HEADER HYDROLASE/HYDROLASE INHIBITOR 15-FEB-05 1YVB TITLE THE PLASMODIUM FALCIPARUM CYSTEINE PROTEASE FALCIPAIN-2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FALCIPAIN 2; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.22.-; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: CYSTATIN; COMPND 8 CHAIN: I; COMPND 9 SYNONYM: EGG-WHITE CYSTATIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 STRAIN: 3D7; SOURCE 5 GENE: AF239801; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: M15 PREP4; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE30; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 13 ORGANISM_COMMON: CHICKEN; SOURCE 14 ORGANISM_TAXID: 9031 KEYWDS CYSTEINE PROTEASE-INHIBITOR COMPLEX, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.X.WANG REVDAT 7 23-AUG-23 1YVB 1 REMARK REVDAT 6 20-OCT-21 1YVB 1 REMARK SEQADV REVDAT 5 28-JUL-21 1YVB 1 REMARK LINK REVDAT 4 13-JUL-11 1YVB 1 VERSN REVDAT 3 24-FEB-09 1YVB 1 VERSN REVDAT 2 19-SEP-06 1YVB 1 JRNL REVDAT 1 28-MAR-06 1YVB 0 JRNL AUTH S.X.WANG,K.C.PANDEY,J.R.SOMOZA,P.S.SIJWALI,T.KORTEMME, JRNL AUTH 2 L.S.BRINEN,R.J.FLETTERICK,P.J.ROSENTHAL,J.H.MCKERROW JRNL TITL STRUCTURAL BASIS FOR UNIQUE MECHANISMS OF FOLDING AND JRNL TITL 2 HEMOGLOBIN BINDING BY A MALARIAL PROTEASE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 103 11503 2006 JRNL REFN ISSN 0027-8424 JRNL PMID 16864794 JRNL DOI 10.1073/PNAS.0600489103 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.0 REMARK 3 NUMBER OF REFLECTIONS : 15720 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 SET) : 0.232 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 769 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.80 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 72.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.4100 REMARK 3 BIN FREE R VALUE : 0.3700 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 49 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2789 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 14 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 46.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.12300 REMARK 3 B22 (A**2) : -4.12300 REMARK 3 B33 (A**2) : 8.24600 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM SIGMAA (A) : 0.73 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.41 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.65 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.019 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1YVB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAR-05. REMARK 100 THE DEPOSITION ID IS D_1000031960. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-FEB-04 REMARK 200 TEMPERATURE (KELVIN) : 200 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.115875 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16071 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 41.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.14800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.42300 REMARK 200 R SYM FOR SHELL (I) : 0.44300 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1ATK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.5 AND 4.3 M NACL , PH REMARK 280 6.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K 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 62.08200 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 48.01800 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 48.01800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 93.12300 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 48.01800 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 48.01800 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 31.04100 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 48.01800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.01800 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 93.12300 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 48.01800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.01800 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 31.04100 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 62.08200 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: 1900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, I 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 GLY I 9 N REMARK 480 LYS I 39 NZ REMARK 480 LYS I 91 CB CG CD CE NZ REMARK 480 LYS I 114 NZ 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 N ASP I 77 NE2 GLN I 79 1.22 REMARK 500 CA ASP I 77 NE2 GLN I 79 1.27 REMARK 500 O SER I 74 N GLY I 76 1.31 REMARK 500 N LEU I 78 CB GLN I 79 1.37 REMARK 500 O GLU I 31 N TYR I 32 1.56 REMARK 500 O ASN A 43 N LYS A 44 1.67 REMARK 500 O LEU I 8 N GLY I 9 1.73 REMARK 500 NE2 GLN I 63 CG2 THR I 96 1.82 REMARK 500 C ASP I 77 NE2 GLN I 79 1.84 REMARK 500 OG1 THR I 69 O GLU I 82 1.94 REMARK 500 CB ASP I 77 NE2 GLN I 79 2.00 REMARK 500 N ASP I 77 CD GLN I 79 2.04 REMARK 500 C SER I 74 N GLY I 76 2.05 REMARK 500 OD1 ASP A 114 C2 GOL A 1001 2.11 REMARK 500 CB ASP I 77 CD GLN I 79 2.13 REMARK 500 CG ASP A 114 C1 GOL A 1001 2.15 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 GLN A 0 C MET A 0A N -0.367 REMARK 500 ASN A 43 C LYS A 44 N -0.428 REMARK 500 GLU I 31 C TYR I 32 N -0.547 REMARK 500 ARG I 43 N ARG I 43 CA -0.127 REMARK 500 SER I 74 C SER I 75 N 0.142 REMARK 500 GLY I 76 N GLY I 76 CA -0.101 REMARK 500 GLY I 76 C ASP I 77 N 0.139 REMARK 500 CYS I 81 CA CYS I 81 C 0.159 REMARK 500 CYS I 81 C CYS I 81 O -0.121 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 0K NE - CZ - NH1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ARG A 0K NE - CZ - NH2 ANGL. DEV. = -10.2 DEGREES REMARK 500 GLU A 0N CA - CB - CG ANGL. DEV. = -16.6 DEGREES REMARK 500 GLU A 0N CB - CG - CD ANGL. DEV. = -21.6 DEGREES REMARK 500 GLU A 0N CG - CD - OE1 ANGL. DEV. = -12.0 DEGREES REMARK 500 LEU A 9 CB - CG - CD2 ANGL. DEV. = 10.6 DEGREES REMARK 500 ASN A 43 CA - C - N ANGL. DEV. = 18.7 DEGREES REMARK 500 ASN A 43 O - C - N ANGL. DEV. = -20.7 DEGREES REMARK 500 LYS A 44 C - N - CA ANGL. DEV. = 33.2 DEGREES REMARK 500 LYS A 44 O - C - N ANGL. DEV. = -12.5 DEGREES REMARK 500 LEU A 45 CA - CB - CG ANGL. DEV. = 14.7 DEGREES REMARK 500 LEU A 45 CB - CG - CD2 ANGL. DEV. = 12.5 DEGREES REMARK 500 THR A 47 CA - CB - CG2 ANGL. DEV. = 9.1 DEGREES REMARK 500 LEU A 48 CB - CG - CD1 ANGL. DEV. = -11.3 DEGREES REMARK 500 GLU A 77 CG - CD - OE1 ANGL. DEV. = -13.2 DEGREES REMARK 500 LEU A 78 CB - CG - CD1 ANGL. DEV. = -15.1 DEGREES REMARK 500 LEU A 78 CB - CG - CD2 ANGL. DEV. = 18.8 DEGREES REMARK 500 ILE A 80 CA - CB - CG1 ANGL. DEV. = -18.1 DEGREES REMARK 500 VAL A 89 CA - CB - CG1 ANGL. DEV. = 12.8 DEGREES REMARK 500 ASN A 93 CB - CG - OD1 ANGL. DEV. = 16.1 DEGREES REMARK 500 ASN A 93 CB - CG - ND2 ANGL. DEV. = -18.3 DEGREES REMARK 500 ASP A 98 CA - CB - CG ANGL. DEV. = -17.3 DEGREES REMARK 500 ASP A 98 CB - CG - OD1 ANGL. DEV. = -14.1 DEGREES REMARK 500 ASP A 98 CB - CG - OD2 ANGL. DEV. = 12.5 DEGREES REMARK 500 ARG A 99 NE - CZ - NH1 ANGL. DEV. = -7.4 DEGREES REMARK 500 ARG A 99 NE - CZ - NH2 ANGL. DEV. = 5.0 DEGREES REMARK 500 VAL A 112 CA - CB - CG1 ANGL. DEV. = 11.4 DEGREES REMARK 500 ASP A 114 CB - CG - OD1 ANGL. DEV. = 17.9 DEGREES REMARK 500 ASP A 114 CB - CG - OD2 ANGL. DEV. = -18.1 DEGREES REMARK 500 LEU A 118 CA - CB - CG ANGL. DEV. = -17.9 DEGREES REMARK 500 LEU A 118 CB - CG - CD1 ANGL. DEV. = -12.5 DEGREES REMARK 500 LEU A 125 CA - CB - CG ANGL. DEV. = -17.9 DEGREES REMARK 500 LEU A 125 CB - CG - CD1 ANGL. DEV. = -11.4 DEGREES REMARK 500 VAL A 134 CA - CB - CG2 ANGL. DEV. = 10.6 DEGREES REMARK 500 VAL A 136 CA - CB - CG2 ANGL. DEV. = -9.2 DEGREES REMARK 500 ASP A 155 CA - CB - CG ANGL. DEV. = -18.4 DEGREES REMARK 500 ASP A 155 CB - CG - OD1 ANGL. DEV. = -15.7 DEGREES REMARK 500 ASP A 155 CB - CG - OD2 ANGL. DEV. = 13.6 DEGREES REMARK 500 LYS A 169 CD - CE - NZ ANGL. DEV. = -18.3 DEGREES REMARK 500 GLU A 169A CG - CD - OE1 ANGL. DEV. = 16.2 DEGREES REMARK 500 GLU A 169A CG - CD - OE2 ANGL. DEV. = -15.8 DEGREES REMARK 500 LEU A 169F CA - CB - CG ANGL. DEV. = -16.5 DEGREES REMARK 500 LYS A 169H CB - CG - CD ANGL. DEV. = 16.1 DEGREES REMARK 500 LYS A 169H CD - CE - NZ ANGL. DEV. = -17.1 DEGREES REMARK 500 LEU A 202 CB - CG - CD1 ANGL. DEV. = -11.4 DEGREES REMARK 500 LEU A 202 CB - CG - CD2 ANGL. DEV. = 13.8 DEGREES REMARK 500 THR A 204 CA - CB - OG1 ANGL. DEV. = 14.8 DEGREES REMARK 500 THR A 204 CA - CB - CG2 ANGL. DEV. = -16.5 DEGREES REMARK 500 ILE A 208 CB - CG1 - CD1 ANGL. DEV. = -18.3 DEGREES REMARK 500 LEU A 210 CB - CG - CD1 ANGL. DEV. = 13.7 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 118 ANGLE DEVIATIONS. 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 GLU A 0M -72.10 -86.71 REMARK 500 GLU A 0N 83.82 6.11 REMARK 500 LYS A 20 -142.38 60.36 REMARK 500 CYS A 22 132.52 172.53 REMARK 500 CYS A 63 5.35 -69.19 REMARK 500 ASP A 83 3.67 -68.89 REMARK 500 VAL A 89 13.61 -141.06 REMARK 500 SER A 90 -129.52 46.49 REMARK 500 ASN A 93 118.31 -163.69 REMARK 500 ASN A 108 -176.93 174.69 REMARK 500 ASP A 114 11.75 -59.10 REMARK 500 ASP A 150 21.26 -152.69 REMARK 500 ASN A 158 -18.88 -146.58 REMARK 500 PRO I 13 -73.86 -47.38 REMARK 500 VAL I 14 122.89 71.54 REMARK 500 VAL I 55 -144.84 -150.02 REMARK 500 SER I 74 -57.83 60.68 REMARK 500 SER I 75 47.47 -17.27 REMARK 500 ASP I 77 -76.44 -154.84 REMARK 500 LEU I 78 54.34 94.81 REMARK 500 GLN I 79 119.24 90.66 REMARK 500 CYS I 81 -147.16 -65.80 REMARK 500 PRO I 87 80.28 -67.51 REMARK 500 GLU I 88 -14.64 178.92 REMARK 500 LYS I 91 50.96 26.88 REMARK 500 TRP I 104 8.00 -69.18 REMARK 500 ASN I 106 39.13 34.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 0K 0.09 SIDE CHAIN REMARK 500 ARG I 6 0.32 SIDE CHAIN REMARK 500 PHE I 83 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLN A 0 -13.13 REMARK 500 LYS A 44 -21.43 REMARK 500 LEU I 8 -41.16 REMARK 500 ALA I 10 13.47 REMARK 500 GLU I 31 -22.32 REMARK 500 TYR I 32 16.78 REMARK 500 SER I 74 14.57 REMARK 500 ASP I 77 12.19 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 GOL A 1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ATK RELATED DB: PDB REMARK 900 HUMAN CATHEPSIN K REMARK 900 RELATED ID: 1PE6 RELATED DB: PDB REMARK 900 PAPAIN REMARK 900 RELATED ID: 1AIM RELATED DB: PDB REMARK 900 CRUZAIN DBREF 1YVB A 0 212 UNP Q9N6S8 Q9N6S8_PLAFA 244 484 DBREF 1YVB I 6 116 UNP P01038 CYT_CHICK 29 139 SEQADV 1YVB ARG A 0K UNP Q9N6S8 LYS 255 ENGINEERED MUTATION SEQADV 1YVB GLU A 0M UNP Q9N6S8 ASN 257 ENGINEERED MUTATION SEQADV 1YVB PRO A 82 UNP Q9N6S8 THR 343 ENGINEERED MUTATION SEQADV 1YVB GLY A 84 UNP Q9N6S8 ASP 345 ENGINEERED MUTATION SEQRES 1 A 241 GLN MET ASN TYR GLU GLU VAL ILE LYS LYS TYR ARG GLY SEQRES 2 A 241 GLU GLU ASN PHE ASP HIS ALA ALA TYR ASP TRP ARG LEU SEQRES 3 A 241 HIS SER GLY VAL THR PRO VAL LYS ASP GLN LYS ASN CYS SEQRES 4 A 241 GLY SER CYS TRP ALA PHE SER SER ILE GLY SER VAL GLU SEQRES 5 A 241 SER GLN TYR ALA ILE ARG LYS ASN LYS LEU ILE THR LEU SEQRES 6 A 241 SER GLU GLN GLU LEU VAL ASP CYS SER PHE LYS ASN TYR SEQRES 7 A 241 GLY CYS ASN GLY GLY LEU ILE ASN ASN ALA PHE GLU ASP SEQRES 8 A 241 MET ILE GLU LEU GLY GLY ILE CYS PRO ASP GLY ASP TYR SEQRES 9 A 241 PRO TYR VAL SER ASP ALA PRO ASN LEU CYS ASN ILE ASP SEQRES 10 A 241 ARG CYS THR GLU LYS TYR GLY ILE LYS ASN TYR LEU SER SEQRES 11 A 241 VAL PRO ASP ASN LYS LEU LYS GLU ALA LEU ARG PHE LEU SEQRES 12 A 241 GLY PRO ILE SER ILE SER VAL ALA VAL SER ASP ASP PHE SEQRES 13 A 241 ALA PHE TYR LYS GLU GLY ILE PHE ASP GLY GLU CYS GLY SEQRES 14 A 241 ASP GLN LEU ASN HIS ALA VAL MET LEU VAL GLY PHE GLY SEQRES 15 A 241 MET LYS GLU ILE VAL ASN PRO LEU THR LYS LYS GLY GLU SEQRES 16 A 241 LYS HIS TYR TYR TYR ILE ILE LYS ASN SER TRP GLY GLN SEQRES 17 A 241 GLN TRP GLY GLU ARG GLY PHE ILE ASN ILE GLU THR ASP SEQRES 18 A 241 GLU SER GLY LEU MET ARG LYS CYS GLY LEU GLY THR ASP SEQRES 19 A 241 ALA PHE ILE PRO LEU ILE GLU SEQRES 1 I 111 ARG LEU LEU GLY ALA PRO VAL PRO VAL ASP GLU ASN ASP SEQRES 2 I 111 GLU GLY LEU GLN ARG ALA LEU GLN PHE ALA MET ALA GLU SEQRES 3 I 111 TYR ASN ARG ALA SER ASN ASP LYS TYR SER SER ARG VAL SEQRES 4 I 111 VAL ARG VAL ILE SER ALA LYS ARG GLN LEU VAL SER GLY SEQRES 5 I 111 ILE LYS TYR ILE LEU GLN VAL GLU ILE GLY ARG THR THR SEQRES 6 I 111 CYS PRO LYS SER SER GLY ASP LEU GLN SER CYS GLU PHE SEQRES 7 I 111 HIS ASP GLU PRO GLU MET ALA LYS TYR THR THR CYS THR SEQRES 8 I 111 PHE VAL VAL TYR SER ILE PRO TRP LEU ASN GLN ILE LYS SEQRES 9 I 111 LEU LEU GLU SER LYS CYS GLN HET GOL A1001 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL C3 H8 O3 FORMUL 4 HOH *14(H2 O) HELIX 1 1 ASN A 0B GLY A 0L 1 11 HELIX 2 2 ARG A 8 HIS A 10 5 3 HELIX 3 3 SER A 24 LYS A 42 1 19 HELIX 4 4 SER A 49 SER A 57 1 9 HELIX 5 5 TYR A 61 GLY A 65 5 5 HELIX 6 6 LEU A 67 GLY A 79 1 13 HELIX 7 7 LYS A 117 LEU A 125 1 9 HELIX 8 8 SER A 137 PHE A 143 1 6 HELIX 9 9 ARG A 198 LEU A 202 5 5 HELIX 10 10 ASP I 18 SER I 36 1 19 HELIX 11 11 PRO I 103 ASN I 106 5 4 SHEET 1 A 5 TYR A 5 ASP A 6 0 SHEET 2 A 5 HIS A 159 VAL A 169C-1 O PHE A 166 N TYR A 5 SHEET 3 A 5 ILE A 130 VAL A 134 -1 N ILE A 132 O VAL A 161 SHEET 4 A 5 ALA A 206 LEU A 210 -1 O PHE A 207 N SER A 131 SHEET 5 A 5 ASN A 108 SER A 111 -1 N ASN A 108 O LEU A 210 SHEET 1 B 5 TYR A 5 ASP A 6 0 SHEET 2 B 5 HIS A 159 VAL A 169C-1 O PHE A 166 N TYR A 5 SHEET 3 B 5 GLY A 169J LYS A 174 -1 O ILE A 172 N GLY A 165 SHEET 4 B 5 PHE A 186 THR A 191 -1 O ILE A 189 N TYR A 171 SHEET 5 B 5 ILE A 148 PHE A 149 1 N PHE A 149 O GLU A 190 SHEET 1 C 4 PRO I 11 VAL I 12 0 SHEET 2 C 4 LYS I 51 LEU I 54 -1 O ARG I 52 N VAL I 12 SHEET 3 C 4 ILE I 58 ARG I 68 -1 O ILE I 61 N LYS I 51 SHEET 4 C 4 SER I 42 VAL I 47 -1 N VAL I 45 O GLU I 65 SHEET 1 D 5 PRO I 11 VAL I 12 0 SHEET 2 D 5 LYS I 51 LEU I 54 -1 O ARG I 52 N VAL I 12 SHEET 3 D 5 ILE I 58 ARG I 68 -1 O ILE I 61 N LYS I 51 SHEET 4 D 5 THR I 93 ILE I 102 -1 O SER I 101 N ILE I 58 SHEET 5 D 5 GLN I 107 CYS I 115 -1 O LEU I 111 N VAL I 98 SSBOND 1 CYS A 22 CYS A 63 1555 1555 2.04 SSBOND 2 CYS A 56 CYS A 95 1555 1555 2.03 SSBOND 3 CYS A 81 CYS A 100 1555 1555 2.04 SSBOND 4 CYS A 153 CYS A 200 1555 1555 2.04 SSBOND 5 CYS I 71 CYS I 81 1555 1555 1.97 SSBOND 6 CYS I 95 CYS I 115 1555 1555 2.04 LINK OD1 ASP A 114 C1 GOL A1001 1555 1555 1.92 LINK OD2 ASP A 114 C1 GOL A1001 1555 1555 1.91 LINK OD2 ASP A 114 O1 GOL A1001 1555 1555 1.71 LINK OD1 ASP A 114 C3 GOL A1001 1555 1555 1.70 CISPEP 1 LEU I 78 GLN I 79 0 -0.75 SITE 1 AC1 7 ASP A 114 ASN A 115 THR I 70 HIS I 84 SITE 2 AC1 7 ASP I 85 GLU I 86 MET I 89 CRYST1 96.036 96.036 124.164 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 0.010413 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010413 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008054 0.00000