HEADER LYASE 12-MAY-06 2DPP TITLE CRYSTAL STRUCTURE OF THERMOSTABLE BACILLUS SP. RAPC8 NITRILE HYDRATASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITRILE HYDRATASE ALPHA SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: NITRILE HYDRATASE, ALPHA CHAIN; COMPND 5 EC: 4.2.1.84; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: NITRILE HYDRATASE BETA SUBUNIT; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: NITRILE HYDRATASE, BETA CHAIN; COMPND 11 EC: 4.2.1.84; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SP. RAPC8; SOURCE 3 ORGANISM_TAXID: 218609; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET21A; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: BACILLUS SP. RAPC8; SOURCE 11 ORGANISM_TAXID: 218609; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 13 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 14 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 15 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 16 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS NITRILE HYDRATASE, COBALT, OXIDISED CYS, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR T.L.TSEKOA,A.O.TASTAN-BISHOP,R.A.CAMERON,B.T.SEWELL,M.F.SAYED, AUTHOR 2 D.A.COWAN REVDAT 4 15-NOV-23 2DPP 1 REMARK REVDAT 3 25-OCT-23 2DPP 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 2DPP 1 VERSN REVDAT 1 22-MAY-07 2DPP 0 JRNL AUTH T.L.TSEKOA,A.O.TASTAN-BISHOP,R.A.CAMERON,B.T.SEWELL, JRNL AUTH 2 M.F.SAYED,D.A.COWAN JRNL TITL CRYSTAL STRUCTURE OF THERMOSTABLE BACILLUS SP. RAPC8 NITRILE JRNL TITL 2 HYDRATSE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 15851 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 831 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) : 2.52 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.58 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1113 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 65 REMARK 3 BIN FREE R VALUE : 0.3710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3488 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 203 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.05000 REMARK 3 B22 (A**2) : -0.05000 REMARK 3 B33 (A**2) : 0.11000 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): 0.938 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.346 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.213 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.561 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.879 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3583 ; 0.027 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4856 ; 2.189 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 427 ; 6.613 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 174 ;34.799 ;23.218 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 612 ;20.582 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;21.990 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 510 ; 0.159 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2758 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1614 ; 0.232 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2385 ; 0.320 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 228 ; 0.177 ; 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): 43 ; 0.204 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 12 ; 0.215 ; 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): 2209 ; 1.722 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3467 ; 1.893 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1553 ; 3.713 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1389 ; 5.130 ; 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 : 1.20 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 2DPP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-MAY-06. REMARK 100 THE DEPOSITION ID IS D_1000025695. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : AXCO PX50 GLASS CAPILLARY OPTIC REMARK 200 WITH A 0.1MM FOCUS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16152 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.520 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09100 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) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: EPMR REMARK 200 STARTING MODEL: PDB ENTRY 1IRE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 400, 0.1M MES, 0.1M MAGNESIUM REMARK 280 CHLORIDE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 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 41.61500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 53.31000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.31000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 20.80750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.31000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.31000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 62.42250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.31000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.31000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 20.80750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.31000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.31000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 62.42250 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 41.61500 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TETRAMER GENERATED FROM THE REMARK 300 DIMER IN THE ASSYMETRIC UNIT. THE DIMERS INTERACT ALONG A TWO-FOLD REMARK 300 CRYSTALLOGRAPHIC AXIS. 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 0.000000 -1.000000 0.000000 106.62000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 106.62000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 124.84500 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 THR A 2 REMARK 465 ILE A 3 REMARK 465 ASP A 4 REMARK 465 GLN A 5 REMARK 465 LYS A 6 REMARK 465 ASN A 7 REMARK 465 THR A 8 REMARK 465 ASN A 9 REMARK 465 LYS A 212 REMARK 465 VAL A 213 REMARK 465 THR A 214 REMARK 465 VAL A 215 REMARK 465 GLY A 216 REMARK 465 SER B 228 REMARK 465 HIS B 229 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE1 GLU B 54 O HOH B 341 2.09 REMARK 500 OG SER B 137 O HOH B 343 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 ALA A 75 CA ALA A 75 CB 0.130 REMARK 500 LYS B 210 CB LYS B 210 CG 0.177 REMARK 500 LYS B 210 CD LYS B 210 CE 0.203 REMARK 500 LYS B 210 CE LYS B 210 NZ 0.155 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 20 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 20 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 28 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 28 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ASP A 83 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP A 157 CB - CG - OD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 ARG A 165 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 165 NE - CZ - NH2 ANGL. DEV. = 5.1 DEGREES REMARK 500 ARG B 134 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 THR B 159 CB - CA - C ANGL. DEV. = -16.6 DEGREES REMARK 500 ARG B 163 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG B 166 NE - CZ - NH1 ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG B 166 NE - CZ - NH2 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG B 188 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 188 NE - CZ - NH2 ANGL. DEV. = -3.2 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 ASP A 83 75.00 -160.85 REMARK 500 CSD A 119 -93.43 -167.95 REMARK 500 SER A 120 4.45 -165.53 REMARK 500 SER A 171 -160.91 -123.00 REMARK 500 SER B 71 166.40 66.74 REMARK 500 LEU B 130 37.67 -142.09 REMARK 500 SER B 131 120.66 -28.65 REMARK 500 ASN B 192 58.23 29.71 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 CO A 301 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 116 SG REMARK 620 2 CSD A 119 SG 92.3 REMARK 620 3 SER A 120 N 98.6 95.2 REMARK 620 4 CSO A 121 N 99.6 168.1 83.8 REMARK 620 5 CSO A 121 SG 94.3 94.2 163.7 84.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 301 DBREF 2DPP A 1 216 UNP Q84FS5 Q84FS5_9BACI 1 216 DBREF 2DPP B 1 229 UNP Q84FS6 Q84FS6_9BACI 1 229 SEQADV 2DPP CSD A 119 UNP Q84FS5 CYS 119 MODIFIED RESIDUE SEQADV 2DPP CSO A 121 UNP Q84FS5 CYS 121 MODIFIED RESIDUE SEQRES 1 A 216 MET THR ILE ASP GLN LYS ASN THR ASN ILE ASP PRO ARG SEQRES 2 A 216 PHE PRO HIS HIS HIS PRO ARG PRO GLN SER PHE TRP GLU SEQRES 3 A 216 ALA ARG ALA LYS ALA LEU GLU SER LEU LEU ILE GLU LYS SEQRES 4 A 216 GLY HIS LEU SER SER ASP ALA ILE GLU ARG VAL ILE LYS SEQRES 5 A 216 HIS TYR GLU HIS GLU LEU GLY PRO MET ASN GLY ALA LYS SEQRES 6 A 216 VAL VAL ALA LYS ALA TRP THR ASP PRO ALA PHE LYS GLN SEQRES 7 A 216 ARG LEU LEU GLU ASP SER GLU THR VAL LEU ARG GLU LEU SEQRES 8 A 216 GLY TYR TYR GLY LEU GLN GLY GLU HIS ILE ARG VAL VAL SEQRES 9 A 216 GLU ASN THR ASP THR VAL HIS ASN VAL VAL VAL CYS THR SEQRES 10 A 216 LEU CSD SER CSO TYR PRO TRP PRO LEU LEU GLY LEU PRO SEQRES 11 A 216 PRO SER TRP TYR LYS GLU PRO ALA TYR ARG ALA ARG VAL SEQRES 12 A 216 VAL LYS GLU PRO ARG GLN VAL LEU LYS GLU PHE GLY LEU SEQRES 13 A 216 ASP LEU PRO ASP SER VAL GLU ILE ARG VAL TRP ASP SER SEQRES 14 A 216 SER SER GLU ILE ARG PHE MET VAL LEU PRO GLN ARG PRO SEQRES 15 A 216 GLU GLY THR GLU GLY MET THR GLU GLU GLU LEU ALA LYS SEQRES 16 A 216 LEU VAL THR ARG ASP SER MET ILE GLY VAL ALA LYS ILE SEQRES 17 A 216 GLU PRO PRO LYS VAL THR VAL GLY SEQRES 1 B 229 MET ASN GLY ILE HIS ASP VAL GLY GLY MET ASP GLY PHE SEQRES 2 B 229 GLY LYS VAL MET TYR VAL LYS GLU GLU GLU ASP ILE TYR SEQRES 3 B 229 PHE THR HIS ASP TRP GLU ARG LEU ALA PHE GLY LEU VAL SEQRES 4 B 229 ALA GLY CYS MET ALA GLN GLY LEU GLY MET LYS ALA PHE SEQRES 5 B 229 ASP GLU PHE ARG ILE GLY ILE GLU LEU MET ARG PRO VAL SEQRES 6 B 229 ASP TYR LEU THR SER SER TYR TYR GLY HIS TRP ILE ALA SEQRES 7 B 229 THR VAL ALA TYR ASN LEU VAL ASP THR GLY VAL LEU ASP SEQRES 8 B 229 GLU LYS GLU LEU ASP GLU ARG THR GLU VAL PHE LEU LYS SEQRES 9 B 229 LYS PRO ASP THR LYS ILE PRO ARG ARG GLU ASP PRO ALA SEQRES 10 B 229 LEU VAL LYS LEU VAL GLU LYS ALA LEU TYR ASP GLY LEU SEQRES 11 B 229 SER PRO LEU ARG GLU ILE SER ALA SER PRO ARG PHE LYS SEQRES 12 B 229 VAL GLY GLU ARG ILE LYS THR LYS ASN ILE HIS PRO THR SEQRES 13 B 229 GLY HIS THR ARG PHE PRO ARG TYR ALA ARG ASP LYS TYR SEQRES 14 B 229 GLY VAL ILE ASP GLU VAL TYR GLY ALA HIS VAL PHE PRO SEQRES 15 B 229 ASP ASP ALA ALA HIS ARG LYS GLY GLU ASN PRO GLN TYR SEQRES 16 B 229 LEU TYR ARG VAL ARG PHE GLU ALA GLU GLU LEU TRP GLY SEQRES 17 B 229 TYR LYS GLN LYS ASP SER VAL TYR ILE ASP LEU TRP GLU SEQRES 18 B 229 SER TYR MET GLU PRO VAL SER HIS MODRES 2DPP CSD A 119 CYS 3-SULFINOALANINE MODRES 2DPP CSO A 121 CYS S-HYDROXYCYSTEINE HET CSD A 119 8 HET CSO A 121 7 HET CO A 301 1 HETNAM CSD 3-SULFINOALANINE HETNAM CSO S-HYDROXYCYSTEINE HETNAM CO COBALT (II) ION HETSYN CSD S-CYSTEINESULFINIC ACID; S-SULFINOCYSTEINE FORMUL 1 CSD C3 H7 N O4 S FORMUL 1 CSO C3 H7 N O3 S FORMUL 3 CO CO 2+ FORMUL 4 HOH *203(H2 O) HELIX 1 1 PHE A 14 HIS A 18 5 5 HELIX 2 2 PRO A 21 LYS A 39 1 19 HELIX 3 3 SER A 43 HIS A 56 1 14 HELIX 4 4 PRO A 60 ASP A 73 1 14 HELIX 5 5 ASP A 73 ASP A 83 1 11 HELIX 6 6 ASP A 83 LEU A 91 1 9 HELIX 7 7 PRO A 123 GLY A 128 1 6 HELIX 8 8 PRO A 131 LYS A 135 5 5 HELIX 9 9 GLU A 136 VAL A 143 1 8 HELIX 10 10 GLU A 146 PHE A 154 1 9 HELIX 11 11 THR A 189 LYS A 195 1 7 HELIX 12 12 LYS B 20 ASP B 24 5 5 HELIX 13 13 HIS B 29 ALA B 44 1 16 HELIX 14 14 ALA B 51 LEU B 61 1 11 HELIX 15 15 ARG B 63 LEU B 68 1 6 HELIX 16 16 SER B 71 THR B 87 1 17 HELIX 17 17 ASP B 91 LYS B 105 1 15 HELIX 18 18 ASP B 115 GLY B 129 1 15 HELIX 19 19 PRO B 162 ARG B 166 5 5 HELIX 20 20 PHE B 181 ALA B 186 1 6 HELIX 21 21 ALA B 203 GLY B 208 1 6 SHEET 1 A 2 ILE A 101 GLU A 105 0 SHEET 2 A 2 ARG A 174 LEU A 178 1 O ARG A 174 N ARG A 102 SHEET 1 B 6 VAL A 110 VAL A 115 0 SHEET 2 B 6 GLU A 163 ASP A 168 1 O GLU A 163 N HIS A 111 SHEET 3 B 6 ASP B 213 TRP B 220 1 O TYR B 216 N ASP A 168 SHEET 4 B 6 GLN B 194 GLU B 202 -1 N PHE B 201 O VAL B 215 SHEET 5 B 6 TYR B 169 HIS B 179 -1 N ASP B 173 O ARG B 198 SHEET 6 B 6 LEU B 133 ARG B 134 -1 N ARG B 134 O ALA B 178 SHEET 1 C 7 VAL A 110 VAL A 115 0 SHEET 2 C 7 GLU A 163 ASP A 168 1 O GLU A 163 N HIS A 111 SHEET 3 C 7 ASP B 213 TRP B 220 1 O TYR B 216 N ASP A 168 SHEET 4 C 7 GLN B 194 GLU B 202 -1 N PHE B 201 O VAL B 215 SHEET 5 C 7 TYR B 169 HIS B 179 -1 N ASP B 173 O ARG B 198 SHEET 6 C 7 ARG B 147 THR B 150 -1 N ILE B 148 O GLY B 170 SHEET 7 C 7 MET B 224 PRO B 226 -1 O GLU B 225 N LYS B 149 LINK C LEU A 118 N CSD A 119 1555 1555 1.35 LINK C CSD A 119 N SER A 120 1555 1555 1.34 LINK C SER A 120 N CSO A 121 1555 1555 1.38 LINK C CSO A 121 N TYR A 122 1555 1555 1.38 LINK SG CYS A 116 CO CO A 301 1555 1555 2.34 LINK SG CSD A 119 CO CO A 301 1555 1555 2.26 LINK N SER A 120 CO CO A 301 1555 1555 2.04 LINK N CSO A 121 CO CO A 301 1555 1555 2.03 LINK SG CSO A 121 CO CO A 301 1555 1555 2.14 SITE 1 AC1 4 CYS A 116 CSD A 119 SER A 120 CSO A 121 CRYST1 106.620 106.620 83.230 90.00 90.00 90.00 P 41 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 0.009379 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009379 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012015 0.00000