PDB Short entry for 3SRG HEADER HYDROLASE 07-JUL-11 3SRG TITLE SERUM PARAOXONASE-1 BY DIRECTED EVOLUTION AT PH 6.5 IN COMPLEX WITH 2- TITLE 2 HYDROXYQUINOLINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERUM PARAOXONASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PON1; COMPND 5 EC: 3.1.1.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARTIFICIAL GENE; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: ORIGAMI DE3; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PET32; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET32; SOURCE 9 OTHER_DETAILS: FROM SHUFFLED GENES OF HOMO SAPIENS, ORYCTOLAGUS SOURCE 10 CUNICULUS, MUS MUSCULUS, AND RATTUS RATTUS PARAOXONASE KEYWDS DIRECTED EVOLUTION, 6-BLADES-PROPELLER FOLD, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.BEN DAVID,M.ELIAS,I.SILMAN,J.L.SUSSMAN,D.S.TAWFIK REVDAT 3 13-SEP-23 3SRG 1 REMARK LINK REVDAT 2 18-APR-12 3SRG 1 JRNL REVDAT 1 21-MAR-12 3SRG 0 JRNL AUTH M.BEN-DAVID,M.ELIAS,J.J.FILIPPI,E.DUNACH,I.SILMAN, JRNL AUTH 2 J.L.SUSSMAN,D.S.TAWFIK JRNL TITL CATALYTIC VERSATILITY AND BACKUPS IN ENZYME ACTIVE SITES: JRNL TITL 2 THE CASE OF SERUM PARAOXONASE 1. JRNL REF J.MOL.BIOL. V. 418 181 2012 JRNL REFN ISSN 0022-2836 JRNL PMID 22387469 JRNL DOI 10.1016/J.JMB.2012.02.042 REMARK 2 REMARK 2 RESOLUTION. 2.19 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) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 32016 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1705 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) : 2.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.24 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2186 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.31 REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 119 REMARK 3 BIN FREE R VALUE : 0.2510 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2605 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 112 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.147 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.082 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.107 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2713 ; 0.030 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3714 ; 2.196 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 336 ; 8.917 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 116 ;35.484 ;24.655 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 401 ;14.580 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;27.776 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 431 ; 0.209 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2063 ; 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): 1682 ; 1.571 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2732 ; 2.679 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1031 ; 3.879 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 982 ; 6.046 ; 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3SRG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUL-11. REMARK 100 THE DEPOSITION ID IS D_1000066560. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-DEC-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33798 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.190 REMARK 200 RESOLUTION RANGE LOW (A) : 46.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.30 REMARK 200 R MERGE (I) : 0.11300 REMARK 200 R SYM (I) : 0.09400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 30.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.24 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.40 REMARK 200 R MERGE FOR SHELL (I) : 0.62100 REMARK 200 R SYM FOR SHELL (I) : 0.59800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.950 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 3SRE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG3350, 0.2 M SODIUM BROMIDE, 0.1 REMARK 280 M BIS-TRIS PROPANE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 72.31050 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 46.77200 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 46.77200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 108.46575 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 46.77200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 46.77200 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 36.15525 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 46.77200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 46.77200 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 108.46575 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 46.77200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.77200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 36.15525 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 72.31050 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 MET A 1 REMARK 465 ALA A 2 REMARK 465 LYS A 3 REMARK 465 LEU A 4 REMARK 465 THR A 5 REMARK 465 ALA A 6 REMARK 465 LEU A 7 REMARK 465 THR A 8 REMARK 465 LEU A 9 REMARK 465 LEU A 10 REMARK 465 GLY A 11 REMARK 465 MET A 12 REMARK 465 GLY A 13 REMARK 465 LEU A 14 REMARK 465 ALA A 15 REMARK 465 LEU A 16 REMARK 465 PHE A 17 REMARK 465 ASP A 18 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 ARG A 19 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 21 CG CD CE NZ REMARK 470 LYS A 46 CD CE NZ REMARK 470 ASP A 80 CG OD1 OD2 REMARK 470 LYS A 81 CD CE NZ REMARK 470 LYS A 93 CG CD CE NZ REMARK 470 ILE A 109 CD1 REMARK 470 SER A 137 OG REMARK 470 LYS A 145 CE NZ REMARK 470 GLU A 149 CG CD OE1 OE2 REMARK 470 GLU A 150 OE1 OE2 REMARK 470 LYS A 151 CE NZ REMARK 470 LYS A 162 CD CE NZ REMARK 470 ASN A 211 CG OD1 ND2 REMARK 470 LYS A 233 CE NZ REMARK 470 ASP A 265 OD1 OD2 REMARK 470 GLU A 297 CG CD OE1 OE2 REMARK 470 GLU A 313 CG CD OE1 OE2 REMARK 470 GLU A 314 CG CD OE1 OE2 REMARK 470 LYS A 316 CD CE NZ REMARK 470 LYS A 340 NZ 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 56 CB GLU A 56 CG 0.138 REMARK 500 GLU A 218 CG GLU A 218 CD 0.097 REMARK 500 TYR A 294 CE2 TYR A 294 CD2 0.097 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 SER A 22 N - CA - C ANGL. DEV. = -24.2 DEGREES REMARK 500 ARG A 160 NE - CZ - NH1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG A 160 NE - CZ - NH2 ANGL. DEV. = -9.3 DEGREES REMARK 500 ARG A 306 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 VAL A 346 CG1 - CB - CG2 ANGL. DEV. = 10.4 DEGREES REMARK 500 VAL A 346 CA - CB - CG1 ANGL. DEV. = 9.9 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 SER A 22 -55.77 -145.42 REMARK 500 SER A 52 59.72 -153.09 REMARK 500 HIS A 115 -121.21 -136.49 REMARK 500 HIS A 134 69.68 -116.59 REMARK 500 HIS A 161 147.20 -171.99 REMARK 500 SER A 166 70.27 -151.82 REMARK 500 GLU A 176 45.16 -144.45 REMARK 500 ASP A 212 110.23 -160.74 REMARK 500 PHE A 222 67.23 68.88 REMARK 500 ASN A 224 -93.61 -142.45 REMARK 500 ASP A 269 -98.84 -113.82 REMARK 500 PHE A 347 15.27 -143.99 REMARK 500 HIS A 348 -122.58 -121.66 REMARK 500 LYS A 349 -169.07 -109.55 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LYS A 21 SER A 22 -92.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 LMT A 356 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 A1357 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 53 OE2 REMARK 620 2 ASN A 168 OD1 126.1 REMARK 620 3 ASN A 224 OD1 159.3 70.0 REMARK 620 4 ASP A 269 OD2 88.9 138.7 71.6 REMARK 620 5 ASN A 270 OD1 96.8 114.1 85.9 77.5 REMARK 620 6 HOH A 359 O 69.7 70.7 130.9 150.0 84.2 REMARK 620 7 OCH A1358 O1 71.5 81.8 101.4 91.3 164.1 100.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1356 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 54 OD2 REMARK 620 2 ILE A 117 O 84.5 REMARK 620 3 ASP A 169 OD1 85.7 84.9 REMARK 620 4 ASP A 169 OD2 95.0 137.9 53.2 REMARK 620 5 HOH A 360 O 83.0 137.0 134.6 84.2 REMARK 620 6 HOH A 361 O 99.3 81.9 165.4 139.0 59.9 REMARK 620 7 HOH A 378 O 177.3 98.2 94.6 83.0 94.9 81.1 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1356 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1357 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OCH A 1358 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LMT A 356 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1361 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1363 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1V04 RELATED DB: PDB REMARK 900 RELATED ID: 3SRE RELATED DB: PDB DBREF 3SRG A 1 355 PDB 3SRG 3SRG 1 355 SEQRES 1 A 355 MET ALA LYS LEU THR ALA LEU THR LEU LEU GLY MET GLY SEQRES 2 A 355 LEU ALA LEU PHE ASP ARG GLN LYS SER SER PHE GLN THR SEQRES 3 A 355 ARG PHE ASN VAL HIS ARG GLU VAL THR PRO VAL GLU LEU SEQRES 4 A 355 PRO ASN CYS ASN LEU VAL LYS GLY ILE ASP ASN GLY SER SEQRES 5 A 355 GLU ASP LEU GLU ILE LEU PRO ASN GLY LEU ALA PHE ILE SEQRES 6 A 355 SER SER GLY LEU LYS TYR PRO GLY ILE MET SER PHE ASP SEQRES 7 A 355 PRO ASP LYS SER GLY LYS ILE LEU LEU MET ASP LEU ASN SEQRES 8 A 355 GLU LYS GLU PRO ALA VAL SER GLU LEU GLU ILE ILE GLY SEQRES 9 A 355 ASN THR LEU ASP ILE SER SER PHE ASN PRO HIS GLY ILE SEQRES 10 A 355 SER THR PHE ILE ASP ASP ASP ASN THR VAL TYR LEU LEU SEQRES 11 A 355 VAL VAL ASN HIS PRO GLY SER SER SER THR VAL GLU VAL SEQRES 12 A 355 PHE LYS PHE GLN GLU GLU GLU LYS SER LEU LEU HIS LEU SEQRES 13 A 355 LYS THR ILE ARG HIS LYS LEU LEU PRO SER VAL ASN ASP SEQRES 14 A 355 ILE VAL ALA VAL GLY PRO GLU HIS PHE TYR ALA THR ASN SEQRES 15 A 355 ASP HIS TYR PHE ILE ASP PRO TYR LEU LYS SER TRP GLU SEQRES 16 A 355 MET HIS LEU GLY LEU ALA TRP SER PHE VAL THR TYR TYR SEQRES 17 A 355 SER PRO ASN ASP VAL ARG VAL VAL ALA GLU GLY PHE ASP SEQRES 18 A 355 PHE ALA ASN GLY ILE ASN ILE SER PRO ASP GLY LYS TYR SEQRES 19 A 355 VAL TYR ILE ALA GLU LEU LEU ALA HIS LYS ILE HIS VAL SEQRES 20 A 355 TYR GLU LYS HIS ALA ASN TRP THR LEU THR PRO LEU ARG SEQRES 21 A 355 VAL LEU SER PHE ASP THR LEU VAL ASP ASN ILE SER VAL SEQRES 22 A 355 ASP PRO VAL THR GLY ASP LEU TRP VAL GLY CYS HIS PRO SEQRES 23 A 355 ASN GLY MET ARG ILE PHE PHE TYR ASP ALA GLU ASN PRO SEQRES 24 A 355 PRO GLY SER GLU VAL LEU ARG ILE GLN ASP ILE LEU SER SEQRES 25 A 355 GLU GLU PRO LYS VAL THR VAL VAL TYR ALA GLU ASN GLY SEQRES 26 A 355 THR VAL LEU GLN GLY SER THR VAL ALA ALA VAL TYR LYS SEQRES 27 A 355 GLY LYS LEU LEU ILE GLY THR VAL PHE HIS LYS ALA LEU SEQRES 28 A 355 TYR CYS ASP LEU HET CA A1356 1 HET CA A1357 1 HET OCH A1358 11 HET LMT A 356 24 HET BR A1360 1 HET CL A1361 1 HET CL A1362 1 HET CA A1363 1 HETNAM CA CALCIUM ION HETNAM OCH QUINOLIN-2(1H)-ONE HETNAM LMT DODECYL-BETA-D-MALTOSIDE HETNAM BR BROMIDE ION HETNAM CL CHLORIDE ION HETSYN OCH 2-OXOQUINOLINE FORMUL 2 CA 3(CA 2+) FORMUL 4 OCH C9 H7 N O FORMUL 5 LMT C24 H46 O11 FORMUL 6 BR BR 1- FORMUL 7 CL 2(CL 1-) FORMUL 10 HOH *112(H2 O) HELIX 1 1 ARG A 19 PHE A 28 1 10 HELIX 2 2 ASP A 108 PHE A 112 5 5 HELIX 3 3 ASP A 188 LEU A 198 1 11 HELIX 4 4 ASN A 287 PHE A 293 1 7 SHEET 1 A 4 CYS A 42 LEU A 44 0 SHEET 2 A 4 LEU A 351 ASP A 354 -1 O TYR A 352 N ASN A 43 SHEET 3 A 4 LYS A 340 THR A 345 -1 N LEU A 341 O CYS A 353 SHEET 4 A 4 SER A 331 TYR A 337 -1 N ALA A 335 O LEU A 342 SHEET 1 B 4 ASP A 54 ILE A 57 0 SHEET 2 B 4 LEU A 62 SER A 67 -1 O PHE A 64 N GLU A 56 SHEET 3 B 4 LYS A 84 ASP A 89 -1 O MET A 88 N ALA A 63 SHEET 4 B 4 SER A 98 GLU A 99 -1 O SER A 98 N LEU A 87 SHEET 1 C 5 GLU A 101 ILE A 103 0 SHEET 2 C 5 SER A 152 ILE A 159 1 O LEU A 153 N ILE A 103 SHEET 3 C 5 THR A 140 GLN A 147 -1 N GLN A 147 O SER A 152 SHEET 4 C 5 VAL A 127 ASN A 133 -1 N VAL A 131 O GLU A 142 SHEET 5 C 5 PRO A 114 ILE A 121 -1 N GLY A 116 O VAL A 132 SHEET 1 D 4 VAL A 167 GLY A 174 0 SHEET 2 D 4 HIS A 177 ASN A 182 -1 O HIS A 177 N VAL A 173 SHEET 3 D 4 SER A 203 TYR A 208 -1 O TYR A 208 N PHE A 178 SHEET 4 D 4 ARG A 214 PHE A 220 -1 O VAL A 216 N VAL A 205 SHEET 1 E 4 ALA A 223 ILE A 228 0 SHEET 2 E 4 TYR A 234 GLU A 239 -1 O ALA A 238 N GLY A 225 SHEET 3 E 4 LYS A 244 LYS A 250 -1 O LYS A 244 N GLU A 239 SHEET 4 E 4 LEU A 256 SER A 263 -1 O ARG A 260 N VAL A 247 SHEET 1 F 4 LEU A 267 VAL A 273 0 SHEET 2 F 4 LEU A 280 HIS A 285 -1 O TRP A 281 N SER A 272 SHEET 3 F 4 SER A 302 GLN A 308 -1 O ILE A 307 N LEU A 280 SHEET 4 F 4 LYS A 316 GLU A 323 -1 O LYS A 316 N GLN A 308 SSBOND 1 CYS A 42 CYS A 353 1555 1555 2.36 LINK OE2 GLU A 53 CA CA A1357 1555 1555 2.41 LINK OD2 ASP A 54 CA CA A1356 1555 1555 2.27 LINK O ILE A 117 CA CA A1356 1555 1555 2.43 LINK OD1 ASN A 168 CA CA A1357 1555 1555 2.60 LINK OD1 ASP A 169 CA CA A1356 1555 1555 2.34 LINK OD2 ASP A 169 CA CA A1356 1555 1555 2.46 LINK OD1 ASN A 224 CA CA A1357 1555 1555 2.10 LINK OD2 ASP A 269 CA CA A1357 1555 1555 2.37 LINK OD1 ASN A 270 CA CA A1357 1555 1555 2.25 LINK O HOH A 359 CA CA A1357 1555 1555 2.47 LINK O HOH A 360 CA CA A1356 1555 1555 2.63 LINK O HOH A 361 CA CA A1356 1555 1555 2.52 LINK O HOH A 378 CA CA A1356 1555 1555 2.34 LINK CA CA A1357 O1 OCH A1358 1555 1555 2.40 SITE 1 AC1 7 ASP A 54 ILE A 117 ASP A 169 ILE A 170 SITE 2 AC1 7 HOH A 360 HOH A 361 HOH A 378 SITE 1 AC2 7 GLU A 53 ASN A 168 ASN A 224 ASP A 269 SITE 2 AC2 7 ASN A 270 HOH A 359 OCH A1358 SITE 1 AC3 8 GLU A 53 HIS A 115 ASN A 168 ASN A 224 SITE 2 AC3 8 ASP A 269 HIS A 285 PHE A 292 CA A1357 SITE 1 AC4 5 GLN A 20 LEU A 198 LEU A 200 TRP A 202 SITE 2 AC4 5 HOH A 439 SITE 1 AC5 2 ILE A 187 ASP A 188 SITE 1 AC6 2 ASP A 309 LEU A 311 SITE 1 AC7 1 GLU A 218 CRYST1 93.544 93.544 144.621 90.00 90.00 90.00 P 43 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 0.010690 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010690 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006915 0.00000