HEADER TRANSFERASE 18-AUG-04 1X8F TITLE CRYSTAL STRUCTURE OF APO-KDO8P SYNTHASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-DEHYDRO-3-DEOXYPHOSPHOOCTONATE ALDOLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PHOSPHO-2-DEHYDRO-3-DEOXYOCTONATE ALDOLASE, 3-DEOXY-D-MANNO- COMPND 5 OCTULOSONIC ACID 8-PHOSPHATE SYNTHETASE, KDO-8-PHOSPHATE SYNTHETASE, COMPND 6 KDO 8-P SYNTHASE, KDOPS; COMPND 7 EC: 2.5.1.55; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: KDSA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DH5ALPHA; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PJU1 KEYWDS BETA-ALPHA-BARRELS, LYASE, LIPOPOLYSACCHARIDE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR R.VAINER,V.BELAKHOV,E.RABKIN,T.BAASOV,N.ADIR REVDAT 5 23-AUG-23 1X8F 1 REMARK REVDAT 4 13-JUL-11 1X8F 1 VERSN REVDAT 3 24-FEB-09 1X8F 1 VERSN REVDAT 2 09-AUG-05 1X8F 1 JRNL REVDAT 1 26-JUL-05 1X8F 0 JRNL AUTH R.VAINER,V.BELAKHOV,E.RABKIN,T.BAASOV,N.ADIR JRNL TITL CRYSTAL STRUCTURES OF ESCHERICHIA COLI KDO8P SYNTHASE JRNL TITL 2 COMPLEXES REVEAL THE SOURCE OF CATALYTIC IRREVERSIBILITY JRNL REF J.MOL.BIOL. V. 351 641 2005 JRNL REFN ISSN 0022-2836 JRNL PMID 16023668 JRNL DOI 10.1016/J.JMB.2005.06.021 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 4.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 8061 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 SET) : 0.239 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 940 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2082 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 46 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 72.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.39 REMARK 3 ESD FROM SIGMAA (A) : 0.44 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.43 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.50 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.450 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1X8F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1000030069. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-APR-04 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 : ESRF REMARK 200 BEAMLINE : BM16 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10401 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.45000 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: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1PHW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, TRIS-HCL, GLYCEROL, PH 7.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 15555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 16555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z+1/2,-X+1/2,-Y+1/2 REMARK 290 19555 -Z+1/2,-X+1/2,Y+1/2 REMARK 290 20555 -Z+1/2,X+1/2,-Y+1/2 REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z+1/2,-X+1/2 REMARK 290 23555 Y+1/2,-Z+1/2,-X+1/2 REMARK 290 24555 -Y+1/2,-Z+1/2,X+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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 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 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 59.34050 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 59.34050 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 59.34050 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 59.34050 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 59.34050 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 59.34050 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 59.34050 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 59.34050 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 59.34050 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 59.34050 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 59.34050 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 59.34050 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 59.34050 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 59.34050 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 59.34050 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 59.34050 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 59.34050 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 59.34050 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 59.34050 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 59.34050 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 59.34050 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 59.34050 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 59.34050 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 59.34050 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 59.34050 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 59.34050 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TETRAMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: X,Y,Z -X,-Y,Z -X, REMARK 300 Y,-Z X,-Y,-Z Z,X,Y Z,-X,-Y -Z,-X,Y -Z,X,-Y Y,Z,X -Y,Z,-X Y,-Z,-X -Y, REMARK 300 -Z,X 1/2+X,1/2+Y,1/2+Z 1/2-X,1/2-Y,1/2+Z 1/2-X,1/2+Y,1/2-Z 1/2+X,1/ REMARK 300 2-Y,1/2-Z 1/2+Z,1/2+X,1/2+Y 1/2+Z,1/2-X,1/2-Y 1/2-Z,1/2-X,1/2+Y 1/2- REMARK 300 Z,1/2+X,1/2-Y 1/2+Y,1/2+Z,1/2+X 1/2-Y,1/2+Z,1/2-X 1/2+Y,1/2-Z,1/2-X REMARK 300 1/2-Y,1/2-Z,1/2+X 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 13540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -83.0 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 -1.000000 0.000000 0.000000 118.68100 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 118.68100 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 118.68100 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 237.36200 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 118.68100 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 237.36200 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 CYS A 206 REMARK 465 ARG A 207 REMARK 465 ASP A 208 REMARK 465 PRO A 209 REMARK 465 PHE A 210 REMARK 465 GLY A 211 REMARK 465 ALA A 212 REMARK 465 ALA A 213 REMARK 465 SER A 214 REMARK 465 GLY A 215 REMARK 465 GLY A 216 REMARK 465 ARG A 217 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 O ASP A 95 O GLN A 113 1.80 REMARK 500 OD2 ASP A 199 CD2 HIS A 202 2.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CD LYS A 284 O HOH A 303 17455 2.11 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 252 C - N - CD ANGL. DEV. = -24.3 DEGREES REMARK 500 PRO A 252 CA - N - CD ANGL. DEV. = -16.1 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 PHE A 22 54.45 -101.83 REMARK 500 PHE A 54 144.05 -37.83 REMARK 500 SER A 65 99.83 48.68 REMARK 500 ILE A 66 -39.98 -21.49 REMARK 500 VAL A 96 169.71 70.59 REMARK 500 HIS A 97 -39.05 -152.70 REMARK 500 THR A 131 -43.26 -29.43 REMARK 500 MET A 148 3.46 -69.25 REMARK 500 VAL A 221 -39.72 -36.24 REMARK 500 GLU A 245 -82.40 -41.52 REMARK 500 CYS A 249 -122.51 -145.97 REMARK 500 PRO A 252 -152.09 -83.42 REMARK 500 ALA A 258 -8.89 -52.50 REMARK 500 GLU A 279 125.44 -35.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1G7U RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KDO8P SYNTHASE IN ITS BINARY COMPLEX WITH REMARK 900 SUBSTRATE PEP REMARK 900 RELATED ID: 1G7V RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KDO8P SYNTHASE IN ITS BINARY COMPLEX WITH REMARK 900 MECHANISM-BASED INHIBITOR REMARK 900 RELATED ID: 1PHQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KDO8P SYNTHASE IN ITS BINARY COMPLEX WITH REMARK 900 SUBSTRATE ANALOG E-FPEP REMARK 900 RELATED ID: 1PHW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KDO8P SYNTHASE IN ITS BINARY COMPLEX WITH REMARK 900 INHIBITOR 1-DEOXY-A5P REMARK 900 RELATED ID: 1PL9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KDO8P SYNTHASE IN ITS BINARY COMPLEX WITH REMARK 900 SUBSTRATE ANALOG Z-FPEP REMARK 900 RELATED ID: 1X6U RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KDO8P SYNTHASE IN ITS BINARY COMPLEX WITH REMARK 900 PRODUCT KDO8P DBREF 1X8F A 1 284 UNP P0A715 KDSA_ECOLI 1 284 SEQRES 1 A 284 MET LYS GLN LYS VAL VAL SER ILE GLY ASP ILE ASN VAL SEQRES 2 A 284 ALA ASN ASP LEU PRO PHE VAL LEU PHE GLY GLY MET ASN SEQRES 3 A 284 VAL LEU GLU SER ARG ASP LEU ALA MET ARG ILE CYS GLU SEQRES 4 A 284 HIS TYR VAL THR VAL THR GLN LYS LEU GLY ILE PRO TYR SEQRES 5 A 284 VAL PHE LYS ALA SER PHE ASP LYS ALA ASN ARG SER SER SEQRES 6 A 284 ILE HIS SER TYR ARG GLY PRO GLY LEU GLU GLU GLY MET SEQRES 7 A 284 LYS ILE PHE GLN GLU LEU LYS GLN THR PHE GLY VAL LYS SEQRES 8 A 284 ILE ILE THR ASP VAL HIS GLU PRO SER GLN ALA GLN PRO SEQRES 9 A 284 VAL ALA ASP VAL VAL ASP VAL ILE GLN LEU PRO ALA PHE SEQRES 10 A 284 LEU ALA ARG GLN THR ASP LEU VAL GLU ALA MET ALA LYS SEQRES 11 A 284 THR GLY ALA VAL ILE ASN VAL LYS LYS PRO GLN PHE VAL SEQRES 12 A 284 SER PRO GLY GLN MET GLY ASN ILE VAL ASP LYS PHE LYS SEQRES 13 A 284 GLU GLY GLY ASN GLU LYS VAL ILE LEU CYS ASP ARG GLY SEQRES 14 A 284 ALA ASN PHE GLY TYR ASP ASN LEU VAL VAL ASP MET LEU SEQRES 15 A 284 GLY PHE SER ILE MET LYS LYS VAL SER GLY ASN SER PRO SEQRES 16 A 284 VAL ILE PHE ASP VAL THR HIS ALA LEU GLN CYS ARG ASP SEQRES 17 A 284 PRO PHE GLY ALA ALA SER GLY GLY ARG ARG ALA GLN VAL SEQRES 18 A 284 ALA GLU LEU ALA ARG ALA GLY MET ALA VAL GLY LEU ALA SEQRES 19 A 284 GLY LEU PHE ILE GLU ALA HIS PRO ASP PRO GLU HIS ALA SEQRES 20 A 284 LYS CYS ASP GLY PRO SER ALA LEU PRO LEU ALA LYS LEU SEQRES 21 A 284 GLU PRO PHE LEU LYS GLN MET LYS ALA ILE ASP ASP LEU SEQRES 22 A 284 VAL LYS GLY PHE GLU GLU LEU ASP THR SER LYS FORMUL 2 HOH *46(H2 O) HELIX 1 1 SER A 30 GLY A 49 1 20 HELIX 2 2 GLY A 73 GLY A 89 1 17 HELIX 3 3 GLN A 101 VAL A 109 1 9 HELIX 4 4 PRO A 115 ALA A 119 5 5 HELIX 5 5 GLN A 121 GLY A 132 1 12 HELIX 6 6 SER A 144 GLY A 146 5 3 HELIX 7 7 GLN A 147 GLY A 158 1 12 HELIX 8 8 LEU A 182 SER A 191 1 10 HELIX 9 9 THR A 201 GLN A 205 5 5 HELIX 10 10 GLN A 220 GLY A 232 1 13 HELIX 11 11 LYS A 259 GLY A 276 1 18 SHEET 1 A 2 VAL A 6 ILE A 8 0 SHEET 2 A 2 ILE A 11 VAL A 13 -1 O ILE A 11 N ILE A 8 SHEET 1 B 5 VAL A 20 PHE A 22 0 SHEET 2 B 5 GLY A 235 PHE A 237 1 O LEU A 236 N PHE A 22 SHEET 3 B 5 VAL A 196 ASP A 199 1 N PHE A 198 O PHE A 237 SHEET 4 B 5 VAL A 163 ASP A 167 1 N ASP A 167 O ASP A 199 SHEET 5 B 5 ILE A 135 LYS A 139 1 N LYS A 139 O CYS A 166 SHEET 1 C 2 GLY A 24 VAL A 27 0 SHEET 2 C 2 LYS A 55 SER A 57 1 O LYS A 55 N MET A 25 SHEET 1 D 2 ILE A 93 THR A 94 0 SHEET 2 D 2 VAL A 111 ILE A 112 1 O VAL A 111 N THR A 94 SHEET 1 E 2 ALA A 170 ASN A 171 0 SHEET 2 E 2 LEU A 177 VAL A 178 -1 O VAL A 178 N ALA A 170 SHEET 1 F 2 ALA A 240 HIS A 241 0 SHEET 2 F 2 LEU A 255 PRO A 256 1 O LEU A 255 N HIS A 241 CRYST1 118.681 118.681 118.681 90.00 90.00 90.00 I 2 3 24 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 0.008426 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008426 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008426 0.00000