HEADER HYDROLASE 17-JUL-95 1CPJ TITLE CRYSTAL STRUCTURES OF RECOMBINANT RAT CATHEPSIN B AND A CATHEPSIN B- TITLE 2 INHIBITOR COMPLEX: IMPLICATIONS FOR STRUCTURE-BASED INHIBITOR DESIGN COMPND MOL_ID: 1; COMPND 2 MOLECULE: CATHEPSIN B; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.4.22.1; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: CDNA; SOURCE 6 EXPRESSION_SYSTEM: SACCHAROMYCES CEREVISIAE; SOURCE 7 EXPRESSION_SYSTEM_COMMON: BAKER'S YEAST; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 4932; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS THIOL PROTEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.P.HUBER,Z.JIA REVDAT 5 23-OCT-24 1CPJ 1 REMARK REVDAT 4 03-NOV-21 1CPJ 1 SEQADV REVDAT 3 24-FEB-09 1CPJ 1 VERSN REVDAT 2 01-APR-03 1CPJ 1 JRNL REVDAT 1 07-DEC-95 1CPJ 0 JRNL AUTH Z.JIA,S.HASNAIN,T.HIRAMA,X.LEE,J.S.MORT,R.TO,C.P.HUBER JRNL TITL CRYSTAL STRUCTURES OF RECOMBINANT RAT CATHEPSIN B AND A JRNL TITL 2 CATHEPSIN B-INHIBITOR COMPLEX. IMPLICATIONS FOR JRNL TITL 3 STRUCTURE-BASED INHIBITOR DESIGN. JRNL REF J.BIOL.CHEM. V. 270 5527 1995 JRNL REFN ISSN 0021-9258 JRNL PMID 7890671 JRNL DOI 10.1074/JBC.270.10.5527 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH X.LEE,F.R.AHMED,T.HIRAMA,C.P.HUBER,D.R.ROSE,R.TO,S.HASNAIN, REMARK 1 AUTH 2 A.TAM,J.S.MORT REMARK 1 TITL CRYSTALLIZATION OF RECOMBINANT RAT CATHEPSIN B REMARK 1 REF J.BIOL.CHEM. V. 265 5950 1990 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.0 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.9 REMARK 3 NUMBER OF REFLECTIONS : 23373 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 3868 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 1.300 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 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: REMARK 3 RESIDUE ASN 222 OF BOTH CHAINS HAS PHI-PSI ANGLES OUTSIDE REMARK 3 THE NORMALLY PERMITTED RANGE BECAUSE ITS SIDE CHAIN OXYGEN REMARK 3 ATOM IS INVOLVED IN A HYDROGEN BOND WITH THE ADJACENT REMARK 3 MAIN-CHAIN N-H 223. REMARK 4 REMARK 4 1CPJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000172458. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : DEC-92 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : XUONG-HAMLIN MULTIWIRE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SDMS REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24886 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR 3.0 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 45.12500 REMARK 290 SMTRY3 2 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 300 REMARK: MTRIX REMARK 300 THE TRANSFORMATIONS PRESENTED ON MTRIX RECORDS BELOW REMARK 300 DESCRIBE NON-CRYSTALLOGRAPHIC RELATIONSHIPS AMONG THE REMARK 300 VARIOUS DOMAINS IN THIS ENTRY. APPLYING THE APPROPRIATE REMARK 300 MTRIX TRANSFORMATION TO THE RESIDUES LISTED FIRST WILL REMARK 300 YIELD APPROXIMATE COORDINATES FOR THE RESIDUES LISTED REMARK 300 SECOND. REMARK 300 REMARK 300 APPLIED TO TRANSFORMED TO REMARK 300 MTRIX RESIDUES RESIDUES RMSD REMARK 300 M1 A 1 .. A 253 B 1 .. B 253 0.457 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 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 -5 REMARK 465 SER A -4 REMARK 465 GLU A -3 REMARK 465 ASP A -2 REMARK 465 ILE A -1 REMARK 465 ASN A 0 REMARK 465 GLN A 254 REMARK 465 PHE B -5 REMARK 465 SER B -4 REMARK 465 GLU B -3 REMARK 465 ASP B -2 REMARK 465 ILE B -1 REMARK 465 ASN B 0 REMARK 465 GLN B 254 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 GLU A 122 CB CG CD OE1 OE2 REMARK 480 LYS A 127 CG CD CE NZ REMARK 480 GLU A 142 CG CD OE1 OE2 REMARK 480 LYS A 158 CG CD CE NZ REMARK 480 GLU B 122 CB CG CD OE1 OE2 REMARK 480 LYS B 127 CG CD CE NZ REMARK 480 LYS B 158 CG CD CE NZ REMARK 480 LYS B 184 CG CD CE NZ REMARK 480 ASP B 194 CG OD1 OD2 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 LYS A 127 CB LYS A 127 CG -0.712 REMARK 500 GLU B 122 CD GLU B 122 OE2 0.084 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 LYS A 127 CA - CB - CG ANGL. DEV. = 35.0 DEGREES REMARK 500 GLU A 142 OE1 - CD - OE2 ANGL. DEV. = -15.5 DEGREES REMARK 500 GLU A 142 CG - CD - OE2 ANGL. DEV. = 14.9 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 TYR A 94 129.33 -34.97 REMARK 500 ASN A 95 24.75 44.53 REMARK 500 ASP A 155 75.89 -59.84 REMARK 500 PRO A 169 152.86 -41.00 REMARK 500 SER A 178 -53.34 -23.90 REMARK 500 SER A 185 168.71 179.91 REMARK 500 GLU A 191 -45.66 -133.19 REMARK 500 ASN A 210 62.01 60.40 REMARK 500 SER A 220 40.50 -103.12 REMARK 500 ASN A 222 -179.96 62.14 REMARK 500 LEU A 234 130.58 -36.49 REMARK 500 GLU A 237 50.30 -106.51 REMARK 500 ASN A 238 26.99 38.41 REMARK 500 CYS B 14 79.48 -113.51 REMARK 500 ASN B 95 19.74 59.85 REMARK 500 CYS B 100 -71.57 -68.75 REMARK 500 GLU B 122 106.42 -43.43 REMARK 500 LYS B 130 37.60 -85.67 REMARK 500 ASP B 155 69.69 -63.52 REMARK 500 ASN B 167 -12.39 -140.88 REMARK 500 PRO B 169 153.86 -40.38 REMARK 500 LYS B 184 -40.26 -141.00 REMARK 500 GLU B 191 -96.79 -91.85 REMARK 500 ASN B 222 178.60 66.91 REMARK 500 LEU B 234 157.20 -45.50 REMARK 500 ASN B 238 32.62 39.33 REMARK 500 ALA B 248 -166.56 -165.58 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 PHE A 32 0.08 SIDE CHAIN REMARK 500 ARG A 85 0.08 SIDE CHAIN REMARK 500 TYR A 94 0.10 SIDE CHAIN REMARK 500 TYR A 103 0.08 SIDE CHAIN REMARK 500 TYR A 136 0.10 SIDE CHAIN REMARK 500 TYR A 140 0.07 SIDE CHAIN REMARK 500 ARG A 202 0.10 SIDE CHAIN REMARK 500 TYR A 214 0.10 SIDE CHAIN REMARK 500 TYR B 75 0.08 SIDE CHAIN REMARK 500 TYR B 151 0.08 SIDE CHAIN REMARK 500 TYR B 214 0.07 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 SER A 96 11.99 REMARK 500 GLY B 91 10.25 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 THERE IS A BIFURCATED SHEET IN EACH MOLECULE. EACH IS REMARK 700 REPRESENTED BY TWO SHEETS WITH SOME STRANDS IN COMMON. REMARK 700 THUS STRANDS 4, 5, 6 OF SHEETS SA1 AND SA2 ARE IDENTICAL TO REMARK 700 STRANDS 2, 3, 4 OF SHEETS SA2 AND SB2 IN CHAINS A AND B, REMARK 700 RESPECTIVELY. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: ACT REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE RESIDUES FOR RAT CATHEPSIN B REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE V223A SUBSTITUTION WAS PRESENT IN THE PLASMID REMARK 999 SUPPLIED TO DR. J. S. MORT BY DR. SHU CHAN ALTHOUGH IT REMARK 999 IS NOT MENTIONED IN THE PAPER GIVING THE CDNA SEQUENCE. REMARK 999 IT IS POSSIBLE THAT THIS CHANGE, ALSO WITH RESPECT TO REMARK 999 THE ORIGINAL PROTEIN SEQUENCE FROM A PREPARATION OF REMARK 999 PURIFIED PROTEIN, COULD REPRESENT A POLYMORPHISM REMARK 999 BETWEEN THE STRAINS OF RAT THAT WERE USED IN EACH REMARK 999 CASE. THE SUBSTITUTION IS NOT STRUCTURALLY IMPORTANT. DBREF 1CPJ A -5 254 UNP P00787 CATB_RAT 74 333 DBREF 1CPJ B -5 254 UNP P00787 CATB_RAT 74 333 SEQADV 1CPJ ALA A 115 UNP P00787 SER 194 ENGINEERED MUTATION SEQADV 1CPJ ALA A 223 UNP P00787 VAL 302 CLONING ARTIFACT SEQADV 1CPJ ALA B 115 UNP P00787 SER 194 ENGINEERED MUTATION SEQADV 1CPJ ALA B 223 UNP P00787 VAL 302 CLONING ARTIFACT SEQRES 1 A 260 PHE SER GLU ASP ILE ASN LEU PRO GLU SER PHE ASP ALA SEQRES 2 A 260 ARG GLU GLN TRP SER ASN CYS PRO THR ILE ALA GLN ILE SEQRES 3 A 260 ARG ASP GLN GLY SER CYS GLY SER CYS TRP ALA PHE GLY SEQRES 4 A 260 ALA VAL GLU ALA MET SER ASP ARG ILE CYS ILE HIS THR SEQRES 5 A 260 ASN GLY ARG VAL ASN VAL GLU VAL SER ALA GLU ASP LEU SEQRES 6 A 260 LEU THR CYS CYS GLY ILE GLN CYS GLY ASP GLY CYS ASN SEQRES 7 A 260 GLY GLY TYR PRO SER GLY ALA TRP ASN PHE TRP THR ARG SEQRES 8 A 260 LYS GLY LEU VAL SER GLY GLY VAL TYR ASN SER HIS ILE SEQRES 9 A 260 GLY CYS LEU PRO TYR THR ILE PRO PRO CYS GLU HIS HIS SEQRES 10 A 260 VAL ASN GLY ALA ARG PRO PRO CYS THR GLY GLU GLY ASP SEQRES 11 A 260 THR PRO LYS CYS ASN LYS MET CYS GLU ALA GLY TYR SER SEQRES 12 A 260 THR SER TYR LYS GLU ASP LYS HIS TYR GLY TYR THR SER SEQRES 13 A 260 TYR SER VAL SER ASP SER GLU LYS GLU ILE MET ALA GLU SEQRES 14 A 260 ILE TYR LYS ASN GLY PRO VAL GLU GLY ALA PHE THR VAL SEQRES 15 A 260 PHE SER ASP PHE LEU THR TYR LYS SER GLY VAL TYR LYS SEQRES 16 A 260 HIS GLU ALA GLY ASP VAL MET GLY GLY HIS ALA ILE ARG SEQRES 17 A 260 ILE LEU GLY TRP GLY ILE GLU ASN GLY VAL PRO TYR TRP SEQRES 18 A 260 LEU VAL ALA ASN SER TRP ASN ALA ASP TRP GLY ASP ASN SEQRES 19 A 260 GLY PHE PHE LYS ILE LEU ARG GLY GLU ASN HIS CYS GLY SEQRES 20 A 260 ILE GLU SER GLU ILE VAL ALA GLY ILE PRO ARG THR GLN SEQRES 1 B 260 PHE SER GLU ASP ILE ASN LEU PRO GLU SER PHE ASP ALA SEQRES 2 B 260 ARG GLU GLN TRP SER ASN CYS PRO THR ILE ALA GLN ILE SEQRES 3 B 260 ARG ASP GLN GLY SER CYS GLY SER CYS TRP ALA PHE GLY SEQRES 4 B 260 ALA VAL GLU ALA MET SER ASP ARG ILE CYS ILE HIS THR SEQRES 5 B 260 ASN GLY ARG VAL ASN VAL GLU VAL SER ALA GLU ASP LEU SEQRES 6 B 260 LEU THR CYS CYS GLY ILE GLN CYS GLY ASP GLY CYS ASN SEQRES 7 B 260 GLY GLY TYR PRO SER GLY ALA TRP ASN PHE TRP THR ARG SEQRES 8 B 260 LYS GLY LEU VAL SER GLY GLY VAL TYR ASN SER HIS ILE SEQRES 9 B 260 GLY CYS LEU PRO TYR THR ILE PRO PRO CYS GLU HIS HIS SEQRES 10 B 260 VAL ASN GLY ALA ARG PRO PRO CYS THR GLY GLU GLY ASP SEQRES 11 B 260 THR PRO LYS CYS ASN LYS MET CYS GLU ALA GLY TYR SER SEQRES 12 B 260 THR SER TYR LYS GLU ASP LYS HIS TYR GLY TYR THR SER SEQRES 13 B 260 TYR SER VAL SER ASP SER GLU LYS GLU ILE MET ALA GLU SEQRES 14 B 260 ILE TYR LYS ASN GLY PRO VAL GLU GLY ALA PHE THR VAL SEQRES 15 B 260 PHE SER ASP PHE LEU THR TYR LYS SER GLY VAL TYR LYS SEQRES 16 B 260 HIS GLU ALA GLY ASP VAL MET GLY GLY HIS ALA ILE ARG SEQRES 17 B 260 ILE LEU GLY TRP GLY ILE GLU ASN GLY VAL PRO TYR TRP SEQRES 18 B 260 LEU VAL ALA ASN SER TRP ASN ALA ASP TRP GLY ASP ASN SEQRES 19 B 260 GLY PHE PHE LYS ILE LEU ARG GLY GLU ASN HIS CYS GLY SEQRES 20 B 260 ILE GLU SER GLU ILE VAL ALA GLY ILE PRO ARG THR GLN FORMUL 3 HOH *190(H2 O) HELIX 1 3 CYS A 29 THR A 46 1 18 HELIX 2 4 ALA A 56 CYS A 62 1 7 HELIX 3 6 PRO A 76 ARG A 85 1 10 HELIX 4 7 GLU A 157 ASN A 167 1 11 HELIX 5 12 CYS B 29 HIS B 45 1 17 HELIX 6 13 ALA B 56 CYS B 62 1 7 HELIX 7 15 PRO B 76 LYS B 86 1 11 HELIX 8 17 GLU B 157 ASN B 167 1 11 SHEET 1 SA1 6 TYR A 146 VAL A 153 0 SHEET 2 SA1 6 ILE A 246 ARG A 252 -1 SHEET 3 SA1 6 VAL A 170 SER A 178 -1 SHEET 4 SA1 6 ASP A 194 GLU A 209 -1 SHEET 5 SA1 6 VAL A 212 ASN A 219 -1 SHEET 6 SA1 6 GLY A 229 ARG A 235 -1 SHEET 1 SA2 4 PHE A 5 ALA A 7 0 SHEET 2 SA2 4 ASP A 194 GLU A 209 -1 SHEET 3 SA2 4 VAL A 212 ASN A 219 -1 SHEET 4 SA2 4 GLY A 229 ARG A 235 -1 SHEET 1 SB1 6 TYR B 146 VAL B 153 0 SHEET 2 SB1 6 ILE B 246 ARG B 252 -1 SHEET 3 SB1 6 VAL B 170 SER B 178 -1 SHEET 4 SB1 6 ASP B 194 GLU B 209 -1 SHEET 5 SB1 6 VAL B 212 ASN B 219 -1 SHEET 6 SB1 6 GLY B 229 ARG B 235 -1 SHEET 1 SB2 4 PHE B 5 ALA B 7 0 SHEET 2 SB2 4 ASP B 194 GLU B 209 -1 SHEET 3 SB2 4 VAL B 212 ASN B 219 -1 SHEET 4 SB2 4 GLY B 229 ARG B 235 -1 SSBOND 1 CYS A 14 CYS A 43 1555 1555 2.03 SSBOND 2 CYS A 26 CYS A 71 1555 1555 2.03 SSBOND 3 CYS A 62 CYS A 128 1555 1555 2.03 SSBOND 4 CYS A 63 CYS A 67 1555 1555 2.04 SSBOND 5 CYS A 100 CYS A 132 1555 1555 2.03 SSBOND 6 CYS A 108 CYS A 119 1555 1555 2.02 SSBOND 7 CYS B 14 CYS B 43 1555 1555 2.06 SSBOND 8 CYS B 26 CYS B 71 1555 1555 2.02 SSBOND 9 CYS B 62 CYS B 128 1555 1555 2.04 SSBOND 10 CYS B 63 CYS B 67 1555 1555 2.03 SSBOND 11 CYS B 100 CYS B 132 1555 1555 2.04 SSBOND 12 CYS B 108 CYS B 119 1555 1555 2.02 SITE 1 ACT 3 CYS A 29 HIS A 199 ASN A 219 CRYST1 47.090 90.250 62.100 90.00 97.29 90.00 P 1 21 1 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 0.021236 0.000000 0.002717 0.00000 SCALE2 0.000000 0.011080 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016234 0.00000 MTRIX1 1 0.633800 0.738600 0.229700 -52.75100 1 MTRIX2 1 0.739400 -0.665700 0.100200 88.13200 1 MTRIX3 1 0.226900 0.106400 -0.968100 93.84400 1