10 20 30 40 50 60 70 80 1D7X - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 20-OCT-99 1D7X
TITLE CRYSTAL STRUCTURE OF MMP3 COMPLEXED WITH A MODIFIED PROLINE TITLE 2 SCAFFOLD BASED INHIBITOR.
COMPND MOL_ID: 1; COMPND 2 MOLECULE: STROMELYSIN-1 PRECURSOR; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN; COMPND 5 SYNONYM: MMP-3; 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562
KEYWDS MIXED ALPHA BETA STRUCTURE, ZINC PROTEASE, INHIBITED, KEYWDS 2 HYDROLASE
EXPDTA X-RAY DIFFRACTION
AUTHOR M.Y.CHENG,M.G.NATCHUS,B.DE,N.G.ALMSTEAD,S.PIKUL
REVDAT 3 24-FEB-09 1D7X 1 VERSN REVDAT 2 01-APR-03 1D7X 1 JRNL REVDAT 1 23-OCT-00 1D7X 0
JRNL AUTH M.CHENG,B.DE,N.G.ALMSTEAD,S.PIKUL,M.E.DOWTY, JRNL AUTH 2 C.R.DIETSCH,C.M.DUNAWAY,F.GU,L.C.HSIEH,M.J.JANUSZ, JRNL AUTH 3 Y.O.TAIWO,M.G.NATCHUS,T.HUDLICKY,M.MANDEL JRNL TITL DESIGN, SYNTHESIS, AND BIOLOGICAL EVALUATION OF JRNL TITL 2 MATRIX METALLOPROTEINASE INHIBITORS DERIVED FROM A JRNL TITL 3 MODIFIED PROLINE SCAFFOLD. JRNL REF J.MED.CHEM. V. 42 5426 1999 JRNL REFN ISSN 0022-2623 JRNL PMID 10639284 JRNL DOI 10.1021/JM9904699
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 98.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 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) (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 18396 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) : 0.262 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1859 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 : 56 REMARK 3 SOLVENT ATOMS : 169 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.38 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) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.68 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: USED WEIGHTED FULL MATRIX LEAST REMARK 3 SQUARES PROCEDURE.
REMARK 4 REMARK 4 1D7X COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-OCT-99. REMARK 100 THE RCSB ID CODE IS RCSB009875.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-SEP-97 REMARK 200 TEMPERATURE (KELVIN) : 173 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SIEMENS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SMART REMARK 200 DATA SCALING SOFTWARE : SAINT REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39122 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 10.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 77.0 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.24700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 1.1000 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: NULL 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 (%): 38.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 6000, SODIUM CHLORIDE, REMARK 280 MAGNESIUM CHLORIDE, TRIS, PH 8.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K
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 18.92500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.37000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.11000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.37000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.92500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.11000 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 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 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 TRP A 186 NE1 TRP A 186 CE2 0.114 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 TYR A 155 CB - CG - CD2 ANGL. DEV. = -11.0 DEGREES REMARK 500 TYR A 155 CB - CG - CD1 ANGL. DEV. = 6.9 DEGREES REMARK 500 PHE A 210 CB - CG - CD2 ANGL. DEV. = -15.5 DEGREES REMARK 500 PHE A 210 CB - CG - CD1 ANGL. DEV. = 13.1 DEGREES REMARK 500 TYR A 220 CA - CB - CG ANGL. DEV. = -15.1 DEGREES REMARK 500 TYR A 220 CB - CG - CD2 ANGL. DEV. = -12.9 DEGREES REMARK 500 TYR A 220 CB - CG - CD1 ANGL. DEV. = 9.2 DEGREES REMARK 500 TYR B 604 CA - CB - CG ANGL. DEV. = -14.0 DEGREES REMARK 500 TYR B 604 CB - CG - CD2 ANGL. DEV. = -17.1 DEGREES REMARK 500 TYR B 604 CB - CG - CD1 ANGL. DEV. = 13.2 DEGREES REMARK 500 HIS B 701 CB - CG - CD2 ANGL. DEV. = -12.8 DEGREES REMARK 500 PHE B 710 CB - CG - CD2 ANGL. DEV. = -15.0 DEGREES REMARK 500 PHE B 710 CB - CG - CD1 ANGL. DEV. = 13.0 DEGREES REMARK 500 ARG B 731 CG - CD - NE ANGL. DEV. = 14.3 DEGREES REMARK 500 ARG B 731 CD - NE - CZ ANGL. DEV. = -24.5 DEGREES REMARK 500 ARG B 731 NE - CZ - NH1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ARG B 731 NE - CZ - NH2 ANGL. DEV. = -9.7 DEGREES REMARK 500 PHE B 732 CB - CG - CD2 ANGL. DEV. = 11.2 DEGREES REMARK 500 PHE B 732 CB - CG - CD1 ANGL. DEV. = -14.6 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 PRO A 87 10.05 -61.15 REMARK 500 ARG A 149 -127.25 42.18 REMARK 500 HIS A 151 36.77 -149.36 REMARK 500 ASN A 162 -125.88 54.46 REMARK 500 ASP A 189 -154.86 -113.52 REMARK 500 SER A 225 83.04 -68.47 REMARK 500 ARG B 649 -141.77 45.60 REMARK 500 HIS B 651 29.54 -144.74 REMARK 500 ASN B 662 -130.07 54.94 REMARK 500 ASP B 689 -152.30 -119.69 REMARK 500 PHE B 710 -169.01 -101.05 REMARK 500 THR B 715 -26.59 -39.65 REMARK 500 SER B 725 55.54 -62.70 REMARK 500 THR B 727 -69.48 -106.19 REMARK 500 ASP B 728 89.89 -59.92 REMARK 500 PHE B 732 119.61 -38.83 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 TYR A 155 0.10 SIDE_CHAIN REMARK 500 TYR A 220 0.09 SIDE_CHAIN REMARK 500 TYR B 604 0.09 SIDE_CHAIN REMARK 500 ARG B 731 0.18 SIDE_CHAIN 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 A 464 DISTANCE = 5.48 ANGSTROMS REMARK 525 HOH A 465 DISTANCE = 5.02 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 211 NE2 95.9 REMARK 620 3 HIS A 205 NE2 85.3 86.9 REMARK 620 4 SPC A 401 O31 99.2 80.3 166.8 REMARK 620 5 SPC A 401 N32 118.1 131.6 126.6 62.1 REMARK 620 6 SPC A 401 O33 99.4 164.5 97.1 94.4 36.1 REMARK 620 N 1 2 3 4 5 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 ASP A 153 OD2 REMARK 620 2 HIS A 151 NE2 105.5 REMARK 620 3 HIS A 166 NE2 113.3 122.9 REMARK 620 4 HIS A 179 ND1 93.9 110.0 107.4 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 90.1 REMARK 620 3 GLY A 159 O 96.2 88.4 REMARK 620 4 VAL A 163 O 80.7 87.7 175.0 REMARK 620 5 GLU A 184 OE2 91.8 177.8 90.2 93.9 REMARK 620 6 ASP A 181 OD2 177.9 91.3 85.4 97.8 86.9 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 96.4 REMARK 620 3 ASP A 107 OD1 93.0 121.0 REMARK 620 4 ASP A 107 OD2 83.8 71.3 52.0 REMARK 620 5 HOH A 496 O 174.4 79.3 92.3 98.1 REMARK 620 6 ASP A 182 O 79.4 75.7 162.6 140.9 95.9 REMARK 620 7 HOH A 403 O 85.0 156.5 82.3 132.0 97.5 81.5 REMARK 620 N 1 2 3 4 5 6 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 HOH A 473 O REMARK 620 2 ASP A 141 O 91.8 REMARK 620 3 HOH A 470 O 105.0 87.1 REMARK 620 4 ASN A 175 O 171.6 93.5 68.8 REMARK 620 5 ASP A 177 OD1 95.0 81.9 157.4 92.2 REMARK 620 6 GLY A 173 O 87.0 175.3 97.6 88.2 93.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 801 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 711 NE2 REMARK 620 2 HIS B 705 NE2 99.3 REMARK 620 3 SPC B 901 N32 120.5 114.1 REMARK 620 4 SPC B 901 O31 73.1 146.7 51.8 REMARK 620 5 SPC B 901 O33 147.1 90.0 30.2 81.9 REMARK 620 6 HIS B 701 NE2 100.1 95.8 122.2 117.3 110.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 802 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 653 OD2 REMARK 620 2 HIS B 651 NE2 111.9 REMARK 620 3 HIS B 679 ND1 100.6 116.1 REMARK 620 4 HIS B 666 NE2 104.1 118.2 103.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 803 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 681 OD2 REMARK 620 2 GLU B 684 OE2 87.4 REMARK 620 3 VAL B 663 O 90.3 88.1 REMARK 620 4 GLY B 661 O 177.8 91.5 87.7 REMARK 620 5 GLY B 659 O 83.6 90.7 173.8 98.3 REMARK 620 6 ASP B 658 OD1 85.6 172.8 90.5 95.5 89.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 804 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 607 OD2 REMARK 620 2 ASP B 682 OD1 81.1 REMARK 620 3 ASP B 607 OD1 51.6 96.3 REMARK 620 4 HOH B 14 O 105.2 172.9 85.4 REMARK 620 5 GLU B 684 O 75.5 109.9 115.8 75.2 REMARK 620 6 ASP B 682 O 142.4 78.1 161.3 98.1 82.7 REMARK 620 7 HOH A 440 O 136.2 81.2 91.2 91.9 148.3 70.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 805 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 6 O REMARK 620 2 ASN B 675 O 176.1 REMARK 620 3 ASP B 641 O 83.0 100.2 REMARK 620 4 GLY B 673 O 91.0 85.8 174.0 REMARK 620 5 ASP B 677 OD1 92.0 86.3 82.8 97.7 REMARK 620 N 1 2 3 4
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 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 302 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 303 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 304 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 305 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 801 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 802 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 803 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 804 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 805 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SPC A 401 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SPC B 901
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CQR RELATED DB: PDB REMARK 900 1CQR CONTAINS THE SAME PROTEIN COMPLEXED WITH A DIFFERENT REMARK 900 INHIBITOR. REMARK 900 RELATED ID: 1D5J RELATED DB: PDB REMARK 900 1D5J CONTAINS THE SAME PROTEIN COMPLEXED WITH A DIFFERENT REMARK 900 INHIBITOR.
DBREF 1D7X A 83 255 UNP P08254 MMP3_HUMAN 100 272 DBREF 1D7X B 583 755 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 801 1 HET ZN B 802 1 HET CA B 803 1 HET CA B 804 1 HET CA B 805 1 HET SPC A 401 23 HET SPC B 901 23
HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM SPC N-HYDROXY 1N(4-METHOXYPHENYL)SULFONYL-4-(Z,E-N- HETNAM 2 SPC METHOXYIMINO)PYRROLIDINE-2R-CARBOXAMIDE
FORMUL 3 ZN 4(ZN 2+) FORMUL 5 CA 6(CA 2+) FORMUL 13 SPC 2(C13 H19 N3 O6 S) FORMUL 15 HOH *169(H2 O)
HELIX 1 1 PRO A 109 GLU A 126 1 18 HELIX 2 2 LEU A 195 LEU A 207 1 13 HELIX 3 3 SER A 235 GLY A 247 1 13 HELIX 4 4 PRO B 609 GLU B 626 1 18 HELIX 5 5 LEU B 695 LEU B 707 1 13 HELIX 6 6 SER B 735 GLY B 747 1 13
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 THR A 98 SHEET 4 A 5 ALA A 178 ASP A 181 1 N ALA A 178 O MET A 143 SHEET 5 A 5 ALA A 165 ALA A 167 -1 O HIS A 166 N HIS A 179 SHEET 1 B 2 TRP A 186 THR A 187 0 SHEET 2 B 2 THR A 193 ASN A 194 1 O THR A 193 N THR A 187 SHEET 1 C 2 ARG B 584 THR B 585 0 SHEET 2 C 2 LEU B 709 PHE B 710 -1 N PHE B 710 O ARG B 584 SHEET 1 D 5 THR B 631 ARG B 634 0 SHEET 2 D 5 HIS B 596 ILE B 601 1 N LEU B 597 O THR B 631 SHEET 3 D 5 ILE B 642 ALA B 647 1 N ILE B 642 O THR B 598 SHEET 4 D 5 ALA B 678 ASP B 681 1 N ALA B 678 O MET B 643 SHEET 5 D 5 ALA B 665 ALA B 667 -1 O HIS B 666 N HIS B 679 SHEET 1 E 2 TRP B 686 THR B 687 0 SHEET 2 E 2 THR B 693 ASN B 694 1 O THR B 693 N THR B 687
LINK ZN ZN A 301 NE2 HIS A 201 1555 1555 2.39 LINK ZN ZN A 301 NE2 HIS A 211 1555 1555 2.25 LINK ZN ZN A 301 NE2 HIS A 205 1555 1555 2.24 LINK ZN ZN A 301 O31 SPC A 401 1555 1555 1.80 LINK ZN ZN A 301 N32 SPC A 401 1555 1555 2.40 LINK ZN ZN A 301 O33 SPC A 401 1555 1555 1.71 LINK ZN ZN A 302 OD2 ASP A 153 1555 1555 2.04 LINK ZN ZN A 302 NE2 HIS A 151 1555 1555 2.00 LINK ZN ZN A 302 NE2 HIS A 166 1555 1555 2.07 LINK ZN ZN A 302 ND1 HIS A 179 1555 1555 1.98 LINK CA CA A 303 O GLY A 161 1555 1555 2.48 LINK CA CA A 303 OD1 ASP A 158 1555 1555 2.47 LINK CA CA A 303 O GLY A 159 1555 1555 2.29 LINK CA CA A 303 O VAL A 163 1555 1555 2.41 LINK CA CA A 303 OE2 GLU A 184 1555 1555 2.27 LINK CA CA A 303 OD2 ASP A 181 1555 1555 2.29 LINK CA CA A 304 OD1 ASP A 182 1555 1555 2.53 LINK CA CA A 304 O GLU A 184 1555 1555 2.63 LINK CA CA A 304 OD1 ASP A 107 1555 1555 2.57 LINK CA CA A 304 OD2 ASP A 107 1555 1555 2.42 LINK CA CA A 304 O HOH A 496 1555 1555 2.37 LINK CA CA A 304 O ASP A 182 1555 1555 2.22 LINK CA CA A 304 O HOH A 403 1555 1555 2.03 LINK CA CA A 305 O HOH A 473 1555 1555 2.16 LINK CA CA A 305 O ASP A 141 1555 1555 2.39 LINK CA CA A 305 O HOH A 470 1555 1555 2.13 LINK CA CA A 305 O ASN A 175 1555 1555 2.44 LINK CA CA A 305 OD1 ASP A 177 1555 1555 2.56 LINK CA CA A 305 O GLY A 173 1555 1555 2.20 LINK ZN ZN B 801 NE2 HIS B 711 1555 1555 2.18 LINK ZN ZN B 801 NE2 HIS B 705 1555 1555 2.23 LINK ZN ZN B 801 N32 SPC B 901 1555 1555 2.77 LINK ZN ZN B 801 O31 SPC B 901 1555 1555 1.95 LINK ZN ZN B 801 O33 SPC B 901 1555 1555 1.99 LINK ZN ZN B 801 NE2 HIS B 701 1555 1555 2.16 LINK ZN ZN B 802 OD2 ASP B 653 1555 1555 2.10 LINK ZN ZN B 802 NE2 HIS B 651 1555 1555 1.97 LINK ZN ZN B 802 ND1 HIS B 679 1555 1555 1.99 LINK ZN ZN B 802 NE2 HIS B 666 1555 1555 2.08 LINK CA CA B 803 OD2 ASP B 681 1555 1555 2.49 LINK CA CA B 803 OE2 GLU B 684 1555 1555 2.36 LINK CA CA B 803 O VAL B 663 1555 1555 2.36 LINK CA CA B 803 O GLY B 661 1555 1555 2.16 LINK CA CA B 803 O GLY B 659 1555 1555 2.25 LINK CA CA B 803 OD1 ASP B 658 1555 1555 2.32 LINK CA CA B 804 OD2 ASP B 607 1555 1555 2.50 LINK CA CA B 804 OD1 ASP B 682 1555 1555 2.46 LINK CA CA B 804 OD1 ASP B 607 1555 1555 2.55 LINK CA CA B 804 O HOH B 14 1555 1555 2.40 LINK CA CA B 804 O GLU B 684 1555 1555 2.46 LINK CA CA B 804 O ASP B 682 1555 1555 2.16 LINK CA CA B 805 O HOH B 6 1555 1555 2.18 LINK CA CA B 805 O ASN B 675 1555 1555 2.28 LINK CA CA B 805 O ASP B 641 1555 1555 2.36 LINK CA CA B 805 O GLY B 673 1555 1555 2.18 LINK CA CA B 805 OD1 ASP B 677 1555 1555 2.60 LINK CA CA B 804 O HOH A 440 1555 2464 2.28
SITE 1 AC1 4 HIS A 201 HIS A 205 HIS A 211 SPC A 401 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 5 ASP A 107 ASP A 182 GLU A 184 HOH A 403 SITE 2 AC4 5 HOH A 496 SITE 1 AC5 6 ASP A 141 GLY A 173 ASN A 175 ASP A 177 SITE 2 AC5 6 HOH A 470 HOH A 473 SITE 1 AC6 4 HIS B 701 HIS B 705 HIS B 711 SPC B 901 SITE 1 AC7 4 HIS B 651 ASP B 653 HIS B 666 HIS B 679 SITE 1 AC8 6 ASP B 658 GLY B 659 GLY B 661 VAL B 663 SITE 2 AC8 6 ASP B 681 GLU B 684 SITE 1 AC9 5 HOH A 440 HOH B 14 ASP B 607 ASP B 682 SITE 2 AC9 5 GLU B 684 SITE 1 BC1 5 HOH B 6 ASP B 641 GLY B 673 ASN B 675 SITE 2 BC1 5 ASP B 677 SITE 1 BC2 15 ASN A 162 VAL A 163 LEU A 164 ALA A 165 SITE 2 BC2 15 HIS A 201 GLU A 202 HIS A 205 HIS A 211 SITE 3 BC2 15 LEU A 222 TYR A 223 ZN A 301 HOH A 488 SITE 4 BC2 15 HOH B 102 GLN B 736 THR B 755 SITE 1 BC3 12 HOH B 48 VAL B 663 LEU B 664 ALA B 665 SITE 2 BC3 12 HIS B 701 GLU B 702 HIS B 705 HIS B 711 SITE 3 BC3 12 PRO B 721 LEU B 722 TYR B 723 ZN B 801
CRYST1 37.850 78.220 104.740 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 0.026420 0.000000 0.000000 0.00000
SCALE2 0.000000 0.012784 0.000000 0.00000
SCALE3 0.000000 0.000000 0.009547 0.00000