HEADER HYDROLASE 27-SEP-17 6EKR TITLE CRYSTAL STRUCTURE OF TYPE IIP RESTRICTION ENDONUCLEASE KPN2I COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYPE II SITE-SPECIFIC DEOXYRIBONUCLEASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.1.21.4; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 573; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: ER2566; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET21B KEYWDS RESTRICTION ENDONUCLEASE, PD-(D/E)XK NUCLEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR G.TAMULAITIENE,E.MANAKOVA,S.GRAZULIS,V.SIKSNYS REVDAT 1 10-OCT-18 6EKR 0 JRNL AUTH G.TAMULAITIENE,E.MANAKOVA,V.JOVAISAITE,S.GRAZULIS,V.SIKSNYS JRNL TITL CRYSTAL STRUCTURE OF TYPE IIP RESTRICTION ENDONUCLEASE PFOI JRNL TITL 2 WITH COGNATE DNA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 8353 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.300 REMARK 3 FREE R VALUE TEST SET COUNT : 959 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) : 2.88 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.96 REMARK 3 REFLECTION IN BIN (WORKING SET) : 612 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 65 REMARK 3 BIN FREE R VALUE : 0.4320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2452 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 26 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 62.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.09 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.432 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2532 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3427 ; 1.140 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 302 ; 5.586 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 122 ;38.430 ;23.525 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 429 ;16.262 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;17.796 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 368 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1917 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1150 ; 0.210 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1730 ; 0.315 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 62 ; 0.118 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 37 ; 0.150 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.115 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1510 ; 0.579 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2451 ; 1.081 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1022 ; 1.216 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 976 ; 1.941 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 6EKR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-SEP-17. REMARK 100 THE DEPOSITION ID IS D_1200006765. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5-7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P14 (MX2) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98019,0.98029,0.97789 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA CCP4 6.2: SCALA VERSION REMARK 200 3.3.20 : 23/06/11 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9398 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.880 REMARK 200 RESOLUTION RANGE LOW (A) : 95.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 39.80 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : 0.11600 REMARK 200 FOR THE DATA SET : 28.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.04 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 34.60 REMARK 200 R MERGE FOR SHELL (I) : 0.53700 REMARK 200 R SYM FOR SHELL (I) : 0.53700 REMARK 200 FOR SHELL : 7.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: AUTO-RICKSHAW REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: SMALL CUBIC CRYSTALS (30-50 MKM) REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALLIZATION BUFFER: 0.1M NAHEPES REMARK 280 PH7.5, 1.4M AMMONIUM SULFATE AND GLYCEROL 10%. COMPLEX OF KPN2I REMARK 280 WITH DNA WAS USED AT CONCENTRATION 2-7.5MG/ML, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y,-Z REMARK 290 16555 X,-Y,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z,-X,-Y+1/2 REMARK 290 19555 -Z,-X+1/2,Y REMARK 290 20555 -Z+1/2,X,-Y REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z,-X REMARK 290 23555 Y,-Z,-X+1/2 REMARK 290 24555 -Y,-Z+1/2,X 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 67.39700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.39700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 67.39700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 67.39700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 67.39700 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 67.39700 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 67.39700 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 67.39700 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 67.39700 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 67.39700 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 67.39700 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 67.39700 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 67.39700 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 67.39700 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 67.39700 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 67.39700 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 67.39700 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 67.39700 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 67.39700 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 67.39700 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 67.39700 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 67.39700 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 67.39700 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 67.39700 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 67.39700 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 67.39700 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 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: 3460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -99.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 67.39700 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 S SO4 A 405 LIES ON A SPECIAL POSITION. REMARK 375 O2 SO4 A 405 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 513 LIES ON A SPECIAL POSITION. 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 304 REMARK 465 LEU A 305 REMARK 465 GLU A 306 REMARK 465 HIS A 307 REMARK 465 HIS A 308 REMARK 465 HIS A 309 REMARK 465 HIS A 310 REMARK 465 HIS A 311 REMARK 465 HIS A 312 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 126 CE NZ REMARK 470 LYS A 156 CE NZ REMARK 470 LYS A 236 CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LYS A 126 56.97 29.28 REMARK 500 SER A 129 -7.51 -58.91 REMARK 500 ARG A 130 -5.77 65.97 REMARK 500 ILE A 149 71.43 -110.62 REMARK 500 SER A 155 36.89 -88.73 REMARK 500 ILE A 171 -70.17 -80.21 REMARK 500 ARG A 200 -131.37 57.05 REMARK 500 ARG A 284 -155.64 -116.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 404 DBREF 6EKR A 1 301 UNP Q93K38 Q93K38_KLEPN 1 301 SEQADV 6EKR ALA A 185 UNP Q93K38 LYS 185 ENGINEERED MUTATION SEQADV 6EKR ALA A 187 UNP Q93K38 LYS 187 ENGINEERED MUTATION SEQADV 6EKR ALA A 302 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR ALA A 303 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR ALA A 304 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR LEU A 305 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR GLU A 306 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR HIS A 307 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR HIS A 308 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR HIS A 309 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR HIS A 310 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR HIS A 311 UNP Q93K38 EXPRESSION TAG SEQADV 6EKR HIS A 312 UNP Q93K38 EXPRESSION TAG SEQRES 1 A 312 MSE ASP ILE LEU LYS GLU LYS ILE ASP VAL ALA SER ARG SEQRES 2 A 312 LEU TYR ASN LEU ASN LEU ASP HIS ILE PRO ALA THR LEU SEQRES 3 A 312 GLN VAL ILE GLU HIS ALA MSE LEU LEU LEU LYS ASN ASN SEQRES 4 A 312 ALA GLY TYR GLY TYR PHE GLY SER PHE ASN GLY LYS ASN SEQRES 5 A 312 THR GLN GLU TYR HIS SER PHE THR PHE ASN GLY GLU TYR SEQRES 6 A 312 SER ARG PRO VAL ARG ASP ASP LEU PHE ILE THR ASP TYR SEQRES 7 A 312 ASP PHE PHE VAL SER GLY PHE ARG GLU PHE ASN GLU SER SEQRES 8 A 312 LEU ARG ASP ILE GLY SER LYS TRP SER SER PHE ASP SER SEQRES 9 A 312 ARG ARG ALA ASN LYS ILE ILE TYR THR SER VAL MSE SER SEQRES 10 A 312 VAL ALA CYS CYS PHE ASP LEU TRP LYS SER GLY SER ARG SEQRES 11 A 312 LYS THR PRO GLY THR PHE PHE GLU ILE PHE MSE ALA ALA SEQRES 12 A 312 VAL LEU LYS TRP MSE ILE PRO ASP GLU ILE PHE SER LYS SEQRES 13 A 312 HIS ILE PRO LEU ILE ASP GLN LEU GLU SER ASP ASP GLU SEQRES 14 A 312 SER ILE ASP PRO SER SER VAL SER THR ASP ILE VAL ILE SEQRES 15 A 312 LYS SER ALA TYR ALA ASN ALA SER VAL VAL ILE PRO LEU SEQRES 16 A 312 LYS ILE THR THR ARG GLU ARG ILE VAL GLN PRO PHE ALA SEQRES 17 A 312 GLN GLN ARG ILE LEU ASP SER TYR PHE GLY ASN GLY VAL SEQRES 18 A 312 TYR PHE SER PHE LEU ALA CYS ILE SER GLU THR GLN GLN SEQRES 19 A 312 ASP LYS LYS LYS LYS LYS VAL ASN HIS ILE CYS VAL PRO SEQRES 20 A 312 GLY THR ILE ARG LEU TYR GLN LYS TYR LEU SER SER LEU SEQRES 21 A 312 SER GLY MSE TYR TYR CYS ASP ILE PRO GLU ARG TYR LEU SEQRES 22 A 312 GLU ARG ASP LEU THR ASP ILE ILE PRO VAL ARG THR MSE SEQRES 23 A 312 GLY ASP PHE LEU PHE ASP ILE TYR SER PHE PHE ARG SER SEQRES 24 A 312 GLN GLY ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS MODRES 6EKR MSE A 1 MET MODIFIED RESIDUE MODRES 6EKR MSE A 33 MET MODIFIED RESIDUE MODRES 6EKR MSE A 116 MET MODIFIED RESIDUE MODRES 6EKR MSE A 141 MET MODIFIED RESIDUE MODRES 6EKR MSE A 148 MET MODIFIED RESIDUE MODRES 6EKR MSE A 263 MET MODIFIED RESIDUE MODRES 6EKR MSE A 286 MET MODIFIED RESIDUE HET MSE A 1 8 HET MSE A 33 8 HET MSE A 116 8 HET MSE A 141 8 HET MSE A 148 8 HET MSE A 263 8 HET MSE A 286 8 HET SO4 A 401 5 HET SO4 A 402 5 HET SO4 A 403 5 HET SO4 A 404 5 HET SO4 A 405 5 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 2 SO4 5(O4 S 2-) FORMUL 7 HOH *26(H2 O) HELIX 1 AA1 ASP A 2 LEU A 17 1 16 HELIX 2 AA2 HIS A 21 ALA A 40 1 20 HELIX 3 AA3 ASP A 77 LEU A 92 1 16 HELIX 4 AA4 SER A 100 LYS A 126 1 27 HELIX 5 AA5 LYS A 131 ILE A 149 1 19 HELIX 6 AA6 ILE A 158 ASP A 172 1 15 HELIX 7 AA7 THR A 199 ARG A 202 5 4 HELIX 8 AA8 ILE A 203 GLY A 218 1 16 HELIX 9 AA9 VAL A 246 LEU A 257 1 12 HELIX 10 AB1 PRO A 269 LEU A 273 5 5 HELIX 11 AB2 GLU A 274 ASP A 279 1 6 HELIX 12 AB3 MSE A 286 SER A 299 1 14 SHEET 1 AA1 3 GLY A 41 ASN A 49 0 SHEET 2 AA1 3 THR A 53 PHE A 61 -1 O GLN A 54 N PHE A 48 SHEET 3 AA1 3 GLU A 64 TYR A 65 -1 O GLU A 64 N PHE A 61 SHEET 1 AA2 5 ASP A 179 LYS A 183 0 SHEET 2 AA2 5 SER A 190 PRO A 194 -1 O ILE A 193 N ILE A 180 SHEET 3 AA2 5 TYR A 222 ALA A 227 1 O PHE A 223 N VAL A 192 SHEET 4 AA2 5 GLY A 262 TYR A 265 1 O TYR A 264 N LEU A 226 SHEET 5 AA2 5 VAL A 283 THR A 285 1 O ARG A 284 N MSE A 263 SHEET 1 AA3 2 THR A 232 ASP A 235 0 SHEET 2 AA3 2 LYS A 240 HIS A 243 -1 O ASN A 242 N GLN A 233 LINK C MSE A 1 N ASP A 2 1555 1555 1.33 LINK C ALA A 32 N MSE A 33 1555 1555 1.34 LINK C MSE A 33 N LEU A 34 1555 1555 1.33 LINK C VAL A 115 N MSE A 116 1555 1555 1.33 LINK C MSE A 116 N SER A 117 1555 1555 1.33 LINK C PHE A 140 N MSE A 141 1555 1555 1.33 LINK C MSE A 141 N ALA A 142 1555 1555 1.33 LINK C TRP A 147 N MSE A 148 1555 1555 1.33 LINK C MSE A 148 N ILE A 149 1555 1555 1.32 LINK C GLY A 262 N MSE A 263 1555 1555 1.33 LINK C MSE A 263 N TYR A 264 1555 1555 1.33 LINK C THR A 285 N MSE A 286 1555 1555 1.34 LINK C MSE A 286 N GLY A 287 1555 1555 1.33 SITE 1 AC1 3 LEU A 26 PHE A 85 ARG A 86 SITE 1 AC2 6 LYS A 146 GLU A 152 ILE A 153 PHE A 154 SITE 2 AC2 6 SER A 155 HOH A 510 SITE 1 AC3 1 ARG A 200 SITE 1 AC4 4 ASP A 235 LYS A 238 LYS A 240 ASN A 242 CRYST1 134.794 134.794 134.794 90.00 90.00 90.00 I 21 3 24 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 0.007419 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007419 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007419 0.00000 HETATM 1 N MSE A 1 16.477 -11.066 12.618 1.00 83.18 N HETATM 2 CA MSE A 1 16.735 -10.463 13.953 1.00 84.02 C HETATM 3 C MSE A 1 16.196 -9.043 13.988 1.00 82.37 C HETATM 4 O MSE A 1 15.388 -8.691 14.856 1.00 82.47 O HETATM 5 CB MSE A 1 18.234 -10.488 14.273 1.00 83.93 C HETATM 6 CG MSE A 1 18.716 -11.824 14.836 1.00 85.27 C HETATM 7 SE MSE A 1 20.626 -12.207 14.574 1.00 89.02 SE HETATM 8 CE MSE A 1 20.758 -13.921 15.522 1.00 86.30 C