HEADER HYDROLASE/HYDROLASE INHIBITOR 22-FEB-08 3CBK TITLE CHAGASIN-CATHEPSIN B COMPND MOL_ID: 1; COMPND 2 MOLECULE: CATHEPSIN B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CATHEPSIN B1, APP SECRETASE, APPS; COMPND 5 EC: 3.4.22.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: CHAGASIN; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CTSB, CPSB; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: GS115; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPIC9; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: TRYPANOSOMA CRUZI; SOURCE 13 ORGANISM_TAXID: 5693; SOURCE 14 GENE: CHA; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: P-GEX-6P-1 KEYWDS CHAGASIN, CATHEPSIN B, OCCLUDING LOOP, CHAGAS DISEASE, GLYCOPROTEIN, KEYWDS 2 HYDROLASE, LYSOSOME, PROTEASE, THIOL PROTEASE, ZYMOGEN, CYTOPLASMIC KEYWDS 3 VESICLE, PROTEASE INHIBITOR, THIOL PROTEASE INHIBITOR, HYDROLASE- KEYWDS 4 HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR I.REDZYNIA,G.D.BUJACZ,M.ABRAHAMSON,A.LJUNGGREN,M.JASKOLSKI,J.S.MORT REVDAT 7 01-NOV-23 3CBK 1 REMARK REVDAT 6 10-NOV-21 3CBK 1 SEQADV REVDAT 5 23-MAY-18 3CBK 1 REMARK REVDAT 4 19-MAR-14 3CBK 1 JRNL REVDAT 3 13-JUL-11 3CBK 1 VERSN REVDAT 2 24-FEB-09 3CBK 1 VERSN REVDAT 1 27-MAY-08 3CBK 0 JRNL AUTH I.REDZYNIA,A.LJUNGGREN,M.ABRAHAMSON,J.S.MORT,J.C.KRUPA, JRNL AUTH 2 M.JASKOLSKI,G.BUJACZ JRNL TITL DISPLACEMENT OF THE OCCLUDING LOOP BY THE PARASITE PROTEIN, JRNL TITL 2 CHAGASIN, RESULTS IN EFFICIENT INHIBITION OF HUMAN CATHEPSIN JRNL TITL 3 B. JRNL REF J.BIOL.CHEM. V. 283 22815 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18515357 JRNL DOI 10.1074/JBC.M802064200 REMARK 2 REMARK 2 RESOLUTION. 2.67 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 11311 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 573 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) : 2.67 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 828 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.2640 REMARK 3 BIN FREE R VALUE SET COUNT : 42 REMARK 3 BIN FREE R VALUE : 0.2890 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2820 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 63 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 69.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.48 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.39000 REMARK 3 B22 (A**2) : 1.39000 REMARK 3 B33 (A**2) : -2.79000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.339 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.249 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 19.175 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.912 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2917 ; 0.024 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3972 ; 2.357 ; 1.927 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 365 ; 9.084 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 132 ;34.414 ;24.242 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 436 ;22.790 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;20.704 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 409 ; 0.156 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2282 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1421 ; 0.264 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1902 ; 0.334 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 133 ; 0.253 ; 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): 45 ; 0.358 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.418 ; 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): 1859 ; 0.956 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2915 ; 1.608 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1246 ; 2.494 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1057 ; 3.743 ; 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 61 A 255 REMARK 3 ORIGIN FOR THE GROUP (A): 32.6751 18.2207 22.4048 REMARK 3 T TENSOR REMARK 3 T11: -0.3277 T22: 0.0586 REMARK 3 T33: -0.0626 T12: -0.0053 REMARK 3 T13: 0.0865 T23: -0.0786 REMARK 3 L TENSOR REMARK 3 L11: 2.5255 L22: 2.0875 REMARK 3 L33: 3.9530 L12: 0.2215 REMARK 3 L13: 0.7673 L23: 0.6087 REMARK 3 S TENSOR REMARK 3 S11: -0.0687 S12: -0.0373 S13: 0.2761 REMARK 3 S21: -0.1221 S22: -0.0199 S23: 0.0324 REMARK 3 S31: -0.0556 S32: 0.3993 S33: 0.0886 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 110 REMARK 3 ORIGIN FOR THE GROUP (A): 24.4211 43.4757 10.1906 REMARK 3 T TENSOR REMARK 3 T11: -0.0097 T22: 0.0733 REMARK 3 T33: -0.0894 T12: -0.1607 REMARK 3 T13: 0.1233 T23: -0.1136 REMARK 3 L TENSOR REMARK 3 L11: 1.6037 L22: 3.0368 REMARK 3 L33: 2.3883 L12: -0.5978 REMARK 3 L13: 0.0866 L23: -1.4900 REMARK 3 S TENSOR REMARK 3 S11: -0.0869 S12: 0.2534 S13: 0.0151 REMARK 3 S21: -0.1599 S22: 0.0409 S23: 0.2583 REMARK 3 S31: -0.3234 S32: -0.2420 S33: 0.0460 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3CBK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000046577. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.041 REMARK 200 MONOCHROMATOR : BENT SILICON CRYSTAL REMARK 200 OPTICS : MONOCHROMATOR, MULTILAYER MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11903 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.670 REMARK 200 RESOLUTION RANGE LOW (A) : 68.520 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.10900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.77 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.57600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 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: PDB ENTRY 3CBJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.14M AMMONIUM FLUORIDE, 14% PEG 3350, REMARK 280 PH 6.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 42.53300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 42.53300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 57.84550 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 42.53300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 42.53300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 57.84550 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 42.53300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 42.53300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 57.84550 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 42.53300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 42.53300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 57.84550 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 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2710 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.4 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 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 PHE A 57P REMARK 465 THR A 58P REMARK 465 GLU A 59P REMARK 465 ASP A 60P REMARK 465 TYR A 256 REMARK 465 TRP A 257 REMARK 465 GLU A 258 REMARK 465 LYS A 259 REMARK 465 ILE A 260 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 CYS A 26 CB CYS A 26 SG -0.139 REMARK 500 GLU B 23 CD GLU B 23 OE2 0.071 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 GLU A 109 N - CA - C ANGL. DEV. = 18.3 DEGREES REMARK 500 VAL A 112 CB - CA - C ANGL. DEV. = -19.1 DEGREES REMARK 500 VAL A 112 N - CA - C ANGL. DEV. = 40.5 DEGREES REMARK 500 CYS A 128 CA - CB - SG ANGL. DEV. = 7.0 DEGREES REMARK 500 TYR A 148 CB - CA - C ANGL. DEV. = -15.3 DEGREES REMARK 500 SER A 156 CB - CA - C ANGL. DEV. = 17.7 DEGREES REMARK 500 GLU A 194 CB - CA - C ANGL. DEV. = 12.1 DEGREES REMARK 500 SER B 2 CB - CA - C ANGL. DEV. = 12.7 DEGREES REMARK 500 LYS B 7 CB - CA - C ANGL. DEV. = -12.8 DEGREES REMARK 500 ALA B 17 CB - CA - C ANGL. DEV. = 9.6 DEGREES REMARK 500 GLU B 23 CG - CD - OE1 ANGL. DEV. = -12.7 DEGREES REMARK 500 GLU B 23 CG - CD - OE2 ANGL. DEV. = 14.5 DEGREES REMARK 500 ILE B 24 N - CA - C ANGL. DEV. = -19.2 DEGREES REMARK 500 ASP B 61 CB - CG - OD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 ASP B 61 N - CA - C ANGL. DEV. = -18.9 DEGREES REMARK 500 LYS B 63 CB - CA - C ANGL. DEV. = -12.1 DEGREES REMARK 500 HIS B 74 N - CA - C ANGL. DEV. = -17.7 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 PRO A 107 -167.46 -67.65 REMARK 500 ASN A 113 -74.62 -94.87 REMARK 500 ARG A 116 -151.83 63.44 REMARK 500 PRO A 118 -153.93 -83.25 REMARK 500 CYS A 119 54.25 -118.75 REMARK 500 THR A 120 -155.30 -73.55 REMARK 500 GLU A 122 51.26 -111.61 REMARK 500 PRO A 134 153.44 -49.89 REMARK 500 THR A 139 175.74 -59.29 REMARK 500 ASP A 179 -9.86 -52.97 REMARK 500 ASN A 222 -168.09 64.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2NQD RELATED DB: PDB REMARK 900 CHAGASIN-CATHEPSIN L REMARK 900 RELATED ID: 2NNR RELATED DB: PDB REMARK 900 NATIVE CHAGASIN REMARK 900 RELATED ID: 1HUC RELATED DB: PDB REMARK 900 NATIVE CATHEPSIN B REMARK 900 RELATED ID: 3PBH RELATED DB: PDB REMARK 900 PROCATHEPSIN B REMARK 900 RELATED ID: 3CBJ RELATED DB: PDB REMARK 900 CHAGASIN-CATHESPIN B REMARK 999 REMARK 999 SEQUENCE REMARK 999 IN THE CHAIN A, PHE 57P, THR 58P, GLU 59P, ASP 60P, LEU 61P, LYS REMARK 999 62P BELONG TO PROSEGMENT SEQUENCE. DBREF 3CBK A 57P 260 UNP P07858 CATB_HUMAN 74 339 DBREF 3CBK B 1 110 UNP Q966X9 CHAG_TRYCR 1 110 SEQADV 3CBK ALA A 29 UNP P07858 CYS 108 ENGINEERED MUTATION SEQADV 3CBK ALA A 110 UNP P07858 HIS 189 ENGINEERED MUTATION SEQADV 3CBK ALA A 115 UNP P07858 SER 194 ENGINEERED MUTATION SEQRES 1 A 266 PHE THR GLU ASP LEU LYS LEU PRO ALA SER PHE ASP ALA SEQRES 2 A 266 ARG GLU GLN TRP PRO GLN CYS PRO THR ILE LYS GLU ILE SEQRES 3 A 266 ARG ASP GLN GLY SER CYS GLY SER ALA TRP ALA PHE GLY SEQRES 4 A 266 ALA VAL GLU ALA ILE SER ASP ARG ILE CYS ILE HIS THR SEQRES 5 A 266 ASN ALA HIS VAL SER VAL GLU VAL SER ALA GLU ASP LEU SEQRES 6 A 266 LEU THR CYS CYS GLY SER MET CYS GLY ASP GLY CYS ASN SEQRES 7 A 266 GLY GLY TYR PRO ALA GLU ALA TRP ASN PHE TRP THR ARG SEQRES 8 A 266 LYS GLY LEU VAL SER GLY GLY LEU TYR GLU SER HIS VAL SEQRES 9 A 266 GLY CYS ARG PRO TYR SER ILE PRO PRO CYS GLU ALA HIS SEQRES 10 A 266 VAL ASN GLY ALA ARG PRO PRO CYS THR GLY GLU GLY ASP SEQRES 11 A 266 THR PRO LYS CYS SER LYS ILE CYS GLU PRO GLY TYR SER SEQRES 12 A 266 PRO THR TYR LYS GLN ASP LYS HIS TYR GLY TYR ASN SER SEQRES 13 A 266 TYR SER VAL SER ASN SER GLU LYS ASP ILE MET ALA GLU SEQRES 14 A 266 ILE TYR LYS ASN GLY PRO VAL GLU GLY ALA PHE SER VAL SEQRES 15 A 266 TYR SER ASP PHE LEU LEU TYR LYS SER GLY VAL TYR GLN SEQRES 16 A 266 HIS VAL THR GLY GLU MET MET GLY GLY HIS ALA ILE ARG SEQRES 17 A 266 ILE LEU GLY TRP GLY VAL GLU ASN GLY THR PRO TYR TRP SEQRES 18 A 266 LEU VAL ALA ASN SER TRP ASN THR ASP TRP GLY ASP ASN SEQRES 19 A 266 GLY PHE PHE LYS ILE LEU ARG GLY GLN ASP HIS CYS GLY SEQRES 20 A 266 ILE GLU SER GLU VAL VAL ALA GLY ILE PRO ARG THR ASP SEQRES 21 A 266 GLN TYR TRP GLU LYS ILE SEQRES 1 B 110 MET SER HIS LYS VAL THR LYS ALA HIS ASN GLY ALA THR SEQRES 2 B 110 LEU THR VAL ALA VAL GLY GLU LEU VAL GLU ILE GLN LEU SEQRES 3 B 110 PRO SER ASN PRO THR THR GLY PHE ALA TRP TYR PHE GLU SEQRES 4 B 110 GLY GLY THR LYS GLU SER PRO ASN GLU SER MET PHE THR SEQRES 5 B 110 VAL GLU ASN LYS TYR PHE PRO PRO ASP SER LYS LEU LEU SEQRES 6 B 110 GLY ALA GLY GLY THR GLU HIS PHE HIS VAL THR VAL LYS SEQRES 7 B 110 ALA ALA GLY THR HIS ALA VAL ASN LEU THR TYR MET ARG SEQRES 8 B 110 PRO TRP THR GLY PRO SER HIS ASP SER GLU ARG PHE THR SEQRES 9 B 110 VAL TYR LEU LYS ALA ASN FORMUL 3 HOH *63(H2 O) HELIX 1 1 ALA A 7 TRP A 11 1 5 HELIX 2 2 CYS A 14 GLU A 19 5 6 HELIX 3 3 SER A 28 HIS A 45 1 18 HELIX 4 4 SER A 55 CYS A 63 1 9 HELIX 5 5 GLY A 64 CYS A 67 5 4 HELIX 6 6 ASP A 69 GLY A 73 5 5 HELIX 7 7 TYR A 75 LYS A 86 1 12 HELIX 8 8 THR A 139 ASP A 143 5 5 HELIX 9 9 GLU A 157 GLY A 168 1 12 HELIX 10 10 SER A 178 TYR A 183 1 6 HELIX 11 11 ASP A 238 ILE A 242 5 5 HELIX 12 12 THR B 6 ASN B 10 5 5 HELIX 13 13 ASN B 29 GLY B 33 5 5 HELIX 14 14 PHE B 38 THR B 42 5 5 SHEET 1 A 5 PHE A 5 ASP A 6 0 SHEET 2 A 5 MET A 195 GLU A 209 -1 O TRP A 206 N PHE A 5 SHEET 3 A 5 VAL A 170 TYR A 177 -1 N GLY A 172 O ILE A 201 SHEET 4 A 5 VAL A 246 ALA A 248 -1 O VAL A 247 N GLU A 171 SHEET 5 A 5 TYR A 151 VAL A 153 -1 N VAL A 153 O VAL A 246 SHEET 1 B 5 PHE A 5 ASP A 6 0 SHEET 2 B 5 MET A 195 GLU A 209 -1 O TRP A 206 N PHE A 5 SHEET 3 B 5 THR A 212 ALA A 218 -1 O THR A 212 N GLU A 209 SHEET 4 B 5 PHE A 230 LEU A 234 -1 O PHE A 231 N VAL A 217 SHEET 5 B 5 VAL A 187 TYR A 188 1 N TYR A 188 O LYS A 232 SHEET 1 C 4 HIS B 3 VAL B 5 0 SHEET 2 C 4 LEU B 21 SER B 28 1 O GLU B 23 N VAL B 5 SHEET 3 C 4 GLY B 69 VAL B 77 -1 O GLU B 71 N LEU B 26 SHEET 4 C 4 PHE B 51 PHE B 58 -1 N GLU B 54 O HIS B 74 SHEET 1 D 4 THR B 13 VAL B 16 0 SHEET 2 D 4 GLU B 101 ALA B 109 1 O LYS B 108 N VAL B 16 SHEET 3 D 4 GLY B 81 MET B 90 -1 N LEU B 87 O PHE B 103 SHEET 4 D 4 ALA B 35 TYR B 37 -1 N TYR B 37 O THR B 88 SSBOND 1 CYS A 14 CYS A 43 1555 1555 2.10 SSBOND 2 CYS A 26 CYS A 71 1555 1555 2.09 SSBOND 3 CYS A 62 CYS A 128 1555 1555 2.04 SSBOND 4 CYS A 63 CYS A 67 1555 1555 2.05 SSBOND 5 CYS A 100 CYS A 132 1555 1555 2.13 SSBOND 6 CYS A 108 CYS A 119 1555 1555 2.03 CRYST1 85.066 85.066 115.691 90.00 90.00 90.00 P 42 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 0.011756 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011756 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008644 0.00000