HEADER HYDROLASE 10-DEC-03 1UTT
TITLE CRYSTAL STRUCTURE OF MMP-12 COMPLEXED TO 2-(1,3-DIOXO-1,3-DIHYDRO-2H-
TITLE 2 ISOINDOL-2-YL)ETHYL-4-(4-ETHOXY[1,1-BIPHENYL]-4-YL)-4-OXOBUTANOIC
TITLE 3 ACID
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: MACROPHAGE METALLOELASTASE;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 106-264;
COMPND 5 SYNONYM: HME, MATRIX METALLOPROTEINASE-12, MMP-12, MACROPHAGE
COMPND 6 ELASTASE, ME;
COMPND 7 EC: 3.4.24.65;
COMPND 8 ENGINEERED: YES;
COMPND 9 OTHER_DETAILS: COMPLEXED WITH A SMALL MOLECULE INHIBITOR 2-(1,3-
COMPND 10 DIOXO-1,3-DIHYDRO-2H-ISOINDOL-2-YL)ETHYL-4-(4-ETHOXY[1,1-BIPHENYL]-4-
COMPND 11 YL)-4-OXOBUTANOIC ACID FORMULA C19H19N2O4S, AND ALSO WITH
COMPND 12 ACETOHYDROXAMIC ACID OR 2-HYDROXYAMINO-2-ETHANAL FORMULA, C2H5NO2
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: 469008;
SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3);
SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEMEX1
KEYWDS MACROPHAGE METALLOELASTASE, NON-ZINC CHELATOR, MMP-12, MMP INHIBITOR,
KEYWDS 2 HYDROLASE, METALLOPROTEASE
EXPDTA X-RAY DIFFRACTION
AUTHOR R.MORALES,S.PERRIER,J.M.FLORENT,J.BELTRA,S.DUFOUR,I.DE MENDEZ,
AUTHOR 2 P.MANCEAU,A.TERTRE,F.MOREAU,D.COMPERE,A.C.DUBLANCHET,M.O'GARA
REVDAT 5 13-DEC-23 1UTT 1 LINK
REVDAT 4 27-FEB-19 1UTT 1 JRNL REMARK
REVDAT 3 24-FEB-09 1UTT 1 VERSN
REVDAT 2 26-MAY-05 1UTT 1 JRNL
REVDAT 1 15-DEC-04 1UTT 0
JRNL AUTH R.MORALES,S.PERRIER,J.M.FLORENT,J.BELTRA,S.DUFOUR,
JRNL AUTH 2 I.DE MENDEZ,P.MANCEAU,A.TERTRE,F.MOREAU,D.COMPERE,
JRNL AUTH 3 A.C.DUBLANCHET,M.O'GARA
JRNL TITL CRYSTAL STRUCTURES OF NOVEL NON-PEPTIDIC, NON-ZINC CHELATING
JRNL TITL 2 INHIBITORS BOUND TO MMP-12.
JRNL REF J. MOL. BIOL. V. 341 1063 2004
JRNL REFN ISSN 0022-2836
JRNL PMID 15289103
JRNL DOI 10.1016/J.JMB.2004.06.039
REMARK 2
REMARK 2 RESOLUTION. 2.20 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : CNX 2001
REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE-
REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU,
REMARK 3 : READ,RICE,SIMONSON,WARREN,ACCELRYS
REMARK 3 : SOFTWARE INC.(BADGER,BERARD,KUMAR,SZALMA,
REMARK 3 : YIP,DZAKULA)
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL
REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL
REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 90.2
REMARK 3 NUMBER OF REFLECTIONS : 17406
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 + TEST SET) : 0.217
REMARK 3 R VALUE (WORKING SET) : 0.217
REMARK 3 FREE R VALUE : 0.229
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000
REMARK 3 FREE R VALUE TEST SET COUNT : 840
REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 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 ESTIMATED ERROR OF FREE R VALUE (NO CUTOFF) : NULL
REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL
REMARK 3
REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN.
REMARK 3 TOTAL NUMBER OF BINS USED : 16
REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.00
REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 896
REMARK 3 BIN R VALUE (WORKING SET) : 0.2386
REMARK 3 BIN FREE R VALUE : 0.3105
REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL
REMARK 3 BIN FREE R VALUE TEST SET COUNT : 51
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 : 1249
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 37
REMARK 3 SOLVENT ATOMS : 97
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) : 0.006
REMARK 3 BOND ANGLES (DEGREES) : 1.170
REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL
REMARK 3 IMPROPER ANGLES (DEGREES) : NULL
REMARK 3
REMARK 3 ISOTROPIC THERMAL MODEL : NULL
REMARK 3
REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA
REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL
REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL
REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL
REMARK 3
REMARK 3 BULK SOLVENT MODELING.
REMARK 3 METHOD USED : NULL
REMARK 3 KSOL : NULL
REMARK 3 BSOL : NULL
REMARK 3
REMARK 3 NCS MODEL : NULL
REMARK 3
REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT
REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL
REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL
REMARK 3
REMARK 3 PARAMETER FILE 1 : NULL
REMARK 3 TOPOLOGY FILE 1 : NULL
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 1UTT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-DEC-03.
REMARK 100 THE DEPOSITION ID IS D_1290014152.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 15-JUL-02
REMARK 200 TEMPERATURE (KELVIN) : 293.0
REMARK 200 PH : 6.50
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 MICROMAX-007
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418
REMARK 200 MONOCHROMATOR : NI FILTER
REMARK 200 OPTICS : RIGAKU-MSC OSMIC MIRRORS
REMARK 200
REMARK 200 DETECTOR TYPE : IMAGE PLATE
REMARK 200 DETECTOR MANUFACTURER : RIGAKU-MSC RAXIS IV++
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO
REMARK 200 DATA SCALING SOFTWARE : SCALEPACK
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17420
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200
REMARK 200 RESOLUTION RANGE LOW (A) : 30.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2
REMARK 200 DATA REDUNDANCY : 6.980
REMARK 200 R MERGE (I) : 0.06800
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 25.6300
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) : 2.28
REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8
REMARK 200 DATA REDUNDANCY IN SHELL : 24.00
REMARK 200 R MERGE FOR SHELL (I) : 0.40600
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.740
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: MOLREP
REMARK 200 STARTING MODEL: PDB ENTRY 1JK3
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 71.00
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.20
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CACODYLATE PH 6.4, 1.4M
REMARK 280 AMMONIUM ACETATE, 4 C, PH 6.50, VAPOR DIFFUSION, HANGING DROP,
REMARK 280 TEMPERATURE 277K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 3 2
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 5555 Z,X,Y
REMARK 290 6555 Z+1/2,-X+1/2,-Y
REMARK 290 7555 -Z+1/2,-X,Y+1/2
REMARK 290 8555 -Z,X+1/2,-Y+1/2
REMARK 290 9555 Y,Z,X
REMARK 290 10555 -Y,Z+1/2,-X+1/2
REMARK 290 11555 Y+1/2,-Z+1/2,-X
REMARK 290 12555 -Y+1/2,-Z,X+1/2
REMARK 290 13555 Y+3/4,X+1/4,-Z+1/4
REMARK 290 14555 -Y+3/4,-X+3/4,-Z+3/4
REMARK 290 15555 Y+1/4,-X+1/4,Z+3/4
REMARK 290 16555 -Y+1/4,X+3/4,Z+1/4
REMARK 290 17555 X+3/4,Z+1/4,-Y+1/4
REMARK 290 18555 -X+1/4,Z+3/4,Y+1/4
REMARK 290 19555 -X+3/4,-Z+3/4,-Y+3/4
REMARK 290 20555 X+1/4,-Z+1/4,Y+3/4
REMARK 290 21555 Z+3/4,Y+1/4,-X+1/4
REMARK 290 22555 Z+1/4,-Y+1/4,X+3/4
REMARK 290 23555 -Z+1/4,Y+3/4,X+1/4
REMARK 290 24555 -Z+3/4,-Y+3/4,-X+3/4
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 62.52050
REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.52050
REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 62.52050
REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 62.52050
REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 62.52050
REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 62.52050
REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 62.52050
REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 62.52050
REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 62.52050
REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 62.52050
REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 62.52050
REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 62.52050
REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 62.52050
REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 62.52050
REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 62.52050
REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 62.52050
REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 62.52050
REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 62.52050
REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 93.78075
REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 31.26025
REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 31.26025
REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 93.78075
REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 93.78075
REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 93.78075
REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 31.26025
REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 31.26025
REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 93.78075
REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 31.26025
REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 93.78075
REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 31.26025
REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 93.78075
REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 31.26025
REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 31.26025
REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 31.26025
REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 93.78075
REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 31.26025
REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 93.78075
REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 93.78075
REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 93.78075
REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 31.26025
REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 31.26025
REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 93.78075
REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 93.78075
REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 31.26025
REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 31.26025
REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 31.26025
REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 31.26025
REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 93.78075
REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 31.26025
REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 93.78075
REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 31.26025
REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 93.78075
REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 93.78075
REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 93.78075
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: OUR DYNAMIC LIGHT SCATTERING EXPERIMENTS HAVE
REMARK 300 SHOWN THATTHE PROTEIN EXISTS AS A MONOMER IN
REMARK 300 SOLUTION, SUGGESTINGTHAT THE HEXAMER DESCRIBED IN
REMARK 300 REMARK 350 IS AN ARTIFACTOF CRYSTALLIZATION ONLY.
REMARK 300 THE PROTEIN IS KNOWN TO FUNCTIONAS A MONOMER
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: HEXAMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC
REMARK 350 SOFTWARE USED: PQS
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 350 BIOMT1 2 0.000000 -1.000000 0.000000 125.04100
REMARK 350 BIOMT2 2 0.000000 0.000000 1.000000 -62.52050
REMARK 350 BIOMT3 2 -1.000000 0.000000 0.000000 187.56150
REMARK 350 BIOMT1 3 0.000000 0.000000 -1.000000 187.56150
REMARK 350 BIOMT2 3 -1.000000 0.000000 0.000000 125.04100
REMARK 350 BIOMT3 3 0.000000 1.000000 0.000000 62.52050
REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 93.78075
REMARK 350 BIOMT2 4 1.000000 0.000000 0.000000 -93.78075
REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 156.30125
REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 218.82175
REMARK 350 BIOMT2 5 0.000000 0.000000 -1.000000 93.78075
REMARK 350 BIOMT3 5 0.000000 -1.000000 0.000000 93.78075
REMARK 350 BIOMT1 6 0.000000 0.000000 1.000000 31.26025
REMARK 350 BIOMT2 6 0.000000 -1.000000 0.000000 31.26025
REMARK 350 BIOMT3 6 1.000000 0.000000 0.000000 -31.26025
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 CA CA A1272 LIES ON A SPECIAL POSITION.
REMARK 400
REMARK 400 COMPOUND
REMARK 400 MAY BE INVOLVED IN TISSUE INJURY AND REMODELING. HAS
REMARK 400 SIGNIFICANT ELASTOLYTIC ACTIVITY.
REMARK 400 BINDS 2 ZINC IONS AND 4 CALCIUM IONS PER SUBUNIT.
REMARK 400 FOUND IN ALVEOLAR MACROPHAGES BUT NOT IN
REMARK 400 PERIPHERAL BLOOD MONOCYTES.
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 HIS A 206 -162.73 -128.90
REMARK 500 PRO A 238 7.98 -67.25
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 CA A1271 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 ASP A 124 OD1
REMARK 620 2 ASP A 124 OD2 49.3
REMARK 620 3 GLU A 199 O 143.2 165.6
REMARK 620 4 GLU A 199 OE2 90.8 91.5 82.3
REMARK 620 5 GLU A 201 O 77.8 119.4 74.7 120.1
REMARK 620 N 1 2 3 4
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 CA A1270 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 ASP A 158 O
REMARK 620 2 GLY A 190 O 155.9
REMARK 620 3 GLY A 192 O 89.8 106.1
REMARK 620 4 ASP A 194 OD2 97.5 99.7 92.3
REMARK 620 5 HOH A2048 O 73.0 91.1 82.0 168.8
REMARK 620 N 1 2 3 4
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 ZN A1268 ZN
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 HIS A 168 NE2
REMARK 620 2 ASP A 170 OD2 107.6
REMARK 620 3 HIS A 183 NE2 111.7 119.7
REMARK 620 4 HIS A 196 ND1 113.7 91.4 111.2
REMARK 620 N 1 2 3
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 CA A1272 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 HIS A 172 NE2
REMARK 620 2 HIS A 172 NE2 104.9
REMARK 620 3 HIS A 172 NE2 106.4 107.7
REMARK 620 N 1 2
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 CA A1269 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 ASP A 175 OD2
REMARK 620 2 GLY A 176 O 84.4
REMARK 620 3 GLY A 178 O 84.9 85.6
REMARK 620 4 ILE A 180 O 90.4 174.8 94.1
REMARK 620 5 ASP A 198 OD1 92.5 87.1 172.5 93.0
REMARK 620 6 GLU A 201 OE2 171.2 92.8 86.5 92.4 95.7
REMARK 620 N 1 2 3 4 5
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 ZN A1267 ZN
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 HIS A 218 NE2
REMARK 620 2 HIS A 222 NE2 100.9
REMARK 620 3 HIS A 228 NE2 109.2 100.2
REMARK 620 4 HAE A1265 O2 122.4 132.3 84.8
REMARK 620 5 HAE A1265 O 96.9 84.1 152.0 72.4
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 A1267
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1268
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1269
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1270
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC5
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1271
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC6
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1272
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC7
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HAE A1265
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC8
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CP8 A1266
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 1JIZ RELATED DB: PDB
REMARK 900 CRYSTAL STRUCTURE ANALYSIS OF HUMAN MACROPHAGE ELASTASE MMP-12
REMARK 900 RELATED ID: 1JK3 RELATED DB: PDB
REMARK 900 CRYSTAL STRUCTURE OF HUMAN MMP-12 (MACROPHAGE ELASTASE) ATTRUE
REMARK 900 ATOMIC RESOLUTION
REMARK 900 RELATED ID: 1OS2 RELATED DB: PDB
REMARK 900 TERNARY ENZYME-PRODUCT-INHIBITOR COMPLEXES OF HUMAN MMP12
REMARK 900 RELATED ID: 1OS9 RELATED DB: PDB
REMARK 900 BINARY ENZYME-PRODUCT COMPLEXES OF HUMAN MMP12
REMARK 900 RELATED ID: 1ROS RELATED DB: PDB
REMARK 900 CRYSTAL STRUCTURE OF MMP-12 COMPLEXED TO 2 -(1,3-DIOXO-1,3-DIHYDRO-
REMARK 900 2H-ISOINDOL-2-YL)ETHYL -4-(4'-ETHOXY[1,1'-BIPHENYL]-4-YL)-4-
REMARK 900 OXOBUTANOIC ACID
REMARK 900 RELATED ID: 1UTZ RELATED DB: PDB
REMARK 900 CRYSTAL STRUCTURE OF MMP-12 COMPLEXED TO (2R)-3-({[4-[(PYRIDIN-4-YL)
REMARK 900 PHENYL]-THIEN- 2-YL}CARBOXAMIDO)(PHENYL)PROPANOIC ACID
DBREF 1UTT A 106 264 UNP P39900 MM12_HUMAN 106 264
SEQRES 1 A 159 GLY PRO VAL TRP ARG LYS HIS TYR ILE THR TYR ARG ILE
SEQRES 2 A 159 ASN ASN TYR THR PRO ASP MET ASN ARG GLU ASP VAL ASP
SEQRES 3 A 159 TYR ALA ILE ARG LYS ALA PHE GLN VAL TRP SER ASN VAL
SEQRES 4 A 159 THR PRO LEU LYS PHE SER LYS ILE ASN THR GLY MET ALA
SEQRES 5 A 159 ASP ILE LEU VAL VAL PHE ALA ARG GLY ALA HIS GLY ASP
SEQRES 6 A 159 PHE HIS ALA PHE ASP GLY LYS GLY GLY ILE LEU ALA HIS
SEQRES 7 A 159 ALA PHE GLY PRO GLY SER GLY ILE GLY GLY ASP ALA HIS
SEQRES 8 A 159 PHE ASP GLU ASP GLU PHE TRP THR THR HIS SER GLY GLY
SEQRES 9 A 159 THR ASN LEU PHE LEU THR ALA VAL HIS GLU ILE GLY HIS
SEQRES 10 A 159 SER LEU GLY LEU GLY HIS SER SER ASP PRO LYS ALA VAL
SEQRES 11 A 159 MET PHE PRO THR TYR LYS TYR VAL ASP ILE ASN THR PHE
SEQRES 12 A 159 ARG LEU SER ALA ASP ASP ILE ARG GLY ILE GLN SER LEU
SEQRES 13 A 159 TYR GLY ASP
HET HAE A1265 5
HET CP8 A1266 26
HET ZN A1267 1
HET ZN A1268 1
HET CA A1269 1
HET CA A1270 1
HET CA A1271 1
HET CA A1272 1
HETNAM HAE ACETOHYDROXAMIC ACID
HETNAM CP8 2-(1,3-DIOXO-1,3-DIHYDRO-2H-ISOINDOL-2-YL) ETHYL-4-(4'-
HETNAM 2 CP8 ETHOXY [1,1'-BIPHENYL]-4-YL)-4-OXOBUTANOIC ACID
HETNAM ZN ZINC ION
HETNAM CA CALCIUM ION
HETSYN CP8 CP-271485; (6R)-4-BENZYL-6-(1-METHYL-2,2-DIOXIDO-1,3-
HETSYN 2 CP8 DIHYDRO-2,1-BENZISOTHIAZOL-5-YL)MORPHOLIN-3-ONE
FORMUL 2 HAE C2 H5 N O2
FORMUL 3 CP8 C19 H20 N2 O4 S
FORMUL 4 ZN 2(ZN 2+)
FORMUL 6 CA 4(CA 2+)
FORMUL 10 HOH *97(H2 O)
HELIX 1 1 ASN A 126 ASN A 143 1 18
HELIX 2 2 LEU A 212 LEU A 224 1 13
HELIX 3 3 SER A 251 GLY A 263 1 13
SHEET 1 AA 5 LYS A 148 LYS A 151 0
SHEET 2 AA 5 TYR A 113 ILE A 118 1 O ILE A 114 N SER A 150
SHEET 3 AA 5 ILE A 159 ALA A 164 1 O ILE A 159 N ARG A 117
SHEET 4 AA 5 ALA A 195 ASP A 198 1 O ALA A 195 N VAL A 162
SHEET 5 AA 5 ALA A 182 ALA A 184 -1 O HIS A 183 N HIS A 196
SHEET 1 AB 2 TRP A 203 THR A 204 0
SHEET 2 AB 2 THR A 210 ASN A 211 1 O THR A 210 N THR A 204
LINK OD1 ASP A 124 CA CA A1271 1555 1555 2.36
LINK OD2 ASP A 124 CA CA A1271 1555 1555 2.82
LINK O ASP A 158 CA CA A1270 1555 1555 2.37
LINK NE2 HIS A 168 ZN ZN A1268 1555 1555 2.05
LINK OD2 ASP A 170 ZN ZN A1268 1555 1555 2.01
LINK NE2 HIS A 172 CA CA A1272 10646 1555 2.12
LINK NE2 HIS A 172 CA CA A1272 1555 1555 2.09
LINK NE2 HIS A 172 CA CA A1272 7665 1555 2.05
LINK OD2 ASP A 175 CA CA A1269 1555 1555 2.39
LINK O GLY A 176 CA CA A1269 1555 1555 2.24
LINK O GLY A 178 CA CA A1269 1555 1555 2.35
LINK O ILE A 180 CA CA A1269 1555 1555 2.27
LINK NE2 HIS A 183 ZN ZN A1268 1555 1555 2.04
LINK O GLY A 190 CA CA A1270 1555 1555 2.63
LINK O GLY A 192 CA CA A1270 1555 1555 2.35
LINK OD2 ASP A 194 CA CA A1270 1555 1555 2.43
LINK ND1 HIS A 196 ZN ZN A1268 1555 1555 2.02
LINK OD1 ASP A 198 CA CA A1269 1555 1555 2.36
LINK O GLU A 199 CA CA A1271 1555 1555 2.30
LINK OE2 GLU A 199 CA CA A1271 1555 1555 2.35
LINK OE2 GLU A 201 CA CA A1269 1555 1555 2.21
LINK O GLU A 201 CA CA A1271 1555 1555 2.49
LINK NE2 HIS A 218 ZN ZN A1267 1555 1555 2.13
LINK NE2 HIS A 222 ZN ZN A1267 1555 1555 2.15
LINK NE2 HIS A 228 ZN ZN A1267 1555 1555 2.15
LINK O2 HAE A1265 ZN ZN A1267 1555 1555 2.12
LINK O HAE A1265 ZN ZN A1267 1555 1555 2.24
LINK CA CA A1270 O HOH A2048 1555 1555 2.65
SITE 1 AC1 4 HIS A 218 HIS A 222 HIS A 228 HAE A1265
SITE 1 AC2 4 HIS A 168 ASP A 170 HIS A 183 HIS A 196
SITE 1 AC3 6 ASP A 175 GLY A 176 GLY A 178 ILE A 180
SITE 2 AC3 6 ASP A 198 GLU A 201
SITE 1 AC4 5 ASP A 158 GLY A 190 GLY A 192 ASP A 194
SITE 2 AC4 5 HOH A2048
SITE 1 AC5 3 ASP A 124 GLU A 199 GLU A 201
SITE 1 AC6 1 HIS A 172
SITE 1 AC7 9 ALA A 182 HIS A 183 HIS A 218 GLU A 219
SITE 2 AC7 9 HIS A 222 HIS A 228 CP8 A1266 ZN A1267
SITE 3 AC7 9 HOH A2095
SITE 1 AC8 17 GLY A 179 ILE A 180 LEU A 181 ALA A 182
SITE 2 AC8 17 LEU A 214 HIS A 218 GLU A 219 ALA A 234
SITE 3 AC8 17 VAL A 235 PHE A 237 PRO A 238 THR A 239
SITE 4 AC8 17 LYS A 241 HAE A1265 HOH A2067 HOH A2075
SITE 5 AC8 17 HOH A2096
CRYST1 125.041 125.041 125.041 90.00 90.00 90.00 P 41 3 2 24
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 0.007997 0.000000 0.000000 0.00000
SCALE2 0.000000 0.007997 0.000000 0.00000
SCALE3 0.000000 0.000000 0.007997 0.00000