HEADER TRANSFERASE 14-JUN-12 4FL0 TITLE CRYSTAL STRUCTURE OF ALD1 FROM ARABIDOPSIS THALIANA COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOTRANSFERASE ALD1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: AGD2-LIKE DEFENSE RESPONSE PROTEIN 1; COMPND 5 EC: 2.6.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS,THALE-CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: ALD1, AT2G13810, F13J11.16; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, ISRAEL STRUCTURAL KEYWDS 2 PROTEOMICS CENTER, ISPC, SANDWICH FOLD AND ARCHITECTURE, PATHOGEN KEYWDS 3 RESISTANCE, PLP NBINDING, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR V.SOBOLEV,M.EDELMAN,O.DYM,T.UNGER,S.ALBECK,M.KIRMA,G.GALILI,ISRAEL AUTHOR 2 STRUCTURAL PROTEOMICS CENTER (ISPC) REVDAT 2 28-FEB-24 4FL0 1 REMARK REVDAT 1 20-FEB-13 4FL0 0 JRNL AUTH V.SOBOLEV,M.EDELMAN,O.DYM,T.UNGER,S.ALBECK,M.KIRMA,G.GALILI JRNL TITL STRUCTURE OF ALD1, A PLANT-SPECIFIC HOMOLOGUE OF THE JRNL TITL 2 UNIVERSAL DIAMINOPIMELATE AMINOTRANSFERASE ENZYME OF LYSINE JRNL TITL 3 BIOSYNTHESIS. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 69 84 2013 JRNL REFN ESSN 1744-3091 JRNL PMID 23385743 JRNL DOI 10.1107/S1744309112050270 REMARK 2 REMARK 2 RESOLUTION. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.42 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 40152 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2136 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2847 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.54 REMARK 3 BIN R VALUE (WORKING SET) : 0.2710 REMARK 3 BIN FREE R VALUE SET COUNT : 190 REMARK 3 BIN FREE R VALUE : 0.3060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6323 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 13 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.24000 REMARK 3 B22 (A**2) : 4.48000 REMARK 3 B33 (A**2) : -4.72000 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): 0.317 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.225 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.156 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.440 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6508 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6038 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8835 ; 1.722 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13863 ; 1.094 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 813 ; 6.552 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 299 ;33.123 ;24.013 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1030 ;15.810 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;19.086 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 967 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7495 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1575 ; 0.005 ; 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): 4028 ; 1.031 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6489 ; 1.821 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2415 ; 3.086 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2273 ; 4.747 ; 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 35 439 B 35 439 23431 0.08 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4FL0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1000073030. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9724 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54171 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 7.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.1 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CITRATE TRIBASIC REMARK 280 DIHYDRATE, 2.2MM FOS-CHOLINE -8 FLUORINATED, AND 18% REMARK 280 POLYETHYLENE GLYCOL 3,350, PH 5.5, MICROBATCH UNDER OIL, REMARK 280 TEMPERATURE 277K 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 28.64000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 90.35000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.93500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 90.35000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.64000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.93500 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL 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 MET A 1 REMARK 465 VAL A 2 REMARK 465 SER A 3 REMARK 465 LEU A 4 REMARK 465 MET A 5 REMARK 465 PHE A 6 REMARK 465 PHE A 7 REMARK 465 SER A 8 REMARK 465 SER A 9 REMARK 465 ALA A 10 REMARK 465 SER A 11 REMARK 465 PRO A 12 REMARK 465 LEU A 13 REMARK 465 CYS A 14 REMARK 465 SER A 15 REMARK 465 SER A 16 REMARK 465 PRO A 17 REMARK 465 SER A 18 REMARK 465 LYS A 19 REMARK 465 ILE A 20 REMARK 465 PRO A 21 REMARK 465 LYS A 22 REMARK 465 ALA A 23 REMARK 465 SER A 24 REMARK 465 LEU A 25 REMARK 465 ASP A 26 REMARK 465 PHE A 27 REMARK 465 GLU A 28 REMARK 465 MET A 29 REMARK 465 LYS A 30 REMARK 465 LYS A 31 REMARK 465 LEU A 32 REMARK 465 GLY A 33 REMARK 465 GLY A 34 REMARK 465 THR A 441 REMARK 465 ARG A 442 REMARK 465 THR A 443 REMARK 465 LYS A 444 REMARK 465 HIS A 445 REMARK 465 PHE A 446 REMARK 465 THR A 447 REMARK 465 TYR A 448 REMARK 465 LEU A 449 REMARK 465 SER A 450 REMARK 465 SER A 451 REMARK 465 THR A 452 REMARK 465 SER A 453 REMARK 465 ASN A 454 REMARK 465 THR A 455 REMARK 465 ASN A 456 REMARK 465 MET B 1 REMARK 465 VAL B 2 REMARK 465 SER B 3 REMARK 465 LEU B 4 REMARK 465 MET B 5 REMARK 465 PHE B 6 REMARK 465 PHE B 7 REMARK 465 SER B 8 REMARK 465 SER B 9 REMARK 465 ALA B 10 REMARK 465 SER B 11 REMARK 465 PRO B 12 REMARK 465 LEU B 13 REMARK 465 CYS B 14 REMARK 465 SER B 15 REMARK 465 SER B 16 REMARK 465 PRO B 17 REMARK 465 SER B 18 REMARK 465 LYS B 19 REMARK 465 ILE B 20 REMARK 465 PRO B 21 REMARK 465 LYS B 22 REMARK 465 ALA B 23 REMARK 465 SER B 24 REMARK 465 LEU B 25 REMARK 465 ASP B 26 REMARK 465 PHE B 27 REMARK 465 GLU B 28 REMARK 465 MET B 29 REMARK 465 LYS B 30 REMARK 465 LYS B 31 REMARK 465 LEU B 32 REMARK 465 GLY B 33 REMARK 465 THR B 443 REMARK 465 LYS B 444 REMARK 465 HIS B 445 REMARK 465 PHE B 446 REMARK 465 THR B 447 REMARK 465 TYR B 448 REMARK 465 LEU B 449 REMARK 465 SER B 450 REMARK 465 SER B 451 REMARK 465 THR B 452 REMARK 465 SER B 453 REMARK 465 ASN B 454 REMARK 465 THR B 455 REMARK 465 ASN B 456 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 45 CG CD OE1 OE2 REMARK 470 LYS A 48 CE NZ REMARK 470 TYR A 51 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 THR A 77 OG1 CG2 REMARK 470 GLN A 87 CG CD OE1 NE2 REMARK 470 ARG A 127 CZ NH1 NH2 REMARK 470 GLN A 190 CG CD OE1 NE2 REMARK 470 ARG A 346 NE CZ NH1 NH2 REMARK 470 LYS A 387 CD CE NZ REMARK 470 GLU A 397 CG CD OE1 OE2 REMARK 470 LYS B 48 CE NZ REMARK 470 ARG B 59 NE CZ NH1 NH2 REMARK 470 LYS B 66 CE NZ REMARK 470 VAL B 70 CG1 CG2 REMARK 470 ARG B 127 CZ NH1 NH2 REMARK 470 LYS B 185 CD CE NZ REMARK 470 LYS B 188 CG CD CE NZ REMARK 470 LYS B 232 CG CD CE NZ REMARK 470 LYS B 242 CE NZ REMARK 470 LYS B 343 CD CE NZ REMARK 470 ARG B 346 NE CZ NH1 NH2 REMARK 470 ASN B 350 CG OD1 ND2 REMARK 470 GLU B 354 CG CD OE1 OE2 REMARK 470 LYS B 384 CG CD CE NZ 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 260 CB - CA - C ANGL. DEV. = -12.5 DEGREES REMARK 500 ARG B 292 NE - CZ - NH2 ANGL. DEV. = -3.1 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 ASP A 140 35.33 -89.72 REMARK 500 ASN A 156 41.88 -99.64 REMARK 500 SER A 202 54.39 34.33 REMARK 500 ASP A 260 -172.92 -56.66 REMARK 500 PHE A 288 25.11 -79.85 REMARK 500 ARG A 292 95.42 76.37 REMARK 500 ASP A 300 -45.33 -27.89 REMARK 500 SER A 305 -53.46 -28.49 REMARK 500 GLU A 415 -1.47 85.38 REMARK 500 ASP B 140 32.95 -87.82 REMARK 500 ASN B 156 45.90 -102.81 REMARK 500 SER B 202 56.47 36.02 REMARK 500 ARG B 292 94.95 77.51 REMARK 500 ASP B 300 -46.86 -24.91 REMARK 500 SER B 305 -53.88 -28.61 REMARK 500 GLU B 415 -4.03 85.42 REMARK 500 THR B 441 -83.28 -71.61 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B 501 DBREF 4FL0 A 1 456 UNP Q9ZQI7 ALD1_ARATH 1 456 DBREF 4FL0 B 1 456 UNP Q9ZQI7 ALD1_ARATH 1 456 SEQRES 1 A 456 MET VAL SER LEU MET PHE PHE SER SER ALA SER PRO LEU SEQRES 2 A 456 CYS SER SER PRO SER LYS ILE PRO LYS ALA SER LEU ASP SEQRES 3 A 456 PHE GLU MET LYS LYS LEU GLY GLY SER THR LYS LEU VAL SEQRES 4 A 456 ARG ASN VAL ASN LEU GLU LYS LEU LYS ASN ASN TYR LEU SEQRES 5 A 456 PHE PRO GLU ILE ASN ARG ARG GLU LEU GLU HIS ILE GLU SEQRES 6 A 456 LYS HIS PRO ASN VAL GLN LEU ILE SER LEU GLY THR GLY SEQRES 7 A 456 ASP THR THR GLU PRO ILE PRO GLU GLN ILE THR SER HIS SEQRES 8 A 456 MET SER ASN PHE ALA HIS GLY LEU SER THR VAL GLU GLY SEQRES 9 A 456 TYR ARG GLY TYR GLY LEU GLU GLN GLY ASN LYS THR LEU SEQRES 10 A 456 ARG LYS ALA ILE ALA GLU THR PHE TYR ARG ASP LEU HIS SEQRES 11 A 456 VAL LYS SER ASN GLU VAL PHE VAL SER ASP GLY ALA GLN SEQRES 12 A 456 SER ASP ILE SER ARG LEU GLN LEU LEU LEU GLY SER ASN SEQRES 13 A 456 VAL THR ILE ALA VAL GLN ASP PRO THR PHE PRO ALA TYR SEQRES 14 A 456 ILE ASP SER SER VAL ILE ILE GLY GLN THR GLY HIS PHE SEQRES 15 A 456 HIS GLU LYS THR LYS LYS TYR GLN ASN VAL VAL TYR MET SEQRES 16 A 456 PRO CYS GLY PRO ASN ASN SER PHE PHE PRO ASP LEU ALA SEQRES 17 A 456 MET THR PRO ARG THR ASP VAL ILE PHE PHE CYS SER PRO SEQRES 18 A 456 ASN ASN PRO THR GLY TYR VAL ALA SER ARG LYS GLN LEU SEQRES 19 A 456 HIS GLN LEU VAL ASP PHE ALA LYS THR ASN GLY SER ILE SEQRES 20 A 456 ILE ILE PHE ASP SER ALA TYR ALA ALA PHE ILE GLU ASP SEQRES 21 A 456 GLY SER PRO ARG SER ILE TYR GLU ILE PRO GLY ALA ARG SEQRES 22 A 456 GLU VAL ALA ILE GLU VAL SER SER PHE SER LYS PHE ALA SEQRES 23 A 456 GLY PHE THR GLY VAL ARG LEU GLY TRP SER ILE ILE PRO SEQRES 24 A 456 ASP GLU LEU LEU TYR SER ASN GLY PHE PRO ILE ILE ASN SEQRES 25 A 456 ASP PHE HIS ARG ILE VAL THR THR SER PHE ASN GLY ALA SEQRES 26 A 456 SER ASN ILE ALA GLN ALA GLY GLY LEU ALA CYS LEU SER SEQRES 27 A 456 SER GLY GLY LEU LYS GLU ILE ARG SER VAL ASN ASN TYR SEQRES 28 A 456 TYR LYS GLU ASN ARG LYS ILE LEU MET ASP THR LEU VAL SEQRES 29 A 456 SER LEU GLY LEU LYS VAL TYR GLY GLY VAL ASN ALA PRO SEQRES 30 A 456 TYR LEU TRP VAL HIS PHE LYS GLY SER LYS SER TRP ASP SEQRES 31 A 456 VAL PHE ASN GLU ILE LEU GLU ASN THR HIS ILE ILE THR SEQRES 32 A 456 VAL PRO GLY SER GLY PHE GLY PRO GLY GLY GLU GLU TYR SEQRES 33 A 456 LEU ARG ILE SER GLY PHE GLY ARG ARG ASP HIS ILE VAL SEQRES 34 A 456 GLU ALA SER LYS ARG LEU GLN ASN PHE PHE ASN THR ARG SEQRES 35 A 456 THR LYS HIS PHE THR TYR LEU SER SER THR SER ASN THR SEQRES 36 A 456 ASN SEQRES 1 B 456 MET VAL SER LEU MET PHE PHE SER SER ALA SER PRO LEU SEQRES 2 B 456 CYS SER SER PRO SER LYS ILE PRO LYS ALA SER LEU ASP SEQRES 3 B 456 PHE GLU MET LYS LYS LEU GLY GLY SER THR LYS LEU VAL SEQRES 4 B 456 ARG ASN VAL ASN LEU GLU LYS LEU LYS ASN ASN TYR LEU SEQRES 5 B 456 PHE PRO GLU ILE ASN ARG ARG GLU LEU GLU HIS ILE GLU SEQRES 6 B 456 LYS HIS PRO ASN VAL GLN LEU ILE SER LEU GLY THR GLY SEQRES 7 B 456 ASP THR THR GLU PRO ILE PRO GLU GLN ILE THR SER HIS SEQRES 8 B 456 MET SER ASN PHE ALA HIS GLY LEU SER THR VAL GLU GLY SEQRES 9 B 456 TYR ARG GLY TYR GLY LEU GLU GLN GLY ASN LYS THR LEU SEQRES 10 B 456 ARG LYS ALA ILE ALA GLU THR PHE TYR ARG ASP LEU HIS SEQRES 11 B 456 VAL LYS SER ASN GLU VAL PHE VAL SER ASP GLY ALA GLN SEQRES 12 B 456 SER ASP ILE SER ARG LEU GLN LEU LEU LEU GLY SER ASN SEQRES 13 B 456 VAL THR ILE ALA VAL GLN ASP PRO THR PHE PRO ALA TYR SEQRES 14 B 456 ILE ASP SER SER VAL ILE ILE GLY GLN THR GLY HIS PHE SEQRES 15 B 456 HIS GLU LYS THR LYS LYS TYR GLN ASN VAL VAL TYR MET SEQRES 16 B 456 PRO CYS GLY PRO ASN ASN SER PHE PHE PRO ASP LEU ALA SEQRES 17 B 456 MET THR PRO ARG THR ASP VAL ILE PHE PHE CYS SER PRO SEQRES 18 B 456 ASN ASN PRO THR GLY TYR VAL ALA SER ARG LYS GLN LEU SEQRES 19 B 456 HIS GLN LEU VAL ASP PHE ALA LYS THR ASN GLY SER ILE SEQRES 20 B 456 ILE ILE PHE ASP SER ALA TYR ALA ALA PHE ILE GLU ASP SEQRES 21 B 456 GLY SER PRO ARG SER ILE TYR GLU ILE PRO GLY ALA ARG SEQRES 22 B 456 GLU VAL ALA ILE GLU VAL SER SER PHE SER LYS PHE ALA SEQRES 23 B 456 GLY PHE THR GLY VAL ARG LEU GLY TRP SER ILE ILE PRO SEQRES 24 B 456 ASP GLU LEU LEU TYR SER ASN GLY PHE PRO ILE ILE ASN SEQRES 25 B 456 ASP PHE HIS ARG ILE VAL THR THR SER PHE ASN GLY ALA SEQRES 26 B 456 SER ASN ILE ALA GLN ALA GLY GLY LEU ALA CYS LEU SER SEQRES 27 B 456 SER GLY GLY LEU LYS GLU ILE ARG SER VAL ASN ASN TYR SEQRES 28 B 456 TYR LYS GLU ASN ARG LYS ILE LEU MET ASP THR LEU VAL SEQRES 29 B 456 SER LEU GLY LEU LYS VAL TYR GLY GLY VAL ASN ALA PRO SEQRES 30 B 456 TYR LEU TRP VAL HIS PHE LYS GLY SER LYS SER TRP ASP SEQRES 31 B 456 VAL PHE ASN GLU ILE LEU GLU ASN THR HIS ILE ILE THR SEQRES 32 B 456 VAL PRO GLY SER GLY PHE GLY PRO GLY GLY GLU GLU TYR SEQRES 33 B 456 LEU ARG ILE SER GLY PHE GLY ARG ARG ASP HIS ILE VAL SEQRES 34 B 456 GLU ALA SER LYS ARG LEU GLN ASN PHE PHE ASN THR ARG SEQRES 35 B 456 THR LYS HIS PHE THR TYR LEU SER SER THR SER ASN THR SEQRES 36 B 456 ASN HET PLP A 501 16 HET PLP B 501 16 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 PLP 2(C8 H10 N O6 P) FORMUL 5 HOH *13(H2 O) HELIX 1 1 ASN A 41 LEU A 47 1 7 HELIX 2 2 TYR A 51 HIS A 67 1 17 HELIX 3 3 PRO A 85 LEU A 99 1 15 HELIX 4 4 ASN A 114 TYR A 126 1 13 HELIX 5 5 LYS A 132 ASN A 134 5 3 HELIX 6 6 GLY A 141 GLY A 154 1 14 HELIX 7 7 PHE A 166 GLY A 177 1 12 HELIX 8 8 GLY A 198 SER A 202 5 5 HELIX 9 9 ASP A 206 THR A 210 5 5 HELIX 10 10 SER A 230 GLY A 245 1 16 HELIX 11 11 TYR A 254 ILE A 258 5 5 HELIX 12 12 SER A 265 ILE A 269 5 5 HELIX 13 13 GLY A 271 GLU A 274 5 4 HELIX 14 14 PHE A 282 GLY A 287 1 6 HELIX 15 15 PRO A 309 PHE A 322 1 14 HELIX 16 16 SER A 326 LEU A 337 1 12 HELIX 17 17 SER A 338 LEU A 366 1 29 HELIX 18 18 LYS A 387 HIS A 400 1 14 HELIX 19 19 SER A 407 GLU A 414 5 8 HELIX 20 20 ARG A 424 ASN A 440 1 17 HELIX 21 21 ASN B 41 LEU B 47 1 7 HELIX 22 22 TYR B 51 HIS B 67 1 17 HELIX 23 23 PRO B 85 LEU B 99 1 15 HELIX 24 24 ASN B 114 TYR B 126 1 13 HELIX 25 25 LYS B 132 ASN B 134 5 3 HELIX 26 26 GLY B 141 GLY B 154 1 14 HELIX 27 27 PHE B 166 GLY B 177 1 12 HELIX 28 28 GLY B 198 SER B 202 5 5 HELIX 29 29 ASP B 206 THR B 210 5 5 HELIX 30 30 SER B 230 GLY B 245 1 16 HELIX 31 31 TYR B 254 ILE B 258 5 5 HELIX 32 32 SER B 265 ILE B 269 5 5 HELIX 33 33 GLY B 271 GLU B 274 5 4 HELIX 34 34 PHE B 282 GLY B 287 1 6 HELIX 35 35 PRO B 309 PHE B 322 1 14 HELIX 36 36 SER B 326 LEU B 337 1 12 HELIX 37 37 SER B 338 LEU B 366 1 29 HELIX 38 38 LYS B 387 HIS B 400 1 14 HELIX 39 39 SER B 407 GLU B 414 5 8 HELIX 40 40 ARG B 424 ASN B 440 1 17 SHEET 1 A 2 ILE A 73 SER A 74 0 SHEET 2 A 2 ILE A 401 ILE A 402 1 O ILE A 402 N ILE A 73 SHEET 1 B 7 VAL A 136 SER A 139 0 SHEET 2 B 7 GLY A 294 ILE A 297 -1 O SER A 296 N PHE A 137 SHEET 3 B 7 ALA A 276 SER A 281 -1 N SER A 280 O TRP A 295 SHEET 4 B 7 ILE A 247 ASP A 251 1 N PHE A 250 O ILE A 277 SHEET 5 B 7 VAL A 215 CYS A 219 1 N ILE A 216 O ILE A 247 SHEET 6 B 7 ILE A 159 ASP A 163 1 N ALA A 160 O PHE A 217 SHEET 7 B 7 VAL A 193 PRO A 196 1 O VAL A 193 N VAL A 161 SHEET 1 C 2 PHE A 182 HIS A 183 0 SHEET 2 C 2 LYS A 188 TYR A 189 -1 O LYS A 188 N HIS A 183 SHEET 1 D 4 LYS A 369 GLY A 372 0 SHEET 2 D 4 TYR A 378 HIS A 382 -1 O TRP A 380 N TYR A 371 SHEET 3 D 4 TYR A 416 SER A 420 -1 O LEU A 417 N VAL A 381 SHEET 4 D 4 VAL A 404 PRO A 405 -1 N VAL A 404 O ARG A 418 SHEET 1 E 2 ILE B 73 SER B 74 0 SHEET 2 E 2 ILE B 401 ILE B 402 1 O ILE B 402 N ILE B 73 SHEET 1 F 7 VAL B 136 SER B 139 0 SHEET 2 F 7 GLY B 294 ILE B 297 -1 O SER B 296 N PHE B 137 SHEET 3 F 7 ALA B 276 SER B 281 -1 N SER B 280 O TRP B 295 SHEET 4 F 7 ILE B 247 ASP B 251 1 N PHE B 250 O ILE B 277 SHEET 5 F 7 VAL B 215 CYS B 219 1 N ILE B 216 O ILE B 247 SHEET 6 F 7 ILE B 159 ASP B 163 1 N ALA B 160 O PHE B 217 SHEET 7 F 7 VAL B 193 PRO B 196 1 O VAL B 193 N VAL B 161 SHEET 1 G 2 PHE B 182 HIS B 183 0 SHEET 2 G 2 LYS B 188 TYR B 189 -1 O LYS B 188 N HIS B 183 SHEET 1 H 4 LYS B 369 GLY B 372 0 SHEET 2 H 4 TYR B 378 HIS B 382 -1 O TRP B 380 N TYR B 371 SHEET 3 H 4 TYR B 416 SER B 420 -1 O LEU B 417 N VAL B 381 SHEET 4 H 4 VAL B 404 PRO B 405 -1 N VAL B 404 O ARG B 418 CISPEP 1 ASP A 163 PRO A 164 0 5.51 CISPEP 2 SER A 220 PRO A 221 0 -1.62 CISPEP 3 ASN A 223 PRO A 224 0 15.26 CISPEP 4 ASP B 163 PRO B 164 0 4.91 CISPEP 5 SER B 220 PRO B 221 0 -7.35 CISPEP 6 ASN B 223 PRO B 224 0 15.30 CISPEP 7 THR B 441 ARG B 442 0 14.73 SITE 1 AC1 14 GLY A 141 ALA A 142 GLN A 143 PHE A 166 SITE 2 AC1 14 CYS A 219 ASN A 223 ASP A 251 ALA A 253 SITE 3 AC1 14 TYR A 254 SER A 281 SER A 283 ARG A 292 SITE 4 AC1 14 TYR B 108 ASN B 323 SITE 1 AC2 15 TYR A 108 ASN A 323 GLY B 141 ALA B 142 SITE 2 AC2 15 GLN B 143 PHE B 166 CYS B 219 ASN B 223 SITE 3 AC2 15 ASP B 251 ALA B 253 TYR B 254 SER B 281 SITE 4 AC2 15 SER B 283 LYS B 284 ARG B 292 CRYST1 57.280 89.870 180.700 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 0.017458 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011127 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005534 0.00000