HEADER LYASE 01-NOV-04 1WBH TITLE CRYSTAL STRUCTURE OF THE E45N MUTANT FROM KDPG ALDOLASE FROM TITLE 2 ESCHERICHIA COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: KHG/KDPG ALDOLASE; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: 4-HYDROXY-2-OXOGLUTARATE ALDOLASE, 2-KETO-4-HYDROXYGLUTARATE COMPND 5 ALDOLASE, KHG-ALDOLASE, 2-DEHYDRO-3-DEOXY-PHOSPHOGLUCONATE ALDOLASE, COMPND 6 PHOSPHO-2-DEHYDRO-3-DEOXYGLUCONATE ALDOLASE, PHOSPHO-2-KETO-3- COMPND 7 DEOXYGLUCONATE ALDOLASE, 2-KETO-3-DEOXY-6-PHOSPHOGLUCONATE ALDOLASE; COMPND 8 EC: 4.1.2.14; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES; COMPND 11 OTHER_DETAILS: PHOSPHATE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET30B KEYWDS LYASE, ALDOLASE, KDPG ALDOLASE, ESCHERICHIA COLI EXPDTA X-RAY DIFFRACTION AUTHOR S.W.B.FULLERTON,A.B.MERKEL,J.H.NAISMITH REVDAT 4 13-DEC-23 1WBH 1 REMARK REVDAT 3 24-FEB-09 1WBH 1 VERSN REVDAT 2 22-MAR-06 1WBH 1 JRNL REVDAT 1 18-JAN-06 1WBH 0 JRNL AUTH S.W.B.FULLERTON,J.S.GRIFFITHS,A.B.MERKEL,M.CHERIYAN, JRNL AUTH 2 N.J.WYMER,M.J.HUTCHINS,C.A.FIERKE,E.J.TOONE,J.H.NAISMITH JRNL TITL MECHANISM OF THE CLASS I KDPG ALDOLASE. JRNL REF BIOORG.MED.CHEM. V. 14 3002 2006 JRNL REFN ISSN 0968-0896 JRNL PMID 16403639 JRNL DOI 10.1016/J.BMC.2005.12.022 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0007 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) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 82974 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4409 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5984 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1650 REMARK 3 BIN FREE R VALUE SET COUNT : 335 REMARK 3 BIN FREE R VALUE : 0.2440 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4700 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 720 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : 0.08000 REMARK 3 B33 (A**2) : -0.11000 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): 0.105 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.088 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.051 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.050 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4733 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6453 ; 1.657 ; 1.996 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 631 ; 5.359 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 152 ;37.456 ;24.671 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 761 ;14.133 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;16.032 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 777 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3473 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2526 ; 0.237 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3328 ; 0.315 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 521 ; 0.170 ; 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): 52 ; 0.249 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 56 ; 0.209 ; 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): 3233 ; 1.664 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5061 ; 2.320 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1681 ; 4.087 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1392 ; 5.493 ; 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 : 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 : 1.20 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 1WBH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-NOV-04. REMARK 100 THE DEPOSITION ID IS D_1290021346. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAR-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : DIAMOND (111), GE(220) REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 89181 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.36000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1EUA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.075M SODIUM ACETATE, 0.1M AMMONIUM REMARK 280 SULPHATE, 27%W/V PEG4000, PH 4.60 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 27.24600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.20100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.12200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.20100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.24600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.12200 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE CHAIN A, B, C GLU 45 ASN 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 ALA A 0 REMARK 465 ALA C 0 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 MET A 1 REMARK 475 MET C 1 REMARK 475 LEU C 213 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 2 N CA CB CG CD CE NZ REMARK 480 LYS A 133 CD CE NZ REMARK 480 LEU A 213 CA C O CB CG CD1 CD2 REMARK 480 LEU A 213 OXT REMARK 480 LYS B 133 CD CE NZ REMARK 480 LYS B 212 CE NZ REMARK 480 LYS C 2 N CA CB CG CD CE NZ REMARK 480 ASN C 3 CB CG OD1 ND2 REMARK 480 LYS C 133 CD CE NZ REMARK 480 LYS C 212 C O CD CE NZ 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 CE LYS C 5 O HOH C 2010 1.84 REMARK 500 O ALA C 145 N ILE C 149 2.03 REMARK 500 CD LYS B 133 O HOH B 2201 2.11 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 GLN A 89 CB GLN A 89 CG 0.201 REMARK 500 GLN A 89 CG GLN A 89 CD 0.274 REMARK 500 GLN A 89 CD GLN A 89 OE1 0.158 REMARK 500 LYS C 2 CA LYS C 2 C 0.179 REMARK 500 LYS C 212 CG LYS C 212 CD -0.303 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 42 NE - CZ - NH1 ANGL. DEV. = -3.7 DEGREES REMARK 500 GLN A 89 CB - CG - CD ANGL. DEV. = 17.2 DEGREES REMARK 500 ARG A 205 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG B 42 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 LYS B 133 CB - CG - CD ANGL. DEV. = -17.6 DEGREES REMARK 500 PRO C 152 C - N - CA ANGL. DEV. = 11.9 DEGREES REMARK 500 LYS C 212 CB - CG - CD ANGL. DEV. = 31.9 DEGREES REMARK 500 LYS C 212 CG - CD - CE ANGL. DEV. = 22.5 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 LYS A 2 1.04 85.89 REMARK 500 PRO C 152 -1.38 -53.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS C 2 -21.81 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 A2002 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH B2024 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH B2047 DISTANCE = 6.55 ANGSTROMS REMARK 525 HOH C2023 DISTANCE = 5.89 ANGSTROMS REMARK 525 HOH C2033 DISTANCE = 6.63 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A1214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B1214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B1215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C1214 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EUA RELATED DB: PDB REMARK 900 SCHIFF BASE INTERMEDIATE IN KDPG ALDOLASE FROM ESCHERICHIA COLI REMARK 900 RELATED ID: 1EUN RELATED DB: PDB REMARK 900 STRUCTURE OF 2-KETO-3-DEOXY-6- PHOSPHOGLUCONATE ALDOLASE FROM REMARK 900 ESCHERICHIA COLI REMARK 900 RELATED ID: 1FQ0 RELATED DB: PDB REMARK 900 KDPG ALDOLASE FROM ESCHERICHIA COLI REMARK 900 RELATED ID: 1FWR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KDPG ALDOLASE DOUBLE MUTANT K133Q/T161K REMARK 900 RELATED ID: 1WAU RELATED DB: PDB REMARK 900 STRUCTURE OF KDPG ALDOLASE E45N MUTANT DBREF 1WBH A 0 0 PDB 1WBH 1WBH 0 0 DBREF 1WBH A 1 213 UNP P10177 ALKH_ECOLI 1 213 DBREF 1WBH B 0 0 PDB 1WBH 1WBH 0 0 DBREF 1WBH B 1 213 UNP P10177 ALKH_ECOLI 1 213 DBREF 1WBH C 0 0 PDB 1WBH 1WBH 0 0 DBREF 1WBH C 1 213 UNP P10177 ALKH_ECOLI 1 213 SEQADV 1WBH ASN A 45 UNP P10177 GLU 45 ENGINEERED MUTATION SEQADV 1WBH ASN B 45 UNP P10177 GLU 45 ENGINEERED MUTATION SEQADV 1WBH ASN C 45 UNP P10177 GLU 45 ENGINEERED MUTATION SEQRES 1 A 214 ALA MET LYS ASN TRP LYS THR SER ALA GLU SER ILE LEU SEQRES 2 A 214 THR THR GLY PRO VAL VAL PRO VAL ILE VAL VAL LYS LYS SEQRES 3 A 214 LEU GLU HIS ALA VAL PRO MET ALA LYS ALA LEU VAL ALA SEQRES 4 A 214 GLY GLY VAL ARG VAL LEU ASN VAL THR LEU ARG THR GLU SEQRES 5 A 214 CYS ALA VAL ASP ALA ILE ARG ALA ILE ALA LYS GLU VAL SEQRES 6 A 214 PRO GLU ALA ILE VAL GLY ALA GLY THR VAL LEU ASN PRO SEQRES 7 A 214 GLN GLN LEU ALA GLU VAL THR GLU ALA GLY ALA GLN PHE SEQRES 8 A 214 ALA ILE SER PRO GLY LEU THR GLU PRO LEU LEU LYS ALA SEQRES 9 A 214 ALA THR GLU GLY THR ILE PRO LEU ILE PRO GLY ILE SER SEQRES 10 A 214 THR VAL SER GLU LEU MET LEU GLY MET ASP TYR GLY LEU SEQRES 11 A 214 LYS GLU PHE LYS PHE PHE PRO ALA GLU ALA ASN GLY GLY SEQRES 12 A 214 VAL LYS ALA LEU GLN ALA ILE ALA GLY PRO PHE SER GLN SEQRES 13 A 214 VAL ARG PHE CYS PRO THR GLY GLY ILE SER PRO ALA ASN SEQRES 14 A 214 TYR ARG ASP TYR LEU ALA LEU LYS SER VAL LEU CYS ILE SEQRES 15 A 214 GLY GLY SER TRP LEU VAL PRO ALA ASP ALA LEU GLU ALA SEQRES 16 A 214 GLY ASP TYR ASP ARG ILE THR LYS LEU ALA ARG GLU ALA SEQRES 17 A 214 VAL GLU GLY ALA LYS LEU SEQRES 1 B 214 ALA MET LYS ASN TRP LYS THR SER ALA GLU SER ILE LEU SEQRES 2 B 214 THR THR GLY PRO VAL VAL PRO VAL ILE VAL VAL LYS LYS SEQRES 3 B 214 LEU GLU HIS ALA VAL PRO MET ALA LYS ALA LEU VAL ALA SEQRES 4 B 214 GLY GLY VAL ARG VAL LEU ASN VAL THR LEU ARG THR GLU SEQRES 5 B 214 CYS ALA VAL ASP ALA ILE ARG ALA ILE ALA LYS GLU VAL SEQRES 6 B 214 PRO GLU ALA ILE VAL GLY ALA GLY THR VAL LEU ASN PRO SEQRES 7 B 214 GLN GLN LEU ALA GLU VAL THR GLU ALA GLY ALA GLN PHE SEQRES 8 B 214 ALA ILE SER PRO GLY LEU THR GLU PRO LEU LEU LYS ALA SEQRES 9 B 214 ALA THR GLU GLY THR ILE PRO LEU ILE PRO GLY ILE SER SEQRES 10 B 214 THR VAL SER GLU LEU MET LEU GLY MET ASP TYR GLY LEU SEQRES 11 B 214 LYS GLU PHE LYS PHE PHE PRO ALA GLU ALA ASN GLY GLY SEQRES 12 B 214 VAL LYS ALA LEU GLN ALA ILE ALA GLY PRO PHE SER GLN SEQRES 13 B 214 VAL ARG PHE CYS PRO THR GLY GLY ILE SER PRO ALA ASN SEQRES 14 B 214 TYR ARG ASP TYR LEU ALA LEU LYS SER VAL LEU CYS ILE SEQRES 15 B 214 GLY GLY SER TRP LEU VAL PRO ALA ASP ALA LEU GLU ALA SEQRES 16 B 214 GLY ASP TYR ASP ARG ILE THR LYS LEU ALA ARG GLU ALA SEQRES 17 B 214 VAL GLU GLY ALA LYS LEU SEQRES 1 C 214 ALA MET LYS ASN TRP LYS THR SER ALA GLU SER ILE LEU SEQRES 2 C 214 THR THR GLY PRO VAL VAL PRO VAL ILE VAL VAL LYS LYS SEQRES 3 C 214 LEU GLU HIS ALA VAL PRO MET ALA LYS ALA LEU VAL ALA SEQRES 4 C 214 GLY GLY VAL ARG VAL LEU ASN VAL THR LEU ARG THR GLU SEQRES 5 C 214 CYS ALA VAL ASP ALA ILE ARG ALA ILE ALA LYS GLU VAL SEQRES 6 C 214 PRO GLU ALA ILE VAL GLY ALA GLY THR VAL LEU ASN PRO SEQRES 7 C 214 GLN GLN LEU ALA GLU VAL THR GLU ALA GLY ALA GLN PHE SEQRES 8 C 214 ALA ILE SER PRO GLY LEU THR GLU PRO LEU LEU LYS ALA SEQRES 9 C 214 ALA THR GLU GLY THR ILE PRO LEU ILE PRO GLY ILE SER SEQRES 10 C 214 THR VAL SER GLU LEU MET LEU GLY MET ASP TYR GLY LEU SEQRES 11 C 214 LYS GLU PHE LYS PHE PHE PRO ALA GLU ALA ASN GLY GLY SEQRES 12 C 214 VAL LYS ALA LEU GLN ALA ILE ALA GLY PRO PHE SER GLN SEQRES 13 C 214 VAL ARG PHE CYS PRO THR GLY GLY ILE SER PRO ALA ASN SEQRES 14 C 214 TYR ARG ASP TYR LEU ALA LEU LYS SER VAL LEU CYS ILE SEQRES 15 C 214 GLY GLY SER TRP LEU VAL PRO ALA ASP ALA LEU GLU ALA SEQRES 16 C 214 GLY ASP TYR ASP ARG ILE THR LYS LEU ALA ARG GLU ALA SEQRES 17 C 214 VAL GLU GLY ALA LYS LEU HET PO4 A1214 5 HET PO4 B1214 5 HET PO4 B1215 5 HET PO4 C1214 5 HETNAM PO4 PHOSPHATE ION FORMUL 4 PO4 4(O4 P 3-) FORMUL 8 HOH *720(H2 O) HELIX 1 1 SER A 7 THR A 14 1 8 HELIX 2 2 LYS A 25 GLU A 27 5 3 HELIX 3 3 HIS A 28 GLY A 39 1 12 HELIX 4 4 CYS A 52 VAL A 64 1 13 HELIX 5 5 ASN A 76 GLY A 87 1 12 HELIX 6 6 THR A 97 GLY A 107 1 11 HELIX 7 7 THR A 117 TYR A 127 1 11 HELIX 8 8 GLY A 141 GLY A 151 1 11 HELIX 9 9 ASN A 168 ALA A 174 1 7 HELIX 10 10 SER A 184 VAL A 187 5 4 HELIX 11 11 PRO A 188 GLY A 195 1 8 HELIX 12 12 ASP A 196 ALA A 211 1 16 HELIX 13 13 SER B 7 THR B 14 1 8 HELIX 14 14 LYS B 25 GLU B 27 5 3 HELIX 15 15 HIS B 28 GLY B 39 1 12 HELIX 16 16 CYS B 52 VAL B 64 1 13 HELIX 17 17 ASN B 76 GLY B 87 1 12 HELIX 18 18 THR B 97 GLY B 107 1 11 HELIX 19 19 THR B 117 TYR B 127 1 11 HELIX 20 20 GLY B 141 GLY B 151 1 11 HELIX 21 21 ASN B 168 ALA B 174 1 7 HELIX 22 22 PRO B 188 GLY B 195 1 8 HELIX 23 23 ASP B 196 ALA B 211 1 16 HELIX 24 24 SER C 7 THR C 14 1 8 HELIX 25 25 LYS C 25 GLU C 27 5 3 HELIX 26 26 HIS C 28 GLY C 39 1 12 HELIX 27 27 CYS C 52 VAL C 64 1 13 HELIX 28 28 ASN C 76 ALA C 86 1 11 HELIX 29 29 THR C 97 GLY C 107 1 11 HELIX 30 30 THR C 117 TYR C 127 1 11 HELIX 31 31 GLY C 141 ALA C 150 1 10 HELIX 32 32 ASN C 168 ALA C 174 1 7 HELIX 33 33 SER C 184 VAL C 187 5 4 HELIX 34 34 PRO C 188 ALA C 194 1 7 HELIX 35 35 ASP C 196 ALA C 211 1 16 SHEET 1 AA 4 ILE A 68 GLY A 72 0 SHEET 2 AA 4 VAL A 43 THR A 47 1 O LEU A 44 N GLY A 70 SHEET 3 AA 4 VAL A 17 ILE A 21 1 O PRO A 19 N ASN A 45 SHEET 4 AA 4 ILE A 181 GLY A 183 1 O ILE A 181 N VAL A 18 SHEET 1 AB 4 ALA A 91 SER A 93 0 SHEET 2 AB 4 LEU A 111 ILE A 115 1 O ILE A 112 N SER A 93 SHEET 3 AB 4 GLU A 131 PHE A 134 1 O LYS A 133 N ILE A 115 SHEET 4 AB 4 ARG A 157 PRO A 160 1 O ARG A 157 N PHE A 132 SHEET 1 BA 4 ILE B 68 GLY B 72 0 SHEET 2 BA 4 VAL B 43 THR B 47 1 O LEU B 44 N GLY B 70 SHEET 3 BA 4 VAL B 17 ILE B 21 1 O PRO B 19 N ASN B 45 SHEET 4 BA 4 ILE B 181 GLY B 183 1 O ILE B 181 N VAL B 18 SHEET 1 BB 4 ALA B 91 SER B 93 0 SHEET 2 BB 4 LEU B 111 ILE B 115 1 O ILE B 112 N SER B 93 SHEET 3 BB 4 GLU B 131 PHE B 134 1 O LYS B 133 N ILE B 115 SHEET 4 BB 4 ARG B 157 PRO B 160 1 O ARG B 157 N PHE B 132 SHEET 1 CA 4 ILE C 68 GLY C 72 0 SHEET 2 CA 4 VAL C 43 THR C 47 1 O LEU C 44 N GLY C 70 SHEET 3 CA 4 VAL C 17 ILE C 21 1 O PRO C 19 N ASN C 45 SHEET 4 CA 4 ILE C 181 GLY C 183 1 O ILE C 181 N VAL C 18 SHEET 1 CB 4 ALA C 91 SER C 93 0 SHEET 2 CB 4 LEU C 111 ILE C 115 1 O ILE C 112 N SER C 93 SHEET 3 CB 4 GLU C 131 PHE C 134 1 O LYS C 133 N ILE C 115 SHEET 4 CB 4 ARG C 157 PRO C 160 1 O ARG C 157 N PHE C 132 CISPEP 1 PHE A 135 PRO A 136 0 -8.51 CISPEP 2 PHE B 135 PRO B 136 0 -7.96 CISPEP 3 PHE C 135 PRO C 136 0 -12.14 SITE 1 AC1 10 GLY A 162 GLY A 163 GLY A 183 SER A 184 SITE 2 AC1 10 HOH A2184 HOH A2228 HOH A2229 HOH A2230 SITE 3 AC1 10 HOH A2231 HOH A2232 SITE 1 AC2 10 GLY B 162 GLY B 163 GLY B 183 SER B 184 SITE 2 AC2 10 HOH B2237 HOH B2238 HOH B2239 HOH B2240 SITE 3 AC2 10 HOH B2241 HOH B2242 SITE 1 AC3 10 ALA B 0 TRP B 4 SER B 7 ALA B 8 SITE 2 AC3 10 GLU B 9 GLU B 131 HOH B2243 HOH B2244 SITE 3 AC3 10 HOH B2245 HOH B2246 SITE 1 AC4 10 GLY C 162 GLY C 163 GLY C 183 SER C 184 SITE 2 AC4 10 HOH C2195 HOH C2238 HOH C2239 HOH C2240 SITE 3 AC4 10 HOH C2241 HOH C2242 CRYST1 54.492 84.244 132.402 90.00 90.00 90.00 P 21 21 21 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 0.018351 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011870 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007553 0.00000 MTRIX1 1 0.551184 0.601424 -0.578348 34.25190 1 MTRIX2 1 -0.337983 -0.472801 -0.813773 -60.93300 1 MTRIX3 1 -0.762866 0.644010 -0.057329 40.95500 1 MTRIX1 2 0.583962 -0.271569 -0.765009 39.73680 1 MTRIX2 2 0.616342 -0.464983 0.635542 16.93280 1 MTRIX3 2 -0.528309 -0.942639 -0.104153 69.61690 1