HEADER EPIMERASE/REDUCTASE 07-SEP-00 1E7Q TITLE GDP 4-KETO-6-DEOXY-D-MANNOSE EPIMERASE REDUCTASE S107A COMPND MOL_ID: 1; COMPND 2 MOLECULE: GDP-FUCOSE SYNTHETASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GDP-4-KETO 6-DEOXY-MANNOSE 3,5-EPIMERASE 4-REDUCTASE, GMER; COMPND 5 EC: 5.1.3.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: UNKNOWN MOLECULE LABELED AS ACETYLPHOSPHATE 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: 562 KEYWDS EPIMERASE/REDUCTASE, SDR, RED, EPIMERASE-REDUCTASE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.ROSANO,G.IZZO,M.BOLOGNESI REVDAT 5 13-DEC-23 1E7Q 1 REMARK REVDAT 4 24-JUL-19 1E7Q 1 REMARK REVDAT 3 08-MAY-19 1E7Q 1 REMARK REVDAT 2 24-FEB-09 1E7Q 1 VERSN REVDAT 1 18-OCT-00 1E7Q 0 JRNL AUTH C.ROSANO,A.BISSO,G.IZZO,M.TONETTI,L.STURLA,A.DE FLORA, JRNL AUTH 2 M.BOLOGNESI JRNL TITL PROBING THE CATALYTIC MECHANISM OF JRNL TITL 2 GDP-4-KETO-6-DEOXY-D-MANNOSE EPIMERASE/REDUCTASE BY KINETIC JRNL TITL 3 AND CRYSTALLOGRAPHIC CHARACTERIZATION OF SITE-SPECIFIC JRNL TITL 4 MUTANTS JRNL REF J.MOL.BIOL. V. 303 77 2000 JRNL REFN ISSN 0022-2836 JRNL PMID 11021971 JRNL DOI 10.1006/JMBI.2000.4106 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 56980 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.138 REMARK 3 FREE R VALUE : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2482 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 84 REMARK 3 SOLVENT ATOMS : 314 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.068 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.070 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.040 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.130 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.016 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.035 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.037 ; 0.040 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; 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 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1E7Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-SEP-00. REMARK 100 THE DEPOSITION ID IS D_1290005105. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.844 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL 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 : 61196 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.6500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 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 : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1BWS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5 M LITHIUM SULPHATE, PH 6.5 0.1M REMARK 280 TRIS BUFFER, 21C, PH 6.50, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 50.00000 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 25.00000 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 25.00000 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 50.00000 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: PQS 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 25.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 CHAIN A ENGINEERED MUTATION SER107ALA REMARK 400 NADP-DEPENDENT CONVERSION OF GDP-4-DEHYDRO-6-DEOXY-D-MANNOSE REMARK 400 TO GDP-FUCOSE. REMARK 400 INVOLVED IN THE BIOSYNTHESIS OF THE SLIME POLYSACCHARIDE REMARK 400 COLANIC ACID. 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 ALA A 2 REMARK 465 ASP A 317 REMARK 465 ARG A 318 REMARK 465 PHE A 319 REMARK 465 ARG A 320 REMARK 465 GLY A 321 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 3 CE NZ REMARK 480 GLN A 25 CD OE1 NE2 REMARK 480 GLU A 30 CD OE1 OE2 REMARK 480 ASP A 37 CG OD1 OD2 REMARK 480 ARG A 45 CG CD NE CZ NH1 NH2 REMARK 480 ARG A 55 CG CD NE CZ NH1 NH2 REMARK 480 LYS A 113 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 CA ILE A 181 O HOH A 2185 0.46 REMARK 500 C1M UVW A 1318 O HOH A 2304 0.67 REMARK 500 SD MET A 239 O HOH A 2157 0.94 REMARK 500 S SO4 A 1322 O HOH A 2310 1.06 REMARK 500 OE1 GLU A 24 O HOH A 2023 1.44 REMARK 500 O3 SO4 A 1322 O HOH A 2310 1.45 REMARK 500 C ILE A 181 O HOH A 2185 1.48 REMARK 500 O2 SO4 A 1322 O HOH A 2310 1.56 REMARK 500 N ILE A 181 O HOH A 2185 1.67 REMARK 500 O HOH A 2080 O HOH A 2287 1.69 REMARK 500 NE ARG A 45 O HOH A 2044 1.70 REMARK 500 CB ILE A 181 O HOH A 2185 1.73 REMARK 500 CE MET A 239 O HOH A 2157 1.75 REMARK 500 O HOH A 2284 O HOH A 2285 1.81 REMARK 500 O VAL A 99 O HOH A 2115 1.81 REMARK 500 O1 SO4 A 1322 O HOH A 2310 1.85 REMARK 500 O HOH A 2075 O HOH A 2076 1.85 REMARK 500 C1 UVW A 1318 O HOH A 2304 1.89 REMARK 500 O3X NAP A 1317 O HOH A 2296 1.90 REMARK 500 O GLN A 316 O HOH A 2294 1.91 REMARK 500 OE1 GLN A 4 O HOH A 2003 2.01 REMARK 500 O THR A 164 N7N NAP A 1317 2.04 REMARK 500 CG MET A 239 O HOH A 2157 2.08 REMARK 500 O HOH A 2188 O HOH A 2192 2.11 REMARK 500 O ASN A 72 O HOH A 2073 2.15 REMARK 500 O ALA A 306 O HOH A 2284 2.18 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 O HOH A 2137 O HOH A 2137 5555 0.75 REMARK 500 O HOH A 2099 O HOH A 2099 5555 0.89 REMARK 500 O HOH A 2085 O HOH A 2162 5555 1.73 REMARK 500 O HOH A 2073 O HOH A 2154 5555 2.02 REMARK 500 O HOH A 2046 O HOH A 2046 5555 2.16 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 ARG A 55 CB ARG A 55 CG -0.274 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 5 CD - NE - CZ ANGL. DEV. = 12.1 DEGREES REMARK 500 ARG A 21 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 26 CG - CD - NE ANGL. DEV. = -17.0 DEGREES REMARK 500 ARG A 26 CD - NE - CZ ANGL. DEV. = 49.6 DEGREES REMARK 500 ARG A 26 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 26 NE - CZ - NH2 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG A 55 C - N - CA ANGL. DEV. = -23.2 DEGREES REMARK 500 ARG A 55 CA - CB - CG ANGL. DEV. = -39.5 DEGREES REMARK 500 ARG A 55 CA - C - N ANGL. DEV. = 14.0 DEGREES REMARK 500 ASP A 78 CB - CG - OD2 ANGL. DEV. = -7.8 DEGREES REMARK 500 GLU A 87 CG - CD - OE1 ANGL. DEV. = 20.2 DEGREES REMARK 500 GLU A 87 CG - CD - OE2 ANGL. DEV. = -14.8 DEGREES REMARK 500 GLU A 123 OE1 - CD - OE2 ANGL. DEV. = -7.8 DEGREES REMARK 500 ARG A 152 NE - CZ - NH1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG A 152 NE - CZ - NH2 ANGL. DEV. = -5.1 DEGREES REMARK 500 ARG A 159 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 MET A 162 CG - SD - CE ANGL. DEV. = 10.5 DEGREES REMARK 500 TYR A 167 CB - CG - CD1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 186 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG A 187 NE - CZ - NH2 ANGL. DEV. = -6.0 DEGREES REMARK 500 SER A 195 N - CA - CB ANGL. DEV. = 9.4 DEGREES REMARK 500 ASP A 250 CB - CA - C ANGL. DEV. = -15.3 DEGREES REMARK 500 ARG A 254 CD - NE - CZ ANGL. DEV. = -9.1 DEGREES REMARK 500 ARG A 289 NH1 - CZ - NH2 ANGL. DEV. = 13.3 DEGREES REMARK 500 ARG A 289 NE - CZ - NH1 ANGL. DEV. = -6.7 DEGREES REMARK 500 ARG A 289 NE - CZ - NH2 ANGL. DEV. = -6.7 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 ARG A 55 10.81 95.15 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 GLN A 25 -13.27 REMARK 500 ARG A 55 -10.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 NAP A 1317 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1319 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1320 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1321 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1322 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP A1317 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UVW A1318 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A1323 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BWS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GDP-4-KETO-6-DEOXY-D-MANNOSE EPIMERASE/ REMARK 900 REDUCTASE FROM ESCHERICHIA COLI A KEY ENZYME IN THE BIOSYNTHESIS OF REMARK 900 GDP-L-FUCOSE REMARK 900 RELATED ID: 1BSV RELATED DB: PDB REMARK 900 GDP-FUCOSE SYNTHETASE FROM ESCHERICHIA COLI COMPLEX WITH NADPH REMARK 900 RELATED ID: 1FXS RELATED DB: PDB REMARK 900 GDP-FUCOSE SYNTHETASE FROM ESCHERICHIA COLI COMPLEX WITH NADP REMARK 900 RELATED ID: 1GFS RELATED DB: PDB REMARK 900 GDP-FUCOSE SYNTHETASE FROM E. COLI REMARK 900 RELATED ID: 1E6U RELATED DB: PDB REMARK 900 GDP 4-KETO-6-DEOXY-D-MANNOSE EPIMERASE REDUCTASE REMARK 900 RELATED ID: 1E7R RELATED DB: PDB REMARK 900 GDP 4-KETO-6-DEOXY-D-MANNOSE EPIMERASE REDUCTASE Y136E REMARK 900 RELATED ID: 1E7S RELATED DB: PDB REMARK 900 GDP 4-KETO-6-DEOXY-D-MANNOSE EPIMERASE REDUCTASE K140R DBREF 1E7Q A 1 321 UNP P32055 FCL_ECOLI 1 321 SEQADV 1E7Q ALA A 107 UNP P32055 SER 107 ENGINEERED MUTATION SEQADV 1E7Q SER A 195 UNP P32055 ASN 195 CONFLICT SEQRES 1 A 321 MET ALA LYS GLN ARG VAL PHE ILE ALA GLY HIS ARG GLY SEQRES 2 A 321 MET VAL GLY SER ALA ILE ARG ARG GLN LEU GLU GLN ARG SEQRES 3 A 321 GLY ASP VAL GLU LEU VAL LEU ARG THR ARG ASP GLU LEU SEQRES 4 A 321 ASN LEU LEU ASP SER ARG ALA VAL HIS ASP PHE PHE ALA SEQRES 5 A 321 SER GLU ARG ILE ASP GLN VAL TYR LEU ALA ALA ALA LYS SEQRES 6 A 321 VAL GLY GLY ILE VAL ALA ASN ASN THR TYR PRO ALA ASP SEQRES 7 A 321 PHE ILE TYR GLN ASN MET MET ILE GLU SER ASN ILE ILE SEQRES 8 A 321 HIS ALA ALA HIS GLN ASN ASP VAL ASN LYS LEU LEU PHE SEQRES 9 A 321 LEU GLY ALA SER CYS ILE TYR PRO LYS LEU ALA LYS GLN SEQRES 10 A 321 PRO MET ALA GLU SER GLU LEU LEU GLN GLY THR LEU GLU SEQRES 11 A 321 PRO THR ASN GLU PRO TYR ALA ILE ALA LYS ILE ALA GLY SEQRES 12 A 321 ILE LYS LEU CYS GLU SER TYR ASN ARG GLN TYR GLY ARG SEQRES 13 A 321 ASP TYR ARG SER VAL MET PRO THR ASN LEU TYR GLY PRO SEQRES 14 A 321 HIS ASP ASN PHE HIS PRO SER ASN SER HIS VAL ILE PRO SEQRES 15 A 321 ALA LEU LEU ARG ARG PHE HIS GLU ALA THR ALA GLN SER SEQRES 16 A 321 ALA PRO ASP VAL VAL VAL TRP GLY SER GLY THR PRO MET SEQRES 17 A 321 ARG GLU PHE LEU HIS VAL ASP ASP MET ALA ALA ALA SER SEQRES 18 A 321 ILE HIS VAL MET GLU LEU ALA HIS GLU VAL TRP LEU GLU SEQRES 19 A 321 ASN THR GLN PRO MET LEU SER HIS ILE ASN VAL GLY THR SEQRES 20 A 321 GLY VAL ASP CYS THR ILE ARG GLU LEU ALA GLN THR ILE SEQRES 21 A 321 ALA LYS VAL VAL GLY TYR LYS GLY ARG VAL VAL PHE ASP SEQRES 22 A 321 ALA SER LYS PRO ASP GLY THR PRO ARG LYS LEU LEU ASP SEQRES 23 A 321 VAL THR ARG LEU HIS GLN LEU GLY TRP TYR HIS GLU ILE SEQRES 24 A 321 SER LEU GLU ALA GLY LEU ALA SER THR TYR GLN TRP PHE SEQRES 25 A 321 LEU GLU ASN GLN ASP ARG PHE ARG GLY HET NAP A1317 48 HET UVW A1318 8 HET SO4 A1319 5 HET SO4 A1320 5 HET SO4 A1321 5 HET SO4 A1322 5 HET TRS A1323 8 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM UVW ACETYLPHOSPHATE HETNAM SO4 SULFATE ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE HETSYN TRS TRIS BUFFER FORMUL 2 NAP C21 H28 N7 O17 P3 FORMUL 3 UVW C2 H5 O5 P FORMUL 4 SO4 4(O4 S 2-) FORMUL 8 TRS C4 H12 N O3 1+ FORMUL 9 HOH *314(H2 O) HELIX 1 1 GLY A 13 GLU A 24 1 12 HELIX 2 2 ASP A 43 GLU A 54 1 12 HELIX 3 3 GLY A 68 TYR A 75 1 8 HELIX 4 4 TYR A 75 ASN A 97 1 23 HELIX 5 5 ALA A 107 TYR A 111 5 5 HELIX 6 6 ALA A 120 LEU A 124 5 5 HELIX 7 7 GLU A 130 THR A 132 5 3 HELIX 8 8 ASN A 133 GLY A 155 1 23 HELIX 9 9 HIS A 179 SER A 195 1 17 HELIX 10 10 VAL A 214 LEU A 227 1 14 HELIX 11 11 ALA A 228 ASN A 235 1 8 HELIX 12 12 ILE A 253 GLY A 265 1 13 HELIX 13 13 VAL A 287 LEU A 293 1 7 HELIX 14 14 SER A 300 ASN A 315 1 16 SHEET 1 A 6 VAL A 29 VAL A 32 0 SHEET 2 A 6 GLN A 4 ALA A 9 1 O GLN A 4 N GLU A 30 SHEET 3 A 6 GLN A 58 LEU A 61 1 O GLN A 58 N PHE A 7 SHEET 4 A 6 LYS A 101 LEU A 105 1 O LYS A 101 N VAL A 59 SHEET 5 A 6 ASP A 157 PRO A 163 1 O ASP A 157 N LEU A 102 SHEET 6 A 6 ILE A 243 VAL A 245 1 O ILE A 243 N MET A 162 SHEET 1 B 2 ASN A 165 TYR A 167 0 SHEET 2 B 2 PHE A 211 HIS A 213 1 O LEU A 212 N TYR A 167 SHEET 1 C 2 ASP A 198 TRP A 202 0 SHEET 2 C 2 ARG A 269 ASP A 273 1 O ARG A 269 N VAL A 199 SHEET 1 D 2 MET A 208 ARG A 209 0 SHEET 2 D 2 CYS A 251 THR A 252 -1 O CYS A 251 N ARG A 209 CISPEP 1 GLN A 117 PRO A 118 0 -6.79 SITE 1 AC1 5 ARG A 5 VAL A 32 ARG A 34 GLU A 54 SITE 2 AC1 5 HOH A2306 SITE 1 AC2 3 HIS A 11 ARG A 12 ARG A 20 SITE 1 AC3 6 ASP A 198 GLN A 237 PRO A 238 VAL A 271 SITE 2 AC3 6 HOH A2224 HOH A2307 SITE 1 AC4 10 ARG A 152 PRO A 238 ARG A 254 VAL A 270 SITE 2 AC4 10 VAL A 271 PHE A 272 HOH A2236 HOH A2308 SITE 3 AC4 10 HOH A2309 HOH A2310 SITE 1 AC5 29 GLY A 10 GLY A 13 MET A 14 VAL A 15 SITE 2 AC5 29 ARG A 36 LEU A 39 ASN A 40 LEU A 41 SITE 3 AC5 29 LEU A 42 ALA A 62 ALA A 63 ALA A 64 SITE 4 AC5 29 VAL A 66 ILE A 86 LEU A 105 GLY A 106 SITE 5 AC5 29 TYR A 136 LYS A 140 PRO A 163 LEU A 166 SITE 6 AC5 29 HOH A2012 HOH A2092 HOH A2296 HOH A2297 SITE 7 AC5 29 HOH A2299 HOH A2300 HOH A2301 HOH A2302 SITE 8 AC5 29 HOH A2303 SITE 1 AC6 8 GLY A 68 ILE A 69 VAL A 70 ALA A 71 SITE 2 AC6 8 SER A 178 LYS A 262 HOH A2304 HOH A2305 SITE 1 AC7 7 ARG A 21 HIS A 170 TRP A 311 HOH A2311 SITE 2 AC7 7 HOH A2312 HOH A2313 HOH A2314 CRYST1 103.300 103.300 75.000 90.00 90.00 120.00 P 32 2 1 6 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 0.009680 0.005589 0.000000 0.00000 SCALE2 0.000000 0.011178 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013333 0.00000