HEADER TRANSFERASE 28-APR-09 2WGZ TITLE CRYSTAL STRUCTURE OF ALPHA-1,3 GALACTOSYLTRANSFERASE (ALPHA3GT) IN A TITLE 2 COMPLEX WITH P-NITROPHENYL-BETA-GALACTOSIDE (PNP-BETA-GAL) COMPND MOL_ID: 1; COMPND 2 MOLECULE: N-ACETYLLACTOSAMINIDE ALPHA-1,3-GALACTOSYL TRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 80-368; COMPND 5 SYNONYM: UDP-GALACTOSE\: BETA-D-GALACTOSYL-1\,4-N-ACETYL -D- COMPND 6 GLUCOSAMINIDE ALPHA-1\,3-GALACTOSYLTRANSFERASE, COMPND 7 GALACTOSYLTRANSFERASE, ALPHA-1\,3 GALACTOSYLTRANSFERASE; COMPND 8 EC: 2.4.1.151, 2.4.1.87; COMPND 9 ENGINEERED: 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: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET15B KEYWDS GALACTOSYLTRANSFERASE, GLYCOPROTEIN, METAL-BINDING, SIGNAL-ANCHOR, KEYWDS 2 ALPHA-1, MEMBRANE, MANGANESE, TRANSFERASE, SUBSTRATE BINDING, KEYWDS 3 GLYCOSYLTRANSFERASE, TRANSMEMBRANE, GOLGI APPARATUS, ENZYME KINETICS EXPDTA X-RAY DIFFRACTION AUTHOR H.JAMALUDDIN,P.TUMBALE,T.A.FERNS,N.THIYAGARAJAN,K.BREW,K.R.ACHARYA REVDAT 4 13-DEC-23 2WGZ 1 HETSYN REVDAT 3 29-JUL-20 2WGZ 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 06-JUL-11 2WGZ 1 JRNL REMARK HETSYN FORMUL REVDAT 1 16-JUN-09 2WGZ 0 JRNL AUTH H.JAMALUDDIN,P.TUMBALE,T.A.FERNS,N.THIYAGARAJAN,K.BREW, JRNL AUTH 2 K.R.ACHARYA JRNL TITL CRYSTAL STRUCTURE OF ALPHA-1,3 GALACTOSYLTRANSFERASE JRNL TITL 2 (ALPHA3GT) IN A COMPLEX WITH P-NITROPHENYL-BETA-GALACTOSIDE JRNL TITL 3 (PNPBETAGAL). JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 385 601 2009 JRNL REFN ISSN 0006-291X JRNL PMID 19486884 JRNL DOI 10.1016/J.BBRC.2009.05.111 REMARK 2 REMARK 2 RESOLUTION. 2.12 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 40981 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 + TEST SET) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.600 REMARK 3 FREE R VALUE TEST SET COUNT : 1077 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.17 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2491 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 77.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.1890 REMARK 3 BIN FREE R VALUE SET COUNT : 46 REMARK 3 BIN FREE R VALUE : 0.2560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4784 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 130 REMARK 3 SOLVENT ATOMS : 549 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.197 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.164 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.099 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.665 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5072 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 5072 ; 0.015 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6876 ; 1.001 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6876 ; 1.481 ; 1.960 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 576 ; 5.749 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 244 ;38.230 ;24.098 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 860 ;13.525 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;16.659 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 716 ; 0.073 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3822 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2399 ; 0.172 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3424 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 476 ; 0.204 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 36 ; 0.124 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.084 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2978 ; 0.372 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4680 ; 0.649 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2473 ; 0.885 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2196 ; 1.435 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2WGZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-APR-09. REMARK 100 THE DEPOSITION ID IS D_1290039624. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-OCT-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 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 : SI (111) 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 : 44578 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.120 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 (%) : 94.4 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.22000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.140 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1K4V REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5% PEG 6000, 0.1M TRIS-HCL, PH 8.0 IN REMARK 280 THE PRESENCE OF 10MM MNCL2 AND 10MM UDP 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 47.11100 REMARK 290 SMTRY3 2 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 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: 6270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.2 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 GLU A 80 REMARK 465 SER A 81 REMARK 465 ARG A 369 REMARK 465 GLU B 80 REMARK 465 SER B 81 REMARK 465 ARG B 369 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 2043 O HOH B 2046 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2114 O HOH A 2160 1455 0.00 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 HIS A 213 -41.75 -145.53 REMARK 500 THR A 259 47.00 -86.01 REMARK 500 HIS A 315 -126.96 54.96 REMARK 500 CYS A 338 77.76 -163.79 REMARK 500 HIS B 213 -37.81 -151.43 REMARK 500 THR B 259 49.57 -83.04 REMARK 500 HIS B 315 -126.33 58.95 REMARK 500 CYS B 338 78.35 -160.45 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 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B2055 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH B2094 DISTANCE = 5.90 ANGSTROMS 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 A1400 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 225 OD2 REMARK 620 2 ASP A 227 OD1 100.0 REMARK 620 3 ASP A 227 OD2 154.5 54.9 REMARK 620 4 UDP A1401 O1A 95.8 83.7 78.0 REMARK 620 5 UDP A1401 O2B 97.7 160.5 106.5 86.5 REMARK 620 6 HOH A2272 O 97.7 100.8 92.6 164.8 84.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B1400 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 225 OD2 REMARK 620 2 ASP B 227 OD2 153.3 REMARK 620 3 ASP B 227 OD1 99.4 55.7 REMARK 620 4 UDP B1401 O1A 92.6 77.2 85.0 REMARK 620 5 UDP B1401 O2B 98.2 105.1 159.7 84.0 REMARK 620 6 HOH B2267 O 100.0 94.8 101.5 164.6 85.5 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VS4 RELATED DB: PDB REMARK 900 THE BINDING OF UDP-GALACTOSE BY AN ACTIVE SITE MUTANT OF ALPHA-1,3 REMARK 900 GALACTOSYLTRANSFERASE (ALPHA3GT) REMARK 900 RELATED ID: 2VXL RELATED DB: PDB REMARK 900 SCREENING A LIMITED STRUCTURE-BASED LIBRARY IDENTIFIES UDP-GALNAC- REMARK 900 SPECIFIC MUTANTS OF ALPHA-1,3 GALACTOSYLTRANSFERASE REMARK 900 RELATED ID: 1VZT RELATED DB: PDB REMARK 900 ROLES ON INDIVIDUAL RESIDUES OF ALPHA-1,3 GALACTOSYLTRANSFERASES IN REMARK 900 SUBSTRATE BINDING AND CATALYSIS REMARK 900 RELATED ID: 2VXM RELATED DB: PDB REMARK 900 SCREENING A LIMITED STRUCTURE-BASED LIBRARY IDENTIFIES UDP-GALNAC- REMARK 900 SPECIFIC MUTANTS OF ALPHA-1,3 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: 1VZX RELATED DB: PDB REMARK 900 ROLES OF ACTIVE SITE TRYPTOPHANS IN SUBSTRATE BINDING AND CATALYSIS REMARK 900 BY ALPHA-1, 3 GALACTOSYLTRANSFERASE 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 REMARK 900 RELATED ID: 2VS5 RELATED DB: PDB REMARK 900 THE BINDING OF UDP-GALACTOSE BY AN ACTIVE SITE MUTANT OF ALPHA-1,3 REMARK 900 GALACTOSYLTRANSFERASE (ALPHA3GT) 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: 2JCK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ALPHA-1,3 GALACTOSYLTRANSFERASE (R365K) IN REMARK 900 COMPLEX WITH UDP AND 2 MANGANESE ION REMARK 900 RELATED ID: 2JCJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ALPHA-1,3 GALACTOSYLTRANSFERASE (C-TERMINUS REMARK 900 TRUNCATED MUTANT-C3) IN COMPLEX WITH UDP AND TRIS REMARK 900 RELATED ID: 2VFZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ALPHA-1,3 GALACTOSYLTRANSFERASE (R365K) IN REMARK 900 COMPLEX WITH UDP-2F-GALACTOSE 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: 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: 1G8O RELATED DB: PDB REMARK 900 CRYSTALLOGRAPHIC STRUCTURE OF THE NATIVE BOVINE ALPHA-1,3- REMARK 900 GALACTOSYLTRANSFERASE CATALYTIC DOMAIN 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: 1VZU RELATED DB: PDB REMARK 900 ROLES OF ACTIVE SITE TRYPTOPHANS IN SUBSTRATE BINDING AND CATALYSIS REMARK 900 BY ALPHA-1, 3 GALACTOSYLTRANSFERASE REMARK 900 RELATED ID: 2VS3 RELATED DB: PDB REMARK 900 THE BINDING OF UDP-GALACTOSE BY AN ACTIVE SITE MUTANT OF ALPHA-1,3 REMARK 900 GALACTOSYLTRANSFERASE (ALPHA3GT) 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: 2JCL RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ALPHA-1,3 GALACTOSYLTRANSFERASE (R365K) IN THE REMARK 900 ABSENCE OF LIGANDS REMARK 900 RELATED ID: 2JCO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF WILD TYPE ALPHA-1,3 GALACTOSYLTRANSFERASE IN REMARK 900 THE ABSENCE OF LIGANDS 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: 1FG5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BOVINE ALPHA-1,3- REMARK 900 GALACTOSYLTRANSFERASECATALYTIC DOMAIN. DBREF 2WGZ A 80 368 UNP P14769 GGTA1_BOVIN 80 368 DBREF 2WGZ A 369 369 PDB 2WGZ 2WGZ 369 369 DBREF 2WGZ B 80 368 UNP P14769 GGTA1_BOVIN 80 368 DBREF 2WGZ B 369 369 PDB 2WGZ 2WGZ 369 369 SEQRES 1 A 290 GLU SER LYS LEU LYS LEU SER ASP TRP PHE ASN PRO PHE SEQRES 2 A 290 LYS ARG PRO GLU VAL VAL THR MET THR LYS TRP LYS ALA SEQRES 3 A 290 PRO VAL VAL TRP GLU GLY THR TYR ASN ARG ALA VAL LEU SEQRES 4 A 290 ASP ASN TYR TYR ALA LYS GLN LYS ILE THR VAL GLY LEU SEQRES 5 A 290 THR VAL PHE ALA VAL GLY ARG TYR ILE GLU HIS TYR LEU SEQRES 6 A 290 GLU GLU PHE LEU THR SER ALA ASN LYS HIS PHE MET VAL SEQRES 7 A 290 GLY HIS PRO VAL ILE PHE TYR ILE MET VAL ASP ASP VAL SEQRES 8 A 290 SER ARG MET PRO LEU ILE GLU LEU GLY PRO LEU ARG SER SEQRES 9 A 290 PHE LYS VAL PHE LYS ILE LYS PRO GLU LYS ARG TRP GLN SEQRES 10 A 290 ASP ILE SER MET MET ARG MET LYS THR ILE GLY GLU HIS SEQRES 11 A 290 ILE VAL ALA HIS ILE GLN HIS GLU VAL ASP PHE LEU PHE SEQRES 12 A 290 CYS MET ASP VAL ASP GLN VAL PHE GLN ASP LYS PHE GLY SEQRES 13 A 290 VAL GLU THR LEU GLY GLU SER VAL ALA GLN LEU GLN ALA SEQRES 14 A 290 TRP TRP TYR LYS ALA ASP PRO ASN ASP PHE THR TYR GLU SEQRES 15 A 290 ARG ARG LYS GLU SER ALA ALA TYR ILE PRO PHE GLY GLU SEQRES 16 A 290 GLY ASP PHE TYR TYR HIS ALA ALA ILE PHE GLY GLY THR SEQRES 17 A 290 PRO THR GLN VAL LEU ASN ILE THR GLN GLU CYS PHE LYS SEQRES 18 A 290 GLY ILE LEU LYS ASP LYS LYS ASN ASP ILE GLU ALA GLN SEQRES 19 A 290 TRP HIS ASP GLU SER HIS LEU ASN LYS TYR PHE LEU LEU SEQRES 20 A 290 ASN LYS PRO THR LYS ILE LEU SER PRO GLU TYR CYS TRP SEQRES 21 A 290 ASP TYR HIS ILE GLY LEU PRO ALA ASP ILE LYS LEU VAL SEQRES 22 A 290 LYS MET SER TRP GLN THR LYS GLU TYR ASN VAL VAL ARG SEQRES 23 A 290 ASN ASN VAL ARG SEQRES 1 B 290 GLU SER LYS LEU LYS LEU SER ASP TRP PHE ASN PRO PHE SEQRES 2 B 290 LYS ARG PRO GLU VAL VAL THR MET THR LYS TRP LYS ALA SEQRES 3 B 290 PRO VAL VAL TRP GLU GLY THR TYR ASN ARG ALA VAL LEU SEQRES 4 B 290 ASP ASN TYR TYR ALA LYS GLN LYS ILE THR VAL GLY LEU SEQRES 5 B 290 THR VAL PHE ALA VAL GLY ARG TYR ILE GLU HIS TYR LEU SEQRES 6 B 290 GLU GLU PHE LEU THR SER ALA ASN LYS HIS PHE MET VAL SEQRES 7 B 290 GLY HIS PRO VAL ILE PHE TYR ILE MET VAL ASP ASP VAL SEQRES 8 B 290 SER ARG MET PRO LEU ILE GLU LEU GLY PRO LEU ARG SER SEQRES 9 B 290 PHE LYS VAL PHE LYS ILE LYS PRO GLU LYS ARG TRP GLN SEQRES 10 B 290 ASP ILE SER MET MET ARG MET LYS THR ILE GLY GLU HIS SEQRES 11 B 290 ILE VAL ALA HIS ILE GLN HIS GLU VAL ASP PHE LEU PHE SEQRES 12 B 290 CYS MET ASP VAL ASP GLN VAL PHE GLN ASP LYS PHE GLY SEQRES 13 B 290 VAL GLU THR LEU GLY GLU SER VAL ALA GLN LEU GLN ALA SEQRES 14 B 290 TRP TRP TYR LYS ALA ASP PRO ASN ASP PHE THR TYR GLU SEQRES 15 B 290 ARG ARG LYS GLU SER ALA ALA TYR ILE PRO PHE GLY GLU SEQRES 16 B 290 GLY ASP PHE TYR TYR HIS ALA ALA ILE PHE GLY GLY THR SEQRES 17 B 290 PRO THR GLN VAL LEU ASN ILE THR GLN GLU CYS PHE LYS SEQRES 18 B 290 GLY ILE LEU LYS ASP LYS LYS ASN ASP ILE GLU ALA GLN SEQRES 19 B 290 TRP HIS ASP GLU SER HIS LEU ASN LYS TYR PHE LEU LEU SEQRES 20 B 290 ASN LYS PRO THR LYS ILE LEU SER PRO GLU TYR CYS TRP SEQRES 21 B 290 ASP TYR HIS ILE GLY LEU PRO ALA ASP ILE LYS LEU VAL SEQRES 22 B 290 LYS MET SER TRP GLN THR LYS GLU TYR ASN VAL VAL ARG SEQRES 23 B 290 ASN ASN VAL ARG HET 147 A1204 21 HET MN A1400 1 HET UDP A1401 25 HET GOL A1403 6 HET GOL A1404 6 HET GOL A1405 6 HET GOL A1406 6 HET GAL B1204 11 HET NPO B1205 10 HET MN B1400 1 HET UDP B1401 25 HET GOL B1403 6 HET GOL B1404 6 HETNAM 147 4-NITROPHENYL BETA-D-GALACTOPYRANOSIDE HETNAM MN MANGANESE (II) ION HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM GOL GLYCEROL HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM NPO P-NITROPHENOL HETSYN 147 1-O-[P-NITROPHENYL]-BETA-D-GALACTOPYRANOSE; 4- HETSYN 2 147 NITROPHENYL BETA-D-GALACTOSIDE; 4-NITROPHENYL D- HETSYN 3 147 GALACTOSIDE; 4-NITROPHENYL GALACTOSIDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE FORMUL 3 147 C12 H15 N O8 FORMUL 4 MN 2(MN 2+) FORMUL 5 UDP 2(C9 H14 N2 O12 P2) FORMUL 6 GOL 6(C3 H8 O3) FORMUL 10 GAL C6 H12 O6 FORMUL 11 NPO C6 H5 N O3 FORMUL 16 HOH *549(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 LYS A 126 1 13 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 HIS A 315 ASN A 327 1 13 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 84 PHE B 89 1 6 HELIX 15 15 ASN B 90 ARG B 94 5 5 HELIX 16 16 ASN B 114 LYS B 126 1 13 HELIX 17 17 ARG B 138 PHE B 155 1 18 HELIX 18 18 ASP B 169 MET B 173 5 5 HELIX 19 19 ARG B 194 HIS B 213 1 20 HELIX 20 20 ILE B 214 GLU B 217 5 4 HELIX 21 21 GLY B 235 LEU B 239 5 5 HELIX 22 22 ASP B 254 PHE B 258 5 5 HELIX 23 23 THR B 287 ASN B 308 1 22 HELIX 24 24 HIS B 315 ASN B 327 1 13 HELIX 25 25 PRO B 335 CYS B 338 5 4 HELIX 26 26 ASP B 340 GLY B 344 5 5 HELIX 27 27 GLU B 360 ARG B 365 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 GLN A 245 1 O SER A 242 N LYS A 331 SHEET 4 AA 8 ILE A 283 GLY A 286 -1 O GLY A 285 N VAL A 243 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 B 107 VAL B 108 0 SHEET 2 BA 8 LYS B 331 LEU B 333 1 O ILE B 332 N VAL B 108 SHEET 3 BA 8 SER B 242 LEU B 246 1 O SER B 242 N LYS B 331 SHEET 4 BA 8 TYR B 279 GLY B 286 -1 N HIS B 280 O GLN B 245 SHEET 5 BA 8 PHE B 220 MET B 224 -1 O LEU B 221 N GLY B 286 SHEET 6 BA 8 VAL B 129 ALA B 135 1 O GLY B 130 N PHE B 222 SHEET 7 BA 8 VAL B 161 VAL B 167 1 O ILE B 162 N LEU B 131 SHEET 8 BA 8 ARG B 182 LYS B 188 1 O SER B 183 N PHE B 163 SHEET 1 BB 2 GLN B 228 PHE B 230 0 SHEET 2 BB 2 MET B 354 TRP B 356 -1 O SER B 355 N VAL B 229 LINK C1 GAL B1204 OH NPO B1205 1555 1555 1.45 LINK OD2 ASP A 225 MN MN A1400 1555 1555 2.23 LINK OD1 ASP A 227 MN MN A1400 1555 1555 2.20 LINK OD2 ASP A 227 MN MN A1400 1555 1555 2.50 LINK MN MN A1400 O1A UDP A1401 1555 1555 2.24 LINK MN MN A1400 O2B UDP A1401 1555 1555 2.16 LINK MN MN A1400 O HOH A2272 1555 1555 2.24 LINK OD2 ASP B 225 MN MN B1400 1555 1555 2.24 LINK OD2 ASP B 227 MN MN B1400 1555 1555 2.46 LINK OD1 ASP B 227 MN MN B1400 1555 1555 2.21 LINK MN MN B1400 O1A UDP B1401 1555 1555 2.26 LINK MN MN B1400 O2B UDP B1401 1555 1555 2.21 LINK MN MN B1400 O HOH B2267 1555 1555 2.29 CRYST1 45.146 94.222 94.465 90.00 99.05 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 0.022150 0.000000 0.003528 0.00000 SCALE2 0.000000 0.010613 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010719 0.00000