10 20 30 40 50 60 70 80 1E6U - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER EPIMERASE/REDUCTASE 23-AUG-00 1E6U
TITLE GDP 4-KETO-6-DEOXY-D-MANNOSE EPIMERASE REDUCTASE
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 COMPND 5 4-REDUCTASE, MER; COMPND 6 EC: 5.1.3.-; COMPND 7 ENGINEERED: 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
EXPDTA X-RAY DIFFRACTION
AUTHOR C.ROSANO,G.IZZO,M.BOLOGNESI
REVDAT 4 21-APR-09 1E6U 1 REMARK ATOM REVDAT 3 24-FEB-09 1E6U 1 VERSN REVDAT 2 06-MAY-05 1E6U 1 COMPND JRNL REVDAT 1 22-OCT-00 1E6U 0
JRNL AUTH C.ROSANO,A.BISSO,G.IZZO,M.TONETTI,L.STURLA, JRNL AUTH 2 A.DE FLORA,M.BOLOGNESI JRNL TITL PROBING THE CATALYTIC MECHANISM OF GDP-4-KETO-6- JRNL TITL 2 DEOXY-D-MANNOSE EPIMERASE/REDUCTASE BY KINETIC AND JRNL TITL 3 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 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.ROSANO,G.IZZO,L.STURLA,A.BISSO,M.TONETTI, REMARK 1 AUTH 2 M.BOLOGNESI REMARK 1 TITL THE HIGH RESOLUTION STRUCTURE OF GDP REMARK 1 TITL 2 4-KETO-6-DEOXY-D-MANNOSE EPIMERASE/REDUCTASE REMARK 1 REF CROATICA CHEMICA ACTA V. 73 887 2000 REMARK 1 REFN ISSN 0011-1643
REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.0 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 75989 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) : 0.135 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 FREE R VALUE TEST SET COUNT : 4017 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2518 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 84 REMARK 3 SOLVENT ATOMS : 372 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): 0.048 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.049 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.02616 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.66156 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.015 ; 0.02 REMARK 3 ANGLE DISTANCE (A) : 0.032 ; 0.04 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.032 ; 0.04 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 1E6U COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-AUG-00. REMARK 100 THE PDBE ID CODE IS EBI-5112.
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 : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.855 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE 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 : 80994 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 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 (%) : 99.1 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 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 <I/SIGMA(I)> FOR SHELL : 5.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER 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 (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5 M LITHIUM SULPHATE, REMARK 280 PH 6.5 0.1M TRIS BUFFER 21C
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 49.93333 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 24.96667 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 24.96667 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 49.93333 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 300 DETAILS:BIOLOGICAL_UNIT: DIMERIC
REMARK 350 REMARK 350 GENERATING THE BIOMOLECULE 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 3590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 24.96642
REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 HOH A2160 LIES ON A SPECIAL POSITION.
REMARK 400 REMARK 400 COMPOUND REMARK 400 FUNCTION: TWO STEP NADP-DEPENDENT CONVERSION OF GDP-4-DEHYDRO-6- REMARK 400 DEOXY-D-MANNOSE TO GDP-FUCOSE. REMARK 400 PATHWAY: INVOLVED IN THE BIOSYNTHESIS OF THE SLIME POLYSACCHARIDE REMARK 400 COLANIC ACID. SECOND AND THIRD OF THE THREE STEPS IN THE REMARK 400 BIOSYNTHESIS OF GDP-FUCOSE FROM GDP-MANNOSE. REMARK 400 SUBUNIT: HOMODIMER. REMARK 400 SUBCELLULAR LOCATION: CYTOPLASMIC. REMARK 400 SIMILARITY: TO A.CAULINODANS NOLK AND TO MOUSE P35B. REMARK 400 SIMILARITY: STRONG, TO Y.ENTEROCOLITICA WBCJ.
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 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; REMARK 480 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 480 I=INSERTION CODE): REMARK 480 M RES CSSEQI ATOMS REMARK 480 GLN A 25 OE1 NE2 REMARK 480 GLU A 30 CD OE1 OE2 REMARK 480 ASP A 37 CG OD1 OD2 REMARK 480 ARG A 45 CD NE CZ NH1 NH2 REMARK 480 ARG A 55 NH1 NH2 REMARK 480 LYS A 113 CE NZ REMARK 480 LYS A 116 CD CE NZ REMARK 480 GLU A 130 CG CD OE1 OE2 REMARK 480 GLU A 230 CD OE1 OE2 REMARK 480 GLU A 234 CD OE1 OE2 REMARK 480 LYS A 283 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 ALA A 115 - O HOH A 2148 1.16 REMARK 500 C ALA A 115 - O HOH A 2148 2.00 REMARK 500 CB ALA A 115 - O HOH A 2148 1.39 REMARK 500 CA ALA A 139 - O HOH A 2176 1.55 REMARK 500 CB ALA A 139 - O HOH A 2176 0.93 REMARK 500 CA ALA A 228 - O HOH A 2258 1.70 REMARK 500 CB ALA A 228 - O HOH A 2258 1.50 REMARK 500 CG ARG A 254 - O HOH A 2282 1.58 REMARK 500 CD ARG A 254 - O HOH A 2282 1.41 REMARK 500 NE ARG A 254 - O HOH A 2282 1.37 REMARK 500 C3B NAP A 1317 - O HOH A 2356 1.66 REMARK 500 C2B NAP A 1317 - O HOH A 2356 0.85 REMARK 500 O2B NAP A 1317 - O HOH A 2356 1.64 REMARK 500 C1B NAP A 1317 - O HOH A 2356 1.79 REMARK 500 O1 TRS A 1323 - O HOH A 2372 0.93 REMARK 500 O HOH A 2118 - O HOH A 2294 2.12 REMARK 500 O HOH A 2135 - O HOH A 2338 1.82 REMARK 500 O HOH A 2172 - O HOH A 2216 2.18 REMARK 500 O HOH A 2242 - O HOH A 2316 2.10 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 25 CD GLN A 25 OE1 0.353 REMARK 500 ARG A 55 CZ ARG A 55 NH1 0.095 REMARK 500 ARG A 55 CZ ARG A 55 NH2 -0.127 REMARK 500 MET A 217 SD A MET A 217 CE A 0.982 REMARK 500 GLU A 230 CG GLU A 230 CD -0.412 REMARK 500 GLU A 234 CG GLU A 234 CD 0.169 REMARK 500 LYS A 283 CD LYS A 283 CE 0.317 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 GLN A 25 CG - CD - NE2 ANGL. DEV. = 16.1 DEGREES REMARK 500 GLN A 25 OE1 - CD - NE2 ANGL. DEV. = -31.1 DEGREES REMARK 500 ARG A 26 CD - NE - CZ ANGL. DEV. = 9.0 DEGREES REMARK 500 ARG A 26 NE - CZ - NH1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG A 26 NE - CZ - NH2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ARG A 36 NE - CZ - NH1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG A 55 NE - CZ - NH1 ANGL. DEV. = -18.4 DEGREES REMARK 500 ARG A 55 NE - CZ - NH2 ANGL. DEV. = 11.7 DEGREES REMARK 500 ASP A 78 CB - CG - OD1 ANGL. DEV. = 10.5 DEGREES REMARK 500 CYS A 109 O - C - N ANGL. DEV. = -9.7 DEGREES REMARK 500 ILE A 110 C - N - CA ANGL. DEV. = 17.6 DEGREES REMARK 500 LEU A 114 CA - CB - CG ANGL. DEV. = 19.7 DEGREES REMARK 500 LEU A 114 CB - CG - CD1 ANGL. DEV. = 12.5 DEGREES REMARK 500 LEU A 114 CB - CG - CD2 ANGL. DEV. = -13.3 DEGREES REMARK 500 LEU A 124 CB - CG - CD1 ANGL. DEV. = -11.9 DEGREES REMARK 500 ALA A 139 N - CA - CB ANGL. DEV. = 13.4 DEGREES REMARK 500 ARG A 152 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 187 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 MET A 208 CA - CB - CG ANGL. DEV. = -10.7 DEGREES REMARK 500 ALA A 228 CB - CA - C ANGL. DEV. = 14.7 DEGREES REMARK 500 ALA A 228 N - CA - CB ANGL. DEV. = 12.4 DEGREES REMARK 500 GLU A 230 CB - CG - CD ANGL. DEV. = 63.6 DEGREES REMARK 500 GLU A 230 CG - CD - OE1 ANGL. DEV. = -34.9 DEGREES REMARK 500 GLU A 230 CG - CD - OE2 ANGL. DEV. = 35.0 DEGREES REMARK 500 ASP A 250 CB - CG - OD2 ANGL. DEV. = -7.0 DEGREES REMARK 500 ARG A 282 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 282 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 282 NH1 - CZ - NH2 ANGL. DEV. = 6.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 GLN A 25 0.18 SIDE CHAIN REMARK 500 ARG A 55 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ALA A 139 20.0 L L OUTSIDE RANGE REMARK 500 ALA A 228 15.6 L L OUTSIDE RANGE REMARK 500 ASP A 250 21.3 L L OUTSIDE RANGE 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 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: 1BSV RELATED DB: PDB REMARK 900 GDP-FUCOSE SYNTHETASE FROM ESCHERICHIA COLI COMPLEX WITH REMARK 900 NADPH REMARK 900 RELATED ID: 1BWS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GDP-4-KETO-6-DEOXY-D-MANNOSE REMARK 900 EPIMERASE/REDUCTASE FROM ESCHERICHIA COLI A KEY ENZYME REMARK 900 IN THE BIOSYNTHESIS OF GDP-L-FUCOSE REMARK 900 RELATED ID: 1FXS RELATED DB: PDB REMARK 900 GDP-FUCOSE SYNTHETASE FROM ESCHERICHIA COLI COMPLEX WITH REMARK 900 NADP REMARK 900 RELATED ID: 1GFS RELATED DB: PDB REMARK 900 GDP-FUCOSE SYNTHETASE FROM E. COLI REMARK 900 RELATED ID: 1E7Q RELATED DB: PDB REMARK 900 GDP 4-KETO-6-DEOXY-D-MANNOSE EPIMERASE REDUCTASE S107A 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 1E6U A 1 321 UNP P32055 FCL_ECOLI 1 321
SEQADV 1E6U ALA A 2 UNP P32055 SER 2 CONFLICT SEQADV 1E6U LYS A 195 UNP P32055 ASN 195 CONFLICT SEQADV 1E6U GLU A 255 UNP P32055 ASP 255 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 SER 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 LYS 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 SO4 A1319 5 HET SO4 A1320 5 HET SO4 A1321 5 HET SO4 A1322 5 HET NAP A1317 48 HET UVW A1318 8 HET TRS A1323 8
HETNAM SO4 SULFATE ION HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM 2 NAP PHOSPHATE HETNAM UVW ACETYLPHOSPHATE HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE HETSYN TRS TRIS BUFFER
FORMUL 2 SO4 4(O4 S 2-) FORMUL 6 NAP C21 H28 N7 O17 P3 FORMUL 7 UVW C2 H5 O5 P FORMUL 8 TRS C4 H12 N O3 1+ FORMUL 9 HOH *372(H2 O1)
HELIX 1 1 GLY A 13 GLU A 24 1 12 HELIX 2 2 ASP A 43 ARG A 55 1 13 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 SER 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 LYS 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 N GLN A 4 O GLU A 30 SHEET 3 A 6 GLN A 58 LEU A 61 1 N GLN A 58 O PHE A 7 SHEET 4 A 6 LYS A 101 LEU A 105 1 N LYS A 101 O VAL A 59 SHEET 5 A 6 ASP A 157 PRO A 163 1 N ASP A 157 O LEU A 102 SHEET 6 A 6 ILE A 243 VAL A 245 1 N ILE A 243 O 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 N LEU A 212 O ASN A 165 SHEET 1 C 2 ASP A 198 TRP A 202 0 SHEET 2 C 2 ARG A 269 ASP A 273 1 N ARG A 269 O VAL A 199
LINK O THR A 164 N7N NAP A1317 1555 1555 1.90
CISPEP 1 GLN A 117 PRO A 118 0 -10.15
SITE 1 AC1 9 ARG A 152 PRO A 238 ARG A 254 VAL A 270 SITE 2 AC1 9 VAL A 271 PHE A 272 HOH A2287 HOH A2367 SITE 3 AC1 9 HOH A2368 SITE 1 AC2 3 HIS A 11 ARG A 12 ARG A 20 SITE 1 AC3 5 ARG A 5 VAL A 32 ARG A 34 GLU A 54 SITE 2 AC3 5 HOH A2369 SITE 1 AC4 4 ARG A 34 PHE A 50 SER A 53 GLU A 54 SITE 1 AC5 30 GLY A 13 MET A 14 VAL A 15 ARG A 36 SITE 2 AC5 30 LEU A 39 ASN A 40 LEU A 41 LEU A 42 SITE 3 AC5 30 ALA A 63 ALA A 64 VAL A 66 ILE A 86 SITE 4 AC5 30 LEU A 105 GLY A 106 TYR A 136 LYS A 140 SITE 5 AC5 30 PRO A 163 THR A 164 HOH A2083 HOH A2203 SITE 6 AC5 30 HOH A2355 HOH A2356 HOH A2357 HOH A2358 SITE 7 AC5 30 HOH A2359 HOH A2360 HOH A2361 HOH A2362 SITE 8 AC5 30 HOH A2363 HOH A2364 SITE 1 AC6 10 GLY A 68 ILE A 69 VAL A 70 ALA A 71 SITE 2 AC6 10 SER A 178 LYS A 262 HOH A2092 HOH A2214 SITE 3 AC6 10 HOH A2365 HOH A2366 SITE 1 AC7 8 ARG A 20 ARG A 21 HIS A 170 TRP A 311 SITE 2 AC7 8 HOH A2351 HOH A2370 HOH A2371 HOH A2372
CRYST1 102.800 102.800 74.900 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 0.009728 0.005616 0.000000 0.00000
SCALE2 0.000000 0.011232 0.000000 0.00000
SCALE3 0.000000 0.000000 0.013351 0.00000