B1233 -66.56 -96.11 REMARK 500 ARG B1278 26.35 48.25 REMARK 500 SER B1287 -39.86 -35.30 REMARK 500 TYR B1290 2.42 -65.20 REMARK 500 VAL B1335 -70.16 -83.93 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 VAL A 34 PRO A 35 -133.33 REMARK 500 ALA A 322 PRO A 323 146.74 REMARK 500 VAL B 1034 PRO B 1035 -140.78 REMARK 500 ALA B 1322 PRO B 1323 147.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 160 0.08 SIDE CHAIN REMARK 500 TYR A 260 0.09 SIDE CHAIN REMARK 500 TYR B1160 0.07 SIDE CHAIN REMARK 500 TYR B1208 0.07 SIDE CHAIN REMARK 500 TYR B1260 0.09 SIDE CHAIN REMARK 500 TYR B1293 0.07 SIDE CHAIN 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 A2020 DISTANCE = 5.98 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP A1346 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HNE A1347 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP B2346 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HNE B2347 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J3H RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA DOUBLE BOND REDUCTASE REMARK 900 (AT5G16970)-APO FORM REMARK 900 RELATED ID: 2J3I RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA DOUBLE BOND REDUCTASE REMARK 900 (AT5G16970)-BINARY COMPLEX REMARK 900 RELATED ID: 2J3J RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA DOUBLE BOND REDUCTASE REMARK 900 (AT5G16970)-TERNARY COMPLEX I DBREF 2J3K A 1 345 UNP Q39172 AER_ARATH 1 345 DBREF 2J3K B 1001 1345 UNP Q39172 AER_ARATH 1 345 SEQADV 2J3K ASN A 279 UNP Q39172 ILE 279 CONFLICT SEQADV 2J3K ASN B 1279 UNP Q39172 ILE 279 CONFLICT SEQRES 1 A 345 MET THR ALA THR ASN LYS GLN VAL ILE LEU LYS ASP TYR SEQRES 2 A 345 VAL SER GLY PHE PRO THR GLU SER ASP PHE ASP PHE THR SEQRES 3 A 345 THR THR THR VAL GLU LEU ARG VAL PRO GLU GLY THR ASN SEQRES 4 A 345 SER VAL LEU VAL LYS ASN LEU TYR LEU SER CYS ASP PRO SEQRES 5 A 345 TYR MET ARG ILE ARG MET GLY LYS PRO ASP PRO SER THR SEQRES 6 A 345 ALA ALA LEU ALA GLN ALA TYR THR PRO GLY GLN PRO ILE SEQRES 7 A 345 GLN GLY TYR GLY VAL SER ARG ILE ILE GLU SER GLY HIS SEQRES 8 A 345 PRO ASP TYR LYS LYS GLY ASP LEU LEU TRP GLY ILE VAL SEQRES 9 A 345 ALA TRP GLU GLU TYR SER VAL ILE THR PRO MET THR HIS SEQRES 10 A 345 ALA HIS PHE LYS ILE GLN HIS THR ASP VAL PRO LEU SER SEQRES 11 A 345 TYR TYR THR GLY LEU LEU GLY MET PRO GLY MET THR ALA SEQRES 12 A 345 TYR ALA GLY PHE TYR GLU VAL CYS SER PRO LYS GLU GLY SEQRES 13 A 345 GLU THR VAL TYR VAL SER ALA ALA SER GLY ALA VAL GLY SEQRES 14 A 345 GLN LEU VAL GLY GLN LEU ALA LYS MET MET GLY CYS TYR SEQRES 15 A 345 VAL VAL GLY SER ALA GLY SER LYS GLU LYS VAL ASP LEU SEQRES 16 A 345 LEU LYS THR LYS PHE GLY PHE ASP ASP ALA PHE ASN TYR SEQRES 17 A 345 LYS GLU GLU SER ASP LEU THR ALA ALA LEU LYS ARG CYS SEQRES 18 A 345 PHE PRO ASN GLY ILE ASP ILE TYR PHE GLU ASN VAL GLY SEQRES 19 A 345 GLY LYS MET LEU ASP ALA VAL LEU VAL ASN MET ASN MET SEQRES 20 A 345 HIS GLY ARG ILE ALA VAL CYS GLY MET ILE SER GLN TYR SEQRES 21 A 345 ASN LEU GLU ASN GLN GLU GLY VAL HIS ASN LEU SER ASN SEQRES 22 A 345 ILE ILE TYR LYS ARG ASN ARG ILE GLN GLY PHE VAL VAL SEQRES 23 A 345 SER ASP PHE TYR ASP LYS TYR SER LYS PHE LEU GLU PHE SEQRES 24 A 345 VAL LEU PRO HIS ILE ARG GLU GLY LYS ILE THR TYR VAL SEQRES 25 A 345 GLU ASP VAL ALA ASP GLY LEU GLU LYS ALA PRO GLU ALA SEQRES 26 A 345 LEU VAL GLY LEU PHE HIS GLY LYS ASN VAL GLY LYS GLN SEQRES 27 A 345 VAL VAL VAL VAL ALA ARG GLU SEQRES 1 B 345 MET THR ALA THR ASN LYS GLN VAL ILE LEU LYS ASP TYR SEQRES 2 B 345 VAL SER GLY PHE PRO THR GLU SER ASP PHE ASP PHE THR SEQRES 3 B 345 THR THR THR VAL GLU LEU ARG VAL PRO GLU GLY THR ASN SEQRES 4 B 345 SER VAL LEU VAL LYS ASN LEU TYR LEU SER CYS ASP PRO SEQRES 5 B 345 TYR MET ARG ILE ARG MET GLY LYS PRO ASP PRO SER THR SEQRES 6 B 345 ALA ALA LEU ALA GLN ALA TYR THR PRO GLY GLN PRO ILE SEQRES 7 B 345 GLN GLY TYR GLY VAL SER ARG ILE ILE GLU SER GLY HIS SEQRES 8 B 345 PRO ASP TYR LYS LYS GLY ASP LEU LEU TRP GLY ILE VAL SEQRES 9 B 345 ALA TRP GLU GLU TYR SER VAL ILE THR PRO MET THR HIS SEQRES 10 B 345 ALA HIS PHE LYS ILE GLN HIS THR ASP VAL PRO LEU SER SEQRES 11 B 345 TYR TYR THR GLY LEU LEU GLY MET PRO GLY MET THR ALA SEQRES 12 B 345 TYR ALA GLY PHE TYR GLU VAL CYS SER PRO LYS GLU GLY SEQRES 13 B 345 GLU THR VAL TYR VAL SER ALA ALA SER GLY ALA VAL GLY SEQRES 14 B 345 GLN LEU VAL GLY GLN LEU ALA LYS MET MET GLY CYS TYR SEQRES 15 B 345 VAL VAL GLY SER ALA GLY SER LYS GLU LYS VAL ASP LEU SEQRES 16 B 345 LEU LYS THR LYS PHE GLY PHE ASP ASP ALA PHE ASN TYR SEQRES 17 B 345 LYS GLU GLU SER ASP LEU THR ALA ALA LEU LYS ARG CYS SEQRES 18 B 345 PHE PRO ASN GLY ILE ASP ILE TYR PHE GLU ASN VAL GLY SEQRES 19 B 345 GLY LYS MET LEU ASP ALA VAL LEU VAL ASN MET ASN MET SEQRES 20 B 345 HIS GLY ARG ILE ALA VAL CYS GLY MET ILE SER GLN TYR SEQRES 21 B 345 ASN LEU GLU ASN GLN GLU GLY VAL HIS ASN LEU SER ASN SEQRES 22 B 345 ILE ILE TYR LYS ARG ASN ARG ILE GLN GLY PHE VAL VAL SEQRES 23 B 345 SER ASP PHE TYR ASP LYS TYR SER LYS PHE LEU GLU PHE SEQRES 24 B 345 VAL LEU PRO HIS ILE ARG GLU GLY LYS ILE THR TYR VAL SEQRES 25 B 345 GLU ASP VAL ALA ASP GLY LEU GLU LYS ALA PRO GLU ALA SEQRES 26 B 345 LEU VAL GLY LEU PHE HIS GLY LYS ASN VAL GLY LYS GLN SEQRES 27 B 345 VAL VAL VAL VAL ALA ARG GLU HET NAP A1346 48 HET HNE A1347 11 HET NAP B2346 48 HET HNE B2347 11 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM HNE (2E,4R)-4-HYDROXYNON-2-ENAL HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 3 NAP 2(C21 H28 N7 O17 P3) FORMUL 4 HNE 2(C9 H16 O2) FORMUL 7 HOH *134(H2 O) HELIX 1 1 THR A 19 SER A 21 5 3 HELIX 2 2 TYR A 53 MET A 58 1 6 HELIX 3 3 SER A 130 GLY A 134 5 5 HELIX 4 4 GLY A 137 GLU A 149 1 13 HELIX 5 5 VAL A 168 LYS A 177 1 10 HELIX 6 6 SER A 189 LYS A 199 1 11 HELIX 7 7 ASP A 213 PHE A 222 1 10 HELIX 8 8 GLY A 235 ASN A 244 1 10 HELIX 9 9 MET A 256 ASN A 261 1 6 HELIX 10 10 ASN A 270 ILE A 275 5 6 HELIX 11 11 VAL A 285 PHE A 289 5 5 HELIX 12 12 PHE A 289 ASP A 291 5 3 HELIX 13 13 LYS A 292 GLU A 306 1 15 HELIX 14 14 ALA A 322 GLY A 328 1 7 HELIX 15 15 ASP B 1051 ARG B 1057 5 7 HELIX 16 16 PRO B 1128 TYR B 1132 5 5 HELIX 17 17 GLY B 1137 GLU B 1149 1 13 HELIX 18 18 VAL B 1168 ALA B 1176 1 9 HELIX 19 19 SER B 1189 LYS B 1197 1 9 HELIX 20 20 LEU B 1214 PHE B 1222 1 9 HELIX 21 21 GLY B 1235 ASN B 1244 1 10 HELIX 22 22 VAL B 1285 TYR B 1290 5 6 HELIX 23 23 TYR B 1293 ARG B 1305 1 13 HELIX 24 24 LYS B 1321 GLY B 1328 1 8 SHEET 1 AA 2 THR A 2 LEU A 10 0 SHEET 2 AA 2 PHE A 23 GLU A 31 -1 O ASP A 24 N ILE A 9 SHEET 1 AB 5 TYR A 109 ILE A 112 0 SHEET 2 AB 5 VAL A 41 ASN A 45 -1 O VAL A 41 N ILE A 112 SHEET 3 AB 5 GLN A 79 SER A 89 -1 O ARG A 85 N LYS A 44 SHEET 4 AB 5 LEU A 99 ALA A 105 -1 O LEU A 100 N SER A 84 SHEET 5 AB 5 PHE A 120 ILE A 122 -1 O PHE A 120 N TRP A 101 SHEET 1 AC 3 TYR A 47 SER A 49 0 SHEET 2 AC 3 LYS A 337 VAL A 341 -1 O VAL A 340 N LEU A 48 SHEET 3 AC 3 GLU A 313 ASP A 314 1 O ASP A 314 N VAL A 339 SHEET 1 AD12 ASP A 204 ASN A 207 0 SHEET 2 AD12 TYR A 182 ALA A 187 1 O GLY A 185 N PHE A 206 SHEET 3 AD12 THR A 158 SER A 162 1 O VAL A 159 N VAL A 184 SHEET 4 AD12 ILE A 226 GLU A 231 1 N ASP A 227 O THR A 158 SHEET 5 AD12 MET A 245 VAL A 253 1 N ASN A 246 O ILE A 226 SHEET 6 AD12 ARG A 280 GLY A 283 1 O ARG A 280 N ILE A 251 SHEET 7 AD12 ARG B1280 GLY B1283 -1 O ILE B1281 N ILE A 281 SHEET 8 AD12 MET B1245 VAL B1253 1 O GLY B1249 N ARG B1280 SHEET 9 AD12 ILE B1226 GLU B1231 1 O ILE B1226 N ASN B1246 SHEET 10 AD12 THR B1158 VAL B1161 1 O THR B1158 N ILE B1228 SHEET 11 AD12 TYR B1182 ALA B1187 1 O TYR B1182 N VAL B1159 SHEET 12 AD12 ASP B1204 ASN B1207 1 O ASP B1204 N GLY B1185 SHEET 1 BA 2 THR B1002 LEU B1010 0 SHEET 2 BA 2 PHE B1023 GLU B1031 -1 O ASP B1024 N ILE B1009 SHEET 1 BB 5 TYR B1109 ILE B1112 0 SHEET 2 BB 5 VAL B1041 ASN B1045 -1 O VAL B1041 N ILE B1112 SHEET 3 BB 5 GLN B1079 SER B1089 -1 O ARG B1085 N LYS B1044 SHEET 4 BB 5 LEU B1099 ALA B1105 -1 O LEU B1100 N SER B1084 SHEET 5 BB 5 PHE B1120 ILE B1122 -1 O PHE B1120 N TRP B1101 SHEET 1 BC 3 TYR B1047 CYS B1050 0 SHEET 2 BC 3 LYS B1337 VAL B1341 -1 O GLN B1338 N CYS B1050 SHEET 3 BC 3 GLU B1313 ASP B1317 1 O ASP B1314 N VAL B1339 SITE 1 AC1 30 PRO A 52 TYR A 53 MET A 138 THR A 142 SITE 2 AC1 30 ALA A 163 SER A 165 GLY A 166 ALA A 167 SITE 3 AC1 30 VAL A 168 GLY A 169 ALA A 187 GLY A 188 SITE 4 AC1 30 LYS A 192 TYR A 208 ASN A 232 VAL A 233 SITE 5 AC1 30 CYS A 254 ILE A 257 SER A 258 TYR A 260 SITE 6 AC1 30 PHE A 284 VAL A 285 VAL A 286 LEU A 329 SITE 7 AC1 30 PHE A 330 ASN A 334 GLY A 336 HNE A1347 SITE 8 AC1 30 HOH A2031 ILE B1275 SITE 1 AC2 5 TYR A 53 MET A 138 TYR A 260 VAL A 286 SITE 2 AC2 5 NAP A1346 SITE 1 AC3 24 PRO B1052 TYR B1053 MET B1138 PRO B1139 SITE 2 AC3 24 GLY B1166 ALA B1167 VAL B1168 ALA B1187 SITE 3 AC3 24 GLY B1188 LYS B1192 TYR B1208 ASN B1232 SITE 4 AC3 24 CYS B1254 GLY B1255 ILE B1257 TYR B1260 SITE 5 AC3 24 PHE B1284 VAL B1285 VAL B1286 LEU B1329 SITE 6 AC3 24 PHE B1330 HIS B1331 ASN B1334 HNE B2347 SITE 1 AC4 7 TYR B1053 LEU B1068 GLN B1070 ILE B1103 SITE 2 AC4 7 MET B1138 TYR B1260 NAP B2346 CRYST1 49.080 122.450 147.840 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 0.020375 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008167 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006764 0.00000