HEADER HYDROLASE 29-JUN-07 2Z56 TITLE CRYSTAL STRUCTURE OF G56S-PROPEPTIDE:S324A-SUBTILISIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TK-SUBTILISIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MATURE DOMAIN, RESIDUE 81-398; COMPND 5 EC: 3.4.21.62; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: TK-SUBTILISIN; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: PROPEPTIDE DOMAIN, RESIDUE 5-69; COMPND 12 EC: 3.4.21.62; COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOCOCCUS KODAKARENSIS; SOURCE 3 ORGANISM_TAXID: 69014; SOURCE 4 STRAIN: KOD1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET25B; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: THERMOCOCCUS KODAKARENSIS; SOURCE 12 ORGANISM_TAXID: 69014; SOURCE 13 STRAIN: KOD1; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET25B KEYWDS PROPEPTIDE, SUBTILISIN, THERMOCOCCUS KODAKARAENSIS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.A.PULIDO,S.TANAKA,C.SRINGIEW,D.J.YOU,H.MATSUMURA,Y.KOGA,K.TAKANO, AUTHOR 2 S.KANAYA REVDAT 5 01-NOV-23 2Z56 1 REMARK REVDAT 4 10-NOV-21 2Z56 1 REMARK SEQADV REVDAT 3 13-JUL-11 2Z56 1 VERSN REVDAT 2 24-FEB-09 2Z56 1 VERSN REVDAT 1 01-JAN-08 2Z56 0 JRNL AUTH M.A.PULIDO,S.TANAKA,C.SRINGIEW,D.J.YOU,H.MATSUMURA,Y.KOGA, JRNL AUTH 2 K.TAKANO,S.KANAYA JRNL TITL REQUIREMENT OF LEFT-HANDED GLYCINE RESIDUE FOR HIGH JRNL TITL 2 STABILITY OF THE TK-SUBTILISIN PROPEPTIDE AS REVEALED BY JRNL TITL 3 MUTATIONAL AND CRYSTALLOGRAPHIC ANALYSES JRNL REF J.MOL.BIOL. V. 374 1359 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17988685 JRNL DOI 10.1016/J.JMB.2007.10.030 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.0 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 24703 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1310 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1768 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE SET COUNT : 88 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2816 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 154 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.01000 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): 0.176 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.141 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.133 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.440 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.913 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2874 ; 0.032 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2617 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3932 ; 2.216 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6085 ; 1.023 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 381 ; 5.444 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 469 ;17.772 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 461 ; 0.152 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3273 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 520 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 725 ; 0.263 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2689 ; 0.220 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1 ; 0.229 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 213 ; 0.244 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 36 ; 0.310 ; 0.500 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 10 ; 0.428 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 37 ; 0.226 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.338 ; 0.500 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): 1898 ; 1.563 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3058 ; 2.475 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 976 ; 4.018 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 874 ; 5.903 ; 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 : BABINET MODEL WITH 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 2Z56 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000027534. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER SMART 6500 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26131 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.56100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2E1P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE (PH 4.6), 10%(V/V) REMARK 280 ISOPROPANOL, 0.2M ZINC ACETATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 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 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 32.25900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.02300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.73150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 37.02300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.25900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.73150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 2740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -93.0 KCAL/MOL 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 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 CB CYS A 147 O HOH A 1134 1.78 REMARK 500 OD2 ASP A 314 O HOH A 1064 1.84 REMARK 500 N THR B 5 O HOH B 2009 1.92 REMARK 500 O HOH B 2003 O HOH B 2011 1.96 REMARK 500 O HOH A 1064 O HOH A 1095 1.97 REMARK 500 O HOH B 2011 O HOH B 2027 1.99 REMARK 500 O HOH A 1104 O HOH A 1116 2.01 REMARK 500 NE2 HIS B 20 O HOH B 2003 2.05 REMARK 500 OD2 ASP A 307 O HOH A 1037 2.06 REMARK 500 OD1 ASP A 371 O HOH A 1117 2.08 REMARK 500 OG SER A 105 O HOH A 1135 2.11 REMARK 500 O HOH A 1093 O HOH A 1127 2.15 REMARK 500 CG ASP B 13 NZ LYS B 16 2.15 REMARK 500 OE2 GLU A 318 O HOH A 1013 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1034 O HOH A 1057 2554 2.12 REMARK 500 OE2 GLU A 265 O HOH B 2017 2565 2.19 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 GLU A 91 CD GLU A 91 OE2 -0.077 REMARK 500 VAL A 93 CB VAL A 93 CG1 -0.128 REMARK 500 VAL A 98 CB VAL A 98 CG2 -0.141 REMARK 500 TYR A 193 CE1 TYR A 193 CZ -0.079 REMARK 500 VAL A 210 C VAL A 210 O 0.119 REMARK 500 MET A 233 SD MET A 233 CE -0.449 REMARK 500 TYR A 243 CE2 TYR A 243 CD2 -0.128 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 ASP A 103 CB - CG - OD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 ASP A 121 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 214 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 225 CB - CG - OD2 ANGL. DEV. = 7.5 DEGREES REMARK 500 ASP A 226 CB - CG - OD1 ANGL. DEV. = -8.6 DEGREES REMARK 500 ASP A 226 CB - CG - OD2 ANGL. DEV. = 11.9 DEGREES REMARK 500 ASP A 241 CB - CG - OD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 ASP A 246 CB - CG - OD2 ANGL. DEV. = 7.1 DEGREES REMARK 500 ASP A 286 CB - CG - OD1 ANGL. DEV. = -6.4 DEGREES REMARK 500 ASP A 286 CB - CG - OD2 ANGL. DEV. = 9.2 DEGREES REMARK 500 ASP A 356 CB - CG - OD1 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP A 356 CB - CG - OD2 ANGL. DEV. = 7.2 DEGREES REMARK 500 ARG A 363 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 371 CB - CG - OD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP A 372 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG A 388 NE - CZ - NH1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG A 388 NE - CZ - NH2 ANGL. DEV. = -5.7 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 115 -153.61 -159.68 REMARK 500 ALA A 162 26.59 -144.34 REMARK 500 ASN A 166 -153.29 -157.15 REMARK 500 VAL A 170 -159.79 -130.74 REMARK 500 ILE A 219 -76.02 -125.00 REMARK 500 SER A 316 -155.57 -126.70 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 CA A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 2001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2E1P RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF UNAUTOPROCESSED PRECURSOR OF TK-SUBTILISIN REMARK 900 RELATED ID: 2Z57 RELATED DB: PDB REMARK 900 RELATED ID: 2Z58 RELATED DB: PDB DBREF 2Z56 A 81 398 UNP P58502 TKSU_PYRKO 105 422 DBREF 2Z56 B 5 69 UNP P58502 TKSU_PYRKO 29 93 SEQADV 2Z56 ALA A 324 UNP P58502 SER 348 ENGINEERED MUTATION SEQADV 2Z56 SER B 56 UNP P58502 GLY 80 ENGINEERED MUTATION SEQRES 1 A 318 GLN PRO ALA GLN THR ILE PRO TRP GLY ILE GLU ARG VAL SEQRES 2 A 318 LYS ALA PRO SER VAL TRP SER ILE THR ASP GLY SER VAL SEQRES 3 A 318 SER VAL ILE GLN VAL ALA VAL LEU ASP THR GLY VAL ASP SEQRES 4 A 318 TYR ASP HIS PRO ASP LEU ALA ALA ASN ILE ALA TRP CYS SEQRES 5 A 318 VAL SER THR LEU ARG GLY LYS VAL SER THR LYS LEU ARG SEQRES 6 A 318 ASP CYS ALA ASP GLN ASN GLY HIS GLY THR HIS VAL ILE SEQRES 7 A 318 GLY THR ILE ALA ALA LEU ASN ASN ASP ILE GLY VAL VAL SEQRES 8 A 318 GLY VAL ALA PRO GLY VAL GLN ILE TYR SER VAL ARG VAL SEQRES 9 A 318 LEU ASP ALA ARG GLY SER GLY SER TYR SER ASP ILE ALA SEQRES 10 A 318 ILE GLY ILE GLU GLN ALA ILE LEU GLY PRO ASP GLY VAL SEQRES 11 A 318 ALA ASP LYS ASP GLY ASP GLY ILE ILE ALA GLY ASP PRO SEQRES 12 A 318 ASP ASP ASP ALA ALA GLU VAL ILE SER MET SER LEU GLY SEQRES 13 A 318 GLY PRO ALA ASP ASP SER TYR LEU TYR ASP MET ILE ILE SEQRES 14 A 318 GLN ALA TYR ASN ALA GLY ILE VAL ILE VAL ALA ALA SER SEQRES 15 A 318 GLY ASN GLU GLY ALA PRO SER PRO SER TYR PRO ALA ALA SEQRES 16 A 318 TYR PRO GLU VAL ILE ALA VAL GLY ALA ILE ASP SER ASN SEQRES 17 A 318 ASP ASN ILE ALA SER PHE SER ASN ARG GLN PRO GLU VAL SEQRES 18 A 318 SER ALA PRO GLY VAL ASP ILE LEU SER THR TYR PRO ASP SEQRES 19 A 318 ASP SER TYR GLU THR LEU MET GLY THR ALA MET ALA THR SEQRES 20 A 318 PRO HIS VAL SER GLY VAL VAL ALA LEU ILE GLN ALA ALA SEQRES 21 A 318 TYR TYR GLN LYS TYR GLY LYS ILE LEU PRO VAL GLY THR SEQRES 22 A 318 PHE ASP ASP ILE SER LYS ASN THR VAL ARG GLY ILE LEU SEQRES 23 A 318 HIS ILE THR ALA ASP ASP LEU GLY PRO THR GLY TRP ASP SEQRES 24 A 318 ALA ASP TYR GLY TYR GLY VAL VAL ARG ALA ALA LEU ALA SEQRES 25 A 318 VAL GLN ALA ALA LEU GLY SEQRES 1 B 65 THR ILE ARG VAL ILE VAL SER VAL ASP LYS ALA LYS PHE SEQRES 2 B 65 ASN PRO HIS GLU VAL LEU GLY ILE GLY GLY HIS ILE VAL SEQRES 3 B 65 TYR GLN PHE LYS LEU ILE PRO ALA VAL VAL VAL ASP VAL SEQRES 4 B 65 PRO ALA ASN ALA VAL GLY LYS LEU LYS LYS MET PRO SER SEQRES 5 B 65 VAL GLU LYS VAL GLU PHE ASP HIS GLN ALA VAL LEU LEU HET CA A1001 1 HET CA A1002 1 HET CA A1003 1 HET CA A1004 1 HET CA A1005 1 HET CA A1006 1 HET CA A1007 1 HET ZN B2001 1 HETNAM CA CALCIUM ION HETNAM ZN ZINC ION FORMUL 3 CA 7(CA 2+) FORMUL 10 ZN ZN 2+ FORMUL 11 HOH *154(H2 O) HELIX 1 1 PRO A 87 VAL A 93 1 7 HELIX 2 2 ALA A 95 TRP A 99 5 5 HELIX 3 3 LEU A 125 ALA A 127 5 3 HELIX 4 4 LEU A 136 LYS A 139 5 4 HELIX 5 5 LYS A 143 ALA A 148 1 6 HELIX 6 6 GLY A 152 ALA A 163 1 12 HELIX 7 7 TYR A 193 GLY A 206 1 14 HELIX 8 8 ASP A 241 ALA A 254 1 14 HELIX 9 9 GLY A 322 TYR A 345 1 24 HELIX 10 10 THR A 361 THR A 369 1 9 HELIX 11 11 ARG A 388 GLY A 398 1 11 HELIX 12 12 HIS B 20 ILE B 25 1 6 HELIX 13 13 PRO B 44 ASN B 46 5 3 HELIX 14 14 ALA B 47 MET B 54 1 8 SHEET 1 A 7 ILE A 129 SER A 134 0 SHEET 2 A 7 GLN A 178 ARG A 183 1 O SER A 181 N VAL A 133 SHEET 3 A 7 GLN A 110 ASP A 115 1 N VAL A 113 O TYR A 180 SHEET 4 A 7 VAL A 230 MET A 233 1 O VAL A 230 N ALA A 112 SHEET 5 A 7 VAL A 257 ALA A 261 1 O VAL A 259 N MET A 233 SHEET 6 A 7 VAL A 279 ILE A 285 1 O ILE A 280 N ILE A 258 SHEET 7 A 7 VAL A 301 PRO A 304 1 O VAL A 301 N GLY A 283 SHEET 1 B 3 SER A 190 SER A 192 0 SHEET 2 B 3 GLN B 65 LEU B 68 -1 O ALA B 66 N GLY A 191 SHEET 3 B 3 LEU A 235 GLY A 236 -1 N GLY A 236 O VAL B 67 SHEET 1 C 2 ILE A 308 TYR A 312 0 SHEET 2 C 2 SER A 316 LEU A 320 -1 O LEU A 320 N ILE A 308 SHEET 1 D 4 HIS B 28 GLN B 32 0 SHEET 2 D 4 ALA B 38 VAL B 43 -1 O VAL B 40 N TYR B 31 SHEET 3 D 4 ILE B 6 VAL B 12 -1 N ILE B 6 O VAL B 43 SHEET 4 D 4 VAL B 57 PHE B 62 -1 O GLU B 61 N ILE B 9 SSBOND 1 CYS A 132 CYS A 147 1555 1555 2.08 CISPEP 1 TYR A 272 PRO A 273 0 4.92 CISPEP 2 PRO A 313 ASP A 314 0 -3.79 SITE 1 AC1 6 GLN A 84 ASP A 124 LEU A 164 ASN A 166 SITE 2 AC1 6 ILE A 168 VAL A 170 SITE 1 AC2 6 LEU A 205 ASP A 208 VAL A 210 ASP A 226 SITE 2 AC2 6 HOH A1082 HOH A1090 SITE 1 AC3 8 ASP A 212 ASP A 214 ASP A 216 ILE A 218 SITE 2 AC3 8 ASP A 222 ASP A 225 CA A1004 HOH A1039 SITE 1 AC4 5 GLU A 91 ASP A 214 ASP A 216 ASP A 222 SITE 2 AC4 5 CA A1003 SITE 1 AC5 6 VAL A 108 GLN A 110 ALA A 227 GLU A 229 SITE 2 AC5 6 HOH A1025 HOH A1065 SITE 1 AC6 6 ASP A 372 LEU A 373 PRO A 375 GLY A 377 SITE 2 AC6 6 ASP A 379 HOH A1130 SITE 1 AC7 5 ASP A 119 ASP A 121 ASP A 314 ASP A 315 SITE 2 AC7 5 HOH A1095 SITE 1 AC8 3 HIS B 28 ASP B 42 HOH B2002 CRYST1 64.518 67.463 74.046 90.00 90.00 90.00 P 21 21 21 4 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 0.015500 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014823 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013505 0.00000