HEADER TRANSFERASE 08-MAY-14 4QBG TITLE CRYSTAL STRUCTURE OF A STABLE ADENYLATE KINASE VARIANT AKLSE4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENYLATE KINASE; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: AK, ATP-AMP TRANSPHOSPHORYLASE, ATP/AMP PHOSPHOTRANSFERASE, COMPND 5 ADENYLATE MONOPHOSPHATE KINASE, SUPEROXIDE-INDUCIBLE PROTEIN 16, COMPND 6 SOI16; COMPND 7 EC: 2.7.4.3; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 224308; SOURCE 4 STRAIN: 168; SOURCE 5 GENE: ADK, BSU01370; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ADENYLATE KINASE, ZINC FINGER, PHOSPHOTRANSFERASE ACTIVITY, ZINC KEYWDS 2 BINDING, ATP BINDING, PHOSPHORYLATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.MOON,E.BAE REVDAT 3 08-NOV-23 4QBG 1 REMARK LINK REVDAT 2 25-DEC-19 4QBG 1 JRNL SEQADV REVDAT 1 25-JUN-14 4QBG 0 JRNL AUTH S.MOON,R.M.BANNEN,T.J.RUTKOSKI,G.N.PHILLIPS JR.,E.BAE JRNL TITL EFFECTIVENESS AND LIMITATIONS OF LOCAL STRUCTURAL ENTROPY JRNL TITL 2 OPTIMIZATION IN THE THERMAL STABILIZATION OF MESOPHILIC AND JRNL TITL 3 THERMOPHILIC ADENYLATE KINASES. JRNL REF PROTEINS V. 82 2631 2014 JRNL REFN ESSN 1097-0134 JRNL PMID 24931334 JRNL DOI 10.1002/PROT.24627 REMARK 2 REMARK 2 RESOLUTION. 1.37 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 1.37 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.32 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 41955 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2265 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) : 1.37 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2959 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.31 REMARK 3 BIN R VALUE (WORKING SET) : 0.3180 REMARK 3 BIN FREE R VALUE SET COUNT : 152 REMARK 3 BIN FREE R VALUE : 0.3530 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1706 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 59 REMARK 3 SOLVENT ATOMS : 232 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.44000 REMARK 3 B22 (A**2) : -0.46000 REMARK 3 B33 (A**2) : 0.24000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.28000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.061 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.068 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.053 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.845 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1791 ; 0.026 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1727 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2421 ; 2.510 ; 2.035 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3986 ; 1.357 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 216 ; 5.540 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 82 ;33.683 ;24.268 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 335 ;12.297 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;17.163 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 266 ; 0.151 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1969 ; 0.015 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 377 ; 0.008 ; 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): 867 ; 1.499 ; 1.394 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 866 ; 1.496 ; 1.391 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1082 ; 1.880 ; 2.096 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1083 ; 1.882 ; 2.098 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 924 ; 3.070 ; 1.719 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 925 ; 3.068 ; 1.718 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1340 ; 4.615 ; 2.421 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2244 ; 8.480 ;13.597 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2139 ; 8.372 ;12.373 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 : 4 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 : B 31 B 60 REMARK 3 ORIGIN FOR THE GROUP (A): 21.8059 -1.4839 -3.7486 REMARK 3 T TENSOR REMARK 3 T11: 0.0398 T22: 0.0776 REMARK 3 T33: 0.0122 T12: -0.0249 REMARK 3 T13: 0.0048 T23: -0.0121 REMARK 3 L TENSOR REMARK 3 L11: 2.8741 L22: 2.5501 REMARK 3 L33: 2.7577 L12: 0.0000 REMARK 3 L13: -0.0120 L23: 0.2082 REMARK 3 S TENSOR REMARK 3 S11: -0.0182 S12: 0.2846 S13: 0.0287 REMARK 3 S21: -0.2994 S22: 0.0971 S23: -0.0391 REMARK 3 S31: -0.0579 S32: 0.1700 S33: -0.0788 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 127 B 164 REMARK 3 ORIGIN FOR THE GROUP (A): 7.6959 -15.8477 -6.3669 REMARK 3 T TENSOR REMARK 3 T11: 0.0522 T22: 0.0604 REMARK 3 T33: 0.0668 T12: 0.0421 REMARK 3 T13: -0.0164 T23: -0.0350 REMARK 3 L TENSOR REMARK 3 L11: 4.2256 L22: 0.7974 REMARK 3 L33: 1.9854 L12: -0.3053 REMARK 3 L13: 1.4702 L23: -0.1410 REMARK 3 S TENSOR REMARK 3 S11: -0.0180 S12: -0.0356 S13: -0.0549 REMARK 3 S21: -0.0044 S22: 0.0340 S23: 0.0620 REMARK 3 S31: -0.1705 S32: -0.0140 S33: -0.0160 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 30 REMARK 3 RESIDUE RANGE : B 61 B 126 REMARK 3 RESIDUE RANGE : B 165 B 217 REMARK 3 ORIGIN FOR THE GROUP (A): 18.2193 -6.9182 14.3104 REMARK 3 T TENSOR REMARK 3 T11: 0.0316 T22: 0.0283 REMARK 3 T33: 0.0409 T12: -0.0088 REMARK 3 T13: -0.0054 T23: 0.0046 REMARK 3 L TENSOR REMARK 3 L11: 1.6299 L22: 1.3028 REMARK 3 L33: 1.5891 L12: -0.0506 REMARK 3 L13: 0.2372 L23: 0.2538 REMARK 3 S TENSOR REMARK 3 S11: 0.0979 S12: -0.1010 S13: -0.1013 REMARK 3 S21: 0.1719 S22: 0.0095 S23: 0.0540 REMARK 3 S31: 0.0837 S32: 0.0198 S33: -0.1075 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 302 B 302 REMARK 3 ORIGIN FOR THE GROUP (A): 16.9180 -11.3787 5.0815 REMARK 3 T TENSOR REMARK 3 T11: 0.2055 T22: 0.1576 REMARK 3 T33: 0.2045 T12: 0.0275 REMARK 3 T13: -0.0490 T23: -0.0434 REMARK 3 L TENSOR REMARK 3 L11: 3.2239 L22: 4.3381 REMARK 3 L33: 1.8290 L12: 3.4441 REMARK 3 L13: -1.8329 L23: -1.5478 REMARK 3 S TENSOR REMARK 3 S11: -0.0821 S12: 0.1082 S13: -0.1499 REMARK 3 S21: -0.1786 S22: 0.0548 S23: -0.0270 REMARK 3 S31: 0.2763 S32: 0.0369 S33: 0.0274 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 REMARK 4 REMARK 4 4QBG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-MAY-14. REMARK 100 THE DEPOSITION ID IS D_1000085843. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-SEP-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 7A (6B, 6C1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : DCM SI (111) CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44220 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.370 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : 1.37 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.1 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4MKG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 32% (W/V) POLYETHYLENE GLYCOL 4000, REMARK 280 250MM MGCL2, 100MM TRIS PH 8.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 34.40850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.51000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 34.40850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.51000 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 564 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 576 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 614 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 621 LIES ON A SPECIAL POSITION. 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 B 70 CD GLU B 70 OE2 0.076 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 B 69 NE - CZ - NH2 ANGL. DEV. = -6.5 DEGREES REMARK 500 GLU B 70 OE1 - CD - OE2 ANGL. DEV. = -9.3 DEGREES REMARK 500 MET B 103 CG - SD - CE ANGL. DEV. = 11.4 DEGREES REMARK 500 MET B 121 CG - SD - CE ANGL. DEV. = -13.4 DEGREES REMARK 500 ARG B 128 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ASP B 153 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ASP B 163 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 LEU B 208 CB - CG - CD2 ANGL. DEV. = -12.1 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 ASN B 142 59.05 -155.39 REMARK 500 GLN B 198 58.94 -94.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 88 0.08 SIDE CHAIN 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 ZN B 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 130 SG REMARK 620 2 CYS B 133 SG 112.6 REMARK 620 3 CYS B 150 SG 106.4 109.9 REMARK 620 4 ASP B 153 OD1 98.9 133.4 91.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 AP5 B 302 O2G REMARK 620 2 AP5 B 302 O2B 87.7 REMARK 620 3 HOH B 424 O 94.4 90.6 REMARK 620 4 HOH B 428 O 88.0 175.2 91.9 REMARK 620 5 HOH B 438 O 174.3 96.8 88.9 87.3 REMARK 620 6 HOH B 456 O 89.3 85.9 174.7 91.9 87.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AP5 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4QBF RELATED DB: PDB REMARK 900 RELATED ID: 4QBH RELATED DB: PDB REMARK 900 RELATED ID: 4QBI RELATED DB: PDB DBREF 4QBG B 1 217 UNP P16304 KAD_BACSU 1 217 SEQADV 4QBG ILE B 3 UNP P16304 LEU 3 ENGINEERED MUTATION SEQADV 4QBG ALA B 17 UNP P16304 GLY 17 ENGINEERED MUTATION SEQADV 4QBG ALA B 22 UNP P16304 GLU 22 ENGINEERED MUTATION SEQADV 4QBG LYS B 23 UNP P16304 ASP 23 ENGINEERED MUTATION SEQADV 4QBG ARG B 69 UNP P16304 LYS 69 ENGINEERED MUTATION SEQADV 4QBG SER B 73 UNP P16304 GLY 73 ENGINEERED MUTATION SEQADV 4QBG SER B 75 UNP P16304 ASP 75 ENGINEERED MUTATION SEQADV 4QBG MET B 103 UNP P16304 TYR 103 ENGINEERED MUTATION SEQADV 4QBG ARG B 105 UNP P16304 LYS 105 ENGINEERED MUTATION SEQADV 4QBG LYS B 106 UNP P16304 PRO 106 ENGINEERED MUTATION SEQADV 4QBG LEU B 107 UNP P16304 ILE 107 ENGINEERED MUTATION SEQADV 4QBG GLU B 108 UNP P16304 ASP 108 ENGINEERED MUTATION SEQADV 4QBG HIS B 109 UNP P16304 TYR 109 ENGINEERED MUTATION SEQADV 4QBG HIS B 112 UNP P16304 ASN 112 ENGINEERED MUTATION SEQADV 4QBG ARG B 116 UNP P16304 ASP 116 ENGINEERED MUTATION SEQADV 4QBG GLN B 117 UNP P16304 LYS 117 ENGINEERED MUTATION SEQADV 4QBG GLU B 118 UNP P16304 ASP 118 ENGINEERED MUTATION SEQADV 4QBG GLU B 119 UNP P16304 VAL 119 ENGINEERED MUTATION SEQADV 4QBG ALA B 169 UNP P16304 SER 169 ENGINEERED MUTATION SEQADV 4QBG MET B 179 UNP P16304 THR 179 ENGINEERED MUTATION SEQADV 4QBG ALA B 180 UNP P16304 GLN 180 ENGINEERED MUTATION SEQADV 4QBG ALA B 184 UNP P16304 ASP 184 ENGINEERED MUTATION SEQADV 4QBG ASP B 187 UNP P16304 SER 187 ENGINEERED MUTATION SEQADV 4QBG SER B 188 UNP P16304 GLU 188 ENGINEERED MUTATION SEQADV 4QBG GLU B 190 UNP P16304 GLY 190 ENGINEERED MUTATION SEQADV 4QBG VAL B 191 UNP P16304 TYR 191 ENGINEERED MUTATION SEQADV 4QBG ARG B 193 UNP P16304 ALA 193 ENGINEERED MUTATION SEQADV 4QBG MET B 201 UNP P16304 ILE 201 ENGINEERED MUTATION SEQADV 4QBG GLU B 202 UNP P16304 GLN 202 ENGINEERED MUTATION SEQADV 4QBG LYS B 203 UNP P16304 ASP 203 ENGINEERED MUTATION SEQADV 4QBG PHE B 205 UNP P16304 TYR 205 ENGINEERED MUTATION SEQADV 4QBG LYS B 206 UNP P16304 ALA 206 ENGINEERED MUTATION SEQADV 4QBG LEU B 208 UNP P16304 VAL 208 ENGINEERED MUTATION SEQADV 4QBG ARG B 209 UNP P16304 LYS 209 ENGINEERED MUTATION SEQADV 4QBG GLU B 210 UNP P16304 ASP 210 ENGINEERED MUTATION SEQADV 4QBG GLN B 213 UNP P16304 GLY 213 ENGINEERED MUTATION SEQADV 4QBG ALA B 216 UNP P16304 LYS 216 ENGINEERED MUTATION SEQADV 4QBG ARG B 217 UNP P16304 LYS 217 ENGINEERED MUTATION SEQRES 1 B 217 MET ASN ILE VAL LEU MET GLY LEU PRO GLY ALA GLY LYS SEQRES 2 B 217 GLY THR GLN ALA GLU ARG ILE VAL ALA LYS TYR GLY ILE SEQRES 3 B 217 PRO HIS ILE SER THR GLY ASP MET PHE ARG ALA ALA MET SEQRES 4 B 217 LYS GLU GLU THR PRO LEU GLY LEU GLU ALA LYS SER TYR SEQRES 5 B 217 ILE ASP LYS GLY GLU LEU VAL PRO ASP GLU VAL THR ILE SEQRES 6 B 217 GLY ILE VAL ARG GLU ARG LEU SER LYS SER ASP CYS GLU SEQRES 7 B 217 ARG GLY PHE LEU LEU ASP GLY PHE PRO ARG THR VAL ALA SEQRES 8 B 217 GLN ALA GLU ALA LEU GLU GLU ILE LEU GLU GLU MET GLY SEQRES 9 B 217 ARG LYS LEU GLU HIS VAL ILE HIS ILE GLU VAL ARG GLN SEQRES 10 B 217 GLU GLU LEU MET GLU ARG LEU THR GLY ARG ARG ILE CYS SEQRES 11 B 217 SER VAL CYS GLY THR THR TYR HIS LEU VAL PHE ASN PRO SEQRES 12 B 217 PRO LYS THR PRO GLY ILE CYS ASP LYS ASP GLY GLY GLU SEQRES 13 B 217 LEU TYR GLN ARG ALA ASP ASP ASN GLU GLU THR VAL ALA SEQRES 14 B 217 LYS ARG LEU GLU VAL ASN MET LYS GLN MET ALA PRO LEU SEQRES 15 B 217 LEU ALA PHE TYR ASP SER LYS GLU VAL LEU ARG ASN VAL SEQRES 16 B 217 ASN GLY GLN GLN ASP MET GLU LYS VAL PHE LYS ASP LEU SEQRES 17 B 217 ARG GLU LEU LEU GLN GLY LEU ALA ARG HET ZN B 301 1 HET AP5 B 302 57 HET MG B 303 1 HETNAM ZN ZINC ION HETNAM AP5 BIS(ADENOSINE)-5'-PENTAPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 2 ZN ZN 2+ FORMUL 3 AP5 C20 H29 N10 O22 P5 FORMUL 4 MG MG 2+ FORMUL 5 HOH *232(H2 O) HELIX 1 1 GLY B 12 GLY B 25 1 14 HELIX 2 2 THR B 31 GLU B 42 1 12 HELIX 3 3 THR B 43 ASP B 54 1 12 HELIX 4 4 PRO B 60 SER B 73 1 14 HELIX 5 5 LYS B 74 GLU B 78 5 5 HELIX 6 6 THR B 89 MET B 103 1 15 HELIX 7 7 ARG B 116 THR B 125 1 10 HELIX 8 8 ASN B 164 LYS B 189 1 26 HELIX 9 9 ASP B 200 GLN B 213 1 14 SHEET 1 A 5 HIS B 28 SER B 30 0 SHEET 2 A 5 PHE B 81 ASP B 84 1 O LEU B 82 N ILE B 29 SHEET 3 A 5 ASN B 2 MET B 6 1 N ILE B 3 O LEU B 83 SHEET 4 A 5 HIS B 109 GLU B 114 1 O ILE B 111 N VAL B 4 SHEET 5 A 5 LEU B 192 ASN B 196 1 O ARG B 193 N HIS B 112 SHEET 1 B 3 THR B 136 HIS B 138 0 SHEET 2 B 3 ARG B 127 CYS B 130 -1 N ARG B 128 O TYR B 137 SHEET 3 B 3 LEU B 157 TYR B 158 -1 O TYR B 158 N ILE B 129 LINK SG CYS B 130 ZN ZN B 301 1555 1555 2.34 LINK SG CYS B 133 ZN ZN B 301 1555 1555 2.25 LINK SG CYS B 150 ZN ZN B 301 1555 1555 2.42 LINK OD1 ASP B 153 ZN ZN B 301 1555 1555 2.36 LINK O2G AP5 B 302 MG MG B 303 1555 1555 2.03 LINK O2B AP5 B 302 MG MG B 303 1555 1555 2.11 LINK MG MG B 303 O HOH B 424 1555 1555 2.08 LINK MG MG B 303 O HOH B 428 1555 1555 2.10 LINK MG MG B 303 O HOH B 438 1555 1555 2.07 LINK MG MG B 303 O HOH B 456 1555 1555 2.09 CISPEP 1 PHE B 86 PRO B 87 0 -4.79 SITE 1 AC1 4 CYS B 130 CYS B 133 CYS B 150 ASP B 153 SITE 1 AC2 38 PRO B 9 GLY B 10 ALA B 11 GLY B 12 SITE 2 AC2 38 LYS B 13 GLY B 14 THR B 15 THR B 31 SITE 3 AC2 38 GLY B 32 ARG B 36 ILE B 53 GLU B 57 SITE 4 AC2 38 VAL B 59 THR B 64 GLY B 85 PHE B 86 SITE 5 AC2 38 ARG B 88 GLN B 92 ARG B 123 ARG B 127 SITE 6 AC2 38 ARG B 171 GLN B 199 MET B 201 MG B 303 SITE 7 AC2 38 HOH B 407 HOH B 412 HOH B 424 HOH B 428 SITE 8 AC2 38 HOH B 441 HOH B 446 HOH B 451 HOH B 452 SITE 9 AC2 38 HOH B 456 HOH B 478 HOH B 512 HOH B 513 SITE 10 AC2 38 HOH B 529 HOH B 560 SITE 1 AC3 5 AP5 B 302 HOH B 424 HOH B 428 HOH B 438 SITE 2 AC3 5 HOH B 456 CRYST1 68.817 71.020 45.555 90.00 95.13 90.00 C 1 2 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 0.014531 0.000000 0.001304 0.00000 SCALE2 0.000000 0.014081 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022040 0.00000