1VZX - Header Asymmetric Unit

HEADER TRANSFERASE 28-MAY-04 1VZX

TITLE ROLES OF ACTIVE SITE TRYPTOPHANS IN SUBSTRATE BINDING AND TITLE 2 CATALYSIS BY ALPHA-1,3 GALACTOSYLTRANSFERASE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: N-ACETYLLACTOSAMINIDE ALPHA-1,3- COMPND 3 GALACTOSYLTRANSFERASE; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 80-368; COMPND 6 SYNONYM: GALACTOSYLTRANSFERASE, UDP-GALACTOSE, COMPND 7 BETA-D-GALACTOSYL-1,4-N-ACETYL-D-GLUCOSAMINIDE COMPND 8 ALPHA-1,3-GALACTOSYLTRANSFERASE; COMPND 9 EC: 2.4.1.151; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES; COMPND 12 OTHER_DETAILS: RESIDUE W314Y

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: BOVINE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DH5-ALPHA; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PSV-SPORT

KEYWDS TRANSFERASE, ALPHA-1, 3-GALACTOSYLTRANSFERASE-UDP COMPLEX, KEYWDS 2 GLYCOSYLTRANSFERASE, GLYCOPROTEIN, TRANSMEMBRANE

EXPDTA X-RAY DIFFRACTION

AUTHOR Y.ZHANG,A.DESHPANDE,Z.XIE,R.NATESH,K.R.ACHARYA,K.BREW

REVDAT 3 24-FEB-09 1VZX 1 VERSN REVDAT 2 03-NOV-04 1VZX 1 JRNL REVDAT 1 08-JUL-04 1VZX 0

JRNL AUTH Y.ZHANG,A.DESHPANDE,Z.XIE,R.NATESH,K.R.ACHARYA, JRNL AUTH 2 K.BREW JRNL TITL ROLES OF ACTIVE SITE TRYPTOPHANS IN SUBSTRATE JRNL TITL 2 BINDING AND CATALYSIS BY ALPHA-1,3 JRNL TITL 3 GALACTOSYLTRANSFERASE JRNL REF GLYCOBIOLOGY V. 14 1295 2004 JRNL REFN ISSN 0959-6658 JRNL PMID 15229192 JRNL DOI 10.1093/GLYCOB/CWH119

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.ZHANG,G.J.SWAMINATHAN,A.DESHPANDE,E.BOIX, REMARK 1 AUTH 2 R.NATESH,Z.XIE,K.R.ACHARYA,K.BREW REMARK 1 TITL ROLES OF INDIVIDUAL ENZYME-SUBSTRATE INTERACTIONS REMARK 1 TITL 2 BY ALPHA-1,3-GALACTOSYLTRANSFERASE IN CATALYSIS REMARK 1 TITL 3 AND SPECIFICITY REMARK 1 REF BIOCHEMISTRY V. 42 13512 2003 REMARK 1 REFN ISSN 0006-2960 REMARK 1 PMID 14621997 REMARK 1 DOI 10.1021/BI035430R REMARK 1 REFERENCE 2 REMARK 1 AUTH L.N.GASTINAL,C.BIGNON,A.K.MISRA,O.HINDSGAUL, REMARK 1 AUTH 2 J.H.SHAPER,D.H.JOZIASSE REMARK 1 TITL BOVINE ALPHA1,3-GALACTOSYLTRANSFERASE CATALYTIC REMARK 1 TITL 2 DOMAIN STRUCTURE AND ITS RELATIONSHIP WITH ABO REMARK 1 TITL 3 HHISTO-BLOOD GROUP AND GLYCOPHINGOLIPID REMARK 1 TITL 4 GLYCOSYLTRANSFERASES REMARK 1 REF EMBO J. V. 20 638 2001 REMARK 1 REFN ISSN 0261-4189 REMARK 1 PMID 11179209 REMARK 1 DOI 10.1093/EMBOJ/20.4.638 REMARK 1 REFERENCE 3 REMARK 1 AUTH E.BOIX,G.J.SWAMINATHAN,Y.ZHANG,R.NATESH,K.BREW, REMARK 1 AUTH 2 K.R.ACHARYA REMARK 1 TITL STRUCTURE OF UDP COMPLEX OF REMARK 1 TITL 2 UDP-GALACTOSE:BETA-GALACTOSIDE-ALPHA-1,3- REMARK 1 TITL 3 GALACTOSYLTRANSFERASE AT 1.53-A RESOLUTION REVEALS REMARK 1 TITL 4 A CONFORMATIONAL CHANGE IN THE CATALYTICALLY REMARK 1 TITL 5 IMPORTANT C TERMINUS REMARK 1 REF J.BIOL.CHEM. V. 276 48608 2001 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 11592969 REMARK 1 DOI 10.1074/JBC.M108828200

REMARK 2 REMARK 2 RESOLUTION. 1.97 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 476623 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.1543 REMARK 3 FREE R VALUE : 0.2021 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.8 REMARK 3 FREE R VALUE TEST SET COUNT : 8218 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.003 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4782 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 116 REMARK 3 SOLVENT ATOMS : 642 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 2.0 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : UDP.PAR REMARK 3 PARAMETER FILE 3 : LAT.PAR REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN_REP.TOP REMARK 3 TOPOLOGY FILE 2 : UDP.TOP REMARK 3 TOPOLOGY FILE 3 : LAT.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1VZX COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-MAY-04. REMARK 100 THE PDBE ID CODE IS EBI-15380.

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 : 8.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.488 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44358 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.110 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.11 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.5 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 : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1K4V 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: REMARK 280 PEG6000, TRIS/HCL

REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 47.24000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL

REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA.

REMARK 350 REMARK 350 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 TRANSFER OF GALACTOSE FROM UDP-GALACTOSE TO AN ACCEPTOR REMARK 400 MOLECULE. REMARK 400 UDP-GALACTOSE + BETA-D-GALACTOSYL-(1,4)-N-ACETYL-D- REMARK 400 GLUCOSAMINYL-R = UDP + ALPHA-D-GALACTOSYL-(1,3)-B REMARK 400 GALACTOSYL-(1,4)-N-ACETYL-D-GLUCOSAMINYL-R. REMARK 400 REMARK 400 ENGINEERED MUTATION TRP 314 TYR, CHAINS A AND B

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 GLU A 80 REMARK 465 SER A 81 REMARK 465 GLU B 1080 REMARK 465 SER B 1081

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 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 LEU A 175 87.55 33.00 REMARK 500 HIS A 213 -37.62 -152.32 REMARK 500 HIS A 315 -128.16 45.19 REMARK 500 CYS A 338 75.58 -166.37 REMARK 500 HIS B1213 -39.26 -154.13 REMARK 500 HIS B1315 -124.93 40.70 REMARK 500 CYS B1338 74.11 -168.07 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 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 MN A1371 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 225 OD2 REMARK 620 2 ASP A 227 OD1 99.4 REMARK 620 3 UDP A1372 O1B 102.3 157.9 REMARK 620 4 HOH A2321 O 98.1 100.3 80.8 REMARK 620 5 UDP A1372 O1A 101.4 77.6 94.0 160.4 REMARK 620 6 ASP A 227 OD2 155.1 55.9 102.2 90.3 72.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B2371 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B1225 OD2 REMARK 620 2 HOH B2314 O 97.8 REMARK 620 3 UDP B2372 O1B 97.3 80.5 REMARK 620 4 ASP B1227 OD1 102.9 98.9 159.6 REMARK 620 5 ASP B1227 OD2 157.6 89.0 104.9 54.8 REMARK 620 6 UDP B2372 O1A 100.8 161.3 95.1 79.0 74.6 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 GAL A1369 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A1370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GAL B2369 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG B2370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A1371 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B2371 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP A1372 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP B2372 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1373 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B2373

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FG5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BOVINE ALPHA-1,3- REMARK 900 GALACTOSYLTRANSFERASECATALYTIC DOMAIN. REMARK 900 RELATED ID: 1G8O RELATED DB: PDB REMARK 900 CRYSTALLOGRAPHIC STRUCTURE OF THE NATIVE REMARK 900 BOVINE ALPHA-1,3-GALACTOSYLTRANSFERASE REMARK 900 CATALYTIC DOMAIN REMARK 900 RELATED ID: 1G93 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BOVINE CATALYTIC REMARK 900 DOMAIN OF ALPHA-1,3-GALACTOSYLTRANSFERASE IN REMARK 900 THE PRESENCE OF UDP-GALACTOSE REMARK 900 RELATED ID: 1GWV RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF ORDERED BINDING OF DONOR REMARK 900 AND ACCEPTOR SUBSTRATES TO THE RETAINING REMARK 900 GLYCOSYLTRANSFERASE: ALPHA -1,3 REMARK 900 GALACTOSYLTRANSFERASE REMARK 900 RELATED ID: 1GWW RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF ORDERED BINDING OF DONOR REMARK 900 AND ACCEPTOR SUBSTRATES TO THE RETAINING REMARK 900 GLYCOSYLTRANSFERASE: ALPHA -1,3 REMARK 900 GALACTOSYLTRANSFERASE REMARK 900 RELATED ID: 1GX0 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF ORDERED BINDING OF DONOR REMARK 900 AND ACCEPTOR SUBSTRATES TO THE RETAINING REMARK 900 GLYCOSYLTRANSFERASE: ALPHA -1,3 REMARK 900 GALACTOSYLTRANSFERASE REMARK 900 RELATED ID: 1GX4 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF ORDERED BINDING OF DONOR REMARK 900 AND ACCEPTOR SUBSTRATES TO THE RETAINING REMARK 900 GLYCOSYLTRANSFERASE: ALPHA -1,3 REMARK 900 GALACTOSYLTRANSFERASE REMARK 900 RELATED ID: 1K4V RELATED DB: PDB REMARK 900 1.53 A CRYSTAL STRUCTURE OF THE BETA- REMARK 900 GALACTOSIDE-ALPHA-1,3-GALACTOSYLTRANSFERASE IN REMARK 900 COMPLEX WITH UDP REMARK 900 RELATED ID: 1O7O RELATED DB: PDB REMARK 900 ROLES OF INDIVIDUAL RESIDUES OF ALPHA-1,3 REMARK 900 GALACTOSYLTRANSFERASES IN SUBSTRATE BINDING REMARK 900 AND CATALYSIS REMARK 900 RELATED ID: 1O7Q RELATED DB: PDB REMARK 900 ROLES OF INDIVIDUAL RESIDUES OF ALPHA-1,3 REMARK 900 GALACTOSYLTRANSFERASES IN SUBSTRATE BINDING REMARK 900 AND CATALYSIS REMARK 900 RELATED ID: 1O7R RELATED DB: PDB REMARK 900 ROLES ON INDIVIDUAL RESIDUES OF ALPHA-1,3 REMARK 900 GALACTOSYLTRANSFERASES IN SUBSTRATE BINDING REMARK 900 AND CATALYSIS REMARK 900 RELATED ID: 1VZT RELATED DB: PDB REMARK 900 ROLES ON INDIVIDUAL RESIDUES OF ALPHA-1,3 REMARK 900 GALACTOSYLTRANSFERASES IN SUBSTRATE BINDING REMARK 900 AND CATALYSIS REMARK 900 RELATED ID: 1VZU RELATED DB: PDB REMARK 900 ROLES OF ACTIVE SITE TRYPTOPHANS IN REMARK 900 SUBSTRATE BINDING AND CATALYSIS BY ALPHA-1, REMARK 900 3 GALACTOSYLTRANSFERASE

DBREF 1VZX A 80 368 UNP P14769 GATR_BOVIN 80 368 DBREF 1VZX B 1080 1368 UNP P14769 GATR_BOVIN 80 368

SEQADV 1VZX TYR A 314 UNP P14769 TRP 314 ENGINEERED MUTATION SEQADV 1VZX TYR B 1314 UNP P14769 TRP 314 ENGINEERED MUTATION

SEQRES 1 A 289 GLU SER LYS LEU LYS LEU SER ASP TRP PHE ASN PRO PHE SEQRES 2 A 289 LYS ARG PRO GLU VAL VAL THR MET THR LYS TRP LYS ALA SEQRES 3 A 289 PRO VAL VAL TRP GLU GLY THR TYR ASN ARG ALA VAL LEU SEQRES 4 A 289 ASP ASN TYR TYR ALA LYS GLN LYS ILE THR VAL GLY LEU SEQRES 5 A 289 THR VAL PHE ALA VAL GLY ARG TYR ILE GLU HIS TYR LEU SEQRES 6 A 289 GLU GLU PHE LEU THR SER ALA ASN LYS HIS PHE MET VAL SEQRES 7 A 289 GLY HIS PRO VAL ILE PHE TYR ILE MET VAL ASP ASP VAL SEQRES 8 A 289 SER ARG MET PRO LEU ILE GLU LEU GLY PRO LEU ARG SER SEQRES 9 A 289 PHE LYS VAL PHE LYS ILE LYS PRO GLU LYS ARG TRP GLN SEQRES 10 A 289 ASP ILE SER MET MET ARG MET LYS THR ILE GLY GLU HIS SEQRES 11 A 289 ILE VAL ALA HIS ILE GLN HIS GLU VAL ASP PHE LEU PHE SEQRES 12 A 289 CYS MET ASP VAL ASP GLN VAL PHE GLN ASP LYS PHE GLY SEQRES 13 A 289 VAL GLU THR LEU GLY GLU SER VAL ALA GLN LEU GLN ALA SEQRES 14 A 289 TRP TRP TYR LYS ALA ASP PRO ASN ASP PHE THR TYR GLU SEQRES 15 A 289 ARG ARG LYS GLU SER ALA ALA TYR ILE PRO PHE GLY GLU SEQRES 16 A 289 GLY ASP PHE TYR TYR HIS ALA ALA ILE PHE GLY GLY THR SEQRES 17 A 289 PRO THR GLN VAL LEU ASN ILE THR GLN GLU CYS PHE LYS SEQRES 18 A 289 GLY ILE LEU LYS ASP LYS LYS ASN ASP ILE GLU ALA GLN SEQRES 19 A 289 TYR HIS ASP GLU SER HIS LEU ASN LYS TYR PHE LEU LEU SEQRES 20 A 289 ASN LYS PRO THR LYS ILE LEU SER PRO GLU TYR CYS TRP SEQRES 21 A 289 ASP TYR HIS ILE GLY LEU PRO ALA ASP ILE LYS LEU VAL SEQRES 22 A 289 LYS MET SER TRP GLN THR LYS GLU TYR ASN VAL VAL ARG SEQRES 23 A 289 ASN ASN VAL SEQRES 1 B 289 GLU SER LYS LEU LYS LEU SER ASP TRP PHE ASN PRO PHE SEQRES 2 B 289 LYS ARG PRO GLU VAL VAL THR MET THR LYS TRP LYS ALA SEQRES 3 B 289 PRO VAL VAL TRP GLU GLY THR TYR ASN ARG ALA VAL LEU SEQRES 4 B 289 ASP ASN TYR TYR ALA LYS GLN LYS ILE THR VAL GLY LEU SEQRES 5 B 289 THR VAL PHE ALA VAL GLY ARG TYR ILE GLU HIS TYR LEU SEQRES 6 B 289 GLU GLU PHE LEU THR SER ALA ASN LYS HIS PHE MET VAL SEQRES 7 B 289 GLY HIS PRO VAL ILE PHE TYR ILE MET VAL ASP ASP VAL SEQRES 8 B 289 SER ARG MET PRO LEU ILE GLU LEU GLY PRO LEU ARG SER SEQRES 9 B 289 PHE LYS VAL PHE LYS ILE LYS PRO GLU LYS ARG TRP GLN SEQRES 10 B 289 ASP ILE SER MET MET ARG MET LYS THR ILE GLY GLU HIS SEQRES 11 B 289 ILE VAL ALA HIS ILE GLN HIS GLU VAL ASP PHE LEU PHE SEQRES 12 B 289 CYS MET ASP VAL ASP GLN VAL PHE GLN ASP LYS PHE GLY SEQRES 13 B 289 VAL GLU THR LEU GLY GLU SER VAL ALA GLN LEU GLN ALA SEQRES 14 B 289 TRP TRP TYR LYS ALA ASP PRO ASN ASP PHE THR TYR GLU SEQRES 15 B 289 ARG ARG LYS GLU SER ALA ALA TYR ILE PRO PHE GLY GLU SEQRES 16 B 289 GLY ASP PHE TYR TYR HIS ALA ALA ILE PHE GLY GLY THR SEQRES 17 B 289 PRO THR GLN VAL LEU ASN ILE THR GLN GLU CYS PHE LYS SEQRES 18 B 289 GLY ILE LEU LYS ASP LYS LYS ASN ASP ILE GLU ALA GLN SEQRES 19 B 289 TYR HIS ASP GLU SER HIS LEU ASN LYS TYR PHE LEU LEU SEQRES 20 B 289 ASN LYS PRO THR LYS ILE LEU SER PRO GLU TYR CYS TRP SEQRES 21 B 289 ASP TYR HIS ILE GLY LEU PRO ALA ASP ILE LYS LEU VAL SEQRES 22 B 289 LYS MET SER TRP GLN THR LYS GLU TYR ASN VAL VAL ARG SEQRES 23 B 289 ASN ASN VAL

HET GAL A1369 11 HET NAG A1370 15 HET GAL B2369 11 HET NAG B2370 15 HET MN A1371 1 HET MN B2371 1 HET UDP A1372 25 HET UDP B2372 25 HET GOL A1373 6 HET GOL B2373 6

HETNAM GAL BETA-D-GALACTOSE HETNAM NAG N-ACETYL-D-GLUCOSAMINE HETNAM MN MANGANESE (II) ION HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM GOL GLYCEROL

HETSYN NAG NAG

FORMUL 3 GAL 2(C6 H12 O6) FORMUL 3 NAG 2(C8 H15 N O6) FORMUL 5 MN 2(MN 2+) FORMUL 7 UDP 2(C9 H14 N2 O12 P2) FORMUL 9 GOL 2(C3 H8 O3) FORMUL 11 HOH *642(H2 O1)

HELIX 1 1 LYS A 84 PHE A 89 1 6 HELIX 2 2 ASN A 90 ARG A 94 5 5 HELIX 3 3 ASN A 114 GLN A 125 1 12 HELIX 4 4 ARG A 138 PHE A 155 1 18 HELIX 5 5 ASP A 169 MET A 173 5 5 HELIX 6 6 ARG A 194 HIS A 213 1 20 HELIX 7 7 HIS A 213 VAL A 218 1 6 HELIX 8 8 GLY A 235 LEU A 239 5 5 HELIX 9 9 ASP A 254 PHE A 258 5 5 HELIX 10 10 THR A 287 ASN A 308 1 22 HELIX 11 11 HIS A 315 ASN A 327 1 13 HELIX 12 12 PRO A 335 CYS A 338 5 4 HELIX 13 13 ASP A 340 GLY A 344 5 5 HELIX 14 14 GLU A 360 ARG A 365 1 6 HELIX 15 15 LYS B 1084 PHE B 1089 1 6 HELIX 16 16 ASN B 1090 ARG B 1094 5 5 HELIX 17 17 ASN B 1114 LYS B 1126 1 13 HELIX 18 18 ARG B 1138 PHE B 1155 1 18 HELIX 19 19 ASP B 1169 MET B 1173 5 5 HELIX 20 20 ARG B 1194 HIS B 1213 1 20 HELIX 21 21 HIS B 1213 VAL B 1218 1 6 HELIX 22 22 GLY B 1235 LEU B 1239 5 5 HELIX 23 23 ASP B 1254 PHE B 1258 5 5 HELIX 24 24 THR B 1287 ASN B 1308 1 22 HELIX 25 25 TYR B 1314 ASN B 1327 1 14 HELIX 26 26 PRO B 1335 CYS B 1338 5 4 HELIX 27 27 ASP B 1340 GLY B 1344 5 5 HELIX 28 28 GLU B 1360 ARG B 1365 1 6

SHEET 1 AA 8 VAL A 107 VAL A 108 0 SHEET 2 AA 8 LYS A 331 LEU A 333 1 O ILE A 332 N VAL A 108 SHEET 3 AA 8 SER A 242 LEU A 246 1 O SER A 242 N LYS A 331 SHEET 4 AA 8 TYR A 279 GLY A 286 -1 N HIS A 280 O GLN A 245 SHEET 5 AA 8 PHE A 220 MET A 224 -1 O LEU A 221 N GLY A 286 SHEET 6 AA 8 VAL A 129 ALA A 135 1 O GLY A 130 N PHE A 222 SHEET 7 AA 8 VAL A 161 VAL A 167 1 O ILE A 162 N LEU A 131 SHEET 8 AA 8 ARG A 182 LYS A 188 1 O SER A 183 N PHE A 163 SHEET 1 AB 2 GLN A 228 PHE A 230 0 SHEET 2 AB 2 MET A 354 TRP A 356 -1 O SER A 355 N VAL A 229 SHEET 1 BA 8 VAL B1107 VAL B1108 0 SHEET 2 BA 8 LYS B1331 LEU B1333 1 O ILE B1332 N VAL B1108 SHEET 3 BA 8 SER B1242 LEU B1246 1 O SER B1242 N LYS B1331 SHEET 4 BA 8 TYR B1279 GLY B1286 -1 N HIS B1280 O GLN B1245 SHEET 5 BA 8 PHE B1220 MET B1224 -1 O LEU B1221 N GLY B1286 SHEET 6 BA 8 VAL B1129 ALA B1135 1 O GLY B1130 N PHE B1222 SHEET 7 BA 8 VAL B1161 VAL B1167 1 O ILE B1162 N LEU B1131 SHEET 8 BA 8 ARG B1182 LYS B1188 1 O SER B1183 N PHE B1163 SHEET 1 BB 2 GLN B1228 PHE B1230 0 SHEET 2 BB 2 MET B1354 TRP B1356 -1 O SER B1355 N VAL B1229

LINK C1 GAL A1369 O4 NAG A1370 1555 1555 1.41 LINK MN MN A1371 OD2 ASP A 225 1555 1555 2.23 LINK MN MN A1371 OD1 ASP A 227 1555 1555 2.22 LINK MN MN A1371 O1B UDP A1372 1555 1555 2.13 LINK MN MN A1371 O HOH A2321 1555 1555 2.33 LINK MN MN A1371 O1A UDP A1372 1555 1555 2.35 LINK MN MN A1371 OD2 ASP A 227 1555 1555 2.44 LINK C1 GAL B2369 O4 NAG B2370 1555 1555 1.42 LINK MN MN B2371 O HOH B2314 1555 1555 2.29 LINK MN MN B2371 O1B UDP B2372 1555 1555 2.13 LINK MN MN B2371 OD1 ASP B1227 1555 1555 2.18 LINK MN MN B2371 OD2 ASP B1227 1555 1555 2.53 LINK MN MN B2371 O1A UDP B2372 1555 1555 2.28 LINK MN MN B2371 OD2 ASP B1225 1555 1555 2.27

SITE 1 AC1 12 GLN A 247 THR A 259 TYR A 278 TYR A 314 SITE 2 AC1 12 GLU A 317 TRP A 356 LYS A 359 NAG A1370 SITE 3 AC1 12 UDP A1372 HOH A2318 HOH A2319 HOH A2320 SITE 1 AC2 6 GLN A 247 TRP A 249 TRP A 250 TRP A 356 SITE 2 AC2 6 GAL A1369 HOH A2282 SITE 1 AC3 13 GLN B1247 THR B1259 TYR B1278 TYR B1314 SITE 2 AC3 13 GLU B1317 TRP B1356 LYS B1359 HOH B2296 SITE 3 AC3 13 HOH B2298 HOH B2310 HOH B2311 NAG B2370 SITE 4 AC3 13 UDP B2372 SITE 1 AC4 5 TRP B1249 TRP B1250 HOH B2312 HOH B2313 SITE 2 AC4 5 GAL B2369 SITE 1 AC5 4 ASP A 225 ASP A 227 UDP A1372 HOH A2321 SITE 1 AC6 4 ASP B1225 ASP B1227 HOH B2314 UDP B2372 SITE 1 AC7 23 PHE A 134 ALA A 135 VAL A 136 TYR A 139 SITE 2 AC7 23 ILE A 198 SER A 199 ARG A 202 ASP A 225 SITE 3 AC7 23 VAL A 226 ASP A 227 LYS A 359 TYR A 361 SITE 4 AC7 23 ARG A 365 GAL A1369 MN A1371 HOH A2171 SITE 5 AC7 23 HOH A2173 HOH A2318 HOH A2320 HOH A2321 SITE 6 AC7 23 HOH A2322 HOH A2323 HOH A2324 SITE 1 AC8 23 PHE B1134 ALA B1135 VAL B1136 TYR B1139 SITE 2 AC8 23 ILE B1198 SER B1199 ARG B1202 ASP B1225 SITE 3 AC8 23 VAL B1226 ASP B1227 LYS B1359 TYR B1361 SITE 4 AC8 23 ARG B1365 HOH B2140 HOH B2147 HOH B2296 SITE 5 AC8 23 HOH B2311 HOH B2314 HOH B2315 HOH B2316 SITE 6 AC8 23 HOH B2317 GAL B2369 MN B2371 SITE 1 AC9 5 HIS A 142 GLU A 146 GLN A 357 GLU A 360 SITE 2 AC9 5 HOH A2325 SITE 1 BC1 3 HIS B1142 GLU B1146 GLU B1360

CRYST1 45.220 94.480 94.447 90.00 99.00 90.00 P 1 21 1 4

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 0.022114 0.000000 0.003502 0.00000

SCALE2 0.000000 0.010584 0.000000 0.00000

SCALE3 0.000000 0.000000 0.010720 0.00000