HEADER ISOMERASE 15-FEB-01 1I3K 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_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPIC3.5KHGALE KEYWDS GALACTOSEMIA EPIMERASE SHORT-CHAIN DEHYDROGENASE, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.B.THODEN,T.M.WOHLERS,J.L.FRIDOVICH-KEIL,H.M.HOLDEN REVDAT 6 09-AUG-23 1I3K 1 REMARK REVDAT 5 27-OCT-21 1I3K 1 REMARK SEQADV LINK REVDAT 4 20-NOV-19 1I3K 1 LINK REVDAT 3 24-FEB-09 1I3K 1 VERSN REVDAT 2 01-APR-03 1I3K 1 JRNL REVDAT 1 20-JUN-01 1I3K 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 (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 108668 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 10687 REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.1750 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) : 108668 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5355 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 177 REMARK 3 SOLVENT ATOMS : 977 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) : 0.010 ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : 2.100 ; 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 : ISOTROPIC REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1I3K 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_1000012859. 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 : 108944 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 (%) : 99.1 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 41.0000 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 (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.23900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 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 (%): 44.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG-3400, MES, SODIUM CHLORIDE, REMARK 280 MAGNESIUM CHLORIDE, PH 6, BATCH, TEMPERATURE 278K 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 39.05000 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 39.05000 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 COMPRISED 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: 7290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -86.0 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 VAL B 180 CG1 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 1407 O HOH A 1570 2.05 REMARK 500 O HOH B 1784 O HOH B 2063 2.19 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 47 CD GLU A 47 OE2 0.070 REMARK 500 GLU A 63 CD GLU A 63 OE2 0.073 REMARK 500 GLU A 63 CD GLU A 63 OE2 0.068 REMARK 500 GLU A 146 CD GLU A 146 OE2 0.070 REMARK 500 GLU A 233 CD GLU A 233 OE2 0.072 REMARK 500 GLU A 260 CD GLU A 260 OE2 0.068 REMARK 500 GLU A 301 CD GLU A 301 OE2 0.071 REMARK 500 GLU A 317 CD GLU A 317 OE2 0.066 REMARK 500 GLU B 24 CD GLU B 24 OE2 0.067 REMARK 500 GLU B 63 CD GLU B 63 OE2 0.071 REMARK 500 GLU B 96 CD GLU B 96 OE2 0.070 REMARK 500 GLU B 146 CD GLU B 146 OE2 0.069 REMARK 500 GLU B 301 CD GLU B 301 OE2 0.066 REMARK 500 GLU B 317 CD GLU B 317 OE2 0.072 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. = 6.0 DEGREES REMARK 500 ASP A 66 CB - CG - OD2 ANGL. DEV. = -6.7 DEGREES REMARK 500 ASP A 69 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 69 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ASP A 145 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 145 CB - CG - OD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ASP A 246 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP A 303 CB - CG - OD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ASP A 327 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ASP A 332 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 332 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG B 50 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ASP B 69 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 69 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG B 75 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG B 75 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP B 145 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP B 145 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 ASP B 170 CB - CG - OD1 ANGL. DEV. = 7.0 DEGREES REMARK 500 ASP B 246 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP B 246 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ASP B 303 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 303 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ASP B 332 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG B 335 NE - CZ - NH1 ANGL. DEV. = 3.2 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 42.29 -140.22 REMARK 500 MET A 94 30.77 -95.39 REMARK 500 PHE A 186 -121.68 -93.68 REMARK 500 GLU B 3 -58.53 -130.16 REMARK 500 LYS B 125 47.72 -97.60 REMARK 500 SER B 131 -166.77 -101.19 REMARK 500 PHE B 186 -112.95 -93.50 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 960 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 312 OG REMARK 620 2 HOH A1323 O 89.7 REMARK 620 3 HOH A1645 O 120.1 87.6 REMARK 620 4 HOH A1646 O 68.8 86.4 169.3 REMARK 620 5 HOH A1703 O 120.7 149.3 74.3 107.1 REMARK 620 6 HOH B1474 O 150.3 89.6 89.6 81.6 66.2 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 950 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 951 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 952 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 953 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 960 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 UPG 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 UPG B 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 970 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 971 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 972 REMARK 900 REMARK 900 RELATED ENTRIES 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: 1I3M 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 1I3K A 1 348 UNP Q14376 GALE_HUMAN 1 348 DBREF 1I3K B 1 348 UNP Q14376 GALE_HUMAN 1 348 SEQADV 1I3K MET A 94 UNP Q14376 VAL 94 ENGINEERED MUTATION SEQADV 1I3K 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 950 1 HET MG A 960 1 HET NAD A 400 44 HET UPG A 401 37 HET EDO A 971 4 HET CL B 951 1 HET CL B 952 1 HET CL B 953 1 HET NAD B 900 44 HET UPG B 901 36 HET EDO B 970 4 HET EDO B 972 4 HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM UPG URIDINE-5'-DIPHOSPHATE-GLUCOSE HETNAM EDO 1,2-ETHANEDIOL HETSYN UPG URIDINE-5'-MONOPHOSPHATE GLUCOPYRANOSYL-MONOPHOSPHATE HETSYN 2 UPG ESTER HETSYN EDO ETHYLENE GLYCOL FORMUL 3 CL 4(CL 1-) FORMUL 4 MG MG 2+ FORMUL 5 NAD 2(C21 H27 N7 O14 P2) FORMUL 6 UPG 2(C15 H24 N2 O17 P2) FORMUL 7 EDO 3(C2 H6 O2) FORMUL 15 HOH *977(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 LEU A 318 1 8 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 GLU B 260 1 17 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 N ILE A 242 O ASN A 187 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 2 ASN B 187 THR B 189 0 SHEET 2 F 2 TYR B 241 HIS B 243 1 O ILE B 242 N THR B 189 SHEET 1 G 2 LEU B 223 PHE B 226 0 SHEET 2 G 2 TYR B 294 VAL B 297 1 O LYS B 295 N VAL B 225 SHEET 1 H 3 TYR B 275 SER B 276 0 SHEET 2 H 3 VAL B 238 ARG B 239 -1 O ARG B 239 N TYR B 275 SHEET 3 H 3 ALA B 306 CYS B 307 1 N CYS B 307 O VAL B 238 LINK OG SER A 312 MG MG A 960 1555 1555 2.18 LINK MG MG A 960 O HOH A1323 1555 1555 2.44 LINK MG MG A 960 O HOH A1645 1555 1555 2.16 LINK MG MG A 960 O HOH A1646 1555 1555 2.51 LINK MG MG A 960 O HOH A1703 1555 1555 2.38 LINK MG MG A 960 O HOH B1474 1555 2565 2.15 CISPEP 1 LEU A 142 PRO A 143 0 -1.88 CISPEP 2 LEU B 142 PRO B 143 0 0.15 SITE 1 AC1 3 SER A 44 LEU A 45 HOH A1257 SITE 1 AC2 2 PRO B 101 LEU B 102 SITE 1 AC3 1 HOH B1721 SITE 1 AC4 1 SER B 81 SITE 1 AC5 6 SER A 312 HOH A1323 HOH A1645 HOH A1646 SITE 2 AC5 6 HOH A1703 HOH B1474 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 PHE A 35 HIS A 36 SITE 3 AC6 32 ASN A 37 ALA A 38 MET A 65 ASP A 66 SITE 4 AC6 32 ILE A 67 PHE A 88 ALA A 89 GLY A 90 SITE 5 AC6 32 LYS A 92 SER A 130 SER A 131 SER A 132 SITE 6 AC6 32 TYR A 157 LYS A 161 TYR A 185 PRO A 188 SITE 7 AC6 32 UPG A 401 HOH A1110 HOH A1118 HOH A1158 SITE 8 AC6 32 HOH A1172 HOH A1311 HOH A1356 HOH A1503 SITE 1 AC7 26 SER A 132 ALA A 133 THR A 134 TYR A 185 SITE 2 AC7 26 PHE A 186 ASN A 187 ASN A 206 ASN A 207 SITE 3 AC7 26 LEU A 208 ASN A 224 VAL A 225 PHE A 226 SITE 4 AC7 26 GLY A 237 ARG A 239 TYR A 241 VAL A 277 SITE 5 AC7 26 ARG A 300 ASP A 303 NAD A 400 HOH A1119 SITE 6 AC7 26 HOH A1279 HOH A1307 HOH A1437 HOH A1461 SITE 7 AC7 26 HOH A2081 HOH A2082 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 TYR B 157 SITE 6 AC8 33 LYS B 161 TYR B 185 PRO B 188 UPG B 901 SITE 7 AC8 33 HOH B1101 HOH B1113 HOH B1114 HOH B1134 SITE 8 AC8 33 HOH B1137 HOH B1141 HOH B1495 HOH B1566 SITE 9 AC8 33 HOH B1712 SITE 1 AC9 24 SER B 132 THR B 134 PHE B 186 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 B1103 HOH B1117 HOH B1199 SITE 6 AC9 24 HOH B1345 HOH B2083 HOH B2085 HOH B2086 SITE 1 BC1 6 PRO B 139 LEU B 142 HOH B1321 HOH B1410 SITE 2 BC1 6 HOH B1751 HOH B1752 SITE 1 BC2 3 GLY A 26 HOH A1506 HOH A1842 SITE 1 BC3 6 GLY B 71 GLN B 74 ARG B 75 LYS B 78 SITE 2 BC3 6 HOH B1433 HOH B2060 CRYST1 78.100 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 0.012804 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011123 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010320 0.00000