HEADER HYDROLASE 22-FEB-14 4PNY TITLE CRYSTAL STRUCTURE OF STAPHYLOCOCCAL NUCLEASE VARIANT DELTA+PHS I72H AT TITLE 2 CRYOGENIC TEMPERATURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: THERMONUCLEASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: NUCLEASE A (UNP RESIDUES 83-231); COMPND 5 EC: 3.1.31.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 GENE: NUC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET24A+ KEYWDS NUCLEASE, HYPERSTABLE, PDTP, IONIZABLE GROUP, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.L.SORENSON,J.L.SCHLESSMAN,B.GARCIA-MORENO E. REVDAT 3 20-SEP-23 4PNY 1 REMARK SEQADV LINK REVDAT 2 04-APR-18 4PNY 1 REMARK REVDAT 1 12-MAR-14 4PNY 0 JRNL AUTH J.L.SORENSON,J.L.SCHLESSMAN,B.GARCIA-MORENO E. JRNL TITL CRYSTAL STRUCTURE OF STAPHYLOCOCCAL NUCLEASE VARIANT JRNL TITL 2 DELTA+PHS I72H AT CRYOGENIC TEMPERATURE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.68 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 1.68 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 15882 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 791 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) : 1.68 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1123 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2480 REMARK 3 BIN FREE R VALUE SET COUNT : 57 REMARK 3 BIN FREE R VALUE : 0.2790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1044 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 86 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : -0.94000 REMARK 3 B33 (A**2) : 0.98000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.16000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.114 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.117 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.083 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.416 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1149 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1152 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1558 ; 1.904 ; 1.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2674 ; 0.842 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 147 ; 6.600 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 51 ;34.101 ;24.902 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 232 ;15.368 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ; 9.456 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 167 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1269 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 252 ; 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 : 6 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 6 A 27 REMARK 3 ORIGIN FOR THE GROUP (A): 9.5948 -3.2548 40.1080 REMARK 3 T TENSOR REMARK 3 T11: 0.0942 T22: 0.1518 REMARK 3 T33: 0.0232 T12: 0.0142 REMARK 3 T13: -0.0191 T23: 0.0132 REMARK 3 L TENSOR REMARK 3 L11: 1.4654 L22: 3.4331 REMARK 3 L33: 1.4502 L12: 0.2569 REMARK 3 L13: -0.3554 L23: 0.6300 REMARK 3 S TENSOR REMARK 3 S11: -0.0309 S12: 0.0252 S13: -0.0869 REMARK 3 S21: 0.0626 S22: 0.0600 S23: 0.0193 REMARK 3 S31: 0.0570 S32: 0.0064 S33: -0.0291 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 : A 28 A 53 REMARK 3 ORIGIN FOR THE GROUP (A): 12.8823 5.8090 43.6906 REMARK 3 T TENSOR REMARK 3 T11: 0.0618 T22: 0.1406 REMARK 3 T33: 0.0264 T12: 0.0043 REMARK 3 T13: -0.0306 T23: -0.0112 REMARK 3 L TENSOR REMARK 3 L11: 1.9730 L22: 6.3642 REMARK 3 L33: 0.2415 L12: -1.8856 REMARK 3 L13: -0.2113 L23: 0.4936 REMARK 3 S TENSOR REMARK 3 S11: -0.1442 S12: -0.2250 S13: 0.1401 REMARK 3 S21: 0.4710 S22: 0.1927 S23: -0.3737 REMARK 3 S31: 0.0238 S32: 0.1121 S33: -0.0485 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 54 A 80 REMARK 3 ORIGIN FOR THE GROUP (A): 6.2671 0.2449 45.9268 REMARK 3 T TENSOR REMARK 3 T11: 0.1117 T22: 0.1678 REMARK 3 T33: 0.0233 T12: -0.0093 REMARK 3 T13: -0.0100 T23: 0.0346 REMARK 3 L TENSOR REMARK 3 L11: 1.8944 L22: 2.3439 REMARK 3 L33: 2.3529 L12: -0.7707 REMARK 3 L13: 0.2200 L23: 0.8647 REMARK 3 S TENSOR REMARK 3 S11: -0.0977 S12: -0.1826 S13: -0.1600 REMARK 3 S21: 0.2584 S22: 0.0317 S23: 0.0289 REMARK 3 S31: 0.1124 S32: 0.0471 S33: 0.0660 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 : A 81 A 108 REMARK 3 ORIGIN FOR THE GROUP (A): 6.1675 4.1359 41.0228 REMARK 3 T TENSOR REMARK 3 T11: 0.0853 T22: 0.1402 REMARK 3 T33: 0.0127 T12: -0.0038 REMARK 3 T13: -0.0107 T23: 0.0091 REMARK 3 L TENSOR REMARK 3 L11: 1.0583 L22: 2.4811 REMARK 3 L33: 0.6028 L12: 0.0230 REMARK 3 L13: 0.3680 L23: 0.2360 REMARK 3 S TENSOR REMARK 3 S11: -0.0384 S12: -0.0321 S13: -0.0641 REMARK 3 S21: 0.0805 S22: 0.0260 S23: 0.0307 REMARK 3 S31: 0.0619 S32: -0.0748 S33: 0.0124 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 109 A 121 REMARK 3 ORIGIN FOR THE GROUP (A): 5.1327 12.4094 35.0276 REMARK 3 T TENSOR REMARK 3 T11: 0.1217 T22: 0.1519 REMARK 3 T33: 0.0262 T12: 0.0026 REMARK 3 T13: 0.0058 T23: 0.0199 REMARK 3 L TENSOR REMARK 3 L11: 3.5960 L22: 3.9805 REMARK 3 L33: 1.6041 L12: 0.1579 REMARK 3 L13: 0.1220 L23: -0.3770 REMARK 3 S TENSOR REMARK 3 S11: 0.0526 S12: 0.2478 S13: 0.1223 REMARK 3 S21: -0.4281 S22: 0.0382 S23: -0.0626 REMARK 3 S31: -0.2158 S32: 0.0064 S33: -0.0908 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 122 A 141 REMARK 3 ORIGIN FOR THE GROUP (A): -3.4769 15.3804 46.3901 REMARK 3 T TENSOR REMARK 3 T11: 0.0706 T22: 0.1331 REMARK 3 T33: 0.0853 T12: 0.0355 REMARK 3 T13: 0.0514 T23: -0.0044 REMARK 3 L TENSOR REMARK 3 L11: 2.2713 L22: 2.8372 REMARK 3 L33: 6.4131 L12: -0.8592 REMARK 3 L13: 0.7704 L23: 1.2762 REMARK 3 S TENSOR REMARK 3 S11: -0.1166 S12: -0.2990 S13: 0.1464 REMARK 3 S21: 0.3176 S22: 0.1437 S23: 0.3175 REMARK 3 S31: -0.2408 S32: -0.3086 S33: -0.0271 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 4PNY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-FEB-14. REMARK 100 THE DEPOSITION ID IS D_1000085004. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : OTHER REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : GE(111) REMARK 200 OPTICS : MULTI-LAYER OPTICS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER APEX REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SAINT REMARK 200 DATA SCALING SOFTWARE : SAINT REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15921 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.680 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.000 REMARK 200 R MERGE (I) : 0.03010 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.5900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.68 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.21 REMARK 200 R MERGE FOR SHELL (I) : 0.20930 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.350 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.1 REMARK 200 STARTING MODEL: PDB ENTRY 3BDC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% MPD, 25 MM POTASSIUM PHOSPHATE, REMARK 280 CALCIUM CHLORIDE, PDTP, PH 8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 30.28650 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 ALA A 1 REMARK 465 THR A 2 REMARK 465 SER A 3 REMARK 465 THR A 4 REMARK 465 LYS A 5 REMARK 465 GLU A 142 REMARK 465 ASP A 143 REMARK 465 ASN A 144 REMARK 465 ALA A 145 REMARK 465 ASP A 146 REMARK 465 SER A 147 REMARK 465 GLY A 148 REMARK 465 GLN A 149 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 ILE A 15 -62.45 -93.36 REMARK 500 ILE A 18 -70.96 -121.10 REMARK 500 ASN A 138 -105.68 49.48 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 CA A 202 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 21 OD2 REMARK 620 2 ASP A 40 OD1 82.8 REMARK 620 3 THR A 41 O 86.5 75.0 REMARK 620 4 GLU A 43 OE2 155.4 121.8 99.6 REMARK 620 5 THP A 201 O5P 99.3 68.9 142.3 90.4 REMARK 620 6 HOH A 307 O 78.6 138.7 139.1 81.4 78.2 REMARK 620 7 HOH A 316 O 78.9 137.3 65.8 82.0 151.9 74.0 REMARK 620 8 HOH A 341 O 127.4 62.7 48.4 71.1 103.2 152.5 99.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE THP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3BDC RELATED DB: PDB DBREF 4PNY A 1 149 UNP P00644 NUC_STAAU 83 231 SEQADV 4PNY A UNP P00644 THR 126 DELETION SEQADV 4PNY A UNP P00644 LYS 127 DELETION SEQADV 4PNY A UNP P00644 HIS 128 DELETION SEQADV 4PNY A UNP P00644 PRO 129 DELETION SEQADV 4PNY A UNP P00644 LYS 130 DELETION SEQADV 4PNY A UNP P00644 LYS 131 DELETION SEQADV 4PNY PHE A 50 UNP P00644 GLY 132 ENGINEERED MUTATION SEQADV 4PNY ASN A 51 UNP P00644 VAL 133 ENGINEERED MUTATION SEQADV 4PNY HIS A 72 UNP P00644 ILE 154 ENGINEERED MUTATION SEQADV 4PNY GLY A 117 UNP P00644 PRO 199 ENGINEERED MUTATION SEQADV 4PNY LEU A 124 UNP P00644 HIS 206 ENGINEERED MUTATION SEQADV 4PNY ALA A 128 UNP P00644 SER 210 ENGINEERED MUTATION SEQRES 1 A 143 ALA THR SER THR LYS LYS LEU HIS LYS GLU PRO ALA THR SEQRES 2 A 143 LEU ILE LYS ALA ILE ASP GLY ASP THR VAL LYS LEU MET SEQRES 3 A 143 TYR LYS GLY GLN PRO MET THR PHE ARG LEU LEU LEU VAL SEQRES 4 A 143 ASP THR PRO GLU PHE ASN GLU LYS TYR GLY PRO GLU ALA SEQRES 5 A 143 SER ALA PHE THR LYS LYS MET VAL GLU ASN ALA LYS LYS SEQRES 6 A 143 HIS GLU VAL GLU PHE ASP LYS GLY GLN ARG THR ASP LYS SEQRES 7 A 143 TYR GLY ARG GLY LEU ALA TYR ILE TYR ALA ASP GLY LYS SEQRES 8 A 143 MET VAL ASN GLU ALA LEU VAL ARG GLN GLY LEU ALA LYS SEQRES 9 A 143 VAL ALA TYR VAL TYR LYS GLY ASN ASN THR HIS GLU GLN SEQRES 10 A 143 LEU LEU ARG LYS ALA GLU ALA GLN ALA LYS LYS GLU LYS SEQRES 11 A 143 LEU ASN ILE TRP SER GLU ASP ASN ALA ASP SER GLY GLN HET THP A 201 25 HET CA A 202 1 HETNAM THP THYMIDINE-3',5'-DIPHOSPHATE HETNAM CA CALCIUM ION FORMUL 2 THP C10 H16 N2 O11 P2 FORMUL 3 CA CA 2+ FORMUL 4 HOH *86(H2 O) HELIX 1 1 TYR A 54 ALA A 69 1 16 HELIX 2 2 VAL A 99 GLN A 106 1 8 HELIX 3 3 HIS A 121 GLU A 135 1 15 HELIX 4 4 LEU A 137 SER A 141 5 5 SHEET 1 A 7 LYS A 97 MET A 98 0 SHEET 2 A 7 GLY A 88 ALA A 94 -1 N ALA A 94 O LYS A 97 SHEET 3 A 7 HIS A 72 GLU A 75 -1 N GLU A 75 O TYR A 91 SHEET 4 A 7 LYS A 9 ASP A 19 -1 N GLU A 10 O VAL A 74 SHEET 5 A 7 THR A 22 TYR A 27 -1 O LYS A 24 N LYS A 16 SHEET 6 A 7 GLN A 30 LEU A 36 -1 O MET A 32 N LEU A 25 SHEET 7 A 7 GLY A 88 ALA A 94 1 O GLY A 88 N ARG A 35 SHEET 1 B 2 VAL A 39 ASP A 40 0 SHEET 2 B 2 LYS A 110 VAL A 111 -1 O LYS A 110 N ASP A 40 LINK OD2 ASP A 21 CA CA A 202 1555 1555 2.80 LINK OD1 ASP A 40 CA CA A 202 1555 1555 2.75 LINK O THR A 41 CA CA A 202 1555 1555 3.00 LINK OE2 GLU A 43 CA CA A 202 1555 1555 2.89 LINK O5P THP A 201 CA CA A 202 1555 1555 3.07 LINK CA CA A 202 O HOH A 307 1555 1555 2.82 LINK CA CA A 202 O HOH A 316 1555 1555 2.80 LINK CA CA A 202 O HOH A 341 1555 1555 2.90 SITE 1 AC1 22 ARG A 35 ASP A 40 LYS A 84 TYR A 85 SITE 2 AC1 22 ARG A 87 TYR A 113 TYR A 115 LYS A 127 SITE 3 AC1 22 CA A 202 HOH A 301 HOH A 304 HOH A 307 SITE 4 AC1 22 HOH A 311 HOH A 317 HOH A 322 HOH A 328 SITE 5 AC1 22 HOH A 343 HOH A 347 HOH A 354 HOH A 355 SITE 6 AC1 22 HOH A 364 HOH A 366 SITE 1 AC2 8 ASP A 21 ASP A 40 THR A 41 GLU A 43 SITE 2 AC2 8 THP A 201 HOH A 307 HOH A 316 HOH A 341 CRYST1 31.172 60.573 37.442 90.00 93.79 90.00 P 1 21 1 2 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 0.032080 0.000000 0.002125 0.00000 SCALE2 0.000000 0.016509 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026767 0.00000