HEADER TRANSFERASE 25-JUN-09 3I0G TITLE CRYSTAL STRUCTURE OF GTB C80S/C196S + DA + UDP-GAL CAVEAT 3I0G GAL A 359 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ABO GLYCOSYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 59 TO 344; COMPND 5 EC: 2.4.1.37; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: GTB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PCW(DELTA)LAC KEYWDS GTB, GLYCOSYLTRANSFERASE, ABO BLOOD GROUP, RETAINING, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR B.SCHUMAN,M.PERSSON,R.C.LANDRY,R.POLAKOWSKI,J.T.WEADGE,N.O.L.SETO, AUTHOR 2 S.BORISOVA,M.M.PALCIC,S.V.EVANS REVDAT 5 06-SEP-23 3I0G 1 REMARK REVDAT 4 13-OCT-21 3I0G 1 SEQADV HETSYN REVDAT 3 29-JUL-20 3I0G 1 CAVEAT COMPND REMARK HETNAM REVDAT 3 2 1 LINK SITE ATOM REVDAT 2 06-OCT-10 3I0G 1 JRNL REVDAT 1 11-AUG-10 3I0G 0 JRNL AUTH B.SCHUMAN,M.PERSSON,R.C.LANDRY,R.POLAKOWSKI,J.T.WEADGE, JRNL AUTH 2 N.O.SETO,S.N.BORISOVA,M.M.PALCIC,S.V.EVANS JRNL TITL CYSTEINE-TO-SERINE MUTANTS DRAMATICALLY REORDER THE ACTIVE JRNL TITL 2 SITE OF HUMAN ABO(H) BLOOD GROUP B GLYCOSYLTRANSFERASE JRNL TITL 3 WITHOUT AFFECTING ACTIVITY: STRUCTURAL INSIGHTS INTO JRNL TITL 4 COOPERATIVE SUBSTRATE BINDING JRNL REF J.MOL.BIOL. V. 402 399 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20655926 JRNL DOI 10.1016/J.JMB.2010.07.036 REMARK 2 REMARK 2 RESOLUTION. 1.40 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 55954 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2993 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3126 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.19 REMARK 3 BIN R VALUE (WORKING SET) : 0.7470 REMARK 3 BIN FREE R VALUE SET COUNT : 177 REMARK 3 BIN FREE R VALUE : 0.7590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2183 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 89 REMARK 3 SOLVENT ATOMS : 344 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.01000 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): 0.068 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.072 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.039 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.982 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2354 ; 0.030 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3208 ; 2.572 ; 2.005 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 266 ; 6.619 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 111 ;31.602 ;22.703 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 376 ;13.225 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;20.694 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 361 ; 0.166 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1752 ; 0.015 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1151 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1605 ; 0.307 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 215 ; 0.128 ; 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): 53 ; 0.220 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.198 ; 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): 1340 ; 1.429 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2180 ; 2.286 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1014 ; 3.450 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1028 ; 5.332 ; 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 3I0G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000053808. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-002 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : OSMIC BLUE REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : D*TREK 9.1SSI REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27621 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.810 REMARK 200 RESOLUTION RANGE LOW (A) : 19.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 200 DATA REDUNDANCY : 4.550 REMARK 200 R MERGE (I) : 0.07400 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) : 1.81 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.87 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.22 REMARK 200 R MERGE FOR SHELL (I) : 0.31700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MOLECULAR REPLACEMENT REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1LZ7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35MM SODIUM ACETATE PH 4.6, 45 MM ADA, REMARK 280 30MM SODIUM CHLORIDE, 3-4 MM MAGNESIUM CHLORIDE, 3-3.5% PEG 4000, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 279.15K, PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 39.72700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.72700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 26.27250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 74.63850 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 26.27250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 74.63850 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.72700 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 26.27250 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 74.63850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 39.72700 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 26.27250 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 74.63850 REMARK 290 SMTRY3 8 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: 5540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -39.72700 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 69 REMARK 465 ALA A 177 REMARK 465 TYR A 178 REMARK 465 LYS A 179 REMARK 465 ARG A 180 REMARK 465 TRP A 181 REMARK 465 GLN A 182 REMARK 465 ASP A 183 REMARK 465 VAL A 184 REMARK 465 LYS A 346 REMARK 465 ASN A 347 REMARK 465 HIS A 348 REMARK 465 GLN A 349 REMARK 465 ALA A 350 REMARK 465 VAL A 351 REMARK 465 ARG A 352 REMARK 465 ASN A 353 REMARK 465 PRO A 354 REMARK 465 GLU A 355 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 MET A 191 CG SD CE REMARK 470 SER A 240 CB OG REMARK 470 ILE A 296 CB CG1 CG2 CD1 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 PB UDP A 358 O1 GAL A 359 1.63 REMARK 500 O HOH A 391 O HOH A 480 1.71 REMARK 500 O HOH A 433 O HOH A 485 1.80 REMARK 500 N SER A 185 O HOH A 477 1.87 REMARK 500 CE MET A 288 O HOH A 499 1.94 REMARK 500 CA SER A 240 O HOH A 521 1.98 REMARK 500 O2B UDP A 358 O1 GAL A 359 2.10 REMARK 500 O HOH A 53 O HOH A 377 2.11 REMARK 500 CG GLU A 197 O HOH A 436 2.15 REMARK 500 O3B UDP A 358 O1 GAL A 359 2.15 REMARK 500 NH2 ARG A 146 O HOH A 552 2.17 REMARK 500 CE LYS A 139 O HOH A 558 2.17 REMARK 500 CD ARG A 188 O HOH A 488 2.18 REMARK 500 CG ARG A 188 O HOH A 488 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 497 O HOH A 497 4555 2.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 VAL A 127 CB VAL A 127 CG1 -0.133 REMARK 500 LYS A 338 CE LYS A 338 NZ 0.180 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 ARG A 110 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 146 NE - CZ - NH1 ANGL. DEV. = -4.4 DEGREES REMARK 500 ASP A 154 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 ASP A 211 CB - CG - OD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ASP A 213 CB - CG - OD1 ANGL. DEV. = -12.6 DEGREES REMARK 500 ASP A 213 CB - CG - OD2 ANGL. DEV. = 15.7 DEGREES REMARK 500 ARG A 217 NE - CZ - NH1 ANGL. DEV. = -4.8 DEGREES REMARK 500 ASP A 218 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG A 241 NE - CZ - NH1 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG A 241 NE - CZ - NH2 ANGL. DEV. = 5.0 DEGREES REMARK 500 PHE A 244 CB - CG - CD1 ANGL. DEV. = -4.4 DEGREES REMARK 500 PHE A 269 CB - CG - CD2 ANGL. DEV. = 5.1 DEGREES REMARK 500 ARG A 282 NE - CZ - NH1 ANGL. DEV. = 8.2 DEGREES REMARK 500 ARG A 282 NE - CZ - NH2 ANGL. DEV. = -7.9 DEGREES REMARK 500 ASP A 302 CB - CG - OD1 ANGL. DEV. = 10.1 DEGREES REMARK 500 ARG A 337 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 340 NE - CZ - NH1 ANGL. DEV. = 4.3 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 LYS A 124 -127.92 56.60 REMARK 500 THR A 245 47.60 -86.96 REMARK 500 PHE A 269 100.87 -163.75 REMARK 500 HIS A 301 -136.09 54.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 BHG B 1 REMARK 610 UDP A 358 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 A 2 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 211 OD2 REMARK 620 2 ASP A 213 OD2 93.1 REMARK 620 3 UDP A 358 O1A 100.2 85.9 REMARK 620 4 HOH A 378 O 127.8 134.8 102.1 REMARK 620 5 HOH A 422 O 88.1 102.9 167.6 65.5 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1LZ7 RELATED DB: PDB REMARK 900 GTB REMARK 900 RELATED ID: 3I0C RELATED DB: PDB REMARK 900 GTB C80S/C196S UNLIGANDED REMARK 900 RELATED ID: 3I0D RELATED DB: PDB REMARK 900 GTB C80S/C196S + UDP REMARK 900 RELATED ID: 3I0E RELATED DB: PDB REMARK 900 GTB C80S/C196S + H ANTIGEN REMARK 900 RELATED ID: 3I0F RELATED DB: PDB REMARK 900 GTB C80S/C196S + UDP + H ANTIGEN REMARK 900 RELATED ID: 3I0H RELATED DB: PDB REMARK 900 GTB C80S/C196S/C209S UNLIGANDED REMARK 900 RELATED ID: 3I0I RELATED DB: PDB REMARK 900 GTB C80S/C196S/C209S + UDP REMARK 900 RELATED ID: 3I0J RELATED DB: PDB REMARK 900 GTB C80S/C196S/C209S + H ANTIGEN REMARK 900 RELATED ID: 3I0K RELATED DB: PDB REMARK 900 GTB C80S/C196S/C209S + UDP + H ANTIGEN REMARK 900 RELATED ID: 3I0L RELATED DB: PDB REMARK 900 GTB C80S/C196S/C209S + DA + UDP-GAL REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS STATE THAT GLU 355 IS THE BIOLOGICAL C-TEMINUS DBREF 3I0G A 69 354 UNP Q70V26 Q70V26_HUMAN 59 344 SEQADV 3I0G SER A 80 UNP Q70V26 CYS 70 ENGINEERED MUTATION SEQADV 3I0G SER A 196 UNP Q70V26 CYS 186 ENGINEERED MUTATION SEQADV 3I0G GLU A 355 UNP Q70V26 SEE REMARK 999 SEQRES 1 A 287 MET VAL TYR PRO GLN PRO LYS VAL LEU THR PRO SER ARG SEQRES 2 A 287 LYS ASP VAL LEU VAL VAL THR PRO TRP LEU ALA PRO ILE SEQRES 3 A 287 VAL TRP GLU GLY THR PHE ASN ILE ASP ILE LEU ASN GLU SEQRES 4 A 287 GLN PHE ARG LEU GLN ASN THR THR ILE GLY LEU THR VAL SEQRES 5 A 287 PHE ALA ILE LYS LYS TYR VAL ALA PHE LEU LYS LEU PHE SEQRES 6 A 287 LEU GLU THR ALA GLU LYS HIS PHE MET VAL GLY HIS ARG SEQRES 7 A 287 VAL HIS TYR TYR VAL PHE THR ASP GLN PRO ALA ALA VAL SEQRES 8 A 287 PRO ARG VAL THR LEU GLY THR GLY ARG GLN LEU SER VAL SEQRES 9 A 287 LEU GLU VAL GLY ALA TYR LYS ARG TRP GLN ASP VAL SER SEQRES 10 A 287 MET ARG ARG MET GLU MET ILE SER ASP PHE SER GLU ARG SEQRES 11 A 287 ARG PHE LEU SER GLU VAL ASP TYR LEU VAL CYS VAL ASP SEQRES 12 A 287 VAL ASP MET GLU PHE ARG ASP HIS VAL GLY VAL GLU ILE SEQRES 13 A 287 LEU THR PRO LEU PHE GLY THR LEU HIS PRO SER PHE TYR SEQRES 14 A 287 GLY SER SER ARG GLU ALA PHE THR TYR GLU ARG ARG PRO SEQRES 15 A 287 GLN SER GLN ALA TYR ILE PRO LYS ASP GLU GLY ASP PHE SEQRES 16 A 287 TYR TYR MET GLY ALA PHE PHE GLY GLY SER VAL GLN GLU SEQRES 17 A 287 VAL GLN ARG LEU THR ARG ALA CYS HIS GLN ALA MET MET SEQRES 18 A 287 VAL ASP GLN ALA ASN GLY ILE GLU ALA VAL TRP HIS ASP SEQRES 19 A 287 GLU SER HIS LEU ASN LYS TYR LEU LEU ARG HIS LYS PRO SEQRES 20 A 287 THR LYS VAL LEU SER PRO GLU TYR LEU TRP ASP GLN GLN SEQRES 21 A 287 LEU LEU GLY TRP PRO ALA VAL LEU ARG LYS LEU ARG PHE SEQRES 22 A 287 THR ALA VAL PRO LYS ASN HIS GLN ALA VAL ARG ASN PRO SEQRES 23 A 287 GLU HET BHG B 1 17 HET FUC B 2 10 HET MN A 2 1 HET UDP A 357 25 HET UDP A 358 24 HET GAL A 359 12 HETNAM BHG HEXYL BETA-D-GALACTOPYRANOSIDE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM MN MANGANESE (II) ION HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM GAL BETA-D-GALACTOPYRANOSE HETSYN BHG 2-HEXYLOXY-6-HYDROXYMETHYL-TETRAHYDRO-PYRAN-3,4,5- HETSYN 2 BHG TRIOL; HEXYL BETA-D-GALACTOSIDE; HEXYL D-GALACTOSIDE; HETSYN 3 BHG HEXYL GALACTOSIDE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE FORMUL 2 BHG C12 H24 O6 FORMUL 2 FUC C6 H12 O5 FORMUL 3 MN MN 2+ FORMUL 4 UDP 2(C9 H14 N2 O12 P2) FORMUL 6 GAL C6 H12 O6 FORMUL 7 HOH *344(H2 O) HELIX 1 1 ASN A 101 GLN A 112 1 12 HELIX 2 2 ILE A 123 ALA A 128 5 6 HELIX 3 3 PHE A 129 PHE A 141 1 13 HELIX 4 4 GLN A 155 VAL A 159 5 5 HELIX 5 5 MET A 186 GLU A 197 1 12 HELIX 6 6 ARG A 198 SER A 202 5 5 HELIX 7 7 GLY A 221 LEU A 225 5 5 HELIX 8 8 SER A 240 PHE A 244 5 5 HELIX 9 9 VAL A 274 ASN A 294 1 21 HELIX 10 10 TRP A 300 HIS A 313 1 14 HELIX 11 11 PRO A 321 LEU A 324 5 4 HELIX 12 12 ASP A 326 GLY A 331 1 6 SHEET 1 A 8 ILE A 94 VAL A 95 0 SHEET 2 A 8 LYS A 317 LEU A 319 1 O VAL A 318 N VAL A 95 SHEET 3 A 8 LEU A 228 THR A 231 1 N GLY A 230 O LEU A 319 SHEET 4 A 8 PHE A 269 SER A 273 -1 O GLY A 271 N PHE A 229 SHEET 5 A 8 TYR A 206 VAL A 210 -1 N CYS A 209 O PHE A 270 SHEET 6 A 8 THR A 115 ALA A 122 1 N GLY A 117 O TYR A 206 SHEET 7 A 8 ARG A 146 THR A 153 1 O TYR A 150 N LEU A 118 SHEET 8 A 8 ARG A 168 GLU A 174 1 O GLN A 169 N TYR A 149 SHEET 1 B 2 MET A 214 PHE A 216 0 SHEET 2 B 2 PHE A 341 ALA A 343 -1 O THR A 342 N GLU A 215 LINK O2 BHG B 1 C1 FUC B 2 1555 1555 1.48 LINK MN MN A 2 OD2 ASP A 211 1555 1555 2.04 LINK MN MN A 2 OD2 ASP A 213 1555 1555 2.46 LINK MN MN A 2 O1A UDP A 358 1555 1555 2.20 LINK MN MN A 2 O HOH A 378 1555 1555 2.19 LINK MN MN A 2 O HOH A 422 1555 1555 2.22 CISPEP 1 VAL A 175 GLY A 176 0 -13.94 CRYST1 52.545 149.277 79.454 90.00 90.00 90.00 C 2 2 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.019031 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006699 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012586 0.00000