HEADER OXIDOREDUCTASE 27-MAR-17 5NIW TITLE GLUCOSE OXYDASE MUTANT A2 CAVEAT 5NIW NAG A 607 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCOSE OXIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BETA-D-GLUCOSE:OXYGEN 1-OXIDO-REDUCTASE,GLUCOSE OXYHYDRASE, COMPND 5 GOD; COMPND 6 EC: 1.1.3.4; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ASPERGILLUS NIGER; SOURCE 3 ORGANISM_TAXID: 5061; SOURCE 4 GENE: GOX; SOURCE 5 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922 KEYWDS OXYGEN ACTIVATION, HIS516 CONFORMATION, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR K.HOFFMANN,D.FRANK REVDAT 5 20-NOV-24 5NIW 1 REMARK HETSYN REVDAT 4 29-JUL-20 5NIW 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 16-OCT-19 5NIW 1 REMARK REVDAT 2 10-JAN-18 5NIW 1 JRNL REVDAT 1 15-NOV-17 5NIW 0 JRNL AUTH D.PETROVIC,D.FRANK,S.C.L.KAMERLIN,K.HOFFMANN,B.STRODEL JRNL TITL SHUFFLING ACTIVE SITE SUBSTATE POPULATIONS AFFECTS CATALYTIC JRNL TITL 2 ACTIVITY: THE CASE OF GLUCOSE OXIDASE. JRNL REF ACS CATAL V. 7 6188 2017 JRNL REFN ESSN 2155-5435 JRNL PMID 29291138 JRNL DOI 10.1021/ACSCATAL.7B01575 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 110.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 64400 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) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3389 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4608 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.45 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 236 REMARK 3 BIN FREE R VALUE : 0.2370 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4401 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 294 REMARK 3 SOLVENT ATOMS : 364 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.23000 REMARK 3 B22 (A**2) : 0.23000 REMARK 3 B33 (A**2) : -0.76000 REMARK 3 B12 (A**2) : 0.12000 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): 0.096 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.098 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4838 ; 0.023 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4264 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6580 ; 2.206 ; 1.995 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9924 ; 1.177 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 583 ; 6.457 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 213 ;35.257 ;24.554 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 664 ;11.158 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;17.047 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 727 ; 0.133 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5317 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 953 ; 0.002 ; 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): 2318 ; 1.281 ; 1.849 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2317 ; 1.263 ; 1.847 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2896 ; 1.747 ; 2.764 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2897 ; 1.750 ; 2.766 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2520 ; 2.249 ; 2.235 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2520 ; 2.242 ; 2.235 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3682 ; 3.300 ; 3.223 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5633 ; 4.684 ;23.961 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5634 ; 4.687 ;23.969 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 2602 REMARK 3 ORIGIN FOR THE GROUP (A): 21.6328 162.6945 80.7387 REMARK 3 T TENSOR REMARK 3 T11: 0.0176 T22: 0.0299 REMARK 3 T33: 0.0068 T12: -0.0198 REMARK 3 T13: -0.0007 T23: 0.0043 REMARK 3 L TENSOR REMARK 3 L11: 0.4317 L22: 0.4483 REMARK 3 L33: 0.2272 L12: 0.2448 REMARK 3 L13: -0.0969 L23: -0.1124 REMARK 3 S TENSOR REMARK 3 S11: 0.0454 S12: -0.0457 S13: -0.0016 REMARK 3 S21: 0.0530 S22: -0.0167 S23: 0.0292 REMARK 3 S31: -0.0162 S32: 0.0230 S33: -0.0287 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 0.50 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 5NIW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1200004208. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-12 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 : ENRAF-NONIUS FR591 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54179 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67817 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.790 REMARK 200 RESOLUTION RANGE LOW (A) : 41.930 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 11.10 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: NULL REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES 45% V/V DIOXANE, PH 7.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 280K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.76667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 25.88333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 25.88333 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 51.76667 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 68.0 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 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 374 REMARK 465 MET A 582 REMARK 465 GLN A 583 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 LYS A 13 CD CE NZ REMARK 470 LYS A 187 CG CD CE NZ REMARK 470 LYS A 282 CD CE NZ REMARK 470 LYS A 306 CD CE NZ REMARK 470 GLU A 310 CD OE1 OE2 REMARK 470 LYS A 364 CD CE NZ REMARK 470 GLU A 527 CG CD OE1 OE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 527 C O 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 ASN A 275 O HOH A 701 1.86 REMARK 500 OD2 ASP A 57 O HOH A 702 1.89 REMARK 500 NH1 ARG A 196 O HOH A 703 2.02 REMARK 500 ND1 HIS A 277 O HOH A 704 2.15 REMARK 500 ND2 ASN A 258 O5 NAG A 607 2.18 REMARK 500 O HOH A 715 O HOH A 830 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 O3 NAG A 607 O3 NAG A 607 6767 1.86 REMARK 500 O2 PEG A 624 O HOH A 974 2774 1.93 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 TYR A 80 CG TYR A 80 CD1 0.082 REMARK 500 LEU A 373 C LEU A 373 O 0.125 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 ASP A 57 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 57 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 57 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG A 58 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 64 CB - CG - OD1 ANGL. DEV. = 9.1 DEGREES REMARK 500 ASP A 222 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 263 NE - CZ - NH1 ANGL. DEV. = -5.3 DEGREES REMARK 500 ARG A 263 NE - CZ - NH2 ANGL. DEV. = 4.4 DEGREES REMARK 500 ASP A 424 CB - CG - OD1 ANGL. DEV. = 7.2 DEGREES REMARK 500 ASP A 424 CB - CG - OD2 ANGL. DEV. = -7.1 DEGREES REMARK 500 ASP A 427 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 433 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 433 NE - CZ - NH2 ANGL. DEV. = -4.6 DEGREES REMARK 500 ASP A 499 CB - CG - OD1 ANGL. DEV. = 7.5 DEGREES REMARK 500 ASP A 533 CB - CG - OD1 ANGL. DEV. = 8.5 DEGREES REMARK 500 ARG A 545 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG A 545 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ASP A 573 CB - CG - OD2 ANGL. DEV. = -5.9 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 TRP A 131 56.85 -101.41 REMARK 500 PHE A 204 2.21 -69.26 REMARK 500 GLN A 223 1.32 89.10 REMARK 500 HIS A 283 -73.31 -101.77 REMARK 500 THR A 417 -118.40 -113.50 REMARK 500 HIS A 510 53.48 -146.42 REMARK 500 ASP A 548 -162.55 -110.31 REMARK 500 REMARK 500 REMARK: NULL DBREF 5NIW A 3 583 UNP P13006 GOX_ASPNG 25 605 SEQADV 5NIW VAL A 30 UNP P13006 THR 52 CONFLICT SEQADV 5NIW LYS A 37 UNP P13006 ARG 59 CONFLICT SEQADV 5NIW VAL A 94 UNP P13006 ILE 116 CONFLICT SEQADV 5NIW ILE A 106 UNP P13006 VAL 128 CONFLICT SEQADV 5NIW THR A 162 UNP P13006 ALA 184 CONFLICT SEQADV 5NIW VAL A 556 UNP P13006 MET 578 CONFLICT SEQRES 1 A 581 GLY ILE GLU ALA SER LEU LEU THR ASP PRO LYS ASP VAL SEQRES 2 A 581 SER GLY ARG THR VAL ASP TYR ILE ILE ALA GLY GLY GLY SEQRES 3 A 581 LEU VAL GLY LEU THR THR ALA ALA LYS LEU THR GLU ASN SEQRES 4 A 581 PRO ASN ILE SER VAL LEU VAL ILE GLU SER GLY SER TYR SEQRES 5 A 581 GLU SER ASP ARG GLY PRO ILE ILE GLU ASP LEU ASN ALA SEQRES 6 A 581 TYR GLY ASP ILE PHE GLY SER SER VAL ASP HIS ALA TYR SEQRES 7 A 581 GLU THR VAL GLU LEU ALA THR ASN ASN GLN THR ALA LEU SEQRES 8 A 581 VAL ARG SER GLY ASN GLY LEU GLY GLY SER THR LEU ILE SEQRES 9 A 581 ASN GLY GLY THR TRP THR ARG PRO HIS LYS ALA GLN VAL SEQRES 10 A 581 ASP SER TRP GLU THR VAL PHE GLY ASN GLU GLY TRP ASN SEQRES 11 A 581 TRP ASP ASN VAL ALA ALA TYR SER LEU GLN ALA GLU ARG SEQRES 12 A 581 ALA ARG ALA PRO ASN ALA LYS GLN ILE ALA ALA GLY HIS SEQRES 13 A 581 TYR PHE ASN THR SER CYS HIS GLY VAL ASN GLY THR VAL SEQRES 14 A 581 HIS ALA GLY PRO ARG ASP THR GLY ASP ASP TYR SER PRO SEQRES 15 A 581 ILE VAL LYS ALA LEU MET SER ALA VAL GLU ASP ARG GLY SEQRES 16 A 581 VAL PRO THR LYS LYS ASP PHE GLY CYS GLY ASP PRO HIS SEQRES 17 A 581 GLY VAL SER MET PHE PRO ASN THR LEU HIS GLU ASP GLN SEQRES 18 A 581 VAL ARG SER ASP ALA ALA ARG GLU TRP LEU LEU PRO ASN SEQRES 19 A 581 TYR GLN ARG PRO ASN LEU GLN VAL LEU THR GLY GLN TYR SEQRES 20 A 581 VAL GLY LYS VAL LEU LEU SER GLN ASN GLY THR THR PRO SEQRES 21 A 581 ARG ALA VAL GLY VAL GLU PHE GLY THR HIS LYS GLY ASN SEQRES 22 A 581 THR HIS ASN VAL TYR ALA LYS HIS GLU VAL LEU LEU ALA SEQRES 23 A 581 ALA GLY SER ALA VAL SER PRO THR ILE LEU GLU TYR SER SEQRES 24 A 581 GLY ILE GLY MET LYS SER ILE LEU GLU PRO LEU GLY ILE SEQRES 25 A 581 ASP THR VAL VAL ASP LEU PRO VAL GLY LEU ASN LEU GLN SEQRES 26 A 581 ASP GLN THR THR ALA THR VAL ARG SER ARG ILE THR SER SEQRES 27 A 581 ALA GLY ALA GLY GLN GLY GLN ALA ALA TRP PHE ALA THR SEQRES 28 A 581 PHE ASN GLU THR PHE GLY ASP TYR SER GLU LYS ALA HIS SEQRES 29 A 581 GLU LEU LEU ASN THR LYS LEU GLU GLN TRP ALA GLU GLU SEQRES 30 A 581 ALA VAL ALA ARG GLY GLY PHE HIS ASN THR THR ALA LEU SEQRES 31 A 581 LEU ILE GLN TYR GLU ASN TYR ARG ASP TRP ILE VAL ASN SEQRES 32 A 581 HIS ASN VAL ALA TYR SER GLU LEU PHE LEU ASP THR ALA SEQRES 33 A 581 GLY VAL ALA SER PHE ASP VAL TRP ASP LEU LEU PRO PHE SEQRES 34 A 581 THR ARG GLY TYR VAL HIS ILE LEU ASP LYS ASP PRO TYR SEQRES 35 A 581 LEU HIS HIS PHE ALA TYR ASP PRO GLN TYR PHE LEU ASN SEQRES 36 A 581 GLU LEU ASP LEU LEU GLY GLN ALA ALA ALA THR GLN LEU SEQRES 37 A 581 ALA ARG ASN ILE SER ASN SER GLY ALA MET GLN THR TYR SEQRES 38 A 581 PHE ALA GLY GLU THR ILE PRO GLY ASP ASN LEU ALA TYR SEQRES 39 A 581 ASP ALA ASP LEU SER ALA TRP THR GLU TYR ILE PRO TYR SEQRES 40 A 581 HIS PHE ARG PRO ASN TYR HIS GLY VAL GLY THR CYS SER SEQRES 41 A 581 MET MET PRO LYS GLU MET GLY GLY VAL VAL ASP ASN ALA SEQRES 42 A 581 ALA ARG VAL TYR GLY VAL GLN GLY LEU ARG VAL ILE ASP SEQRES 43 A 581 GLY SER ILE PRO PRO THR GLN VAL SER SER HIS VAL MET SEQRES 44 A 581 THR VAL PHE TYR ALA MET ALA LEU LYS ILE SER ASP ALA SEQRES 45 A 581 ILE LEU GLU ASP TYR ALA SER MET GLN HET NAG B 1 14 HET NAG B 2 14 HET BMA B 3 11 HET FAD A 601 53 HET OXY A 602 2 HET NAG A 606 14 HET NAG A 607 14 HET NAG A 608 14 HET NAG A 609 14 HET NAG A 610 14 HET DIO A 611 6 HET DIO A 612 6 HET DIO A 613 6 HET DIO A 614 6 HET DIO A 615 6 HET DIO A 616 6 HET DIO A 617 6 HET DIO A 618 6 HET DIO A 619 6 HET DIO A 620 6 HET DIO A 621 6 HET DIO A 622 6 HET PEG A 623 7 HET PEG A 624 7 HET P4C A 625 22 HET P4C A 626 22 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM OXY OXYGEN MOLECULE HETNAM DIO 1,4-DIETHYLENE DIOXIDE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM P4C O-ACETALDEHYDYL-HEXAETHYLENE GLYCOL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN P4C POLYETHYLENE 400 FORMUL 2 NAG 7(C8 H15 N O6) FORMUL 2 BMA C6 H12 O6 FORMUL 3 FAD C27 H33 N9 O15 P2 FORMUL 4 OXY O2 FORMUL 10 DIO 12(C4 H8 O2) FORMUL 22 PEG 2(C4 H10 O3) FORMUL 24 P4C 2(C14 H28 O8) FORMUL 26 HOH *364(H2 O) HELIX 1 AA1 GLY A 3 LEU A 8 1 6 HELIX 2 AA2 ASP A 11 VAL A 15 5 5 HELIX 3 AA3 GLY A 28 THR A 39 1 12 HELIX 4 AA4 GLY A 59 ASP A 64 1 6 HELIX 5 AA5 LEU A 65 TYR A 68 5 4 HELIX 6 AA6 GLY A 101 ILE A 106 5 6 HELIX 7 AA7 HIS A 115 VAL A 125 1 11 HELIX 8 AA8 ASN A 132 ALA A 143 1 12 HELIX 9 AA9 ASN A 150 GLY A 157 1 8 HELIX 10 AB1 ASN A 161 HIS A 165 5 5 HELIX 11 AB2 PRO A 184 ASP A 195 1 12 HELIX 12 AB3 ASP A 227 LEU A 233 1 7 HELIX 13 AB4 VAL A 293 SER A 301 1 9 HELIX 14 AB5 MET A 305 GLU A 310 1 6 HELIX 15 AB6 PRO A 311 GLY A 313 5 3 HELIX 16 AB7 SER A 340 ALA A 343 5 4 HELIX 17 AB8 PHE A 354 GLY A 359 1 6 HELIX 18 AB9 TYR A 361 LYS A 372 1 12 HELIX 19 AC1 TRP A 376 ARG A 383 1 8 HELIX 20 AC2 ASN A 388 ASN A 407 1 20 HELIX 21 AC3 ASP A 442 HIS A 446 5 5 HELIX 22 AC4 ASN A 457 ASN A 476 1 20 HELIX 23 AC5 SER A 477 THR A 482 5 6 HELIX 24 AC6 PRO A 490 LEU A 494 5 5 HELIX 25 AC7 ASP A 499 ILE A 507 1 9 HELIX 26 AC8 PRO A 508 HIS A 510 5 3 HELIX 27 AC9 PRO A 525 GLY A 529 5 5 HELIX 28 AD1 VAL A 560 SER A 581 1 22 SHEET 1 AA1 6 LEU A 242 LEU A 245 0 SHEET 2 AA1 6 VAL A 46 ILE A 49 1 N VAL A 48 O LEU A 245 SHEET 3 AA1 6 THR A 19 ALA A 25 1 N ILE A 24 O LEU A 47 SHEET 4 AA1 6 THR A 276 LEU A 287 1 O LEU A 286 N ILE A 23 SHEET 5 AA1 6 THR A 261 GLY A 270 -1 N VAL A 267 O VAL A 279 SHEET 6 AA1 6 TYR A 249 ASN A 258 -1 N SER A 256 O ARG A 263 SHEET 1 AA2 5 LEU A 242 LEU A 245 0 SHEET 2 AA2 5 VAL A 46 ILE A 49 1 N VAL A 48 O LEU A 245 SHEET 3 AA2 5 THR A 19 ALA A 25 1 N ILE A 24 O LEU A 47 SHEET 4 AA2 5 THR A 276 LEU A 287 1 O LEU A 286 N ILE A 23 SHEET 5 AA2 5 LEU A 544 VAL A 546 1 O ARG A 545 N LEU A 287 SHEET 1 AA3 2 TYR A 80 GLU A 81 0 SHEET 2 AA3 2 LEU A 93 VAL A 94 -1 O VAL A 94 N TYR A 80 SHEET 1 AA4 2 GLU A 144 ALA A 146 0 SHEET 2 AA4 2 VAL A 171 ALA A 173 1 O VAL A 171 N ARG A 145 SHEET 1 AA5 6 GLY A 211 SER A 213 0 SHEET 2 AA5 6 GLN A 347 THR A 353 -1 O PHE A 351 N GLY A 211 SHEET 3 AA5 6 ALA A 409 ASP A 416 -1 O TYR A 410 N ALA A 352 SHEET 4 AA5 6 VAL A 420 ASP A 427 -1 O ASP A 424 N PHE A 414 SHEET 5 AA5 6 THR A 330 ILE A 338 -1 N VAL A 334 O PHE A 423 SHEET 6 AA5 6 PHE A 484 ILE A 489 -1 O ALA A 485 N ARG A 337 SHEET 1 AA6 6 GLY A 211 SER A 213 0 SHEET 2 AA6 6 GLN A 347 THR A 353 -1 O PHE A 351 N GLY A 211 SHEET 3 AA6 6 ALA A 409 ASP A 416 -1 O TYR A 410 N ALA A 352 SHEET 4 AA6 6 VAL A 420 ASP A 427 -1 O ASP A 424 N PHE A 414 SHEET 5 AA6 6 THR A 330 ILE A 338 -1 N VAL A 334 O PHE A 423 SHEET 6 AA6 6 ARG A 512 PRO A 513 -1 O ARG A 512 N THR A 331 SHEET 1 AA7 2 ILE A 303 GLY A 304 0 SHEET 2 AA7 2 VAL A 318 ASP A 319 1 O VAL A 318 N GLY A 304 SHEET 1 AA8 3 LEU A 324 LEU A 326 0 SHEET 2 AA8 3 GLY A 434 ILE A 438 -1 O GLY A 434 N LEU A 326 SHEET 3 AA8 3 PHE A 448 ASP A 451 -1 O ALA A 449 N HIS A 437 SSBOND 1 CYS A 164 CYS A 206 1555 1555 2.07 LINK ND2 ASN A 89 C1 NAG B 1 1555 1555 1.41 LINK ND2 ASN A 161 C1 NAG A 606 1555 1555 1.44 LINK ND2 ASN A 258 C1 NAG A 607 1555 1555 1.44 LINK ND2 ASN A 355 C1 NAG A 608 1555 1555 1.45 LINK ND2 ASN A 388 C1 NAG A 609 1555 1555 1.44 LINK ND2 ASN A 473 C1 NAG A 610 1555 1555 1.43 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.41 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.46 CISPEP 1 ILE A 489 PRO A 490 0 -6.73 CRYST1 128.100 128.100 77.650 90.00 90.00 120.00 P 32 2 1 6 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 0.007806 0.004507 0.000000 0.00000 SCALE2 0.000000 0.009014 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012878 0.00000