HEADER NUCLEOTIDYL TRANSFERASE 09-JUN-95 1HXP TITLE NUCLEOTIDE TRANSFERASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEXOSE-1-PHOSPHATE URIDYLYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ALPHA-D-GALACTOSE-1-PHOSPHATE URIDYLYLTRANSFERASE; COMPND 5 EC: 2.7.7.10; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: GALACTOSE-1-PHOSPHATE URIDYLYLTRANSFERASE-UMP/UDP COMPND 8 COMPLEX SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 CELL_LINE: BL21; SOURCE 5 GENE: GALT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) (PLYSS); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PET; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PTZ18ROT; SOURCE 11 EXPRESSION_SYSTEM_GENE: GALT; SOURCE 12 OTHER_DETAILS: PET VECTOR SYSTEM KEYWDS METALLOENZYME, GALACTOSEMIA, NUCLEOTIDYL TRANSFERASE, COMPLEX (SERINE KEYWDS 2 PROTEASE-INHIBITOR) EXPDTA X-RAY DIFFRACTION AUTHOR J.E.WEDEKIND,P.A.FREY,I.RAYMENT REVDAT 3 29-NOV-17 1HXP 1 HELIX REVDAT 2 24-FEB-09 1HXP 1 VERSN REVDAT 1 08-NOV-96 1HXP 0 JRNL AUTH J.E.WEDEKIND,P.A.FREY,I.RAYMENT JRNL TITL THREE-DIMENSIONAL STRUCTURE OF GALACTOSE-1-PHOSPHATE JRNL TITL 2 URIDYLYLTRANSFERASE FROM ESCHERICHIA COLI AT 1.8 A JRNL TITL 3 RESOLUTION. JRNL REF BIOCHEMISTRY V. 34 11049 1995 JRNL REFN ISSN 0006-2960 JRNL PMID 7669762 JRNL DOI 10.1021/BI00035A010 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH F.J.RUZICKA,J.E.WEDEKIND,J.KIM,I.RAYMENT,P.A.FREY REMARK 1 TITL GALACTOSE-1-PHOSPHATE URIDYLYLTRANSFERASE FROM ESCHERICHIA REMARK 1 TITL 2 COLI, A ZINC AND IRON METALLOENZYME REMARK 1 REF BIOCHEMISTRY V. 34 5610 1995 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 2 REMARK 1 AUTH J.E.WEDEKIND,P.A.FREY,I.RAYMENT REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY CRYSTALLOGRAPHIC ANALYSIS OF REMARK 1 TITL 2 GALACTOSE-1-PHOSPHATE URIDYLYLTRANSFERASE FROM ESCHERICHIA REMARK 1 TITL 3 COLI REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 50 329 1994 REMARK 1 REFN ISSN 0907-4449 REMARK 2 REMARK 2 RESOLUTION. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 68553 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL 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) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5354 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 66 REMARK 3 SOLVENT ATOMS : 469 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : 24.300 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.015 ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : 2.254 ; NULL ; NULL REMARK 3 TORSION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : 0.006 ; NULL ; NULL REMARK 3 GENERAL PLANES (A) : 0.006 ; 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 : NULL REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 DESPITE THE PRESENCE OF THE NUCLEOTIDE PHOSPHATE(S) THE REMARK 3 LOOP REGION ADJACENT TO THE ACTIVE SITE FROM GLY 159 REMARK 3 THROUGH ASN 162 EXHIBITS UNUSUALLY HIGH TEMPERATURE REMARK 3 FACTORS. REMARK 4 REMARK 4 1HXP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000174068. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 1993 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : XSCALIBRE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NUMBER OF OBSERVED REFLECTIONS = 169713 REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 29.30000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 108.60000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.30000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 108.60000 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 CRYSTALLOGRAPHICALLY INDEPENDENT UNIT IS ONE DIMER OF REMARK 300 CHEMICALLY IDENTICAL SUBUNITS. 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: 9320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 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 400 REMARK 400 COMPOUND REMARK 400 THIS ENTRY REPRESENTS THE STRUCTURE OF REMARK 400 GALACTOSE-1-PHOSPHATE URIDYLYLTRANSFERASE COMPLEXED WITH REMARK 400 UMP AND UDP. ATTENUATION OR DEFICIENCY OF THIS ENZYME REMARK 400 RESULTS IN GALACTOSEMIA. REMARK 400 REMARK 400 THE PRESENT POSITION OF THE NUCLEOTIDE ALPHA PHOSPHORUS REMARK 400 PRECLUDES THE ABILITY OF THE NUCLEOPHILE HIS 166 TO REACT. REMARK 400 THIS INACTIVE CONFORMATION HAS BEEN ADOPTED DUE TO THE REMARK 400 COVALENT MODIFICATION OF CYSTEINE 160 BY 2-MERCAPTOETHANOL. REMARK 400 REMARK 400 THE TURN CONTAINING CYS 52 AND CYS 55 OF THE ZINC BINDING REMARK 400 MOTIF RESEMBLES THE RUBREDOXIN KNUCKLE. 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 GLN A 37 REMARK 465 GLU A 38 REMARK 465 THR A 39 REMARK 465 PRO A 40 REMARK 465 ALA A 41 REMARK 465 LYS A 42 REMARK 465 GLN A 43 REMARK 465 MET B 1 REMARK 465 ALA B 29 REMARK 465 LYS B 30 REMARK 465 ARG B 31 REMARK 465 PRO B 32 REMARK 465 TRP B 33 REMARK 465 GLU B 34 REMARK 465 GLY B 35 REMARK 465 ALA B 36 REMARK 465 GLN B 37 REMARK 465 GLU B 38 REMARK 465 THR B 39 REMARK 465 PRO B 40 REMARK 465 ALA B 41 REMARK 465 LYS B 42 REMARK 465 GLN B 43 REMARK 465 VAL B 44 REMARK 465 GLY B 347 REMARK 465 VAL 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 THR A 2 OG1 CG2 REMARK 470 HIS A 27 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 30 CG CD CE NZ REMARK 470 GLU A 34 CG CD OE1 OE2 REMARK 470 VAL A 44 CG1 CG2 REMARK 470 HIS A 93 CG ND1 CD2 CE1 NE2 REMARK 470 THR B 2 OG1 CG2 REMARK 470 GLN B 3 CG CD OE1 NE2 REMARK 470 HIS B 27 CG ND1 CD2 CE1 NE2 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 514 O HOH A 569 2.18 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 CYS A 99 CB - CA - C ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG A 103 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 181 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 VAL A 223 N - CA - C ANGL. DEV. = -21.5 DEGREES REMARK 500 ARG A 243 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 243 NE - CZ - NH2 ANGL. DEV. = 4.9 DEGREES REMARK 500 ARG A 336 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 344 NE - CZ - NH1 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 344 NE - CZ - NH2 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG B 28 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ASP B 64 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ASP B 85 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG B 98 NE - CZ - NH2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ARG B 107 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 GLU B 180 OE1 - CD - OE2 ANGL. DEV. = -7.4 DEGREES REMARK 500 ASP B 183 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 ARG B 184 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES REMARK 500 VAL B 223 N - CA - C ANGL. DEV. = -20.8 DEGREES REMARK 500 ASP B 249 CB - CG - OD2 ANGL. DEV. = -7.8 DEGREES REMARK 500 ARG B 252 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 265 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG B 265 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 MET B 318 CG - SD - CE ANGL. DEV. = -11.5 DEGREES REMARK 500 GLU B 321 OE1 - CD - OE2 ANGL. DEV. = -8.6 DEGREES REMARK 500 ARG B 324 NE - CZ - NH1 ANGL. DEV. = 3.0 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 PRO A 6 -6.12 -53.03 REMARK 500 LEU A 304 -51.59 -130.24 REMARK 500 VAL A 314 -169.50 -126.87 REMARK 500 ALA A 320 -70.77 -138.83 REMARK 500 PRO B 6 -16.84 -38.31 REMARK 500 LEU B 304 -54.28 -125.31 REMARK 500 THR B 308 -33.37 -130.96 REMARK 500 ALA B 320 -74.64 -140.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 THE NUCLEOTIDE BINDS PERPENDICULARLY TO STRANDS B(ETA)-3, REMARK 600 B(ETA)-6, B(ETA)-7 AND B(ETA)-8 OF THE HALF-BARREL. REMARK 600 REMARK 600 THE IRON BINDING SITE HAS BEEN IDENTIFIED BY ITS ANOMALOUS REMARK 600 DISPERSION SIGNAL. REMARK 600 REMARK 600 THE METAL COMPOSITION OF THIS ENZYME HAS BEEN REPORTED IN REMARK 600 RUZICKA ET AL., 1995. MOST LIKELY THE IRON SITE CONTAINS REMARK 600 A MIXTURE OF ZINC AND IRON. THERE IS NO CONFORMATIONAL REMARK 600 DISORDER. THE OCCUPANCY OF IRON HAS BEEN MODELED AS UNITY REMARK 600 AT THE FRN SITE. REMARK 600 REMARK 600 THE OXIDATION STATE OF THE ZINC OF (II) IS MOST LIKELY. REMARK 600 THE IRON SITE IS LIKELY TO BE PREDOMINANTLY IN THE (III) REMARK 600 STATE. 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 ZN A 350 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 52 SG REMARK 620 2 CYS A 55 SG 114.5 REMARK 620 3 HIS A 115 ND1 109.2 105.8 REMARK 620 4 HIS A 164 ND1 118.4 105.4 102.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 351 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 182 OE1 REMARK 620 2 GLU A 182 OE2 61.0 REMARK 620 3 HIS A 281 ND1 89.8 104.7 REMARK 620 4 HIS A 296 NE2 88.3 126.6 118.8 REMARK 620 5 HIS A 298 NE2 164.9 105.0 100.0 96.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 349 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 52 SG REMARK 620 2 CYS B 55 SG 115.7 REMARK 620 3 HIS B 115 ND1 103.4 106.0 REMARK 620 4 HIS B 164 ND1 115.9 109.7 104.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 350 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 182 OE1 REMARK 620 2 GLU B 182 OE2 61.1 REMARK 620 3 HIS B 281 ND1 90.4 108.2 REMARK 620 4 HIS B 296 NE2 85.6 126.0 113.5 REMARK 620 5 HIS B 298 NE2 167.2 106.4 96.4 101.4 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: NUC REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NUCLEOTIDE BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: NU2 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NUCLEOTIDE BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: ZNC REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: ZINC BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: ZN2 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: ZINC BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: FRN REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: IRON BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: FR2 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: IRON BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 350 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 351 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 349 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 350 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 352 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 353 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 354 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE U5P A 355 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME B 351 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP B 352 DBREF 1HXP A 1 348 UNP P09148 GAL7_ECOLI 1 348 DBREF 1HXP B 1 348 UNP P09148 GAL7_ECOLI 1 348 SEQADV 1HXP GLU A 34 UNP P09148 GLN 34 CONFLICT SEQADV 1HXP GLU B 34 UNP P09148 GLN 34 CONFLICT SEQRES 1 A 348 MET THR GLN PHE ASN PRO VAL ASP HIS PRO HIS ARG ARG SEQRES 2 A 348 TYR ASN PRO LEU THR GLY GLN TRP ILE LEU VAL SER PRO SEQRES 3 A 348 HIS ARG ALA LYS ARG PRO TRP GLU GLY ALA GLN GLU THR SEQRES 4 A 348 PRO ALA LYS GLN VAL LEU PRO ALA HIS ASP PRO ASP CYS SEQRES 5 A 348 PHE LEU CYS ALA GLY ASN VAL ARG VAL THR GLY ASP LYS SEQRES 6 A 348 ASN PRO ASP TYR THR GLY THR TYR VAL PHE THR ASN ASP SEQRES 7 A 348 PHE ALA ALA LEU MET SER ASP THR PRO ASP ALA PRO GLU SEQRES 8 A 348 SER HIS ASP PRO LEU MET ARG CYS GLN SER ALA ARG GLY SEQRES 9 A 348 THR SER ARG VAL ILE CYS PHE SER PRO ASP HIS SER LYS SEQRES 10 A 348 THR LEU PRO GLU LEU SER VAL ALA ALA LEU THR GLU ILE SEQRES 11 A 348 VAL LYS THR TRP GLN GLU GLN THR ALA GLU LEU GLY LYS SEQRES 12 A 348 THR TYR PRO TRP VAL GLN VAL PHE GLU ASN LYS GLY ALA SEQRES 13 A 348 ALA MET GLY CYS SER ASN PRO HIS PRO HIS GLY GLN ILE SEQRES 14 A 348 TRP ALA ASN SER PHE LEU PRO ASN GLU ALA GLU ARG GLU SEQRES 15 A 348 ASP ARG LEU GLN LYS GLU TYR PHE ALA GLU GLN LYS SER SEQRES 16 A 348 PRO MET LEU VAL ASP TYR VAL GLN ARG GLU LEU ALA ASP SEQRES 17 A 348 GLY SER ARG THR VAL VAL GLU THR GLU HIS TRP LEU ALA SEQRES 18 A 348 VAL VAL PRO TYR TRP ALA ALA TRP PRO PHE GLU THR LEU SEQRES 19 A 348 LEU LEU PRO LYS ALA HIS VAL LEU ARG ILE THR ASP LEU SEQRES 20 A 348 THR ASP ALA GLN ARG SER ASP LEU ALA LEU ALA LEU LYS SEQRES 21 A 348 LYS LEU THR SER ARG TYR ASP ASN LEU PHE GLN CYS SER SEQRES 22 A 348 PHE PRO TYR SER MET GLY TRP HIS GLY ALA PRO PHE ASN SEQRES 23 A 348 GLY GLU GLU ASN GLN HIS TRP GLN LEU HIS ALA HIS PHE SEQRES 24 A 348 TYR PRO PRO LEU LEU ARG SER ALA THR VAL ARG LYS PHE SEQRES 25 A 348 MET VAL GLY TYR GLU MET LEU ALA GLU THR GLN ARG ASP SEQRES 26 A 348 LEU THR ALA GLU GLN ALA ALA GLU ARG LEU ARG ALA VAL SEQRES 27 A 348 SER ASP ILE HIS PHE ARG GLU SER GLY VAL SEQRES 1 B 348 MET THR GLN PHE ASN PRO VAL ASP HIS PRO HIS ARG ARG SEQRES 2 B 348 TYR ASN PRO LEU THR GLY GLN TRP ILE LEU VAL SER PRO SEQRES 3 B 348 HIS ARG ALA LYS ARG PRO TRP GLU GLY ALA GLN GLU THR SEQRES 4 B 348 PRO ALA LYS GLN VAL LEU PRO ALA HIS ASP PRO ASP CYS SEQRES 5 B 348 PHE LEU CYS ALA GLY ASN VAL ARG VAL THR GLY ASP LYS SEQRES 6 B 348 ASN PRO ASP TYR THR GLY THR TYR VAL PHE THR ASN ASP SEQRES 7 B 348 PHE ALA ALA LEU MET SER ASP THR PRO ASP ALA PRO GLU SEQRES 8 B 348 SER HIS ASP PRO LEU MET ARG CYS GLN SER ALA ARG GLY SEQRES 9 B 348 THR SER ARG VAL ILE CYS PHE SER PRO ASP HIS SER LYS SEQRES 10 B 348 THR LEU PRO GLU LEU SER VAL ALA ALA LEU THR GLU ILE SEQRES 11 B 348 VAL LYS THR TRP GLN GLU GLN THR ALA GLU LEU GLY LYS SEQRES 12 B 348 THR TYR PRO TRP VAL GLN VAL PHE GLU ASN LYS GLY ALA SEQRES 13 B 348 ALA MET GLY CYS SER ASN PRO HIS PRO HIS GLY GLN ILE SEQRES 14 B 348 TRP ALA ASN SER PHE LEU PRO ASN GLU ALA GLU ARG GLU SEQRES 15 B 348 ASP ARG LEU GLN LYS GLU TYR PHE ALA GLU GLN LYS SER SEQRES 16 B 348 PRO MET LEU VAL ASP TYR VAL GLN ARG GLU LEU ALA ASP SEQRES 17 B 348 GLY SER ARG THR VAL VAL GLU THR GLU HIS TRP LEU ALA SEQRES 18 B 348 VAL VAL PRO TYR TRP ALA ALA TRP PRO PHE GLU THR LEU SEQRES 19 B 348 LEU LEU PRO LYS ALA HIS VAL LEU ARG ILE THR ASP LEU SEQRES 20 B 348 THR ASP ALA GLN ARG SER ASP LEU ALA LEU ALA LEU LYS SEQRES 21 B 348 LYS LEU THR SER ARG TYR ASP ASN LEU PHE GLN CYS SER SEQRES 22 B 348 PHE PRO TYR SER MET GLY TRP HIS GLY ALA PRO PHE ASN SEQRES 23 B 348 GLY GLU GLU ASN GLN HIS TRP GLN LEU HIS ALA HIS PHE SEQRES 24 B 348 TYR PRO PRO LEU LEU ARG SER ALA THR VAL ARG LYS PHE SEQRES 25 B 348 MET VAL GLY TYR GLU MET LEU ALA GLU THR GLN ARG ASP SEQRES 26 B 348 LEU THR ALA GLU GLN ALA ALA GLU ARG LEU ARG ALA VAL SEQRES 27 B 348 SER ASP ILE HIS PHE ARG GLU SER GLY VAL HET ZN A 350 1 HET FE A 351 1 HET BME A 352 4 HET BME A 353 4 HET BME A 354 4 HET U5P A 355 21 HET ZN B 349 1 HET FE B 350 1 HET BME B 351 4 HET UDP B 352 25 HETNAM ZN ZINC ION HETNAM FE FE (III) ION HETNAM BME BETA-MERCAPTOETHANOL HETNAM U5P URIDINE-5'-MONOPHOSPHATE HETNAM UDP URIDINE-5'-DIPHOSPHATE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 FE 2(FE 3+) FORMUL 5 BME 4(C2 H6 O S) FORMUL 8 U5P C9 H13 N2 O9 P FORMUL 12 UDP C9 H14 N2 O12 P2 FORMUL 13 HOH *469(H2 O) HELIX 1 1 VAL A 124 LEU A 141 1 18 HELIX 2 2 ASN A 177 GLN A 193 1 17 HELIX 3 3 MET A 197 ASP A 208 1 12 HELIX 4 4 ASP A 249 ASP A 267 1 19 HELIX 5 5 GLY A 315 LEU A 319 1 5 HELIX 6 6 ALA A 328 ALA A 337 1 10 HELIX 7 7 VAL B 124 LEU B 141 1 18 HELIX 8 8 ASN B 177 GLN B 193 1 17 HELIX 9 9 MET B 197 ASP B 208 1 12 HELIX 10 10 ASP B 249 ASP B 267 1 19 HELIX 11 11 GLY B 315 LEU B 319 1 5 HELIX 12 12 ALA B 328 ALA B 337 1 10 SHEET 1 A 3 GLN A 20 VAL A 24 0 SHEET 2 A 3 HIS A 11 ASN A 15 -1 N ASN A 15 O GLN A 20 SHEET 3 A 3 CYS B 99 SER B 101 -1 N GLN B 100 O ARG A 12 SHEET 1 B 9 TYR A 73 THR A 76 0 SHEET 2 B 9 GLY A 104 CYS A 110 -1 N CYS A 110 O TYR A 73 SHEET 3 B 9 HIS A 166 ASN A 172 -1 N ALA A 171 O THR A 105 SHEET 4 B 9 TRP A 147 LYS A 154 -1 N PHE A 151 O GLN A 168 SHEET 5 B 9 TYR A 276 HIS A 281 -1 N MET A 278 O GLU A 152 SHEET 6 B 9 HIS A 296 TYR A 300 -1 N TYR A 300 O SER A 277 SHEET 7 B 9 THR A 233 PRO A 237 -1 N LEU A 235 O ALA A 297 SHEET 8 B 9 TRP A 219 VAL A 222 -1 N VAL A 222 O LEU A 234 SHEET 9 B 9 THR A 212 GLU A 215 -1 N VAL A 214 O ALA A 221 SHEET 1 C 3 CYS A 99 SER A 101 0 SHEET 2 C 3 HIS B 11 ASN B 15 -1 N ARG B 12 O GLN A 100 SHEET 3 C 3 GLN B 20 VAL B 24 -1 N VAL B 24 O HIS B 11 SHEET 1 D 9 TYR B 73 THR B 76 0 SHEET 2 D 9 GLY B 104 CYS B 110 -1 N CYS B 110 O TYR B 73 SHEET 3 D 9 HIS B 166 ASN B 172 -1 N ALA B 171 O THR B 105 SHEET 4 D 9 TRP B 147 LYS B 154 -1 N PHE B 151 O GLN B 168 SHEET 5 D 9 TYR B 276 HIS B 281 -1 N MET B 278 O GLU B 152 SHEET 6 D 9 HIS B 296 TYR B 300 -1 N TYR B 300 O SER B 277 SHEET 7 D 9 THR B 233 PRO B 237 -1 N LEU B 235 O ALA B 297 SHEET 8 D 9 TRP B 219 VAL B 222 -1 N VAL B 222 O LEU B 234 SHEET 9 D 9 THR B 212 GLU B 215 -1 N VAL B 214 O ALA B 221 LINK S2 BME A 352 SG CYS A 99 1555 1555 2.03 LINK S2 BME A 353 SG CYS A 160 1555 1555 2.04 LINK S2 BME A 354 SG CYS A 272 1555 1555 2.01 LINK ZN ZN A 350 SG CYS A 52 1555 1555 2.22 LINK ZN ZN A 350 SG CYS A 55 1555 1555 2.37 LINK ZN ZN A 350 ND1 HIS A 115 1555 1555 2.04 LINK ZN ZN A 350 ND1 HIS A 164 1555 1555 1.96 LINK FE FE A 351 OE1 GLU A 182 1555 1555 2.30 LINK FE FE A 351 OE2 GLU A 182 1555 1555 1.85 LINK FE FE A 351 ND1 HIS A 281 1555 1555 2.02 LINK FE FE A 351 NE2 HIS A 296 1555 1555 2.03 LINK FE FE A 351 NE2 HIS A 298 1555 1555 1.99 LINK S2 BME B 351 SG CYS B 160 1555 1555 2.03 LINK ZN ZN B 349 SG CYS B 52 1555 1555 2.30 LINK ZN ZN B 349 SG CYS B 55 1555 1555 2.30 LINK ZN ZN B 349 ND1 HIS B 115 1555 1555 2.08 LINK ZN ZN B 349 ND1 HIS B 164 1555 1555 2.00 LINK FE FE B 350 OE1 GLU B 182 1555 1555 2.26 LINK FE FE B 350 OE2 GLU B 182 1555 1555 1.95 LINK FE FE B 350 ND1 HIS B 281 1555 1555 2.01 LINK FE FE B 350 NE2 HIS B 296 1555 1555 2.11 LINK FE FE B 350 NE2 HIS B 298 1555 1555 2.01 SITE 1 NUC 9 LEU A 54 VAL A 61 PHE A 75 ASN A 77 SITE 2 NUC 9 ASP A 78 PHE A 79 VAL A 108 SER A 161 SITE 3 NUC 9 ASN A 162 SITE 1 NU2 9 LEU B 54 VAL B 61 PHE B 75 ASN B 77 SITE 2 NU2 9 ASP B 78 PHE B 79 VAL B 108 SER B 161 SITE 3 NU2 9 ASN B 162 SITE 1 ZNC 4 CYS A 52 CYS A 55 HIS A 115 HIS A 164 SITE 1 ZN2 4 CYS B 52 CYS B 55 HIS B 115 HIS B 164 SITE 1 FRN 4 GLU A 182 HIS A 281 HIS A 296 HIS A 298 SITE 1 FR2 4 GLU B 182 HIS B 281 HIS B 296 HIS B 298 SITE 1 AC1 4 CYS A 52 CYS A 55 HIS A 115 HIS A 164 SITE 1 AC2 4 GLU A 182 HIS A 281 HIS A 296 HIS A 298 SITE 1 AC3 4 CYS B 52 CYS B 55 HIS B 115 HIS B 164 SITE 1 AC4 4 GLU B 182 HIS B 281 HIS B 296 HIS B 298 SITE 1 AC5 6 CYS A 99 HOH A 567 PHE B 4 PRO B 6 SITE 2 AC5 6 HIS B 11 TYR B 225 SITE 1 AC6 3 ASN A 153 CYS A 160 GLN A 168 SITE 1 AC7 5 CYS A 272 SER A 273 PRO A 275 LEU A 303 SITE 2 AC7 5 ALA A 307 SITE 1 AC8 8 PHE A 53 ARG A 60 VAL A 61 PHE A 75 SITE 2 AC8 8 ASN A 77 ASP A 78 PHE A 79 HOH A 586 SITE 1 AC9 4 ASN B 153 CYS B 160 HIS B 166 GLN B 168 SITE 1 BC1 10 ARG A 31 ARG B 60 VAL B 61 PHE B 75 SITE 2 BC1 10 ASN B 77 ASP B 78 PHE B 79 SER B 161 SITE 3 BC1 10 ASN B 162 HOH B 355 CRYST1 58.600 217.200 69.600 90.00 90.00 90.00 P 21 21 2 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 0.017065 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004604 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014368 0.00000 MTRIX1 1 0.944110 -0.010720 0.329450 -10.37684 1 MTRIX2 1 -0.011350 -0.999940 0.000000 159.46695 1 MTRIX3 1 0.329430 -0.003740 -0.944170 66.34219 1