PDB Short entry for 3KFQ HEADER HYDROLASE/HYDROLASE INHIBITOR 27-OCT-09 3KFQ TITLE UNREDUCED CATHEPSIN V IN COMPLEX WITH STEFIN A COMPND MOL_ID: 1; COMPND 2 MOLECULE: CATHEPSIN L2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CATHEPSIN V, CATHEPSIN U; COMPND 5 EC: 3.4.22.43; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: CYSTATIN-A; COMPND 10 CHAIN: C, D; COMPND 11 SYNONYM: CYSTATIN-AS, STEFIN-A; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: GS115; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPIC9; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET3A KEYWDS PAPAIN-LIKE CYSTEINE PROTEASE, CATHEPSIN, PROTEASE-INHIBITOR COMPLEX, KEYWDS 2 HYDROLASE, LYSOSOME, PROTEASE, THIOL PROTEASE, ZYMOGEN, PROTEASE KEYWDS 3 INHIBITOR, THIOL PROTEASE INHIBITOR, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 4 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.RENKO,D.TURK REVDAT 3 01-NOV-23 3KFQ 1 REMARK SEQADV LINK REVDAT 2 01-NOV-17 3KFQ 1 REMARK REVDAT 1 03-NOV-10 3KFQ 0 JRNL AUTH M.RENKO,D.TURK JRNL TITL UNREDUCED CATHEPSIN V IN COMPLEX WITH STEFIN A JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.49 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 50986 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2586 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3443 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2200 REMARK 3 BIN FREE R VALUE SET COUNT : 169 REMARK 3 BIN FREE R VALUE : 0.2780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4932 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 722 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.49000 REMARK 3 B22 (A**2) : -1.21000 REMARK 3 B33 (A**2) : 0.72000 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): 0.166 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.151 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5010 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6783 ; 1.578 ; 1.951 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 634 ; 5.555 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 221 ;37.793 ;25.566 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 832 ;14.578 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;14.293 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 714 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3846 ; 0.009 ; 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): 3156 ; 0.916 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5055 ; 1.607 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1854 ; 2.615 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1728 ; 4.123 ; 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 U VALUES: REFINED INDIVIDUALLY. THE STRUCTURE WAS REMARK 3 REFINED ALSO WITH MAIN REMARK 4 REMARK 4 3KFQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-NOV-09. REMARK 100 THE DEPOSITION ID IS D_1000055935. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAY-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI111 REMARK 200 OPTICS : COLLIMATING AND FOCUSING, PT REMARK 200 -COATED MIRRORS 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 : 51049 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.990 REMARK 200 RESOLUTION RANGE LOW (A) : 22.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 8.200 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 0.43000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: AMORE REMARK 200 STARTING MODEL: 3H6S, 1NB3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL, 12% PEG3000, PH 8.0, REMARK 280 VAPOR DIFFUSION, SITTING DROP, 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 29.65650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.99000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.64500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 57.99000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.65650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.64500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 160 CD CE NZ REMARK 480 LYS B 3 NZ REMARK 480 LYS B 44 CD CE NZ REMARK 480 LYS B 125 CE NZ REMARK 480 LYS B 148 CE NZ REMARK 480 LYS B 160 CE NZ REMARK 480 ASP B 179 OD1 OD2 REMARK 480 ASN B 180 OD1 ND2 REMARK 480 LYS D 10 CE NZ REMARK 480 LYS D 37 CE NZ REMARK 480 GLU D 39 CD OE1 OE2 REMARK 480 ASP D 61 CG OD1 OD2 REMARK 480 LYS D 63 CD CE NZ REMARK 480 LYS D 91 NZ REMARK 480 GLU D 94 CD OE1 OE2 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 VAL B 200 CB - CA - C ANGL. DEV. = -15.3 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 LYS A 20 -135.62 58.38 REMARK 500 LYS A 148 -41.45 -131.20 REMARK 500 LYS A 206 56.99 -115.06 REMARK 500 CYS A 210 17.38 57.41 REMARK 500 ASP B 6 93.85 -162.15 REMARK 500 LYS B 20 -135.38 57.88 REMARK 500 LYS B 148 -42.59 -134.50 REMARK 500 SER B 178 -20.12 65.26 REMARK 500 ASN B 180 148.24 113.21 REMARK 500 LYS B 206 62.17 -119.73 REMARK 500 SER C 7 -178.84 -67.83 REMARK 500 VAL C 48 -154.67 -131.90 REMARK 500 ASN C 62 12.73 56.72 REMARK 500 ASN D 32 -38.59 81.13 REMARK 500 VAL D 48 -148.98 -131.48 REMARK 500 ASP D 61 24.12 -154.25 REMARK 500 ASN D 77 68.44 31.45 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NB3 RELATED DB: PDB REMARK 900 PAPAIN-LIKE CYSTEINE PROTEASE IN A COMPLEX WITH STEFINS REMARK 900 RELATED ID: 1STF RELATED DB: PDB REMARK 900 PAPAIN-LIKE CYSTEINE PROTEASE IN A COMPLEX WITH STEFINS REMARK 900 RELATED ID: 3K9M RELATED DB: PDB REMARK 900 PAPAIN-LIKE CYSTEINE PROTEASE IN A COMPLEX WITH STEFINS REMARK 900 RELATED ID: 3A9N RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 CATHEPSIN V WAS BLOCKED WITH MMTS (METHYL METHANETHIOSULFONATE), REMARK 999 LEAVING -S-CH3 ATOMS ON ACTIVE SITE CYSTEINE RESIDUE. DBREF 3KFQ A 1 221 UNP O60911 CATL2_HUMAN 114 334 DBREF 3KFQ B 1 221 UNP O60911 CATL2_HUMAN 114 334 DBREF 3KFQ C 1 98 UNP P01040 CYTA_HUMAN 1 98 DBREF 3KFQ D 1 98 UNP P01040 CYTA_HUMAN 1 98 SEQADV 3KFQ GLN A 108 UNP O60911 ASN 221 ENGINEERED MUTATION SEQADV 3KFQ ASP A 179 UNP O60911 ASN 292 ENGINEERED MUTATION SEQADV 3KFQ GLN B 108 UNP O60911 ASN 221 ENGINEERED MUTATION SEQADV 3KFQ ASP B 179 UNP O60911 ASN 292 ENGINEERED MUTATION SEQRES 1 A 221 LEU PRO LYS SER VAL ASP TRP ARG LYS LYS GLY TYR VAL SEQRES 2 A 221 THR PRO VAL LYS ASN GLN LYS GLN CYS GLY SER SCH TRP SEQRES 3 A 221 ALA PHE SER ALA THR GLY ALA LEU GLU GLY GLN MET PHE SEQRES 4 A 221 ARG LYS THR GLY LYS LEU VAL SER LEU SER GLU GLN ASN SEQRES 5 A 221 LEU VAL ASP CYS SER ARG PRO GLN GLY ASN GLN GLY CYS SEQRES 6 A 221 ASN GLY GLY PHE MET ALA ARG ALA PHE GLN TYR VAL LYS SEQRES 7 A 221 GLU ASN GLY GLY LEU ASP SER GLU GLU SER TYR PRO TYR SEQRES 8 A 221 VAL ALA VAL ASP GLU ILE CYS LYS TYR ARG PRO GLU ASN SEQRES 9 A 221 SER VAL ALA GLN ASP THR GLY PHE THR VAL VAL ALA PRO SEQRES 10 A 221 GLY LYS GLU LYS ALA LEU MET LYS ALA VAL ALA THR VAL SEQRES 11 A 221 GLY PRO ILE SER VAL ALA MET ASP ALA GLY HIS SER SER SEQRES 12 A 221 PHE GLN PHE TYR LYS SER GLY ILE TYR PHE GLU PRO ASP SEQRES 13 A 221 CYS SER SER LYS ASN LEU ASP HIS GLY VAL LEU VAL VAL SEQRES 14 A 221 GLY TYR GLY PHE GLU GLY ALA ASN SER ASP ASN SER LYS SEQRES 15 A 221 TYR TRP LEU VAL LYS ASN SER TRP GLY PRO GLU TRP GLY SEQRES 16 A 221 SER ASN GLY TYR VAL LYS ILE ALA LYS ASP LYS ASN ASN SEQRES 17 A 221 HIS CYS GLY ILE ALA THR ALA ALA SER TYR PRO ASN VAL SEQRES 1 B 221 LEU PRO LYS SER VAL ASP TRP ARG LYS LYS GLY TYR VAL SEQRES 2 B 221 THR PRO VAL LYS ASN GLN LYS GLN CYS GLY SER SCH TRP SEQRES 3 B 221 ALA PHE SER ALA THR GLY ALA LEU GLU GLY GLN MET PHE SEQRES 4 B 221 ARG LYS THR GLY LYS LEU VAL SER LEU SER GLU GLN ASN SEQRES 5 B 221 LEU VAL ASP CYS SER ARG PRO GLN GLY ASN GLN GLY CYS SEQRES 6 B 221 ASN GLY GLY PHE MET ALA ARG ALA PHE GLN TYR VAL LYS SEQRES 7 B 221 GLU ASN GLY GLY LEU ASP SER GLU GLU SER TYR PRO TYR SEQRES 8 B 221 VAL ALA VAL ASP GLU ILE CYS LYS TYR ARG PRO GLU ASN SEQRES 9 B 221 SER VAL ALA GLN ASP THR GLY PHE THR VAL VAL ALA PRO SEQRES 10 B 221 GLY LYS GLU LYS ALA LEU MET LYS ALA VAL ALA THR VAL SEQRES 11 B 221 GLY PRO ILE SER VAL ALA MET ASP ALA GLY HIS SER SER SEQRES 12 B 221 PHE GLN PHE TYR LYS SER GLY ILE TYR PHE GLU PRO ASP SEQRES 13 B 221 CYS SER SER LYS ASN LEU ASP HIS GLY VAL LEU VAL VAL SEQRES 14 B 221 GLY TYR GLY PHE GLU GLY ALA ASN SER ASP ASN SER LYS SEQRES 15 B 221 TYR TRP LEU VAL LYS ASN SER TRP GLY PRO GLU TRP GLY SEQRES 16 B 221 SER ASN GLY TYR VAL LYS ILE ALA LYS ASP LYS ASN ASN SEQRES 17 B 221 HIS CYS GLY ILE ALA THR ALA ALA SER TYR PRO ASN VAL SEQRES 1 C 98 MET ILE PRO GLY GLY LEU SER GLU ALA LYS PRO ALA THR SEQRES 2 C 98 PRO GLU ILE GLN GLU ILE VAL ASP LYS VAL LYS PRO GLN SEQRES 3 C 98 LEU GLU GLU LYS THR ASN GLU THR TYR GLY LYS LEU GLU SEQRES 4 C 98 ALA VAL GLN TYR LYS THR GLN VAL VAL ALA GLY THR ASN SEQRES 5 C 98 TYR TYR ILE LYS VAL ARG ALA GLY ASP ASN LYS TYR MET SEQRES 6 C 98 HIS LEU LYS VAL PHE LYS SER LEU PRO GLY GLN ASN GLU SEQRES 7 C 98 ASP LEU VAL LEU THR GLY TYR GLN VAL ASP LYS ASN LYS SEQRES 8 C 98 ASP ASP GLU LEU THR GLY PHE SEQRES 1 D 98 MET ILE PRO GLY GLY LEU SER GLU ALA LYS PRO ALA THR SEQRES 2 D 98 PRO GLU ILE GLN GLU ILE VAL ASP LYS VAL LYS PRO GLN SEQRES 3 D 98 LEU GLU GLU LYS THR ASN GLU THR TYR GLY LYS LEU GLU SEQRES 4 D 98 ALA VAL GLN TYR LYS THR GLN VAL VAL ALA GLY THR ASN SEQRES 5 D 98 TYR TYR ILE LYS VAL ARG ALA GLY ASP ASN LYS TYR MET SEQRES 6 D 98 HIS LEU LYS VAL PHE LYS SER LEU PRO GLY GLN ASN GLU SEQRES 7 D 98 ASP LEU VAL LEU THR GLY TYR GLN VAL ASP LYS ASN LYS SEQRES 8 D 98 ASP ASP GLU LEU THR GLY PHE MODRES 3KFQ SCH A 25 CYS S-METHYL-THIO-CYSTEINE MODRES 3KFQ SCH B 25 CYS S-METHYL-THIO-CYSTEINE HET SCH A 25 8 HET SCH B 25 8 HETNAM SCH S-METHYL-THIO-CYSTEINE FORMUL 1 SCH 2(C4 H9 N O2 S2) FORMUL 5 HOH *722(H2 O) HELIX 1 1 ARG A 8 GLY A 11 5 4 HELIX 2 2 SER A 24 GLY A 43 1 20 HELIX 3 3 SER A 49 SER A 57 1 9 HELIX 4 4 GLN A 63 GLY A 67 5 5 HELIX 5 5 PHE A 69 GLY A 81 1 13 HELIX 6 6 ARG A 101 GLU A 103 5 3 HELIX 7 7 LYS A 119 VAL A 130 1 12 HELIX 8 8 HIS A 141 PHE A 146 1 6 HELIX 9 9 ASN A 208 ILE A 212 5 5 HELIX 10 10 ARG B 8 GLY B 11 5 4 HELIX 11 11 SER B 24 GLY B 43 1 20 HELIX 12 12 SER B 49 SER B 57 1 9 HELIX 13 13 ARG B 58 GLY B 61 5 4 HELIX 14 14 GLN B 63 GLY B 67 5 5 HELIX 15 15 PHE B 69 GLY B 81 1 13 HELIX 16 16 ARG B 101 GLU B 103 5 3 HELIX 17 17 LYS B 119 VAL B 130 1 12 HELIX 18 18 HIS B 141 PHE B 146 1 6 HELIX 19 19 ASN B 208 ILE B 212 5 5 HELIX 20 20 THR C 13 ASN C 32 1 20 HELIX 21 21 THR D 13 ASN D 32 1 20 HELIX 22 22 LEU D 73 ASN D 77 5 5 SHEET 1 A 3 VAL A 5 ASP A 6 0 SHEET 2 A 3 HIS A 164 PHE A 173 -1 O TYR A 171 N VAL A 5 SHEET 3 A 3 ILE A 133 MET A 137 -1 N ILE A 133 O VAL A 168 SHEET 1 B 5 VAL A 5 ASP A 6 0 SHEET 2 B 5 HIS A 164 PHE A 173 -1 O TYR A 171 N VAL A 5 SHEET 3 B 5 LYS A 182 LYS A 187 -1 O LYS A 187 N LEU A 167 SHEET 4 B 5 TYR A 199 ALA A 203 -1 O ILE A 202 N TRP A 184 SHEET 5 B 5 ILE A 151 TYR A 152 1 N TYR A 152 O LYS A 201 SHEET 1 C 2 LEU A 83 ASP A 84 0 SHEET 2 C 2 SER A 105 ALA A 107 -1 O VAL A 106 N LEU A 83 SHEET 1 D 2 PHE A 112 VAL A 114 0 SHEET 2 D 2 SER A 217 PRO A 219 -1 O TYR A 218 N THR A 113 SHEET 1 E 3 VAL B 5 ASP B 6 0 SHEET 2 E 3 HIS B 164 PHE B 173 -1 O TYR B 171 N VAL B 5 SHEET 3 E 3 ILE B 133 MET B 137 -1 N ILE B 133 O VAL B 168 SHEET 1 F 5 VAL B 5 ASP B 6 0 SHEET 2 F 5 HIS B 164 PHE B 173 -1 O TYR B 171 N VAL B 5 SHEET 3 F 5 LYS B 182 LYS B 187 -1 O LYS B 187 N LEU B 167 SHEET 4 F 5 TYR B 199 ALA B 203 -1 O VAL B 200 N VAL B 186 SHEET 5 F 5 ILE B 151 TYR B 152 1 N TYR B 152 O LYS B 201 SHEET 1 G 2 LEU B 83 ASP B 84 0 SHEET 2 G 2 SER B 105 ALA B 107 -1 O VAL B 106 N LEU B 83 SHEET 1 H 2 PHE B 112 VAL B 114 0 SHEET 2 H 2 SER B 217 PRO B 219 -1 O TYR B 218 N THR B 113 SHEET 1 I 5 LYS C 10 PRO C 11 0 SHEET 2 I 5 LEU C 38 VAL C 47 -1 O TYR C 43 N LYS C 10 SHEET 3 I 5 THR C 51 ALA C 59 -1 O LYS C 56 N GLN C 42 SHEET 4 I 5 TYR C 64 LYS C 71 -1 O LYS C 71 N THR C 51 SHEET 5 I 5 VAL C 81 LYS C 89 -1 O VAL C 81 N PHE C 70 SHEET 1 J 5 LYS D 10 PRO D 11 0 SHEET 2 J 5 GLU D 39 VAL D 47 -1 O TYR D 43 N LYS D 10 SHEET 3 J 5 THR D 51 ARG D 58 -1 O LYS D 56 N GLN D 42 SHEET 4 J 5 TYR D 64 LYS D 71 -1 O LEU D 67 N ILE D 55 SHEET 5 J 5 VAL D 81 LYS D 89 -1 O LYS D 89 N TYR D 64 SSBOND 1 CYS A 22 CYS A 65 1555 1555 2.03 SSBOND 2 CYS A 56 CYS A 98 1555 1555 2.11 SSBOND 3 CYS A 157 CYS A 210 1555 1555 2.02 SSBOND 4 CYS B 22 CYS B 65 1555 1555 2.03 SSBOND 5 CYS B 56 CYS B 98 1555 1555 2.05 SSBOND 6 CYS B 157 CYS B 210 1555 1555 1.74 LINK C SER A 24 N SCH A 25 1555 1555 1.34 LINK C SCH A 25 N TRP A 26 1555 1555 1.30 LINK C SER B 24 N SCH B 25 1555 1555 1.37 LINK C SCH B 25 N TRP B 26 1555 1555 1.29 CRYST1 59.313 107.290 115.980 90.00 90.00 90.00 P 21 21 21 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 0.016860 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009321 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008622 0.00000