HEADER TRANSFERASE 26-MAY-04 1VZT TITLE ROLES OF INDIVIDUAL RESIDUES OF ALPHA-1,3 GALACTOSYLTRANSFERASES IN TITLE 2 SUBSTRATE BINDING AND CATALYSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: N-ACETYLLACTOSAMINIDE ALPHA-1,3-GALACTOSYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 80-368; COMPND 5 SYNONYM: GALACTOSYLTRANSFERASE, UDP-GALACTOSE, BETA-D-GALACTOSYL-1,4- COMPND 6 N-ACETYL-D-GLUCOSAMINIDE ALPHA-1,3-GALACTOSYLTRANSFERASE; COMPND 7 EC: 2.4.1.151; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES 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_VARIANT: 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, NUCLEOTIDE-BINDING KEYWDS 3 PROTEIN, XENOTRANSPLANTATION EXPDTA X-RAY DIFFRACTION AUTHOR Y.ZHANG,G.J.SWAMINATHAN,A.DESHPANDE,R.NATESH,X.XIE,K.R.ACHARYA,K.BREW REVDAT 5 13-DEC-23 1VZT 1 REMARK LINK REVDAT 4 07-FEB-18 1VZT 1 REMARK REVDAT 3 15-APR-15 1VZT 1 SOURCE JRNL REMARK VERSN REVDAT 3 2 1 FORMUL REVDAT 2 24-FEB-09 1VZT 1 VERSN REVDAT 1 26-MAY-05 1VZT 0 SPRSDE 26-MAY-05 1VZT 1O7R JRNL AUTH Y.ZHANG,G.J.SWAMINATHAN,A.DESHPANDE,E.BOIX,R.NATESH,Z.XIE, JRNL AUTH 2 K.R.ACHARYA,K.BREW JRNL TITL ROLES OF INDIVIDUAL ENZYME-SUBSTRATE INTERACTIONS BY JRNL TITL 2 ALPHA-1,3-GALACTOSYLTRANSFERASE IN CATALYSIS AND JRNL TITL 3 SPECIFICITY. JRNL REF BIOCHEMISTRY V. 42 13512 2003 JRNL REFN ISSN 0006-2960 JRNL PMID 14621997 JRNL DOI 10.1021/BI035430R REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.BOIX,G.J.SWAMINATHAN,Y.ZHANG,R.NATESH,K.BREW,K.R.ACHARYA REMARK 1 TITL UDP-GALACTOSE:BETA-GALACTOSIDE-ALPHA-1,3-GALACTOSYL REMARK 1 TITL 2 TRANSFERASE AT1.53-A RESOLUTION REVEALS A CONFORMATIONAL REMARK 1 TITL 3 CHANGE IN THECATALYTICALLY 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 1 REFERENCE 2 REMARK 1 AUTH L.N.GASTINEL,C.BIGNON,A.K.MISRA,O.HINDSGAUL,J.H.SHAPER, REMARK 1 AUTH 2 D.H.JOZIASSE REMARK 1 TITL BOVINE ALPHA-1,3-GALACTOSYLTRANSFERASES CATALYTIC DOMAIN REMARK 1 TITL 2 STRUCTURE AND ITS RELATIONSHIP WITH ABO HISTO-BLOOD GROUP REMARK 1 TITL 3 AND GLYCOSPHINGOLIPID 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 2 REMARK 2 RESOLUTION. 2.00 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) : 2.00 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) (%) : 92.2 REMARK 3 NUMBER OF REFLECTIONS : 48436 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) : 0.193 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 4888 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 : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.13 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 6646 REMARK 3 BIN R VALUE (WORKING SET) : 0.2030 REMARK 3 BIN FREE R VALUE : 0.2420 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 756 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.009 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4766 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 68 REMARK 3 SOLVENT ATOMS : 442 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.93 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.91 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) : 0.21 REMARK 3 ESD FROM SIGMAA (A) : 0.07 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.13 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.750 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 : 0.40 REMARK 3 BSOL : 57.99 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 : ION.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : UDP.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : WATER.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1VZT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-MAY-04. REMARK 100 THE DEPOSITION ID IS D_1290015354. 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 CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52584 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 92.2 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.1500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.13 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.5 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 (%): 57.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG6000, TRIS/HCL, PH 8.00 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 47.10550 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 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 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 249 GLY, 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 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 LYS A 104 -123.49 82.64 REMARK 500 ALA A 105 119.84 53.01 REMARK 500 LYS A 185 -38.26 -139.80 REMARK 500 VAL A 186 126.07 68.34 REMARK 500 HIS A 213 -37.96 -154.79 REMARK 500 GLU A 297 -59.69 85.49 REMARK 500 HIS A 315 -127.03 43.11 REMARK 500 CYS A 338 77.57 -170.28 REMARK 500 GLU A 360 45.88 -142.59 REMARK 500 HIS B1213 -33.26 -153.31 REMARK 500 ASN B1256 0.44 -66.70 REMARK 500 THR B1259 44.55 -86.16 REMARK 500 HIS B1315 -127.04 41.75 REMARK 500 CYS B1338 73.60 -171.58 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 MN A1369 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 225 OD2 REMARK 620 2 ASP A 227 OD1 101.1 REMARK 620 3 ASP A 227 OD2 156.8 55.8 REMARK 620 4 UDP A1370 O1A 99.2 81.6 76.7 REMARK 620 5 UDP A1370 O1B 100.6 158.1 102.4 91.8 REMARK 620 6 HOH A2211 O 97.6 98.8 89.3 162.9 81.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B2369 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B1225 OD2 REMARK 620 2 ASP B1227 OD1 100.2 REMARK 620 3 ASP B1227 OD2 157.0 56.9 REMARK 620 4 HOH B2221 O 100.4 102.3 87.8 REMARK 620 5 UDP B2370 O1A 95.8 80.3 79.4 162.8 REMARK 620 6 UDP B2370 O1B 98.5 160.2 104.0 80.7 91.2 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1369 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 2369 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP A 1370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 1371 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP B 2370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS B 2371 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 BOVINE ALPHA-1,3- REMARK 900 GALACTOSYLTRANSFERASE CATALYTIC DOMAIN REMARK 900 RELATED ID: 1G93 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BOVINE CATALYTIC DOMAIN OF ALPHA-1,3- REMARK 900 GALACTOSYLTRANSFERASE IN THE PRESENCE OF UDP-GALACTOSE REMARK 900 RELATED ID: 1GWV RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF ORDERED BINDING OF DONOR AND ACCEPTOR REMARK 900 SUBSTRATES TO THE RETAINING GLYCOSYLTRANSFERASE: ALPHA -1,3 REMARK 900 GALACTOSYLTRANSFERASE REMARK 900 RELATED ID: 1GWW RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF ORDERED BINDING OF DONOR AND ACCEPTOR REMARK 900 SUBSTRATES TO THE RETAINING GLYCOSYLTRANSFERASE: ALPHA -1,3 REMARK 900 GALACTOSYLTRANSFERASE REMARK 900 RELATED ID: 1GX0 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF ORDERED BINDING OF DONOR AND ACCEPTOR REMARK 900 SUBSTRATES TO THE RETAINING GLYCOSYLTRANSFERASE: ALPHA -1,3 REMARK 900 GALACTOSYLTRANSFERASE REMARK 900 RELATED ID: 1GX4 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF ORDERED BINDING OF DONOR AND ACCEPTOR REMARK 900 SUBSTRATES TO THE RETAINING 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- GALACTOSIDE-ALPHA-1,3- REMARK 900 GALACTOSYLTRANSFERASE IN COMPLEX WITH UDP REMARK 900 RELATED ID: 1O7O RELATED DB: PDB REMARK 900 ROLES OF INDIVIDUAL RESIDUES OF ALPHA-1,3 GALACTOSYLTRANSFERASES IN REMARK 900 SUBSTRATE BINDING AND CATALYSIS REMARK 900 RELATED ID: 1O7Q RELATED DB: PDB REMARK 900 ROLES OF INDIVIDUAL RESIDUES OF ALPHA-1,3 GALACTOSYLTRANSFERASES IN REMARK 900 SUBSTRATE BINDING AND CATALYSIS DBREF 1VZT A 80 368 UNP P14769 GATR_BOVIN 80 368 DBREF 1VZT B 1080 1368 UNP P14769 GATR_BOVIN 80 368 SEQADV 1VZT GLY A 249 UNP P14769 TRP 249 ENGINEERED MUTATION SEQADV 1VZT GLY B 1249 UNP P14769 TRP 249 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 GLY 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 TRP 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 GLY 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 TRP 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 MN A1369 1 HET UDP A1370 25 HET TRS A1371 8 HET MN B2369 1 HET UDP B2370 25 HET TRS B2371 8 HETNAM MN MANGANESE (II) ION HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETSYN TRS TRIS BUFFER FORMUL 3 MN 2(MN 2+) FORMUL 4 UDP 2(C9 H14 N2 O12 P2) FORMUL 5 TRS 2(C4 H12 N O3 1+) FORMUL 9 HOH *442(H2 O) HELIX 1 1 LYS A 84 TRP A 88 5 5 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 VAL A 218 1 25 HELIX 7 7 GLY A 235 LEU A 239 5 5 HELIX 8 8 ASP A 254 PHE A 258 5 5 HELIX 9 9 THR A 287 ASN A 308 1 22 HELIX 10 10 TRP A 314 ASN A 327 1 14 HELIX 11 11 PRO A 335 CYS A 338 5 4 HELIX 12 12 ASP A 340 GLY A 344 5 5 HELIX 13 13 GLU A 360 ARG A 365 1 6 HELIX 14 14 LYS B 1084 PHE B 1089 1 6 HELIX 15 15 ASN B 1090 ARG B 1094 5 5 HELIX 16 16 ASN B 1114 LYS B 1126 1 13 HELIX 17 17 ARG B 1138 PHE B 1155 1 18 HELIX 18 18 ASP B 1169 MET B 1173 5 5 HELIX 19 19 ARG B 1194 VAL B 1218 1 25 HELIX 20 20 GLY B 1235 LEU B 1239 5 5 HELIX 21 21 ASP B 1254 PHE B 1258 5 5 HELIX 22 22 THR B 1287 ASN B 1308 1 22 HELIX 23 23 TRP B 1314 ASN B 1327 1 14 HELIX 24 24 PRO B 1335 CYS B 1338 5 4 HELIX 25 25 ASP B 1340 GLY B 1344 5 5 HELIX 26 26 GLU B 1360 ARG B 1365 1 6 SHEET 1 AA 9 MET A 100 THR A 101 0 SHEET 2 AA 9 LYS A 104 VAL A 108 -1 O LYS A 104 N THR A 101 SHEET 3 AA 9 LYS A 331 LEU A 333 1 O ILE A 332 N VAL A 108 SHEET 4 AA 9 SER A 242 LEU A 246 1 O SER A 242 N LYS A 331 SHEET 5 AA 9 TYR A 279 GLY A 286 -1 N HIS A 280 O GLN A 245 SHEET 6 AA 9 PHE A 220 MET A 224 -1 O LEU A 221 N GLY A 286 SHEET 7 AA 9 VAL A 129 ALA A 135 1 O GLY A 130 N PHE A 222 SHEET 8 AA 9 VAL A 161 VAL A 167 1 O ILE A 162 N LEU A 131 SHEET 9 AA 9 ARG A 182 PHE A 184 1 O SER A 183 N PHE A 163 SHEET 1 AB 9 MET A 100 THR A 101 0 SHEET 2 AB 9 LYS A 104 VAL A 108 -1 O LYS A 104 N THR A 101 SHEET 3 AB 9 LYS A 331 LEU A 333 1 O ILE A 332 N VAL A 108 SHEET 4 AB 9 SER A 242 LEU A 246 1 O SER A 242 N LYS A 331 SHEET 5 AB 9 TYR A 279 GLY A 286 -1 N HIS A 280 O GLN A 245 SHEET 6 AB 9 PHE A 220 MET A 224 -1 O LEU A 221 N GLY A 286 SHEET 7 AB 9 VAL A 129 ALA A 135 1 O GLY A 130 N PHE A 222 SHEET 8 AB 9 VAL A 161 VAL A 167 1 O ILE A 162 N LEU A 131 SHEET 9 AB 9 PHE A 187 LYS A 188 1 O PHE A 187 N VAL A 167 SHEET 1 AC 2 GLN A 228 PHE A 230 0 SHEET 2 AC 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 OD2 ASP A 225 MN MN A1369 1555 1555 2.22 LINK OD1 ASP A 227 MN MN A1369 1555 1555 2.21 LINK OD2 ASP A 227 MN MN A1369 1555 1555 2.47 LINK MN MN A1369 O1A UDP A1370 1555 1555 2.29 LINK MN MN A1369 O1B UDP A1370 1555 1555 2.20 LINK MN MN A1369 O HOH A2211 1555 1555 2.14 LINK OD2 ASP B1225 MN MN B2369 1555 1555 2.28 LINK OD1 ASP B1227 MN MN B2369 1555 1555 2.14 LINK OD2 ASP B1227 MN MN B2369 1555 1555 2.43 LINK O HOH B2221 MN MN B2369 1555 1555 2.18 LINK MN MN B2369 O1A UDP B2370 1555 1555 2.30 LINK MN MN B2369 O1B UDP B2370 1555 1555 2.15 SITE 1 AC1 4 ASP A 225 ASP A 227 UDP A1370 HOH A2211 SITE 1 AC2 4 ASP B1225 ASP B1227 HOH B2221 UDP B2370 SITE 1 AC3 22 PHE A 134 ALA A 135 VAL A 136 TYR A 139 SITE 2 AC3 22 ILE A 198 SER A 199 ARG A 202 ASP A 225 SITE 3 AC3 22 VAL A 226 ASP A 227 LYS A 359 TYR A 361 SITE 4 AC3 22 ARG A 365 MN A1369 TRS A1371 HOH A2110 SITE 5 AC3 22 HOH A2211 HOH A2212 HOH A2213 HOH A2214 SITE 6 AC3 22 HOH A2215 HOH A2216 SITE 1 AC4 10 SER A 199 ALA A 281 TRP A 314 HIS A 315 SITE 2 AC4 10 ASP A 316 GLU A 317 UDP A1370 HOH A2214 SITE 3 AC4 10 HOH A2215 HOH A2217 SITE 1 AC5 22 PHE B1134 ALA B1135 VAL B1136 TYR B1139 SITE 2 AC5 22 ILE B1198 SER B1199 ARG B1202 ASP B1225 SITE 3 AC5 22 VAL B1226 ASP B1227 LYS B1359 TYR B1361 SITE 4 AC5 22 ARG B1365 HOH B2089 HOH B2093 HOH B2221 SITE 5 AC5 22 HOH B2222 HOH B2223 HOH B2224 HOH B2225 SITE 6 AC5 22 MN B2369 TRS B2371 SITE 1 AC6 9 ALA B1281 TRP B1314 HIS B1315 ASP B1316 SITE 2 AC6 9 GLU B1317 HOH B2090 HOH B2223 HOH B2225 SITE 3 AC6 9 UDP B2370 CRYST1 45.058 94.211 94.570 90.00 98.96 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 0.022194 0.000000 0.003499 0.00000 SCALE2 0.000000 0.010614 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010705 0.00000