PDB Short entry for 1B3D HEADER HYDROLASE/HYDROLASE INHIBITOR 09-DEC-98 1B3D TITLE STROMELYSIN-1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: STROMELYSIN-1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MMP-3; COMPND 5 EC: 3.4.24.17; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: STROMELYSIN-1 COMPLEX WITH HYDROXAMATE-PHOSPHINAMIDE COMPND 8 INHIBITOR SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS STROMELYSIN, MATRIX METALLOPROTEINASE, OSTEOARTHRITIS, PROTEIN KEYWDS 2 CRYSTAL STRUCTURE, STRUCTURE-BASED DRUG DESIGN, PROTEIN, HYDROLASE- KEYWDS 3 HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.CHEN,T.J.RYDEL,C.M.DUNAWAY,S.PIKUL,K.M.DUNHAM,F.GU,B.L.BARNETT REVDAT 4 02-MAY-12 1B3D 1 COMPND VERSN REVDAT 3 24-FEB-09 1B3D 1 VERSN REVDAT 2 01-APR-03 1B3D 1 JRNL REVDAT 1 10-DEC-99 1B3D 0 JRNL AUTH L.CHEN,T.J.RYDEL,F.GU,C.M.DUNAWAY,S.PIKUL,K.M.DUNHAM, JRNL AUTH 2 B.L.BARNETT JRNL TITL CRYSTAL STRUCTURE OF THE STROMELYSIN CATALYTIC DOMAIN AT 2.0 JRNL TITL 2 A RESOLUTION: INHIBITOR-INDUCED CONFORMATIONAL CHANGES. JRNL REF J.MOL.BIOL. V. 293 545 1999 JRNL REFN ISSN 0022-2836 JRNL PMID 10543949 JRNL DOI 10.1006/JMBI.1999.3147 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.5 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 6.00 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) (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 13990 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.256 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 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 : 2722 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 120 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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) : NULL 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) : 0.016 REMARK 3 BOND ANGLES (DEGREES) : 3.26 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: NULL REMARK 4 REMARK 4 1B3D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-DEC-98. REMARK 100 THE RCSB ID CODE IS RCSB000237. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-NOV-95 REMARK 200 TEMPERATURE (KELVIN) : 173 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 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 : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13990 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 2.500 REMARK 200 R MERGE (I) : 0.07300 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20-24% PEG 8000, 2.5% 2-PROPANOL, 10 REMARK 280 MM CACL2 0.1 M TRIS-HCL BUFFER, PH 7.5-8.5, PH 7.4 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 18.95000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.70000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.40000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.70000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.95000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.40000 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 REMARK 350 TOTAL BURIED SURFACE AREA: 2380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -130.0 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 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 SER A 252 REMARK 465 PRO A 253 REMARK 465 GLU A 254 REMARK 465 THR A 255 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 LEU A 108 CA - CB - CG ANGL. DEV. = 17.9 DEGREES REMARK 500 ASP A 228 N - CA - C ANGL. DEV. = 17.4 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 ILE A 89 58.70 29.63 REMARK 500 ARG A 93 35.84 -86.90 REMARK 500 ARG A 149 -127.96 41.15 REMARK 500 HIS A 151 -147.55 -126.31 REMARK 500 ASP A 158 43.12 -109.36 REMARK 500 ASN A 162 -115.26 55.95 REMARK 500 ASP A 189 -165.84 -127.09 REMARK 500 LEU A 222 33.39 -91.56 REMARK 500 SER A 225 -38.30 -162.36 REMARK 500 ASP A 228 -4.64 -42.27 REMARK 500 LEU A 229 -36.85 -148.95 REMARK 500 ARG A 231 30.05 -99.74 REMARK 500 PRO A 250 31.45 -83.79 REMARK 500 ARG B 149 -124.16 40.83 REMARK 500 HIS B 151 11.79 -140.15 REMARK 500 ASN B 162 -120.60 53.61 REMARK 500 ASP B 189 -153.08 -117.20 REMARK 500 PRO B 221 29.39 -66.04 REMARK 500 SER B 225 72.07 -51.87 REMARK 500 ARG B 231 47.45 -90.44 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ASP A 228 22.2 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 450 DISTANCE = 5.29 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 201 NE2 REMARK 620 2 HIS A 205 NE2 101.7 REMARK 620 3 HIS A 211 NE2 107.4 107.4 REMARK 620 4 THR B 255 O 136.8 112.1 87.8 REMARK 620 5 THR B 255 OXT 102.4 92.8 139.3 51.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 166 NE2 REMARK 620 2 HIS A 179 ND1 112.3 REMARK 620 3 ASP A 153 OD2 127.8 91.3 REMARK 620 4 HIS A 151 NE2 110.5 106.1 105.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 161 O REMARK 620 2 ASP A 158 OD1 85.7 REMARK 620 3 GLY A 159 O 94.5 96.5 REMARK 620 4 VAL A 163 O 86.8 88.5 175.0 REMARK 620 5 GLU A 184 OE2 76.5 162.2 84.5 91.1 REMARK 620 6 ASP A 181 OD2 169.2 103.8 89.7 88.2 94.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 182 OD1 REMARK 620 2 GLU A 184 O 102.5 REMARK 620 3 ASP A 107 OD1 94.4 122.2 REMARK 620 4 ASP A 107 OD2 83.4 74.1 53.4 REMARK 620 5 HOH A 322 O 161.8 94.1 70.1 94.2 REMARK 620 6 ASP A 182 O 78.0 77.4 160.3 141.5 113.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 305 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 175 O REMARK 620 2 HOH A 320 O 85.5 REMARK 620 3 HOH A 329 O 160.1 83.2 REMARK 620 4 GLY A 173 O 85.9 97.4 79.4 REMARK 620 5 ASP A 177 OD1 93.9 165.3 101.1 97.3 REMARK 620 6 ASP A 141 O 91.5 82.6 103.2 177.4 82.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 211 NE2 REMARK 620 2 HIS B 205 NE2 94.7 REMARK 620 3 S27 B 401 NA 121.4 123.6 REMARK 620 4 S27 B 401 OB 73.1 156.2 53.7 REMARK 620 5 S27 B 401 OA 138.7 94.7 29.6 82.6 REMARK 620 6 HIS B 201 NE2 98.5 96.8 116.2 105.0 120.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 179 ND1 REMARK 620 2 HIS B 166 NE2 109.6 REMARK 620 3 ASP B 153 OD2 100.0 108.8 REMARK 620 4 HIS B 151 NE2 116.4 114.7 106.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 184 OE2 REMARK 620 2 VAL B 163 O 93.1 REMARK 620 3 ASP B 181 OD2 86.1 87.8 REMARK 620 4 GLY B 161 O 93.5 93.5 178.7 REMARK 620 5 GLY B 159 O 91.5 175.2 94.0 84.7 REMARK 620 6 ASP B 158 OD1 174.4 89.3 99.0 81.3 86.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 416 O REMARK 620 2 ASP B 107 OD1 92.5 REMARK 620 3 ASP B 107 OD2 132.0 49.7 REMARK 620 4 ASP B 182 OD1 89.5 111.1 81.1 REMARK 620 5 HOH B 424 O 91.2 86.6 111.1 162.3 REMARK 620 6 GLU B 184 O 146.9 106.5 79.6 107.7 63.9 REMARK 620 7 ASP B 182 O 79.4 170.2 140.1 74.6 88.2 78.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 305 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 417 O REMARK 620 2 ASP B 141 O 87.4 REMARK 620 3 HOH B 408 O 101.8 98.7 REMARK 620 4 ASN B 175 O 72.9 95.7 164.5 REMARK 620 5 GLY B 173 O 96.1 174.6 76.6 89.3 REMARK 620 6 ASP B 177 OD1 163.0 84.2 94.0 93.3 93.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE S27 B 401 DBREF 1B3D A 83 255 UNP P08254 MMP3_HUMAN 100 272 DBREF 1B3D B 83 255 UNP P08254 MMP3_HUMAN 100 272 SEQRES 1 A 173 PHE ARG THR PHE PRO GLY ILE PRO LYS TRP ARG LYS THR SEQRES 2 A 173 HIS LEU THR TYR ARG ILE VAL ASN TYR THR PRO ASP LEU SEQRES 3 A 173 PRO LYS ASP ALA VAL ASP SER ALA VAL GLU LYS ALA LEU SEQRES 4 A 173 LYS VAL TRP GLU GLU VAL THR PRO LEU THR PHE SER ARG SEQRES 5 A 173 LEU TYR GLU GLY GLU ALA ASP ILE MET ILE SER PHE ALA SEQRES 6 A 173 VAL ARG GLU HIS GLY ASP PHE TYR PRO PHE ASP GLY PRO SEQRES 7 A 173 GLY ASN VAL LEU ALA HIS ALA TYR ALA PRO GLY PRO GLY SEQRES 8 A 173 ILE ASN GLY ASP ALA HIS PHE ASP ASP ASP GLU GLN TRP SEQRES 9 A 173 THR LYS ASP THR THR GLY THR ASN LEU PHE LEU VAL ALA SEQRES 10 A 173 ALA HIS GLU ILE GLY HIS SER LEU GLY LEU PHE HIS SER SEQRES 11 A 173 ALA ASN THR GLU ALA LEU MET TYR PRO LEU TYR HIS SER SEQRES 12 A 173 LEU THR ASP LEU THR ARG PHE ARG LEU SER GLN ASP ASP SEQRES 13 A 173 ILE ASN GLY ILE GLN SER LEU TYR GLY PRO PRO PRO ASP SEQRES 14 A 173 SER PRO GLU THR SEQRES 1 B 173 PHE ARG THR PHE PRO GLY ILE PRO LYS TRP ARG LYS THR SEQRES 2 B 173 HIS LEU THR TYR ARG ILE VAL ASN TYR THR PRO ASP LEU SEQRES 3 B 173 PRO LYS ASP ALA VAL ASP SER ALA VAL GLU LYS ALA LEU SEQRES 4 B 173 LYS VAL TRP GLU GLU VAL THR PRO LEU THR PHE SER ARG SEQRES 5 B 173 LEU TYR GLU GLY GLU ALA ASP ILE MET ILE SER PHE ALA SEQRES 6 B 173 VAL ARG GLU HIS GLY ASP PHE TYR PRO PHE ASP GLY PRO SEQRES 7 B 173 GLY ASN VAL LEU ALA HIS ALA TYR ALA PRO GLY PRO GLY SEQRES 8 B 173 ILE ASN GLY ASP ALA HIS PHE ASP ASP ASP GLU GLN TRP SEQRES 9 B 173 THR LYS ASP THR THR GLY THR ASN LEU PHE LEU VAL ALA SEQRES 10 B 173 ALA HIS GLU ILE GLY HIS SER LEU GLY LEU PHE HIS SER SEQRES 11 B 173 ALA ASN THR GLU ALA LEU MET TYR PRO LEU TYR HIS SER SEQRES 12 B 173 LEU THR ASP LEU THR ARG PHE ARG LEU SER GLN ASP ASP SEQRES 13 B 173 ILE ASN GLY ILE GLN SER LEU TYR GLY PRO PRO PRO ASP SEQRES 14 B 173 SER PRO GLU THR HET ZN A 301 1 HET ZN A 302 1 HET CA A 303 1 HET CA A 304 1 HET CA A 305 1 HET ZN B 301 1 HET ZN B 302 1 HET CA B 303 1 HET CA B 304 1 HET CA B 305 1 HET S27 B 401 26 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM S27 N-[[2-METHYL-4-HYDROXYCARBAMOYL]BUT-4-YL-N]-BENZYL-P- HETNAM 2 S27 [PHENYL]-P-[METHYL]PHOSPHINAMID FORMUL 3 ZN 4(ZN 2+) FORMUL 5 CA 6(CA 2+) FORMUL 13 S27 C20 H27 N2 O3 P FORMUL 14 HOH *120(H2 O) HELIX 1 1 LYS A 110 VAL A 127 1 18 HELIX 2 2 LEU A 195 LEU A 207 1 13 HELIX 3 3 GLN A 236 TYR A 246 1 11 HELIX 4 4 LYS B 110 VAL B 127 1 18 HELIX 5 5 LEU B 195 LEU B 207 1 13 HELIX 6 6 GLN B 236 TYR B 246 1 11 SHEET 1 A 5 THR A 131 ARG A 134 0 SHEET 2 A 5 HIS A 96 ILE A 101 1 N LEU A 97 O THR A 131 SHEET 3 A 5 ILE A 142 ALA A 147 1 N ILE A 142 O ARG A 100 SHEET 4 A 5 ALA A 178 ASP A 181 1 N ALA A 178 O SER A 145 SHEET 5 A 5 ALA A 165 ALA A 167 -1 N HIS A 166 O HIS A 179 SHEET 1 B 5 THR B 131 ARG B 134 0 SHEET 2 B 5 HIS B 96 ILE B 101 1 N LEU B 97 O THR B 131 SHEET 3 B 5 ILE B 142 ALA B 147 1 N ILE B 142 O ARG B 100 SHEET 4 B 5 ALA B 178 ASP B 181 1 N ALA B 178 O SER B 145 SHEET 5 B 5 ALA B 165 ALA B 167 -1 N HIS B 166 O HIS B 179 LINK ZN ZN A 301 NE2 HIS A 201 1555 1555 2.03 LINK ZN ZN A 301 NE2 HIS A 205 1555 1555 2.14 LINK ZN ZN A 301 NE2 HIS A 211 1555 1555 2.24 LINK ZN ZN A 301 O THR B 255 1555 1555 2.01 LINK ZN ZN A 301 OXT THR B 255 1555 1555 2.71 LINK ZN ZN A 302 NE2 HIS A 166 1555 1555 2.21 LINK ZN ZN A 302 ND1 HIS A 179 1555 1555 2.08 LINK ZN ZN A 302 OD2 ASP A 153 1555 1555 2.03 LINK ZN ZN A 302 NE2 HIS A 151 1555 1555 2.16 LINK CA CA A 303 O GLY A 161 1555 1555 2.45 LINK CA CA A 303 OD1 ASP A 158 1555 1555 2.62 LINK CA CA A 303 O GLY A 159 1555 1555 2.28 LINK CA CA A 303 O VAL A 163 1555 1555 2.37 LINK CA CA A 303 OE2 GLU A 184 1555 1555 2.52 LINK CA CA A 303 OD2 ASP A 181 1555 1555 2.37 LINK CA CA A 304 OD1 ASP A 182 1555 1555 2.69 LINK CA CA A 304 O GLU A 184 1555 1555 2.54 LINK CA CA A 304 OD1 ASP A 107 1555 1555 2.49 LINK CA CA A 304 OD2 ASP A 107 1555 1555 2.34 LINK CA CA A 304 O HOH A 322 1555 1555 2.57 LINK CA CA A 304 O ASP A 182 1555 1555 2.26 LINK CA CA A 305 O ASN A 175 1555 1555 2.54 LINK CA CA A 305 O HOH A 320 1555 1555 2.81 LINK CA CA A 305 O HOH A 329 1555 1555 2.62 LINK CA CA A 305 O GLY A 173 1555 1555 2.37 LINK CA CA A 305 OD1 ASP A 177 1555 1555 2.52 LINK CA CA A 305 O ASP A 141 1555 1555 2.37 LINK ZN ZN B 301 NE2 HIS B 211 1555 1555 2.21 LINK ZN ZN B 301 NE2 HIS B 205 1555 1555 2.26 LINK ZN ZN B 301 NA S27 B 401 1555 1555 2.71 LINK ZN ZN B 301 OB S27 B 401 1555 1555 2.01 LINK ZN ZN B 301 OA S27 B 401 1555 1555 1.88 LINK ZN ZN B 301 NE2 HIS B 201 1555 1555 2.20 LINK ZN ZN B 302 ND1 HIS B 179 1555 1555 1.99 LINK ZN ZN B 302 NE2 HIS B 166 1555 1555 2.06 LINK ZN ZN B 302 OD2 ASP B 153 1555 1555 1.93 LINK ZN ZN B 302 NE2 HIS B 151 1555 1555 2.19 LINK CA CA B 303 OE2 GLU B 184 1555 1555 2.23 LINK CA CA B 303 O VAL B 163 1555 1555 2.37 LINK CA CA B 303 OD2 ASP B 181 1555 1555 2.34 LINK CA CA B 303 O GLY B 161 1555 1555 2.49 LINK CA CA B 303 O GLY B 159 1555 1555 2.32 LINK CA CA B 303 OD1 ASP B 158 1555 1555 2.38 LINK CA CA B 304 O HOH B 416 1555 1555 2.55 LINK CA CA B 304 OD1 ASP B 107 1555 1555 2.58 LINK CA CA B 304 OD2 ASP B 107 1555 1555 2.57 LINK CA CA B 304 OD1 ASP B 182 1555 1555 2.29 LINK CA CA B 304 O HOH B 424 1555 1555 2.68 LINK CA CA B 304 O GLU B 184 1555 1555 2.68 LINK CA CA B 304 O ASP B 182 1555 1555 2.37 LINK CA CA B 305 O HOH B 417 1555 1555 2.40 LINK CA CA B 305 O ASP B 141 1555 1555 2.30 LINK CA CA B 305 O HOH B 408 1555 1555 2.56 LINK CA CA B 305 O ASN B 175 1555 1555 2.46 LINK CA CA B 305 O GLY B 173 1555 1555 2.43 LINK CA CA B 305 OD1 ASP B 177 1555 1555 2.50 SITE 1 AC1 4 HIS A 201 HIS A 205 HIS A 211 THR B 255 SITE 1 AC2 4 HIS A 151 ASP A 153 HIS A 166 HIS A 179 SITE 1 AC3 6 ASP A 158 GLY A 159 GLY A 161 VAL A 163 SITE 2 AC3 6 ASP A 181 GLU A 184 SITE 1 AC4 4 ASP A 107 ASP A 182 GLU A 184 HOH A 322 SITE 1 AC5 6 ASP A 141 GLY A 173 ASN A 175 ASP A 177 SITE 2 AC5 6 HOH A 320 HOH A 329 SITE 1 AC6 4 HIS B 201 HIS B 205 HIS B 211 S27 B 401 SITE 1 AC7 4 HIS B 151 ASP B 153 HIS B 166 HIS B 179 SITE 1 AC8 6 ASP B 158 GLY B 159 GLY B 161 VAL B 163 SITE 2 AC8 6 ASP B 181 GLU B 184 SITE 1 AC9 5 ASP B 107 ASP B 182 GLU B 184 HOH B 416 SITE 2 AC9 5 HOH B 424 SITE 1 BC1 6 ASP B 141 GLY B 173 ASN B 175 ASP B 177 SITE 2 BC1 6 HOH B 408 HOH B 417 SITE 1 BC2 13 ARG B 93 ASN B 162 VAL B 163 LEU B 164 SITE 2 BC2 13 ALA B 165 VAL B 198 HIS B 201 GLU B 202 SITE 3 BC2 13 HIS B 205 HIS B 211 PRO B 221 TYR B 223 SITE 4 BC2 13 ZN B 301 CRYST1 37.900 78.800 105.400 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 0.026385 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012690 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009488 0.00000