HEADER LYASE/LYASE INHIBITOR 07-DEC-11 3UZJ TITLE DESIGNED PROTEIN KE59 R13 3/11H WITH BENZOTRIAZOLE CAVEAT 3UZJ RESIDUE B THR 180 HAS INCORRECT STEREOCHEMISTRY AT ITS CB CAVEAT 2 3UZJ CHIRAL CENTER (CB IS PLANAR). COMPND MOL_ID: 1; COMPND 2 MOLECULE: KEMP ELIMINASE KE59 R13 3/11H; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.-.-.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS STRUCTURAL GENOMICS, ISRAEL STRUCTURAL PROTEOMICS CENTER, ISPC, BETA KEYWDS 2 BARREL, LYASE-LYASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR O.KHERSONSKY,G.KISS,D.ROETHLISBERGER,O.DYM,S.ALBECK,K.N.HOUK,D.BAKER, AUTHOR 2 D.S.TAWFIK,ISRAEL STRUCTURAL PROTEOMICS CENTER (ISPC) REVDAT 4 13-SEP-23 3UZJ 1 REMARK REVDAT 3 11-JUL-12 3UZJ 1 JRNL REVDAT 2 27-JUN-12 3UZJ 1 JRNL REVDAT 1 06-JUN-12 3UZJ 0 JRNL AUTH O.KHERSONSKY,G.KISS,D.ROTHLISBERGER,O.DYM,S.ALBECK,K.N.HOUK, JRNL AUTH 2 D.BAKER,D.S.TAWFIK JRNL TITL BRIDGING THE GAPS IN DESIGN METHODOLOGIES BY EVOLUTIONARY JRNL TITL 2 OPTIMIZATION OF THE STABILITY AND PROFICIENCY OF DESIGNED JRNL TITL 3 KEMP ELIMINASE KE59. JRNL REF PROC.NATL.ACAD.SCI.USA V. 109 10358 2012 JRNL REFN ISSN 0027-8424 JRNL PMID 22685214 JRNL DOI 10.1073/PNAS.1121063109 REMARK 2 REMARK 2 RESOLUTION. 1.69 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.69 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.82 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 57454 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) : 0.196 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3063 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) : 1.69 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3671 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.26 REMARK 3 BIN R VALUE (WORKING SET) : 0.2860 REMARK 3 BIN FREE R VALUE SET COUNT : 211 REMARK 3 BIN FREE R VALUE : 0.3050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3818 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 216 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.07000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : 0.02000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.108 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.110 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.065 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.919 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3985 ; 0.027 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5390 ; 2.151 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 498 ; 6.002 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 170 ;36.784 ;24.235 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 741 ;14.474 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;21.001 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 626 ; 0.252 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2912 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2473 ; 1.368 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4017 ; 2.334 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1512 ; 4.040 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1371 ; 6.162 ; 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 : MASK 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: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3UZJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000069405. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-FEB-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8726 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64919 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 42.823 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : 0.05800 REMARK 200 FOR THE DATA SET : 14.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.50500 REMARK 200 R SYM FOR SHELL (I) : 0.46600 REMARK 200 FOR SHELL : 1.600 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: PDB ENTRY 3UYC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M POTASSIUM CYANIDE, 0.1 M BIS REMARK 280 -TRIS PROPANE, PH 7.5, 20% PEG3350, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 47.96100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 61.88100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 47.96100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 61.88100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 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 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 GLY A 249 REMARK 465 SER A 250 REMARK 465 LEU A 251 REMARK 465 GLU A 252 REMARK 465 ALA B 1 REMARK 465 LEU B 184 REMARK 465 GLU B 185 REMARK 465 THR B 186 REMARK 465 LEU B 187 REMARK 465 GLU B 188 REMARK 465 GLY B 249 REMARK 465 SER B 250 REMARK 465 LEU B 251 REMARK 465 GLU B 252 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 6 NZ REMARK 470 ARG A 15 CZ NH1 NH2 REMARK 470 ARG A 23 CZ NH1 NH2 REMARK 470 GLU A 35 CG CD OE1 OE2 REMARK 470 LYS A 42 CD CE NZ REMARK 470 ARG A 43 NE CZ NH1 NH2 REMARK 470 LYS A 55 CE NZ REMARK 470 GLU A 68 CG CD OE1 OE2 REMARK 470 ARG A 140 NE CZ NH1 NH2 REMARK 470 ASP A 167 CG OD1 OD2 REMARK 470 GLU A 185 CG CD OE1 OE2 REMARK 470 LEU A 187 CG CD1 CD2 REMARK 470 GLU A 188 CG CD OE1 OE2 REMARK 470 ARG A 195 CD NE CZ NH1 NH2 REMARK 470 LYS A 196 CE NZ REMARK 470 ARG A 216 NH1 NH2 REMARK 470 LYS A 224 CD CE NZ REMARK 470 GLN A 248 CB CG CD OE1 NE2 REMARK 470 LYS B 6 CD CE NZ REMARK 470 ARG B 15 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 43 NE CZ NH1 NH2 REMARK 470 LYS B 55 CE NZ REMARK 470 LYS B 71 CE NZ REMARK 470 LYS B 98 NZ REMARK 470 ARG B 140 CD NE CZ NH1 NH2 REMARK 470 ARG B 175 NE CZ NH1 NH2 REMARK 470 ASP B 183 CG OD1 OD2 REMARK 470 GLU B 192 CG CD OE1 OE2 REMARK 470 ARG B 195 CG CD NE CZ NH1 NH2 REMARK 470 SER B 203 OG REMARK 470 GLU B 215 CD OE1 OE2 REMARK 470 GLU B 221 OE1 OE2 REMARK 470 LYS B 224 CE NZ REMARK 470 ARG B 238 NE CZ NH1 NH2 REMARK 470 LYS B 242 NZ REMARK 470 GLU B 245 CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 86 CD GLU A 86 OE2 -0.075 REMARK 500 GLU A 155 CD GLU A 155 OE2 -0.150 REMARK 500 GLU B 155 CD GLU B 155 OE1 -0.114 REMARK 500 GLU B 155 CD GLU B 155 OE2 -0.264 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 A 28 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 LEU A 96 CB - CG - CD2 ANGL. DEV. = 11.5 DEGREES REMARK 500 THR A 186 N - CA - CB ANGL. DEV. = 13.4 DEGREES REMARK 500 ARG B 23 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG B 36 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG B 171 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 THR B 180 CB - CA - C ANGL. DEV. = -16.9 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 THR A 186 -38.31 88.00 REMARK 500 SER A 211 37.15 -160.77 REMARK 500 SER B 211 35.31 -156.28 REMARK 500 SER B 214 -1.90 -142.97 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 0CT A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0CT B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3UXA RELATED DB: PDB REMARK 900 DESIGNED PROTEIN KE59 R1 7/10H REMARK 900 RELATED ID: 3UXD RELATED DB: PDB REMARK 900 DESIGNED PROTEIN KE59 R1 7/10H WITH DICHLOROBENZOTRIAZOLE (DBT) REMARK 900 RELATED ID: 3UY7 RELATED DB: PDB REMARK 900 DESIGNED PROTEIN KE59 R1 7/10H WITH G130S MUTATION REMARK 900 RELATED ID: 3UY8 RELATED DB: PDB REMARK 900 DESIGNED PROTEIN KE59 R5_11/5F REMARK 900 RELATED ID: 3UYC RELATED DB: PDB REMARK 900 DESIGNED PROTEIN KE59 R8_2/7A REMARK 900 RELATED ID: 3UZ5 RELATED DB: PDB REMARK 900 DESIGNED PROTEIN KE59 R13 3/11H DBREF 3UZJ A 1 252 PDB 3UZJ 3UZJ 1 252 DBREF 3UZJ B 1 252 PDB 3UZJ 3UZJ 1 252 SEQRES 1 A 252 ALA PRO ARG TYR LEU LYS GLY TRP LEU GLU ASP VAL VAL SEQRES 2 A 252 GLN ARG SER GLN ARG ARG PRO SER VAL ARG ALA SER ARG SEQRES 3 A 252 GLN ARG PRO ILE ILE SER LEU LYS GLU ARG ILE LEU GLU SEQRES 4 A 252 PHE ASN LYS ARG ASN ILE THR ALA ILE MET ALA VAL TYR SEQRES 5 A 252 LYS ARG LYS SER PRO SER GLY LEU ASP VAL GLU ARG ASP SEQRES 6 A 252 PRO ILE GLU TYR ALA LYS PHE MET GLU ARG GLY VAL VAL SEQRES 7 A 252 GLY LEU ALA ILE LEU THR GLU GLU LYS TYR PHE ASN GLY SEQRES 8 A 252 SER TYR GLU ASP LEU ARG LYS ILE ALA SER SER VAL SER SEQRES 9 A 252 VAL PRO ILE LEU MET TRP ASP ILE ILE VAL LYS GLU SER SEQRES 10 A 252 GLN ILE ASP ASP ALA TYR ASN LEU GLY ALA ASP THR VAL SEQRES 11 A 252 GLY LEU ILE VAL LYS ILE LEU THR GLU ARG GLU LEU GLU SEQRES 12 A 252 SER LEU LEU GLU TYR ALA ARG SER LEU GLY MET GLU PRO SEQRES 13 A 252 ALA ILE VAL ILE HIS ASP GLU ASN ASP LEU ASP ILE ALA SEQRES 14 A 252 LEU ARG ILE GLY ALA ARG PHE ILE ILE ILE THR SER HIS SEQRES 15 A 252 ASP LEU GLU THR LEU GLU ILE ASN ASN GLU ASN GLN ARG SEQRES 16 A 252 LYS LEU ILE SER MET ILE PRO SER ASN VAL VAL LYS VAL SEQRES 17 A 252 VAL ALA SER GLY ILE SER GLU ARG ASN GLU ILE GLU GLU SEQRES 18 A 252 LEU TYR LYS LEU GLY VAL ASN ALA PHE GLU ILE GLY THR SEQRES 19 A 252 SER LEU MET ARG ASN PRO GLU LYS ILE LYS GLU PHE ILE SEQRES 20 A 252 GLN GLY SER LEU GLU SEQRES 1 B 252 ALA PRO ARG TYR LEU LYS GLY TRP LEU GLU ASP VAL VAL SEQRES 2 B 252 GLN ARG SER GLN ARG ARG PRO SER VAL ARG ALA SER ARG SEQRES 3 B 252 GLN ARG PRO ILE ILE SER LEU LYS GLU ARG ILE LEU GLU SEQRES 4 B 252 PHE ASN LYS ARG ASN ILE THR ALA ILE MET ALA VAL TYR SEQRES 5 B 252 LYS ARG LYS SER PRO SER GLY LEU ASP VAL GLU ARG ASP SEQRES 6 B 252 PRO ILE GLU TYR ALA LYS PHE MET GLU ARG GLY VAL VAL SEQRES 7 B 252 GLY LEU ALA ILE LEU THR GLU GLU LYS TYR PHE ASN GLY SEQRES 8 B 252 SER TYR GLU ASP LEU ARG LYS ILE ALA SER SER VAL SER SEQRES 9 B 252 VAL PRO ILE LEU MET TRP ASP ILE ILE VAL LYS GLU SER SEQRES 10 B 252 GLN ILE ASP ASP ALA TYR ASN LEU GLY ALA ASP THR VAL SEQRES 11 B 252 GLY LEU ILE VAL LYS ILE LEU THR GLU ARG GLU LEU GLU SEQRES 12 B 252 SER LEU LEU GLU TYR ALA ARG SER LEU GLY MET GLU PRO SEQRES 13 B 252 ALA ILE VAL ILE HIS ASP GLU ASN ASP LEU ASP ILE ALA SEQRES 14 B 252 LEU ARG ILE GLY ALA ARG PHE ILE ILE ILE THR SER HIS SEQRES 15 B 252 ASP LEU GLU THR LEU GLU ILE ASN ASN GLU ASN GLN ARG SEQRES 16 B 252 LYS LEU ILE SER MET ILE PRO SER ASN VAL VAL LYS VAL SEQRES 17 B 252 VAL ALA SER GLY ILE SER GLU ARG ASN GLU ILE GLU GLU SEQRES 18 B 252 LEU TYR LYS LEU GLY VAL ASN ALA PHE GLU ILE GLY THR SEQRES 19 B 252 SER LEU MET ARG ASN PRO GLU LYS ILE LYS GLU PHE ILE SEQRES 20 B 252 GLN GLY SER LEU GLU HET 0CT A 301 9 HET PO4 A 302 5 HET PO4 A 303 5 HET PO4 B 300 5 HET 0CT B 301 9 HETNAM 0CT 1H-BENZOTRIAZOLE HETNAM PO4 PHOSPHATE ION FORMUL 3 0CT 2(C6 H5 N3) FORMUL 4 PO4 3(O4 P 3-) FORMUL 8 HOH *216(H2 O) HELIX 1 1 LYS A 6 ARG A 19 1 14 HELIX 2 2 SER A 32 ARG A 43 1 12 HELIX 3 3 ASP A 65 ARG A 75 1 11 HELIX 4 4 SER A 92 SER A 101 1 10 HELIX 5 5 LYS A 115 LEU A 125 1 11 HELIX 6 6 THR A 138 LEU A 152 1 15 HELIX 7 7 ASP A 162 ILE A 172 1 11 HELIX 8 8 ASN A 193 MET A 200 1 8 HELIX 9 9 GLU A 215 LEU A 225 1 11 HELIX 10 10 GLY A 233 ASN A 239 1 7 HELIX 11 11 LYS A 242 GLN A 248 1 7 HELIX 12 12 LYS B 6 ARG B 19 1 14 HELIX 13 13 SER B 32 ARG B 43 1 12 HELIX 14 14 ASP B 65 ARG B 75 1 11 HELIX 15 15 SER B 92 VAL B 103 1 12 HELIX 16 16 LYS B 115 LEU B 125 1 11 HELIX 17 17 THR B 138 LEU B 152 1 15 HELIX 18 18 ASP B 162 ILE B 172 1 11 HELIX 19 19 ASN B 193 ILE B 201 1 9 HELIX 20 20 GLU B 215 LEU B 225 1 11 HELIX 21 21 GLY B 233 ASN B 239 1 7 HELIX 22 22 LYS B 242 GLN B 248 1 7 SHEET 1 A 9 ILE A 48 TYR A 52 0 SHEET 2 A 9 GLY A 79 LEU A 83 1 O ALA A 81 N TYR A 52 SHEET 3 A 9 ILE A 107 TRP A 110 1 O LEU A 108 N LEU A 80 SHEET 4 A 9 THR A 129 ILE A 133 1 O THR A 129 N MET A 109 SHEET 5 A 9 ALA A 157 ILE A 160 1 O VAL A 159 N LEU A 132 SHEET 6 A 9 PHE A 176 THR A 180 1 O PHE A 176 N ILE A 158 SHEET 7 A 9 VAL A 206 ALA A 210 1 O VAL A 208 N ILE A 179 SHEET 8 A 9 ALA A 229 ILE A 232 1 O GLU A 231 N VAL A 209 SHEET 9 A 9 ILE A 48 TYR A 52 1 N MET A 49 O PHE A 230 SHEET 1 B 9 ILE B 48 TYR B 52 0 SHEET 2 B 9 GLY B 79 LEU B 83 1 O LEU B 83 N TYR B 52 SHEET 3 B 9 ILE B 107 TRP B 110 1 O LEU B 108 N LEU B 80 SHEET 4 B 9 THR B 129 ILE B 133 1 O THR B 129 N MET B 109 SHEET 5 B 9 ALA B 157 ILE B 160 1 O VAL B 159 N LEU B 132 SHEET 6 B 9 PHE B 176 THR B 180 1 O ILE B 178 N ILE B 160 SHEET 7 B 9 VAL B 206 ALA B 210 1 O VAL B 208 N ILE B 179 SHEET 8 B 9 ALA B 229 ILE B 232 1 O GLU B 231 N VAL B 209 SHEET 9 B 9 ILE B 48 TYR B 52 1 N MET B 49 O PHE B 230 SITE 1 AC1 6 TRP A 110 ILE A 133 VAL A 159 ILE A 178 SITE 2 AC1 6 GLU A 231 HOH A 357 SITE 1 AC2 5 ARG A 64 GLU A 68 TYR A 69 PRO A 240 SITE 2 AC2 5 SER B 21 SITE 1 AC3 10 LYS A 53 HIS A 182 SER A 211 GLY A 212 SITE 2 AC3 10 ILE A 232 GLY A 233 THR A 234 HOH A 263 SITE 3 AC3 10 HOH A 281 HOH A 326 SITE 1 AC4 10 LYS B 53 HIS B 182 SER B 211 GLY B 212 SITE 2 AC4 10 ILE B 232 GLY B 233 THR B 234 HOH B 279 SITE 3 AC4 10 HOH B 320 HOH B 321 SITE 1 AC5 4 TRP B 110 ILE B 133 VAL B 159 GLU B 231 CRYST1 95.922 123.762 45.642 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010425 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008080 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021910 0.00000