HEADER TRANSFERASE 11-MAR-11 2YC3 TITLE INHIBITORS OF THE HERBICIDAL TARGET ISPD COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-C-METHYL-D-ERYTHRITOL 4-PHOSPHATE CYTIDYLYLTRANSFERASE, COMPND 3 CHLOROPLASTIC; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: RESIDUES 76-302; COMPND 6 SYNONYM: 4-DIPHOSPHOCYTIDYL-2C-METHYL-D-ERYTHRITOL SYNTHASE, MEP COMPND 7 CYTIDYLYLTRANSFERASE, ATMECT, ATMEPCT, MCT; COMPND 8 EC: 2.7.7.60; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: THALE CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: M15; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: PREP4; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNCO113 KEYWDS TRANSFERASE, NON-MEVALONATE-PATHWAY, HERBICIDE, ALLOSTERIC POCKET EXPDTA X-RAY DIFFRACTION AUTHOR H.W.HOEFFKEN REVDAT 2 20-DEC-23 2YC3 1 REMARK LINK REVDAT 1 24-AUG-11 2YC3 0 JRNL AUTH M.C.WITSCHEL,H.W.HOEFFKEN,M.SEET,L.PARRA,T.MIETZNER, JRNL AUTH 2 F.THATER,R.NIGGEWEG,F.ROHL,B.ILLARIONOV,F.ROHDICH,J.KAISER, JRNL AUTH 3 M.FISCHER,A.BACHER,F.DIEDERICH JRNL TITL INHIBITORS OF THE HERBICIDAL TARGET ISPD: ALLOSTERIC SITE JRNL TITL 2 BINDING. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 50 7931 2011 JRNL REFN ISSN 1433-7851 JRNL PMID 21766403 JRNL DOI 10.1002/ANIE.201102281 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.GABRIELSEN,J.KAISER,F.ROHDICH,W.EISENREICH,R.LAUPITZ, REMARK 1 AUTH 2 A.BACHER,C.S.BOND,W.N.HUNTER REMARK 1 TITL THE CRYSTAL STRUCTURE OF A PLANT 2C-METHYL-D- ERYTHRITOL REMARK 1 TITL 2 4-PHOSPHATE CYTIDYLYLTRANSFERASE EXHIBITS A DISTINCT REMARK 1 TITL 3 QUATERNARY STRUCTURE COMPARED TO BACTERIAL HOMOLOGUES AND A REMARK 1 TITL 4 POSSIBLE ROLE IN FEEDBACK REGULATION FOR CYTIDINE REMARK 1 TITL 5 MONOPHOSPHATE. REMARK 1 REF FEBS J. V. 273 1065 2006 REMARK 1 REFN ISSN 1742-464X REMARK 1 PMID 16478479 REMARK 1 DOI 10.1111/J.1742-4658.2006.05133.X REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 44478 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2372 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3213 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.2320 REMARK 3 BIN FREE R VALUE SET COUNT : 185 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1710 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 177 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.01000 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): 0.062 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.061 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.038 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.090 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1801 ; 0.028 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1202 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2451 ; 2.206 ; 2.005 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2979 ; 1.132 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 227 ; 6.128 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 74 ;37.018 ;25.946 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 324 ;13.717 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;17.055 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 287 ; 0.150 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1983 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 323 ; 0.002 ; 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): 1124 ; 2.548 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 447 ; 1.037 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1843 ; 3.661 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 677 ; 5.243 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 608 ; 7.387 ; 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): 3003 ; 2.337 ; 3.000 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 : NULL 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 2YC3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-MAR-11. REMARK 100 THE DEPOSITION ID IS D_1290047627. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-05 REMARK 200 TEMPERATURE (KELVIN) : 120 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48851 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 37.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 11.00 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.9600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 8.00 REMARK 200 R MERGE FOR SHELL (I) : 0.84000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.580 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1W77 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NATIVE CRYSTALS (SEE REMARK 1, PDB REMARK 280 1W77) WERE SOAKED WITH A SATURATED SOLUTION OF LIGAND MW5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 37.30000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 21.53517 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 73.50000 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 37.30000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 21.53517 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 73.50000 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 37.30000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 21.53517 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 73.50000 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 37.30000 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 21.53517 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 73.50000 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 37.30000 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 21.53517 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 73.50000 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 37.30000 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 21.53517 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 73.50000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 43.07033 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 147.00000 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 43.07033 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 147.00000 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 43.07033 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 147.00000 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 43.07033 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 147.00000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 43.07033 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 147.00000 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 43.07033 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 147.00000 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -110.4 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 74.60000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 43.07033 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -73.50000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2090 LIES ON A SPECIAL POSITION. 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 90 REMARK 465 ARG A 91 REMARK 465 MET A 92 REMARK 465 LYS A 93 REMARK 465 MET A 94 REMARK 465 SER A 95 REMARK 465 MET A 96 REMARK 465 ASP A 301 REMARK 465 SER A 302 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 NA NA A 1302 NA NA A 1305 0.36 REMARK 500 OE2 GLU A 138 CU CU A 1304 0.80 REMARK 500 O HOH A 2044 O HOH A 2045 1.74 REMARK 500 O HOH A 2059 O HOH A 2150 2.06 REMARK 500 OE2 GLU A 138 OE1 GLU A 141 2.09 REMARK 500 O HOH A 2049 O HOH A 2165 2.18 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 GLU A 138 CG GLU A 138 CD 0.101 REMARK 500 GLU A 138 CD GLU A 138 OE2 0.130 REMARK 500 GLU A 173 CB GLU A 173 CG 0.121 REMARK 500 GLU A 173 CG GLU A 173 CD 0.097 REMARK 500 VAL A 175 CB VAL A 175 CG1 -0.145 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 ARG A 118 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ASP A 145 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 GLU A 167 OE1 - CD - OE2 ANGL. DEV. = -7.7 DEGREES REMARK 500 ASP A 169 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 169 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG A 182 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 182 NE - CZ - NH2 ANGL. DEV. = -5.3 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 PRO A 131 -33.35 -39.56 REMARK 500 ASP A 145 50.98 -95.22 REMARK 500 ASP A 227 -172.34 -59.26 REMARK 500 ARG A 228 79.41 -108.34 REMARK 500 GLN A 235 -160.49 -117.38 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 CD A1307 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 121 OE1 REMARK 620 2 GLU A 121 OE2 52.9 REMARK 620 3 GLU A 191 OE1 88.5 86.1 REMARK 620 4 GLU A 191 OE2 97.7 131.5 51.9 REMARK 620 5 HIS A 271 ND1 144.7 92.9 79.8 100.7 REMARK 620 6 HOH A2076 O 99.0 114.5 158.5 106.9 104.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1302 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 139 OE2 REMARK 620 2 GLU A 139 OE1 61.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1305 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 139 OE1 REMARK 620 2 GLU A 139 OE2 56.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A1304 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 141 OE1 REMARK 620 2 ASP A 169 OD1 154.7 REMARK 620 3 ASP A 169 OD2 116.2 53.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1308 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 167 OE2 REMARK 620 2 GLU A 167 OE1 139.7 REMARK 620 3 GLU A 167 OE2 160.1 45.8 REMARK 620 4 GLU A 167 OE1 56.5 83.7 126.6 REMARK 620 5 HOH A2070 O 86.4 78.6 75.9 78.4 REMARK 620 6 HOH A2070 O 108.5 87.1 89.9 106.2 164.5 REMARK 620 7 HOH A2071 O 103.0 104.9 61.7 141.2 66.9 111.9 REMARK 620 8 HOH A2071 O 75.8 143.7 98.6 132.3 102.0 86.0 46.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1306 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 214 NZ REMARK 620 2 ASP A 261 OD1 95.2 REMARK 620 3 ASP A 261 OD2 85.0 43.1 REMARK 620 4 GLU A 267 OE1 86.2 91.2 132.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A1303 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 290 OD1 REMARK 620 2 ASP A 290 OD2 52.4 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MW5 A 1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 1303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 1304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1308 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1W77 RELATED DB: PDB REMARK 900 2C-METHYL-D-ERYTHRITOL 4-PHOSPHATE CYTIDYLYLTRANSFERASE (ISPD) FROM REMARK 900 ARABIDOPSIS THALIANA REMARK 900 RELATED ID: 2YC5 RELATED DB: PDB REMARK 900 INHIBITORS OF THE HERBICIDAL TARGET ISPD DBREF 2YC3 A 76 302 UNP P69834 ISPD_ARATH 76 302 SEQADV 2YC3 MET A 75 UNP P69834 EXPRESSION TAG SEQADV 2YC3 SER A 149 UNP P69834 ARG 149 CONFLICT SEQRES 1 A 228 MET GLU LYS SER VAL SER VAL ILE LEU LEU ALA GLY GLY SEQRES 2 A 228 GLN GLY LYS ARG MET LYS MET SER MET PRO LYS GLN TYR SEQRES 3 A 228 ILE PRO LEU LEU GLY GLN PRO ILE ALA LEU TYR SER PHE SEQRES 4 A 228 PHE THR PHE SER ARG MET PRO GLU VAL LYS GLU ILE VAL SEQRES 5 A 228 VAL VAL CYS ASP PRO PHE PHE ARG ASP ILE PHE GLU GLU SEQRES 6 A 228 TYR GLU GLU SER ILE ASP VAL ASP LEU SER PHE ALA ILE SEQRES 7 A 228 PRO GLY LYS GLU ARG GLN ASP SER VAL TYR SER GLY LEU SEQRES 8 A 228 GLN GLU ILE ASP VAL ASN SER GLU LEU VAL CYS ILE HIS SEQRES 9 A 228 ASP SER ALA ARG PRO LEU VAL ASN THR GLU ASP VAL GLU SEQRES 10 A 228 LYS VAL LEU LYS ASP GLY SER ALA VAL GLY ALA ALA VAL SEQRES 11 A 228 LEU GLY VAL PRO ALA LYS ALA THR ILE LYS GLU VAL ASN SEQRES 12 A 228 SER ASP SER LEU VAL VAL LYS THR LEU ASP ARG LYS THR SEQRES 13 A 228 LEU TRP GLU MET GLN THR PRO GLN VAL ILE LYS PRO GLU SEQRES 14 A 228 LEU LEU LYS LYS GLY PHE GLU LEU VAL LYS SER GLU GLY SEQRES 15 A 228 LEU GLU VAL THR ASP ASP VAL SER ILE VAL GLU TYR LEU SEQRES 16 A 228 LYS HIS PRO VAL TYR VAL SER GLN GLY SER TYR THR ASN SEQRES 17 A 228 ILE LYS VAL THR THR PRO ASP ASP LEU LEU LEU ALA GLU SEQRES 18 A 228 ARG ILE LEU SER GLU ASP SER HET MW5 A1301 18 HET NA A1302 1 HET CU A1303 1 HET CU A1304 1 HET NA A1305 1 HET CD A1306 1 HET CD A1307 1 HET CD A1308 1 HETNAM MW5 6-BENZYL-5-CHLORO[1,2,4]TRIAZOLO[1,5-A]PYRIMIDIN-7(3H)- HETNAM 2 MW5 ONE HETNAM NA SODIUM ION HETNAM CU COPPER (II) ION HETNAM CD CADMIUM ION FORMUL 2 MW5 C12 H9 CL N4 O FORMUL 3 NA 2(NA 1+) FORMUL 4 CU 2(CU 2+) FORMUL 7 CD 3(CD 2+) FORMUL 10 HOH *177(H2 O) HELIX 1 1 PRO A 97 TYR A 100 5 4 HELIX 2 2 ILE A 108 MET A 119 1 12 HELIX 3 3 ASP A 130 PHE A 132 5 3 HELIX 4 4 PHE A 133 GLU A 139 1 7 HELIX 5 5 GLU A 156 GLN A 166 1 11 HELIX 6 6 ASN A 186 GLY A 201 1 16 HELIX 7 7 LYS A 241 GLY A 256 1 16 HELIX 8 8 VAL A 263 LEU A 269 1 7 HELIX 9 9 THR A 287 SER A 299 1 13 SHEET 1 AA 7 ASP A 147 ALA A 151 0 SHEET 2 AA 7 VAL A 122 VAL A 128 1 O LYS A 123 N ASP A 147 SHEET 3 AA 7 VAL A 79 LEU A 84 1 O VAL A 79 N LYS A 123 SHEET 4 AA 7 LEU A 174 ASP A 179 1 O LEU A 174 N SER A 80 SHEET 5 AA 7 TRP A 232 ILE A 240 -1 O GLN A 238 N ILE A 177 SHEET 6 AA 7 ALA A 202 PRO A 208 -1 O ALA A 203 N VAL A 239 SHEET 7 AA 7 TYR A 274 GLN A 277 1 O TYR A 274 N VAL A 204 SHEET 1 AB 2 PRO A 102 LEU A 103 0 SHEET 2 AB 2 GLN A 106 PRO A 107 -1 O GLN A 106 N LEU A 103 LINK OE1 GLU A 121 CD CD A1307 1555 1555 2.60 LINK OE2 GLU A 121 CD CD A1307 1555 1555 2.24 LINK OE2 GLU A 139 NA NA A1302 1555 1555 2.06 LINK OE1 GLU A 139 NA NA A1302 1555 1555 2.27 LINK OE1 GLU A 139 NA NA A1305 1555 1555 2.38 LINK OE2 GLU A 139 NA NA A1305 1555 1555 2.34 LINK OE1 GLU A 141 CU CU A1304 1555 1555 2.30 LINK OE2 GLU A 167 CD CD A1308 1555 1555 2.17 LINK OE1 GLU A 167 CD CD A1308 5675 1555 2.56 LINK OE2 GLU A 167 CD CD A1308 5675 1555 2.76 LINK OE1 GLU A 167 CD CD A1308 1555 1555 2.22 LINK OD1 ASP A 169 CU CU A1304 5675 1555 2.32 LINK OD2 ASP A 169 CU CU A1304 5675 1555 2.52 LINK OE1 GLU A 191 CD CD A1307 1555 1555 2.62 LINK OE2 GLU A 191 CD CD A1307 1555 1555 2.20 LINK NZ LYS A 214 CD CD A1306 18654 1555 2.28 LINK OD1 ASP A 261 CD CD A1306 1555 1555 3.15 LINK OD2 ASP A 261 CD CD A1306 1555 1555 2.33 LINK OE1 GLU A 267 CD CD A1306 1555 1555 1.97 LINK ND1 HIS A 271 CD CD A1307 2665 1555 2.24 LINK OD1 ASP A 290 CU CU A1303 1555 1555 2.44 LINK OD2 ASP A 290 CU CU A1303 1555 1555 2.49 LINK CD CD A1307 O HOH A2076 1555 2665 2.42 LINK CD CD A1308 O HOH A2070 1555 1555 2.77 LINK CD CD A1308 O HOH A2070 1555 5675 2.02 LINK CD CD A1308 O HOH A2071 1555 5675 2.97 LINK CD CD A1308 O HOH A2071 1555 1555 2.59 CISPEP 1 THR A 236 PRO A 237 0 15.13 SITE 1 AC1 13 ARG A 157 ILE A 177 ALA A 203 GLN A 238 SITE 2 AC1 13 VAL A 239 VAL A 259 ASP A 261 ASP A 262 SITE 3 AC1 13 VAL A 263 SER A 264 ILE A 265 VAL A 266 SITE 4 AC1 13 HOH A2177 SITE 1 AC2 1 GLU A 139 SITE 1 AC3 2 THR A 286 ASP A 290 SITE 1 AC4 5 LYS A 123 GLU A 138 GLU A 141 ASP A 169 SITE 2 AC4 5 HOH A2030 SITE 1 AC5 1 GLU A 139 SITE 1 AC6 3 LYS A 214 ASP A 261 GLU A 267 SITE 1 AC7 4 GLU A 121 GLU A 191 HIS A 271 HOH A2076 SITE 1 AC8 3 GLU A 167 HOH A2070 HOH A2071 CRYST1 74.600 74.600 220.500 90.00 90.00 120.00 H 3 2 18 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 0.013405 0.007739 0.000000 0.00000 SCALE2 0.000000 0.015479 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004535 0.00000