HEADER OXIDOREDUCTASE 28-JUN-10 3NPE TITLE STRUCTURE OF VP14 IN COMPLEX WITH OXYGEN COMPND MOL_ID: 1; COMPND 2 MOLECULE: 9-CIS-EPOXYCAROTENOID DIOXYGENASE 1, CHLOROPLASTIC; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PROTEIN VIVIPAROUS14, VP-14; COMPND 5 EC: 1.13.11.51; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ZEA MAYS; SOURCE 3 ORGANISM_COMMON: MAIZE; SOURCE 4 ORGANISM_TAXID: 4577; SOURCE 5 GENE: VP14; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: M15; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMAL C2X HV KEYWDS DIOXYGENASE, SEVEN BLADE BETA PROPELLER, ABSCISIC ACID, NON HEME KEYWDS 2 IRON, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.A.MESSING,S.B.GABELLI,L.M.AMZEL REVDAT 4 27-DEC-23 3NPE 1 REMARK LINK REVDAT 3 08-NOV-17 3NPE 1 REMARK REVDAT 2 17-NOV-10 3NPE 1 JRNL REVDAT 1 10-NOV-10 3NPE 0 JRNL AUTH S.A.MESSING,S.B.GABELLI,I.ECHEVERRIA,J.T.VOGEL,J.C.GUAN, JRNL AUTH 2 B.C.TAN,H.J.KLEE,D.R.MCCARTY,L.M.AMZEL JRNL TITL STRUCTURAL INSIGHTS INTO MAIZE VIVIPAROUS14, A KEY ENZYME IN JRNL TITL 2 THE BIOSYNTHESIS OF THE PHYTOHORMONE ABSCISIC ACID. JRNL REF PLANT CELL V. 22 2970 2010 JRNL REFN ISSN 1040-4651 JRNL PMID 20884803 JRNL DOI 10.1105/TPC.110.074815 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 18636 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) : 0.242 REMARK 3 R VALUE (WORKING SET) : 0.241 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1016 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) : 3.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1318 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.3200 REMARK 3 BIN FREE R VALUE SET COUNT : 88 REMARK 3 BIN FREE R VALUE : 0.3490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4010 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 10 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 85.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.45000 REMARK 3 B22 (A**2) : 1.45000 REMARK 3 B33 (A**2) : -2.18000 REMARK 3 B12 (A**2) : 0.73000 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): 1.004 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.412 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.354 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 46.123 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.913 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.886 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4138 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5618 ; 1.466 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 521 ; 8.574 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 198 ;36.003 ;23.283 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 614 ;21.840 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;19.536 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 607 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3253 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1903 ; 0.236 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2719 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 166 ; 0.147 ; 0.200 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): 32 ; 0.221 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 1 ; 0.117 ; 0.200 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): 2647 ; 0.411 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4167 ; 0.671 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1639 ; 0.937 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1451 ; 1.505 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 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 83 A 130 REMARK 3 RESIDUE RANGE : A 196 A 248 REMARK 3 ORIGIN FOR THE GROUP (A): 6.2310 78.0400 74.1890 REMARK 3 T TENSOR REMARK 3 T11: 0.1584 T22: 0.1454 REMARK 3 T33: -0.1090 T12: -0.0037 REMARK 3 T13: 0.2109 T23: -0.0944 REMARK 3 L TENSOR REMARK 3 L11: 0.6645 L22: 5.8833 REMARK 3 L33: 1.0869 L12: -0.2026 REMARK 3 L13: -0.2339 L23: -1.8172 REMARK 3 S TENSOR REMARK 3 S11: -0.1031 S12: 0.7239 S13: 0.0206 REMARK 3 S21: -0.7180 S22: -0.2789 S23: -0.0980 REMARK 3 S31: -0.2189 S32: 0.2612 S33: 0.3820 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 131 A 195 REMARK 3 RESIDUE RANGE : A 249 A 431 REMARK 3 RESIDUE RANGE : A 448 A 535 REMARK 3 RESIDUE RANGE : A 545 A 605 REMARK 3 RESIDUE RANGE : X 1 X 2 REMARK 3 RESIDUE RANGE : NULL 2946 NULL 2948 REMARK 3 ORIGIN FOR THE GROUP (A): -0.1200 53.7160 88.3050 REMARK 3 T TENSOR REMARK 3 T11: -0.1753 T22: -0.0805 REMARK 3 T33: -0.0729 T12: -0.0205 REMARK 3 T13: 0.4727 T23: -0.2926 REMARK 3 L TENSOR REMARK 3 L11: 2.6331 L22: 3.1388 REMARK 3 L33: 3.3740 L12: -0.3954 REMARK 3 L13: -0.7038 L23: -0.6536 REMARK 3 S TENSOR REMARK 3 S11: -0.3339 S12: 0.4275 S13: -0.4439 REMARK 3 S21: -0.4204 S22: -0.1294 S23: 0.1553 REMARK 3 S31: 0.0542 S32: -0.1320 S33: 0.4633 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 432 A 447 REMARK 3 RESIDUE RANGE : A 536 A 544 REMARK 3 ORIGIN FOR THE GROUP (A): 4.4760 56.8110 97.3080 REMARK 3 T TENSOR REMARK 3 T11: 0.3432 T22: 0.6509 REMARK 3 T33: 0.3220 T12: 0.3048 REMARK 3 T13: 0.2485 T23: 0.2593 REMARK 3 L TENSOR REMARK 3 L11: 8.8580 L22: 1.4370 REMARK 3 L33: 9.8745 L12: -2.9202 REMARK 3 L13: 0.1127 L23: -2.2013 REMARK 3 S TENSOR REMARK 3 S11: -0.1494 S12: -1.1902 S13: 0.9169 REMARK 3 S21: -2.6883 S22: -1.4132 S23: 0.3380 REMARK 3 S31: -2.0875 S32: -0.3318 S33: 1.5626 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3NPE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000060113. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97989 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23752 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 18.50 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 10.30 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: SOLVE 2.03, RESOLVE 2.03 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, LI SULFATE, DIOXANE, 1,6 REMARK 280 HEXANDIOL, PH 7.5, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/2 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 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 75.40800 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 75.40800 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 75.40800 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 75.40800 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 75.40800 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 75.40800 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 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 LYS A 76 REMARK 465 ALA A 77 REMARK 465 GLU A 78 REMARK 465 GLY A 79 REMARK 465 GLY A 80 REMARK 465 LYS A 81 REMARK 465 LYS A 82 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 PRO A 140 CD PRO A 140 N 0.092 REMARK 500 VAL A 579 CB VAL A 579 CG1 0.184 REMARK 500 VAL A 579 CB VAL A 579 CG2 0.243 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 PRO A 500 C - N - CA ANGL. DEV. = 10.5 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 LEU A 84 -108.20 -80.13 REMARK 500 ASN A 85 -150.30 -138.09 REMARK 500 PHE A 102 -73.54 -115.89 REMARK 500 VAL A 106 -60.40 -94.62 REMARK 500 ALA A 124 152.71 -48.89 REMARK 500 ASN A 159 72.48 -153.78 REMARK 500 ALA A 166 138.99 -35.20 REMARK 500 HIS A 168 125.03 -172.39 REMARK 500 GLU A 196 76.70 -69.08 REMARK 500 ALA A 198 -35.51 -32.33 REMARK 500 VAL A 210 -34.57 -134.64 REMARK 500 PHE A 287 85.56 -66.22 REMARK 500 HIS A 298 61.25 -115.52 REMARK 500 ILE A 316 -68.52 -108.22 REMARK 500 ARG A 318 -58.96 -26.67 REMARK 500 HIS A 393 49.91 -97.93 REMARK 500 SER A 437 -147.70 -105.55 REMARK 500 SER A 442 7.22 -165.07 REMARK 500 ASP A 443 -163.99 -116.47 REMARK 500 ARG A 445 76.63 70.58 REMARK 500 SER A 471 -78.68 -72.25 REMARK 500 GLU A 477 -155.37 -96.71 REMARK 500 VAL A 478 136.43 -33.97 REMARK 500 ASN A 482 106.80 -47.57 REMARK 500 ARG A 483 -37.83 -36.13 REMARK 500 TRP A 501 -94.21 -7.16 REMARK 500 MET A 536 99.98 -61.87 REMARK 500 ALA A 539 48.89 100.03 REMARK 500 ALA A 540 -83.76 -105.38 REMARK 500 ALA A 541 -80.60 -79.38 REMARK 500 HIS A 542 -75.59 -138.82 REMARK 500 GLU A 546 -36.93 -37.10 REMARK 500 THR A 562 -155.28 -88.77 REMARK 500 SER A 583 -146.29 -85.13 REMARK 500 PHE A 589 -127.00 -111.00 REMARK 500 GLN A 602 -66.06 -25.84 REMARK 500 ALA A 603 105.52 37.17 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 GLU A 499 PRO A 500 111.57 REMARK 500 PRO A 500 TRP A 501 -148.74 REMARK 500 ASP A 537 PRO A 538 -132.14 REMARK 500 HIS A 542 PRO A 543 149.69 REMARK 500 GLU A 558 ARG A 559 -146.30 REMARK 500 ALA A 560 GLY A 561 149.58 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 FE2 A 605 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 OXY A 1 O2 REMARK 620 2 OH A 2 O 73.8 REMARK 620 3 HIS A 298 NE2 151.5 78.0 REMARK 620 4 HIS A 347 NE2 91.7 88.9 92.0 REMARK 620 5 HIS A 412 NE2 106.5 176.4 101.3 94.6 REMARK 620 6 HIS A 590 NE2 76.9 80.3 94.4 166.1 96.2 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OXY A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OH A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DIO A 2946 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DIO A 2948 DBREF 3NPE A 76 604 UNP O24592 NCED1_MAIZE 76 604 SEQRES 1 A 529 LYS ALA GLU GLY GLY LYS LYS GLN LEU ASN LEU PHE GLN SEQRES 2 A 529 ARG ALA ALA ALA ALA ALA LEU ASP ALA PHE GLU GLU GLY SEQRES 3 A 529 PHE VAL ALA ASN VAL LEU GLU ARG PRO HIS GLY LEU PRO SEQRES 4 A 529 SER THR ALA ASP PRO ALA VAL GLN ILE ALA GLY ASN PHE SEQRES 5 A 529 ALA PRO VAL GLY GLU ARG PRO PRO VAL HIS GLU LEU PRO SEQRES 6 A 529 VAL SER GLY ARG ILE PRO PRO PHE ILE ASP GLY VAL TYR SEQRES 7 A 529 ALA ARG ASN GLY ALA ASN PRO CYS PHE ASP PRO VAL ALA SEQRES 8 A 529 GLY HIS HIS LEU PHE ASP GLY ASP GLY MET VAL HIS ALA SEQRES 9 A 529 LEU ARG ILE ARG ASN GLY ALA ALA GLU SER TYR ALA CYS SEQRES 10 A 529 ARG PHE THR GLU THR ALA ARG LEU ARG GLN GLU ARG ALA SEQRES 11 A 529 ILE GLY ARG PRO VAL PHE PRO LYS ALA ILE GLY GLU LEU SEQRES 12 A 529 HIS GLY HIS SER GLY ILE ALA ARG LEU ALA LEU PHE TYR SEQRES 13 A 529 ALA ARG ALA ALA CYS GLY LEU VAL ASP PRO SER ALA GLY SEQRES 14 A 529 THR GLY VAL ALA ASN ALA GLY LEU VAL TYR PHE ASN GLY SEQRES 15 A 529 ARG LEU LEU ALA MET SER GLU ASP ASP LEU PRO TYR HIS SEQRES 16 A 529 VAL ARG VAL ALA ASP ASP GLY ASP LEU GLU THR VAL GLY SEQRES 17 A 529 ARG TYR ASP PHE ASP GLY GLN LEU GLY CYS ALA MET ILE SEQRES 18 A 529 ALA HIS PRO LYS LEU ASP PRO ALA THR GLY GLU LEU HIS SEQRES 19 A 529 ALA LEU SER TYR ASP VAL ILE LYS ARG PRO TYR LEU LYS SEQRES 20 A 529 TYR PHE TYR PHE ARG PRO ASP GLY THR LYS SER ASP ASP SEQRES 21 A 529 VAL GLU ILE PRO LEU GLU GLN PRO THR MET ILE HIS ASP SEQRES 22 A 529 PHE ALA ILE THR GLU ASN LEU VAL VAL VAL PRO ASP HIS SEQRES 23 A 529 GLN VAL VAL PHE LYS LEU GLN GLU MET LEU ARG GLY GLY SEQRES 24 A 529 SER PRO VAL VAL LEU ASP ALA ALA LYS THR SER ARG PHE SEQRES 25 A 529 GLY VAL LEU PRO LYS HIS ALA ALA ASP ALA SER GLU MET SEQRES 26 A 529 ALA TRP VAL ASP VAL PRO ASP CYS PHE CYS PHE HIS LEU SEQRES 27 A 529 TRP ASN ALA TRP GLU ASP GLU ALA THR GLY GLU VAL VAL SEQRES 28 A 529 VAL ILE GLY SER CYS MET THR PRO ALA ASP SER ILE PHE SEQRES 29 A 529 ASN GLU SER ASP GLU ARG LEU GLU SER VAL LEU THR GLU SEQRES 30 A 529 ILE ARG LEU ASP ALA ARG THR GLY ARG SER THR ARG ARG SEQRES 31 A 529 ALA VAL LEU PRO PRO SER GLN GLN VAL ASN LEU GLU VAL SEQRES 32 A 529 GLY MET VAL ASN ARG ASN LEU LEU GLY ARG GLU THR ARG SEQRES 33 A 529 TYR ALA TYR LEU ALA VAL ALA GLU PRO TRP PRO LYS VAL SEQRES 34 A 529 SER GLY PHE ALA LYS VAL ASP LEU SER THR GLY GLU LEU SEQRES 35 A 529 THR LYS PHE GLU TYR GLY GLU GLY ARG PHE GLY GLY GLU SEQRES 36 A 529 PRO CYS PHE VAL PRO MET ASP PRO ALA ALA ALA HIS PRO SEQRES 37 A 529 ARG GLY GLU ASP ASP GLY TYR VAL LEU THR PHE VAL HIS SEQRES 38 A 529 ASP GLU ARG ALA GLY THR SER GLU LEU LEU VAL VAL ASN SEQRES 39 A 529 ALA ALA ASP MET ARG LEU GLU ALA THR VAL GLN LEU PRO SEQRES 40 A 529 SER ARG VAL PRO PHE GLY PHE HIS GLY THR PHE ILE THR SEQRES 41 A 529 GLY GLN GLU LEU GLU ALA GLN ALA ALA HET FE2 A 605 1 HET OXY A 1 2 HET OH A 2 1 HET DIO A2946 6 HET DIO A2947 6 HET DIO A2948 6 HETNAM FE2 FE (II) ION HETNAM OXY OXYGEN MOLECULE HETNAM OH HYDROXIDE ION HETNAM DIO 1,4-DIETHYLENE DIOXIDE FORMUL 2 FE2 FE 2+ FORMUL 3 OXY O2 FORMUL 4 OH H O 1- FORMUL 5 DIO 3(C4 H8 O2) FORMUL 8 HOH *10(H2 O) HELIX 1 1 LEU A 86 PHE A 102 1 17 HELIX 2 2 ASP A 118 ILE A 123 1 6 HELIX 3 3 ALA A 124 ALA A 128 5 5 HELIX 4 4 HIS A 169 GLY A 173 5 5 HELIX 5 5 THR A 197 GLY A 207 1 11 HELIX 6 6 SER A 222 CYS A 236 1 15 HELIX 7 7 ASP A 240 GLY A 244 5 5 HELIX 8 8 ASP A 286 GLN A 290 5 5 HELIX 9 9 LEU A 367 LEU A 371 5 5 HELIX 10 10 ASP A 396 MET A 400 5 5 HELIX 11 11 ARG A 483 LEU A 486 5 4 HELIX 12 12 GLY A 596 GLU A 600 1 5 SHEET 1 A 5 ARG A 133 HIS A 137 0 SHEET 2 A 5 ALA A 186 PHE A 194 -1 O CYS A 192 N ARG A 133 SHEET 3 A 5 MET A 176 ARG A 183 -1 N VAL A 177 O ARG A 193 SHEET 4 A 5 ASP A 150 ARG A 155 -1 N GLY A 151 O ILE A 182 SHEET 5 A 5 GLY A 591 THR A 595 -1 O THR A 592 N ALA A 154 SHEET 1 B 5 VAL A 141 GLY A 143 0 SHEET 2 B 5 ARG A 574 LEU A 581 -1 O THR A 578 N SER A 142 SHEET 3 B 5 SER A 563 ASN A 569 -1 N SER A 563 O LEU A 581 SHEET 4 B 5 GLY A 549 HIS A 556 -1 N THR A 553 O LEU A 566 SHEET 5 B 5 CYS A 532 PRO A 535 -1 N VAL A 534 O TYR A 550 SHEET 1 C 4 LEU A 252 PHE A 255 0 SHEET 2 C 4 ARG A 258 ALA A 261 -1 O ARG A 258 N PHE A 255 SHEET 3 C 4 TYR A 269 VAL A 273 -1 O TYR A 269 N ALA A 261 SHEET 4 C 4 LEU A 279 ARG A 284 -1 O GLU A 280 N ARG A 272 SHEET 1 D 4 LYS A 300 LEU A 301 0 SHEET 2 D 4 LEU A 308 SER A 312 -1 O HIS A 309 N LYS A 300 SHEET 3 D 4 LYS A 322 PHE A 326 -1 O LYS A 322 N SER A 312 SHEET 4 D 4 VAL A 336 GLU A 337 -1 O VAL A 336 N TYR A 323 SHEET 1 E 4 ALA A 350 ILE A 351 0 SHEET 2 E 4 LEU A 355 ASP A 360 -1 O VAL A 357 N ALA A 350 SHEET 3 E 4 ARG A 386 PRO A 391 -1 O LEU A 390 N VAL A 356 SHEET 4 E 4 ALA A 401 ASP A 404 -1 O VAL A 403 N PHE A 387 SHEET 1 F 2 VAL A 363 PHE A 365 0 SHEET 2 F 2 VAL A 377 LEU A 379 -1 O VAL A 378 N VAL A 364 SHEET 1 G 4 PHE A 409 GLU A 418 0 SHEET 2 G 4 VAL A 425 MET A 432 -1 O VAL A 426 N TRP A 417 SHEET 3 G 4 VAL A 449 LEU A 455 -1 O THR A 451 N GLY A 429 SHEET 4 G 4 SER A 462 ALA A 466 -1 O ARG A 465 N GLU A 452 SHEET 1 H 4 LEU A 476 VAL A 481 0 SHEET 2 H 4 TYR A 492 VAL A 497 -1 O TYR A 494 N MET A 480 SHEET 3 H 4 GLY A 506 ASP A 511 -1 O VAL A 510 N ALA A 493 SHEET 4 H 4 LEU A 517 GLU A 521 -1 O PHE A 520 N PHE A 507 SSBOND 1 CYS A 410 CYS A 431 1555 1555 2.06 LINK O2 OXY A 1 FE FE2 A 605 1555 1555 2.04 LINK O OH A 2 FE FE2 A 605 1555 1555 2.05 LINK NE2 HIS A 298 FE FE2 A 605 1555 1555 1.86 LINK NE2 HIS A 347 FE FE2 A 605 1555 1555 1.88 LINK NE2 HIS A 412 FE FE2 A 605 1555 1555 1.87 LINK NE2 HIS A 590 FE FE2 A 605 1555 1555 1.89 SITE 1 AC1 6 OXY A 1 OH A 2 HIS A 298 HIS A 347 SITE 2 AC1 6 HIS A 412 HIS A 590 SITE 1 AC2 5 OH A 2 HIS A 347 HIS A 412 HIS A 590 SITE 2 AC2 5 FE2 A 605 SITE 1 AC3 5 OXY A 1 HIS A 298 HIS A 347 HIS A 590 SITE 2 AC3 5 FE2 A 605 SITE 1 AC4 2 PRO A 134 ARG A 193 SITE 1 AC5 2 PHE A 162 ASP A 163 CRYST1 161.521 161.521 150.816 90.00 90.00 120.00 P 63 2 2 12 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 0.006191 0.003574 0.000000 0.00000 SCALE2 0.000000 0.007149 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006631 0.00000