HEADER TRANSFERASE 26-JUN-12 4FRD TITLE CRYSTAL STRUCTURE OF ABBA+UDP+GAL AT PH 9.0 WITH MPD AS THE TITLE 2 CRYOPROTECTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTO-BLOOD GROUP ABO SYSTEM TRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: GTB; COMPND 5 SYNONYM: FUCOSYLGLYCOPROTEIN 3-ALPHA-GALACTOSYLTRANSFERASE, COMPND 6 FUCOSYLGLYCOPROTEIN ALPHA-N-ACETYLGALACTOSAMINYLTRANSFERASE, COMPND 7 GLYCOPROTEIN-FUCOSYLGALACTOSIDE ALPHA-N- COMPND 8 ACETYLGALACTOSAMINYLTRANSFERASE, GLYCOPROTEIN-FUCOSYLGALACTOSIDE COMPND 9 ALPHA-GALACTOSYLTRANSFERASE, HISTO-BLOOD GROUP A TRANSFERASE, A COMPND 10 TRANSFERASE, HISTO-BLOOD GROUP B TRANSFERASE, B TRANSFERASE, NAGAT, COMPND 11 FUCOSYLGLYCOPROTEIN ALPHA-N-ACETYLGALACTOSAMINYLTRANSFERASE SOLUBLE COMPND 12 FORM; COMPND 13 EC: 2.4.1.40, 2.4.1.37; COMPND 14 ENGINEERED: YES; COMPND 15 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: ABO; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 GOLD; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PCW DELTA 1AC KEYWDS MANGANESE, ABO ROSSMANN FOLD, RETAINING GLYCOSYLTRANSFERASE, KEYWDS 2 GLYCOPROTEIN, BLOOD GROUP ANTIGEN, METAL-BINDING, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.R.JOHAL,J.A.ALFARO,R.J.BLACKLER,B.SCHUMAN,S.N.BORISOVA,S.V.EVANS REVDAT 5 13-SEP-23 4FRD 1 HETSYN REVDAT 4 29-JUL-20 4FRD 1 COMPND REMARK SEQADV HETNAM REVDAT 4 2 1 LINK SITE REVDAT 3 07-MAR-18 4FRD 1 REMARK REVDAT 2 26-FEB-14 4FRD 1 JRNL REVDAT 1 25-DEC-13 4FRD 0 JRNL AUTH A.R.JOHAL,R.J.BLACKLER,J.A.ALFARO,B.SCHUMAN,S.BORISOVA, JRNL AUTH 2 S.V.EVANS JRNL TITL PH-INDUCED CONFORMATIONAL CHANGES IN HUMAN ABO(H) BLOOD JRNL TITL 2 GROUP GLYCOSYLTRANSFERASES CONFIRM THE IMPORTANCE OF JRNL TITL 3 ELECTROSTATIC INTERACTIONS IN THE FORMATION OF THE JRNL TITL 4 SEMI-CLOSED STATE. JRNL REF GLYCOBIOLOGY V. 24 237 2014 JRNL REFN ISSN 0959-6658 JRNL PMID 24265507 JRNL DOI 10.1093/GLYCOB/CWT098 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 44856 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) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2269 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2942 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.52 REMARK 3 BIN R VALUE (WORKING SET) : 0.4520 REMARK 3 BIN FREE R VALUE SET COUNT : 185 REMARK 3 BIN FREE R VALUE : 0.5250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2320 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 317 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.68000 REMARK 3 B22 (A**2) : 0.31000 REMARK 3 B33 (A**2) : 0.37000 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): 0.082 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.085 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.050 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.371 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2431 ; 0.025 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1681 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3304 ; 2.297 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4045 ; 1.168 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 280 ; 6.685 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 115 ;34.124 ;22.435 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 407 ;14.402 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;19.404 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 364 ; 0.148 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2623 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 540 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.20 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4FRD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1000073259. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-DEC-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 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) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC BLUE MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK 9.4SSI, CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44858 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 4.430 REMARK 200 R MERGE (I) : 0.03600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.31900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: 1LZ7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1% PEG 4000, 5% MPD, 5 MM MANGANESE REMARK 280 CHLORIDE, 100 MM AMMONIUM SULFATE, 70 MM SODIUM CHLORIDE, 50 MM REMARK 280 ADA, 30 MM SODIUM ACETATE WITH 20% MPD AS CRYOPROTECTANT, PH 8.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 39.87500 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 39.87500 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 26.26000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 74.64000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 26.26000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 74.64000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.87500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 26.26000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 74.64000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 39.87500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 26.26000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 74.64000 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: 7530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 -52.52000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 39.87500 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 ASP A 194 REMARK 465 PHE A 195 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 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 HG CYS A 196 O HOH A 788 1.04 REMARK 500 HD1 HIS A 233 H SER A 235 1.29 REMARK 500 HH22 ARG A 110 HD22 ASN A 113 1.35 REMARK 500 HE ARG A 282 O HOH A 792 1.60 REMARK 500 O HOH A 582 O HOH A 648 1.74 REMARK 500 O HOH A 652 O HOH A 749 1.89 REMARK 500 O HOH A 607 O HOH A 708 2.09 REMARK 500 O HOH A 572 O HOH A 719 2.15 REMARK 500 O HOH A 618 O HOH A 671 2.17 REMARK 500 OE1 GLU A 135 O HOH A 584 2.18 REMARK 500 O HOH A 711 O HOH A 789 2.18 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 740 O HOH A 740 4555 1.91 REMARK 500 O HOH A 634 O HOH A 649 3455 2.16 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 GLU A 135 CD GLU A 135 OE2 0.099 REMARK 500 HIS A 140 CG HIS A 140 CD2 0.065 REMARK 500 HIS A 219 CG HIS A 219 CD2 0.055 REMARK 500 ARG A 282 CZ ARG A 282 NH1 0.080 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS A 80 CA - CB - SG ANGL. DEV. = 8.3 DEGREES REMARK 500 TYR A 149 CZ - CE2 - CD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 168 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP A 211 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 213 CB - CG - OD1 ANGL. DEV. = 9.1 DEGREES REMARK 500 ARG A 217 CB - CG - CD ANGL. DEV. = 20.1 DEGREES REMARK 500 ARG A 217 CD - NE - CZ ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG A 217 NE - CZ - NH1 ANGL. DEV. = -12.0 DEGREES REMARK 500 ARG A 217 NE - CZ - NH2 ANGL. DEV. = 10.3 DEGREES REMARK 500 PHE A 244 CB - CG - CD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 PHE A 244 CB - CG - CD1 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP A 259 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 PHE A 269 CB - CG - CD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG A 282 NE - CZ - NH1 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG A 282 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 340 NE - CZ - NH1 ANGL. DEV. = 4.6 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 CYS A 80 -72.14 -49.84 REMARK 500 LEU A 91 30.62 70.87 REMARK 500 LYS A 124 -125.19 53.13 REMARK 500 THR A 245 45.95 -87.50 REMARK 500 PHE A 269 94.19 -161.43 REMARK 500 HIS A 301 -129.20 56.70 REMARK 500 LEU A 324 102.05 -160.59 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 A 403 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 211 OD2 REMARK 620 2 ASP A 213 OD1 107.0 REMARK 620 3 UDP A 401 O3B 95.4 157.0 REMARK 620 4 UDP A 401 O1A 103.7 77.8 92.7 REMARK 620 5 HOH A 596 O 79.2 98.4 90.2 175.7 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4FQW RELATED DB: PDB REMARK 900 RELATED ID: 4FRA RELATED DB: PDB REMARK 900 RELATED ID: 4FRB RELATED DB: PDB REMARK 900 RELATED ID: 4FRE RELATED DB: PDB REMARK 900 RELATED ID: 4FRH RELATED DB: PDB REMARK 900 RELATED ID: 4FRL RELATED DB: PDB REMARK 900 RELATED ID: 4FRM RELATED DB: PDB REMARK 900 RELATED ID: 4FRO RELATED DB: PDB REMARK 900 RELATED ID: 4FRP RELATED DB: PDB REMARK 900 RELATED ID: 4FRQ RELATED DB: PDB DBREF 4FRD A 64 354 UNP H6A2X0 H6A2X0_HUMAN 64 354 SEQADV 4FRD PHE A 62 UNP H6A2X0 EXPRESSION TAG SEQADV 4FRD MET A 63 UNP H6A2X0 EXPRESSION TAG SEQADV 4FRD ARG A 176 UNP H6A2X0 GLY 176 ENGINEERED MUTATION SEQADV 4FRD GLY A 268 UNP H6A2X0 ALA 268 ENGINEERED MUTATION SEQADV 4FRD GLU A 355 UNP H6A2X0 EXPRESSION TAG SEQRES 1 A 294 PHE MET VAL SER LEU PRO ARG MET VAL TYR PRO GLN PRO SEQRES 2 A 294 LYS VAL LEU THR PRO CYS ARG LYS ASP VAL LEU VAL VAL SEQRES 3 A 294 THR PRO TRP LEU ALA PRO ILE VAL TRP GLU GLY THR PHE SEQRES 4 A 294 ASN ILE ASP ILE LEU ASN GLU GLN PHE ARG LEU GLN ASN SEQRES 5 A 294 THR THR ILE GLY LEU THR VAL PHE ALA ILE LYS LYS TYR SEQRES 6 A 294 VAL ALA PHE LEU LYS LEU PHE LEU GLU THR ALA GLU LYS SEQRES 7 A 294 HIS PHE MET VAL GLY HIS ARG VAL HIS TYR TYR VAL PHE SEQRES 8 A 294 THR ASP GLN PRO ALA ALA VAL PRO ARG VAL THR LEU GLY SEQRES 9 A 294 THR GLY ARG GLN LEU SER VAL LEU GLU VAL ARG ALA TYR SEQRES 10 A 294 LYS ARG TRP GLN ASP VAL SER MET ARG ARG MET GLU MET SEQRES 11 A 294 ILE SER ASP PHE CYS GLU ARG ARG PHE LEU SER GLU VAL SEQRES 12 A 294 ASP TYR LEU VAL CYS VAL ASP VAL ASP MET GLU PHE ARG SEQRES 13 A 294 ASP HIS VAL GLY VAL GLU ILE LEU THR PRO LEU PHE GLY SEQRES 14 A 294 THR LEU HIS PRO SER PHE TYR GLY SER SER ARG GLU ALA SEQRES 15 A 294 PHE THR TYR GLU ARG ARG PRO GLN SER GLN ALA TYR ILE SEQRES 16 A 294 PRO LYS ASP GLU GLY ASP PHE TYR TYR MET GLY GLY PHE SEQRES 17 A 294 PHE GLY GLY SER VAL GLN GLU VAL GLN ARG LEU THR ARG SEQRES 18 A 294 ALA CYS HIS GLN ALA MET MET VAL ASP GLN ALA ASN GLY SEQRES 19 A 294 ILE GLU ALA VAL TRP HIS ASP GLU SER HIS LEU ASN LYS SEQRES 20 A 294 TYR LEU LEU ARG HIS LYS PRO THR LYS VAL LEU SER PRO SEQRES 21 A 294 GLU TYR LEU TRP ASP GLN GLN LEU LEU GLY TRP PRO ALA SEQRES 22 A 294 VAL LEU ARG LYS LEU ARG PHE THR ALA VAL PRO LYS ASN SEQRES 23 A 294 HIS GLN ALA VAL ARG ASN PRO GLU HET UDP A 401 36 HET GAL A 402 24 HET MN A 403 1 HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM MN MANGANESE (II) ION HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE FORMUL 2 UDP C9 H14 N2 O12 P2 FORMUL 3 GAL C6 H12 O6 FORMUL 4 MN MN 2+ FORMUL 5 HOH *317(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 ARG A 180 ARG A 187 1 8 HELIX 6 6 ARG A 187 SER A 193 1 7 HELIX 7 7 GLU A 197 VAL A 204 1 8 HELIX 8 8 GLY A 221 LEU A 225 5 5 HELIX 9 9 SER A 240 PHE A 244 5 5 HELIX 10 10 VAL A 274 ASN A 294 1 21 HELIX 11 11 TRP A 300 HIS A 313 1 14 HELIX 12 12 PRO A 321 LEU A 324 5 4 HELIX 13 13 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 THR A 119 O VAL A 208 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 OD2 ASP A 211 MN MN A 403 1555 1555 2.44 LINK OD1 ASP A 213 MN MN A 403 1555 1555 2.30 LINK O3B UDP A 401 MN MN A 403 1555 1555 2.09 LINK O1A UDP A 401 MN MN A 403 1555 1555 2.11 LINK MN MN A 403 O HOH A 596 1555 1555 2.38 CRYST1 52.520 149.280 79.750 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 0.019040 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006699 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012539 0.00000