HEADER HYDROLASE 09-JUN-98 2USN TITLE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN FIBROBLAST TITLE 2 STROMELYSIN-1 INHIBITED WITH THIADIAZOLE INHIBITOR PNU-141803 COMPND MOL_ID: 1; COMPND 2 MOLECULE: STROMELYSIN-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN RESIDUES 83 - 247; COMPND 5 SYNONYM: MATRIX METALLOPROTEINASE-3, PROTEOGLYCANASE; COMPND 6 EC: 3.4.24.17; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 CELL: FIBROBLAST; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS HYDROLASE, METALLOPROTEASE, FIBROBLAST, COLLAGEN DEGRADATION EXPDTA X-RAY DIFFRACTION AUTHOR B.C.FINZEL,G.L.BRYANT JUNIOR,E.T.BALDWIN REVDAT 6 22-MAY-24 2USN 1 REMARK REVDAT 5 09-AUG-23 2USN 1 REMARK LINK REVDAT 4 07-MAR-18 2USN 1 REMARK REVDAT 3 24-FEB-09 2USN 1 VERSN REVDAT 2 01-APR-03 2USN 1 JRNL REVDAT 1 23-DEC-98 2USN 0 JRNL AUTH B.C.FINZEL,E.T.BALDWIN,G.L.BRYANT JR.,G.F.HESS,J.W.WILKS, JRNL AUTH 2 C.M.TREPOD,J.E.MOTT,V.P.MARSHALL,G.L.PETZOLD,R.A.POORMAN, JRNL AUTH 3 T.J.O'SULLIVAN,H.J.SCHOSTAREZ,M.A.MITCHELL JRNL TITL STRUCTURAL CHARACTERIZATIONS OF NONPEPTIDIC THIADIAZOLE JRNL TITL 2 INHIBITORS OF MATRIX METALLOPROTEINASES REVEAL THE BASIS FOR JRNL TITL 3 STROMELYSIN SELECTIVITY. JRNL REF PROTEIN SCI. V. 7 2118 1998 JRNL REFN ISSN 0961-8368 JRNL PMID 9792098 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROFFT REMARK 3 AUTHORS : KONNERT,HENDRICKSON,FINZEL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 82.0 REMARK 3 NUMBER OF REFLECTIONS : 8429 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 + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.172 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 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1312 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 84 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.11 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 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.015 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.032 ; 0.030 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.035 ; 0.040 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.022 ; 0.030 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.254 ; 0.250 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.180 ; 0.400 REMARK 3 MULTIPLE TORSION (A) : 0.207 ; 0.400 REMARK 3 H-BOND (X...Y) (A) : 0.250 ; 0.400 REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 3.200 ; 3.000 REMARK 3 STAGGERED (DEGREES) : 10.100; 5.000 REMARK 3 TRANSVERSE (DEGREES) : 21.700; 10.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.748 ; 1.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.255 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.330 ; 1.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 1.998 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 SEILECKI ET AL (JMB V134, 1979) PARAMETERS USED IN REFINEMENT. REMARK 3 REMARK 3 THROUGHOUT THE MODEL, RESIDUES ARE NUMBERED RELATIVE TO THE REMARK 3 SEQUENCE OF THE PROENZYME. THE FIRST RESIDUE OF THE MATURE REMARK 3 ACTIVE CATALYTIC DOMAIN IS PHE 83. RESIDUES 190-191 ARE REMARK 3 PARTIALY DISORDERED. THE CONFORMATION OF THESE ATOMS IS REMARK 3 UNCERTAIN. SIDECHAINS OF RESIDUES ASP 111 AND GLU 216 ARE REMARK 3 MODELED IN TWO DISCRETE CONFORMATIONS. THE MODEL INCLUDES REMARK 3 A CATALYTIC ZN+2 (257), A STRUCTURAL ZN+2 (258), AND THREE REMARK 3 BOUND CA+2 IONS (259-261). A THIRD ZN+2 HAS BEEN REMARK 3 IDENTIFIED IN THIS CRYSTAL FORM AND RESTS ON THE REMARK 3 CRYSTALLOGRAPHIC THREE-FOLD AXIS, COORDINATED BY THREE REMARK 3 CRYSTALLOGRAPHICALLY RELATED OCCURANCES OF HIS 96 NE2 AND REMARK 3 AN UNKNOWN FOURTH LIGAND. THE FOURTH LIGAND IS MODELED REMARK 3 WITH TWO ATOMS. ONE (HOH 263 O) COORDINATED TO THE ZN 262 REMARK 3 ALSO SITS ON THE THREE-FOLD AXIS. ONE ATOM (HOH 264 O) REMARK 3 BONDED (2.05 ANGSTROMS) TO IT. THIS SECOND ATOM IS REMARK 3 REPLICATED THREE TIMES BY SYMMETRY. THE FOURTH LIGAND REMARK 3 THEREFORE RESEMBLES A CARBONATE OR NITRITE ION. REMARK 4 REMARK 4 2USN 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_1000178725. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-APR-96 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 7.0 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 : SIEMENS REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE(002) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : SIEMENS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XENGEN REMARK 200 DATA SCALING SOFTWARE : XENGEN REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8566 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.0 REMARK 200 DATA REDUNDANCY : 4.520 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08600 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) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.19200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: PROTEIN COMPONENT OF STROMELYSIN-1 MODEL WITH REMARK 200 OTHER INHIBITOR (1USN) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HANGING DROP VAPOR DIFFUSION., PH 7.0, REMARK 280 VAPOR DIFFUSION - HANGING DROP, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 35.44500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 20.46418 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 63.03667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 35.44500 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 20.46418 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 63.03667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 35.44500 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 20.46418 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 63.03667 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 35.44500 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 20.46418 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 63.03667 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 35.44500 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 20.46418 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 63.03667 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 35.44500 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 20.46418 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 63.03667 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 40.92836 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 126.07333 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 40.92836 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 126.07333 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 40.92836 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 126.07333 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 40.92836 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 126.07333 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 40.92836 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 126.07333 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 40.92836 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 126.07333 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 ZN ZN A 262 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 263 LIES ON A SPECIAL POSITION. REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 231 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 360 O HOH A 360 11565 1.25 REMARK 500 NH1 ARG A 84 OD2 ASP A 228 3675 2.13 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 84 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 93 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 VAL A 113 CA - CB - CG2 ANGL. DEV. = 9.9 DEGREES REMARK 500 GLU A 126 OE1 - CD - OE2 ANGL. DEV. = 8.6 DEGREES REMARK 500 ARG A 134 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 LEU A 135 CA - CB - CG ANGL. DEV. = 14.8 DEGREES REMARK 500 ARG A 149 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 149 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 PHE A 157 CB - CA - C ANGL. DEV. = 13.9 DEGREES REMARK 500 HIS A 166 N - CA - CB ANGL. DEV. = 11.1 DEGREES REMARK 500 ASP A 177 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP A 182 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP A 182 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG A 233 NE - CZ - NH1 ANGL. DEV. = 3.5 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 ARG A 149 -131.78 41.67 REMARK 500 HIS A 151 15.65 -143.37 REMARK 500 ASN A 162 -114.81 56.53 REMARK 500 PHE A 210 -161.93 -105.32 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 84 0.11 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 ASP A 189 -10.36 REMARK 500 REMARK 500 REMARK: NULL 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 262 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 96 NE2 REMARK 620 2 HIS A 96 NE2 112.8 REMARK 620 3 HIS A 96 NE2 113.0 113.9 REMARK 620 4 HOH A 263 O 105.4 105.3 105.4 REMARK 620 5 HOH A 263 O 104.6 106.1 105.5 0.9 REMARK 620 6 HOH A 263 O 104.7 105.2 106.2 0.9 0.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 261 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 107 OD2 REMARK 620 2 ASP A 107 OD1 48.7 REMARK 620 3 ASP A 182 O 146.6 155.9 REMARK 620 4 ASP A 182 OD1 91.0 99.4 68.0 REMARK 620 5 GLU A 184 O 77.0 120.0 83.8 105.7 REMARK 620 6 HOH A 321 O 99.7 85.1 103.9 168.7 80.5 REMARK 620 7 HOH A 331 O 122.8 77.3 80.1 79.2 159.9 91.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 260 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 141 O REMARK 620 2 GLY A 173 O 162.3 REMARK 620 3 ASN A 175 O 106.3 90.4 REMARK 620 4 ASP A 177 OD1 85.0 101.1 89.9 REMARK 620 5 HOH A 307 O 76.7 97.6 91.4 161.3 REMARK 620 6 HOH A 316 O 87.5 75.4 165.1 97.0 86.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 258 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 151 NE2 REMARK 620 2 ASP A 153 OD2 102.7 REMARK 620 3 HIS A 166 NE2 103.9 112.6 REMARK 620 4 HIS A 179 ND1 117.3 99.1 120.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 259 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 158 OD1 REMARK 620 2 GLY A 159 O 90.1 REMARK 620 3 GLY A 161 O 91.4 91.2 REMARK 620 4 VAL A 163 O 87.4 176.1 85.9 REMARK 620 5 ASP A 181 OD2 93.6 90.8 174.6 92.3 REMARK 620 6 GLU A 184 OE2 174.8 94.7 86.5 87.8 88.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 257 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 201 NE2 REMARK 620 2 HIS A 205 NE2 95.1 REMARK 620 3 HIS A 211 NE2 114.9 113.7 REMARK 620 4 IN8 A 300 S2 116.8 108.9 107.1 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: INH REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: SITE INH IS THE BINDING SITE FOR THE AMIDE REMARK 800 -THIADIAZOLE INHIBITOR PNU-141803; IN8 300. REMARK 800 REMARK 800 SITE_IDENTIFIER: ZN1 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: ZN1 ARE THE LIGANDS OF THE CATALYTIC (ZN 257) REMARK 800 ZINC ION. REMARK 800 REMARK 800 SITE_IDENTIFIER: ZN2 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: ZN2 ARE THE LIGANDS OF THE STRUCTURAL (ZN 258) REMARK 800 ZINC ION. REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 257 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 258 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 259 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 260 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 261 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 262 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IN8 A 300 DBREF 2USN A 83 247 UNP P08254 MMP3_HUMAN 100 264 SEQRES 1 A 165 PHE ARG THR PHE PRO GLY ILE PRO LYS TRP ARG LYS THR SEQRES 2 A 165 HIS LEU THR TYR ARG ILE VAL ASN TYR THR PRO ASP LEU SEQRES 3 A 165 PRO LYS ASP ALA VAL ASP SER ALA VAL GLU LYS ALA LEU SEQRES 4 A 165 LYS VAL TRP GLU GLU VAL THR PRO LEU THR PHE SER ARG SEQRES 5 A 165 LEU TYR GLU GLY GLU ALA ASP ILE MET ILE SER PHE ALA SEQRES 6 A 165 VAL ARG GLU HIS GLY ASP PHE TYR PRO PHE ASP GLY PRO SEQRES 7 A 165 GLY ASN VAL LEU ALA HIS ALA TYR ALA PRO GLY PRO GLY SEQRES 8 A 165 ILE ASN GLY ASP ALA HIS PHE ASP ASP ASP GLU GLN TRP SEQRES 9 A 165 THR LYS ASP THR THR GLY THR ASN LEU PHE LEU VAL ALA SEQRES 10 A 165 ALA HIS GLU ILE GLY HIS SER LEU GLY LEU PHE HIS SER SEQRES 11 A 165 ALA ASN THR GLU ALA LEU MET TYR PRO LEU TYR HIS SER SEQRES 12 A 165 LEU THR ASP LEU THR ARG PHE ARG LEU SER GLN ASP ASP SEQRES 13 A 165 ILE ASN GLY ILE GLN SER LEU TYR GLY HET ZN A 257 1 HET ZN A 258 1 HET CA A 259 1 HET CA A 260 1 HET CA A 261 1 HET ZN A 262 1 HET IN8 A 300 28 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM IN8 [2-(5-MERCAPTO-[1,3,4]THIADIAZOL-2-YLCARBAMOYL)-1- HETNAM 2 IN8 PHENYL-ETHYL]-CARBAMIC ACID BENZYL ESTER HETSYN IN8 PNU-141803 FORMUL 2 ZN 3(ZN 2+) FORMUL 4 CA 3(CA 2+) FORMUL 8 IN8 C19 H18 N4 O3 S2 FORMUL 9 HOH *84(H2 O) HELIX 1 1 LYS A 110 GLU A 125 1 16 HELIX 2 2 LEU A 195 LEU A 207 1 13 HELIX 3 3 TYR A 223 LEU A 226 1 4 HELIX 4 4 LEU A 229 ARG A 231 5 3 HELIX 5 5 GLN A 236 LEU A 245 1 10 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 LINK NE2 HIS A 96 ZN ZN A 262 1555 1555 2.05 LINK NE2 HIS A 96 ZN ZN A 262 3665 1555 2.03 LINK NE2 HIS A 96 ZN ZN A 262 2655 1555 2.03 LINK OD2 ASP A 107 CA CA A 261 1555 1555 2.37 LINK OD1 ASP A 107 CA CA A 261 1555 1555 2.89 LINK O ASP A 141 CA CA A 260 1555 1555 2.29 LINK NE2 HIS A 151 ZN ZN A 258 1555 1555 2.06 LINK OD2 ASP A 153 ZN ZN A 258 1555 1555 1.96 LINK OD1 ASP A 158 CA CA A 259 1555 1555 2.24 LINK O GLY A 159 CA CA A 259 1555 1555 2.19 LINK O GLY A 161 CA CA A 259 1555 1555 2.20 LINK O VAL A 163 CA CA A 259 1555 1555 2.24 LINK NE2 HIS A 166 ZN ZN A 258 1555 1555 2.09 LINK O GLY A 173 CA CA A 260 1555 1555 2.30 LINK O ASN A 175 CA CA A 260 1555 1555 2.35 LINK OD1 ASP A 177 CA CA A 260 1555 1555 2.28 LINK ND1 HIS A 179 ZN ZN A 258 1555 1555 2.01 LINK OD2 ASP A 181 CA CA A 259 1555 1555 2.23 LINK O ASP A 182 CA CA A 261 1555 1555 2.38 LINK OD1 ASP A 182 CA CA A 261 1555 1555 2.68 LINK OE2 GLU A 184 CA CA A 259 1555 1555 2.34 LINK O GLU A 184 CA CA A 261 1555 1555 2.38 LINK NE2 HIS A 201 ZN ZN A 257 1555 1555 1.97 LINK NE2 HIS A 205 ZN ZN A 257 1555 1555 2.10 LINK NE2 HIS A 211 ZN ZN A 257 1555 1555 1.98 LINK ZN ZN A 257 S2 IN8 A 300 1555 1555 2.28 LINK CA CA A 260 O HOH A 307 1555 1555 2.38 LINK CA CA A 260 O HOH A 316 1555 1555 2.51 LINK CA CA A 261 O HOH A 321 1555 1555 2.57 LINK CA CA A 261 O HOH A 331 1555 1555 2.52 LINK ZN ZN A 262 O HOH A 263 1555 1555 2.32 LINK ZN ZN A 262 O HOH A 263 1555 3665 2.32 LINK ZN ZN A 262 O HOH A 263 1555 2655 2.32 SITE 1 INH 8 PHE A 86 TYR A 155 HIS A 166 ALA A 167 SITE 2 INH 8 TYR A 168 ALA A 169 HIS A 205 PHE A 210 SITE 1 ZN1 4 HIS A 201 HIS A 205 HIS A 211 IN8 A 300 SITE 1 ZN2 4 HIS A 151 ASP A 153 HIS A 166 HIS A 179 SITE 1 AC1 4 HIS A 201 HIS A 205 HIS A 211 IN8 A 300 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 6 ASP A 141 GLY A 173 ASN A 175 ASP A 177 SITE 2 AC4 6 HOH A 307 HOH A 316 SITE 1 AC5 5 ASP A 107 ASP A 182 GLU A 184 HOH A 321 SITE 2 AC5 5 HOH A 331 SITE 1 AC6 2 HIS A 96 HOH A 263 SITE 1 AC7 14 PRO A 90 TYR A 155 HIS A 166 ALA A 167 SITE 2 AC7 14 TYR A 168 ALA A 169 ASN A 175 HIS A 201 SITE 3 AC7 14 GLU A 202 HIS A 205 PHE A 210 HIS A 211 SITE 4 AC7 14 ZN A 257 HOH A 380 CRYST1 70.890 70.890 189.110 90.00 90.00 120.00 H 3 2 18 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 0.014106 0.008144 0.000000 0.00000 SCALE2 0.000000 0.016289 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005288 0.00000