HEADER ISOMERASE 15-FEB-01 1I3M TITLE MOLECULAR BASIS FOR SEVERE EPIMERASE-DEFICIENCY GALACTOSEMIA: X-RAY TITLE 2 STRUCTURE OF THE HUMAN V94M-SUBSTITUTED UDP-GALACTOSE 4-EPIMERASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-GLUCOSE 4-EPIMERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UDP-GALACTOSE 4-EPIMERASE; COMPND 5 EC: 5.1.3.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HGALE; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: GS115; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPIC3.5KHGALE KEYWDS EPIMERASE GALACTOSEMIA SHORT-CHAIN DEHYDROGENASE, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.B.THODEN,T.M.WOHLERS,J.L.FRIDOVICH-KEIL,H.M.HOLDEN REVDAT 5 09-AUG-23 1I3M 1 REMARK REVDAT 4 27-OCT-21 1I3M 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 1I3M 1 VERSN REVDAT 2 01-APR-03 1I3M 1 JRNL REVDAT 1 20-JUN-01 1I3M 0 JRNL AUTH J.B.THODEN,T.M.WOHLERS,J.L.FRIDOVICH-KEIL,H.M.HOLDEN JRNL TITL MOLECULAR BASIS FOR SEVERE EPIMERASE DEFICIENCY JRNL TITL 2 GALACTOSEMIA. X-RAY STRUCTURE OF THE HUMAN V94M-SUBSTITUTED JRNL TITL 3 UDP-GALACTOSE 4-EPIMERASE. JRNL REF J.BIOL.CHEM. V. 276 20617 2001 JRNL REFN ISSN 0021-9258 JRNL PMID 11279193 JRNL DOI 10.1074/JBC.M101304200 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 107692 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 10770 REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.1850 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 107692 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5352 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 171 REMARK 3 SOLVENT ATOMS : 842 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.012 ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : 2.140 ; NULL ; NULL REMARK 3 TORSION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES (A) : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : NULL ; NULL ; NULL REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : 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 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : ENGH & HUBER REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1I3M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-FEB-01. REMARK 100 THE DEPOSITION ID IS D_1000012861. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0332 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-2 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 107985 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 34.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.27600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: TNT REMARK 200 STARTING MODEL: PDB ENTRY 1EK6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3400, MES, SODIUM CHLORIDE, REMARK 280 MAGNESIUM CHLORIDE, NADH, UDP-GLCNAC, PH 6, BATCH, TEMPERATURE REMARK 280 276K 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 38.95000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.45000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.95000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.45000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.95000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.95000 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A HOMODIMER REMARK 300 COMPOSED OF CHAINS A & B REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -76.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 MET B 1 REMARK 465 GLN B 347 REMARK 465 ALA B 348 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 VAL A 180 CG1 CG2 REMARK 470 ALA B 2 N REMARK 470 VAL B 180 CG1 CG2 REMARK 470 THR B 346 OG1 CG2 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 HOH A 1192 O HOH A 1615 2.05 REMARK 500 O HOH B 1247 O HOH B 1706 2.16 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 1189 O HOH B 1638 4456 2.18 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 GLU A 21 CD GLU A 21 OE2 0.073 REMARK 500 GLU A 47 CD GLU A 47 OE2 0.068 REMARK 500 GLU A 63 CD GLU A 63 OE2 0.068 REMARK 500 GLU A 63 CD GLU A 63 OE2 0.076 REMARK 500 GLU A 165 CD GLU A 165 OE2 0.070 REMARK 500 GLU A 316 CD GLU A 316 OE2 0.073 REMARK 500 GLU A 317 CD GLU A 317 OE2 0.072 REMARK 500 GLU B 24 CD GLU B 24 OE2 0.069 REMARK 500 GLU B 146 CD GLU B 146 OE2 0.081 REMARK 500 GLU B 165 CD GLU B 165 OE2 0.066 REMARK 500 GLU B 233 CD GLU B 233 OE2 0.077 REMARK 500 GLU B 260 CD GLU B 260 OE2 0.069 REMARK 500 GLU B 317 CD GLU B 317 OE2 0.083 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 ASP A 66 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP A 66 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 ASP A 69 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 69 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A 75 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 TYR A 80 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ASP A 145 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 145 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 CYS A 153 N - CA - CB ANGL. DEV. = 9.0 DEGREES REMARK 500 ASP A 170 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG A 220 CB - CA - C ANGL. DEV. = 13.4 DEGREES REMARK 500 ARG A 220 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ASP A 231 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP A 234 CB - CG - OD2 ANGL. DEV. = -7.8 DEGREES REMARK 500 ARG A 239 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 300 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP A 327 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ASP A 332 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG A 335 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ALA B 38 N - CA - CB ANGL. DEV. = 9.1 DEGREES REMARK 500 ASP B 66 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ASP B 69 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP B 69 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG B 75 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ALA B 93 N - CA - CB ANGL. DEV. = 9.3 DEGREES REMARK 500 ASP B 145 CB - CG - OD1 ANGL. DEV. = 7.2 DEGREES REMARK 500 ASP B 145 CB - CG - OD2 ANGL. DEV. = -8.9 DEGREES REMARK 500 ASP B 170 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 200 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP B 231 CB - CG - OD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 ASP B 246 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP B 246 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 ASP B 303 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG B 335 NE - CZ - NH1 ANGL. DEV. = 3.9 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 ASN A 37 42.32 -142.18 REMARK 500 SER A 131 -166.24 -104.78 REMARK 500 PHE A 186 -125.01 -91.45 REMARK 500 GLU B 3 -47.36 -131.88 REMARK 500 LYS B 100 56.00 -142.61 REMARK 500 LYS B 125 47.91 -101.57 REMARK 500 SER B 131 -167.63 -101.27 REMARK 500 PHE B 186 -120.94 -94.43 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 994 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 312 OG REMARK 620 2 HOH A1296 O 80.1 REMARK 620 3 HOH A1648 O 66.2 82.7 REMARK 620 4 HOH B1468 O 155.2 86.3 91.7 REMARK 620 5 HOH B1598 O 116.2 82.3 164.1 82.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 990 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 991 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 992 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 993 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 994 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD1 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD B 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD1 B 901 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1I3K RELATED DB: PDB REMARK 900 MOLECULAR BASIS FOR SEVERE EPIMERASE-DEFICIENCY GALACTOSEMIA: X-RAY REMARK 900 STRUCTURE OF THE HUMAN V94M-SUBSTITUTED UDP-GALACTOSE 4-EPIMERASE REMARK 900 RELATED ID: 1I3L RELATED DB: PDB REMARK 900 MOLECULAR BASIS FOR SEVERE EPIMERASE-DEFICIENCY GALACTOSEMIA: X-RAY REMARK 900 STRUCTURE OF THE HUMAN V94M-SUBSTITUTED UDP-GALACTOSE 4-EPIMERASE REMARK 900 RELATED ID: 1I3N RELATED DB: PDB REMARK 900 MOLECULAR BASIS FOR SEVERE EPIMERASE-DEFICIENCY GALACTOSEMIA: X-RAY REMARK 900 STRUCTURE OF THE HUMAN V94M-SUBSTIRUTED UDP-GALACTOSE 4-EPIMERASE DBREF 1I3M A 1 348 UNP Q14376 GALE_HUMAN 1 348 DBREF 1I3M B 1 348 UNP Q14376 GALE_HUMAN 1 348 SEQADV 1I3M MET A 94 UNP Q14376 VAL 94 ENGINEERED MUTATION SEQADV 1I3M MET B 94 UNP Q14376 VAL 94 ENGINEERED MUTATION SEQRES 1 A 348 MET ALA GLU LYS VAL LEU VAL THR GLY GLY ALA GLY TYR SEQRES 2 A 348 ILE GLY SER HIS THR VAL LEU GLU LEU LEU GLU ALA GLY SEQRES 3 A 348 TYR LEU PRO VAL VAL ILE ASP ASN PHE HIS ASN ALA PHE SEQRES 4 A 348 ARG GLY GLY GLY SER LEU PRO GLU SER LEU ARG ARG VAL SEQRES 5 A 348 GLN GLU LEU THR GLY ARG SER VAL GLU PHE GLU GLU MET SEQRES 6 A 348 ASP ILE LEU ASP GLN GLY ALA LEU GLN ARG LEU PHE LYS SEQRES 7 A 348 LYS TYR SER PHE MET ALA VAL ILE HIS PHE ALA GLY LEU SEQRES 8 A 348 LYS ALA MET GLY GLU SER VAL GLN LYS PRO LEU ASP TYR SEQRES 9 A 348 TYR ARG VAL ASN LEU THR GLY THR ILE GLN LEU LEU GLU SEQRES 10 A 348 ILE MET LYS ALA HIS GLY VAL LYS ASN LEU VAL PHE SER SEQRES 11 A 348 SER SER ALA THR VAL TYR GLY ASN PRO GLN TYR LEU PRO SEQRES 12 A 348 LEU ASP GLU ALA HIS PRO THR GLY GLY CYS THR ASN PRO SEQRES 13 A 348 TYR GLY LYS SER LYS PHE PHE ILE GLU GLU MET ILE ARG SEQRES 14 A 348 ASP LEU CYS GLN ALA ASP LYS THR TRP ASN VAL VAL LEU SEQRES 15 A 348 LEU ARG TYR PHE ASN PRO THR GLY ALA HIS ALA SER GLY SEQRES 16 A 348 CYS ILE GLY GLU ASP PRO GLN GLY ILE PRO ASN ASN LEU SEQRES 17 A 348 MET PRO TYR VAL SER GLN VAL ALA ILE GLY ARG ARG GLU SEQRES 18 A 348 ALA LEU ASN VAL PHE GLY ASN ASP TYR ASP THR GLU ASP SEQRES 19 A 348 GLY THR GLY VAL ARG ASP TYR ILE HIS VAL VAL ASP LEU SEQRES 20 A 348 ALA LYS GLY HIS ILE ALA ALA LEU ARG LYS LEU LYS GLU SEQRES 21 A 348 GLN CYS GLY CYS ARG ILE TYR ASN LEU GLY THR GLY THR SEQRES 22 A 348 GLY TYR SER VAL LEU GLN MET VAL GLN ALA MET GLU LYS SEQRES 23 A 348 ALA SER GLY LYS LYS ILE PRO TYR LYS VAL VAL ALA ARG SEQRES 24 A 348 ARG GLU GLY ASP VAL ALA ALA CYS TYR ALA ASN PRO SER SEQRES 25 A 348 LEU ALA GLN GLU GLU LEU GLY TRP THR ALA ALA LEU GLY SEQRES 26 A 348 LEU ASP ARG MET CYS GLU ASP LEU TRP ARG TRP GLN LYS SEQRES 27 A 348 GLN ASN PRO SER GLY PHE GLY THR GLN ALA SEQRES 1 B 348 MET ALA GLU LYS VAL LEU VAL THR GLY GLY ALA GLY TYR SEQRES 2 B 348 ILE GLY SER HIS THR VAL LEU GLU LEU LEU GLU ALA GLY SEQRES 3 B 348 TYR LEU PRO VAL VAL ILE ASP ASN PHE HIS ASN ALA PHE SEQRES 4 B 348 ARG GLY GLY GLY SER LEU PRO GLU SER LEU ARG ARG VAL SEQRES 5 B 348 GLN GLU LEU THR GLY ARG SER VAL GLU PHE GLU GLU MET SEQRES 6 B 348 ASP ILE LEU ASP GLN GLY ALA LEU GLN ARG LEU PHE LYS SEQRES 7 B 348 LYS TYR SER PHE MET ALA VAL ILE HIS PHE ALA GLY LEU SEQRES 8 B 348 LYS ALA MET GLY GLU SER VAL GLN LYS PRO LEU ASP TYR SEQRES 9 B 348 TYR ARG VAL ASN LEU THR GLY THR ILE GLN LEU LEU GLU SEQRES 10 B 348 ILE MET LYS ALA HIS GLY VAL LYS ASN LEU VAL PHE SER SEQRES 11 B 348 SER SER ALA THR VAL TYR GLY ASN PRO GLN TYR LEU PRO SEQRES 12 B 348 LEU ASP GLU ALA HIS PRO THR GLY GLY CYS THR ASN PRO SEQRES 13 B 348 TYR GLY LYS SER LYS PHE PHE ILE GLU GLU MET ILE ARG SEQRES 14 B 348 ASP LEU CYS GLN ALA ASP LYS THR TRP ASN VAL VAL LEU SEQRES 15 B 348 LEU ARG TYR PHE ASN PRO THR GLY ALA HIS ALA SER GLY SEQRES 16 B 348 CYS ILE GLY GLU ASP PRO GLN GLY ILE PRO ASN ASN LEU SEQRES 17 B 348 MET PRO TYR VAL SER GLN VAL ALA ILE GLY ARG ARG GLU SEQRES 18 B 348 ALA LEU ASN VAL PHE GLY ASN ASP TYR ASP THR GLU ASP SEQRES 19 B 348 GLY THR GLY VAL ARG ASP TYR ILE HIS VAL VAL ASP LEU SEQRES 20 B 348 ALA LYS GLY HIS ILE ALA ALA LEU ARG LYS LEU LYS GLU SEQRES 21 B 348 GLN CYS GLY CYS ARG ILE TYR ASN LEU GLY THR GLY THR SEQRES 22 B 348 GLY TYR SER VAL LEU GLN MET VAL GLN ALA MET GLU LYS SEQRES 23 B 348 ALA SER GLY LYS LYS ILE PRO TYR LYS VAL VAL ALA ARG SEQRES 24 B 348 ARG GLU GLY ASP VAL ALA ALA CYS TYR ALA ASN PRO SER SEQRES 25 B 348 LEU ALA GLN GLU GLU LEU GLY TRP THR ALA ALA LEU GLY SEQRES 26 B 348 LEU ASP ARG MET CYS GLU ASP LEU TRP ARG TRP GLN LYS SEQRES 27 B 348 GLN ASN PRO SER GLY PHE GLY THR GLN ALA HET CL A 993 1 HET MG A 994 1 HET NAD A 400 44 HET UD1 A 401 40 HET CL B 990 1 HET CL B 991 1 HET CL B 992 1 HET NAD B 900 44 HET UD1 B 901 39 HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM UD1 URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE FORMUL 3 CL 4(CL 1-) FORMUL 4 MG MG 2+ FORMUL 5 NAD 2(C21 H27 N7 O14 P2) FORMUL 6 UD1 2(C17 H27 N3 O17 P2) FORMUL 12 HOH *842(H2 O) HELIX 1 1 GLY A 12 ALA A 25 1 14 HELIX 2 2 PRO A 46 GLY A 57 1 12 HELIX 3 3 ASP A 69 TYR A 80 1 12 HELIX 4 4 GLU A 96 GLN A 99 5 4 HELIX 5 5 LYS A 100 ASN A 108 1 9 HELIX 6 6 ASN A 108 HIS A 122 1 15 HELIX 7 7 THR A 134 GLY A 137 5 4 HELIX 8 8 ASN A 155 ASP A 175 1 21 HELIX 9 9 ASN A 207 ILE A 217 1 11 HELIX 10 10 VAL A 244 LYS A 259 1 16 HELIX 11 11 VAL A 277 GLY A 289 1 13 HELIX 12 12 PRO A 311 GLU A 317 1 7 HELIX 13 13 GLY A 325 ASN A 340 1 16 HELIX 14 14 GLY B 12 ALA B 25 1 14 HELIX 15 15 PRO B 46 GLY B 57 1 12 HELIX 16 16 ASP B 69 TYR B 80 1 12 HELIX 17 17 GLU B 96 GLN B 99 5 4 HELIX 18 18 LYS B 100 HIS B 122 1 23 HELIX 19 19 THR B 134 GLY B 137 5 4 HELIX 20 20 ASN B 155 ASP B 175 1 21 HELIX 21 21 ASN B 207 ILE B 217 1 11 HELIX 22 22 VAL B 244 LYS B 259 1 16 HELIX 23 23 VAL B 277 GLY B 289 1 13 HELIX 24 24 PRO B 311 LEU B 318 1 8 HELIX 25 25 GLY B 325 ASN B 340 1 16 SHEET 1 A 7 GLU A 61 GLU A 64 0 SHEET 2 A 7 PRO A 29 ASP A 33 1 O PRO A 29 N GLU A 61 SHEET 3 A 7 LYS A 4 THR A 8 1 O VAL A 5 N VAL A 30 SHEET 4 A 7 PHE A 82 HIS A 87 1 N MET A 83 O LYS A 4 SHEET 5 A 7 ASN A 126 SER A 132 1 O ASN A 126 N VAL A 85 SHEET 6 A 7 ASN A 179 TYR A 185 1 O ASN A 179 N LEU A 127 SHEET 7 A 7 CYS A 264 LEU A 269 1 O ARG A 265 N LEU A 182 SHEET 1 B 2 ASN A 187 THR A 189 0 SHEET 2 B 2 TYR A 241 HIS A 243 1 O ILE A 242 N THR A 189 SHEET 1 C 2 LEU A 223 PHE A 226 0 SHEET 2 C 2 TYR A 294 VAL A 297 1 O LYS A 295 N VAL A 225 SHEET 1 D 3 TYR A 275 SER A 276 0 SHEET 2 D 3 VAL A 238 ARG A 239 -1 O ARG A 239 N TYR A 275 SHEET 3 D 3 ALA A 306 CYS A 307 1 N CYS A 307 O VAL A 238 SHEET 1 E 7 GLU B 61 GLU B 64 0 SHEET 2 E 7 PRO B 29 ASP B 33 1 O PRO B 29 N GLU B 61 SHEET 3 E 7 LYS B 4 THR B 8 1 O VAL B 5 N VAL B 30 SHEET 4 E 7 PHE B 82 HIS B 87 1 N MET B 83 O LYS B 4 SHEET 5 E 7 ASN B 126 SER B 132 1 O ASN B 126 N VAL B 85 SHEET 6 E 7 ASN B 179 TYR B 185 1 O ASN B 179 N LEU B 127 SHEET 7 E 7 CYS B 264 LEU B 269 1 O ARG B 265 N LEU B 182 SHEET 1 F 3 GLY B 274 SER B 276 0 SHEET 2 F 3 VAL B 238 HIS B 243 -1 O ARG B 239 N TYR B 275 SHEET 3 F 3 ASN B 187 THR B 189 1 O ASN B 187 N ILE B 242 SHEET 1 G 3 GLY B 274 SER B 276 0 SHEET 2 G 3 VAL B 238 HIS B 243 -1 O ARG B 239 N TYR B 275 SHEET 3 G 3 ALA B 306 CYS B 307 1 N CYS B 307 O VAL B 238 SHEET 1 H 2 LEU B 223 PHE B 226 0 SHEET 2 H 2 TYR B 294 VAL B 297 1 O LYS B 295 N VAL B 225 LINK OG SER A 312 MG MG A 994 1555 1555 2.15 LINK MG MG A 994 O HOH A1296 1555 1555 2.57 LINK MG MG A 994 O HOH A1648 1555 1555 2.63 LINK MG MG A 994 O HOH B1468 1555 2565 2.37 LINK MG MG A 994 O HOH B1598 1555 2565 2.34 CISPEP 1 LEU A 142 PRO A 143 0 -1.40 CISPEP 2 LEU B 142 PRO B 143 0 0.37 SITE 1 AC1 5 HIS B 243 ASP B 246 THR B 271 ALA B 322 SITE 2 AC1 5 LEU B 324 SITE 1 AC2 3 GLU B 3 TYR B 80 SER B 81 SITE 1 AC3 3 GLY B 43 SER B 44 LEU B 45 SITE 1 AC4 5 LYS A 4 TYR A 80 SER A 81 HOH A1542 SITE 2 AC4 5 HOH A1902 SITE 1 AC5 6 SER A 312 GLU A 316 HOH A1296 HOH A1648 SITE 2 AC5 6 HOH B1468 HOH B1598 SITE 1 AC6 32 GLY A 9 GLY A 12 TYR A 13 ILE A 14 SITE 2 AC6 32 ASP A 33 ASN A 34 HIS A 36 ASN A 37 SITE 3 AC6 32 ALA A 38 MET A 65 ASP A 66 ILE A 67 SITE 4 AC6 32 PHE A 88 ALA A 89 GLY A 90 LYS A 92 SITE 5 AC6 32 SER A 130 SER A 131 SER A 132 TYR A 157 SITE 6 AC6 32 LYS A 161 TYR A 185 PRO A 188 HOH A1109 SITE 7 AC6 32 HOH A1121 HOH A1124 HOH A1173 HOH A1310 SITE 8 AC6 32 HOH A1444 HOH A1534 HOH A1823 HOH A1824 SITE 1 AC7 26 ALA A 93 TYR A 157 ASN A 187 ASN A 206 SITE 2 AC7 26 ASN A 207 LEU A 208 ASN A 224 VAL A 225 SITE 3 AC7 26 PHE A 226 GLY A 237 ARG A 239 TYR A 241 SITE 4 AC7 26 VAL A 277 ARG A 300 GLY A 302 ASP A 303 SITE 5 AC7 26 VAL A 304 HOH A1137 HOH A1231 HOH A1303 SITE 6 AC7 26 HOH A1321 HOH A1461 HOH A1647 HOH A1823 SITE 7 AC7 26 HOH A1826 HOH A1827 SITE 1 AC8 33 GLY B 9 GLY B 12 TYR B 13 ILE B 14 SITE 2 AC8 33 ASP B 33 ASN B 34 PHE B 35 HIS B 36 SITE 3 AC8 33 ASN B 37 ALA B 38 MET B 65 ASP B 66 SITE 4 AC8 33 ILE B 67 PHE B 88 ALA B 89 GLY B 90 SITE 5 AC8 33 LYS B 92 SER B 130 SER B 131 SER B 132 SITE 6 AC8 33 TYR B 157 LYS B 161 TYR B 185 PRO B 188 SITE 7 AC8 33 UD1 B 901 HOH B1103 HOH B1104 HOH B1128 SITE 8 AC8 33 HOH B1148 HOH B1152 HOH B1167 HOH B1479 SITE 9 AC8 33 HOH B1706 SITE 1 AC9 24 SER B 132 THR B 134 TYR B 157 ASN B 187 SITE 2 AC9 24 ASN B 206 ASN B 207 LEU B 208 ASN B 224 SITE 3 AC9 24 VAL B 225 PHE B 226 GLY B 237 ARG B 239 SITE 4 AC9 24 TYR B 241 VAL B 277 ARG B 300 ASP B 303 SITE 5 AC9 24 NAD B 900 HOH B1123 HOH B1149 HOH B1157 SITE 6 AC9 24 HOH B1416 HOH B1828 HOH B1832 HOH B1901 CRYST1 77.900 89.900 96.900 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.012837 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011123 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010320 0.00000