HEADER HYDROLASE 21-FEB-07 2OY2 TITLE HUMAN MMP-8 IN COMPLEX WITH PEPTIDE IAG COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUTROPHIL COLLAGENASE; COMPND 3 CHAIN: A, F; COMPND 4 FRAGMENT: CATALYTIC DOMAIN; COMPND 5 SYNONYM: MATRIX METALLOPROTEINASE-8, MMP-8, PMNL COLLAGENASE, PMNL- COMPND 6 CL; COMPND 7 EC: 3.4.24.34; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: ILE-ALA-GLY PEPTIDE; COMPND 11 CHAIN: W, Y; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: MMP8, CLG1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS MMP-8, MATRIX METALLOPROTEINASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR V.CALDERONE,I.BERTINI,M.FRAGAI,C.LUCHINAT,M.MALETTA,K.J.YEO REVDAT 4 30-AUG-23 2OY2 1 REMARK LINK REVDAT 3 18-OCT-17 2OY2 1 REMARK REVDAT 2 24-FEB-09 2OY2 1 VERSN REVDAT 1 06-MAR-07 2OY2 0 JRNL AUTH I.BERTINI,V.CALDERONE,M.FRAGAI,C.LUCHINAT,M.MALETTA,K.J.YEO JRNL TITL SNAPSHOTS OF THE REACTION MECHANISM OF MATRIX JRNL TITL 2 METALLOPROTEINASES. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 45 7952 2006 JRNL REFN ESSN 0570-0833 JRNL PMID 17096442 JRNL DOI 10.1002/ANIE.200603100 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.MATTER,W.SCHWAB,D.BARBIER,G.BILLEN,B.HAASE,B.NEISES, REMARK 1 AUTH 2 M.SCHUDOK,W.THORWART,H.SCHREUDER,V.BRACHVOGEL REMARK 1 TITL CRYSTAL STRUCTURE OF MMP8 COMPLEXED WITH HMR2909 REMARK 1 REF J.MED.CHEM. V. 42 1908 1999 REMARK 1 REFN ISSN 0022-2623 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 50507 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.200 REMARK 3 FREE R VALUE TEST SET COUNT : 5098 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3692 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1560 REMARK 3 BIN FREE R VALUE SET COUNT : 374 REMARK 3 BIN FREE R VALUE : 0.2130 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2516 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 565 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.14000 REMARK 3 B22 (A**2) : -0.35000 REMARK 3 B33 (A**2) : 0.48000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.05000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.094 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.074 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.312 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2588 ; 0.008 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3524 ; 1.119 ; 1.921 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 316 ; 5.785 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;36.625 ;24.366 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 362 ;12.546 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;16.734 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 360 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2096 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1175 ; 0.193 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1816 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 371 ; 0.128 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 30 ; 0.088 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 57 ; 0.255 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 65 ; 0.115 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1613 ; 0.762 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2530 ; 1.275 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1108 ; 2.291 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 994 ; 2.815 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 2721 ; 2.179 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 575 ; 2.587 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2516 ; 1.716 ; 3.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2OY2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1000041726. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.84230 REMARK 200 MONOCHROMATOR : FIXED EXIT DOUBLE CRYSTAL SI REMARK 200 [111], HORIZONTALLY FOCUSSING REMARK 200 OPTICS : FIXED EXIT DOUBLE CRYSTAL SI REMARK 200 [111], HORIZONTALLY FOCUSSING REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55607 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 38.750 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : 0.08200 REMARK 200 FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.31400 REMARK 200 R SYM FOR SHELL (I) : 0.31400 REMARK 200 FOR SHELL : 2.200 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 1BZS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL, 20% PEG3350, 200MM REMARK 280 ACETOHYDROXAMIC ACID, 0.2M MGCL2, PH 8.0, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 34.26650 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: THE PROTEIN IS MONOMERIC IN VIVO BUT THERE ARE TWO REMARK 300 MOLECULES IN THE ASYMMETRIC UNIT. 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: 800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, W 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 REMARK 350 BIOMOLECULE: 2 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: 790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: F, Y 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 ASN A 85 REMARK 465 ASN F 85 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OXT GLY W 209 O HOH W 585 2.16 REMARK 500 OH TYR A 100 OE2 GLU A 110 2.17 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 111 CB - CA - C ANGL. DEV. = -12.8 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 145 -131.54 47.07 REMARK 500 HIS A 147 29.09 -140.26 REMARK 500 ASN A 157 -161.15 68.32 REMARK 500 ARG F 145 -129.08 42.50 REMARK 500 HIS F 147 30.35 -141.21 REMARK 500 ASN F 157 -161.17 63.85 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 A 996 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 137 O REMARK 620 2 GLY A 169 O 163.5 REMARK 620 3 GLY A 171 O 95.3 96.7 REMARK 620 4 ASP A 173 OD1 88.7 102.9 88.7 REMARK 620 5 HOH A1015 O 84.4 82.3 172.9 98.4 REMARK 620 6 HOH A1027 O 83.1 87.3 82.5 167.3 90.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 998 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 147 NE2 REMARK 620 2 ASP A 149 OD2 106.7 REMARK 620 3 HIS A 162 NE2 114.0 117.1 REMARK 620 4 HIS A 175 ND1 107.5 95.6 114.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 997 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 154 OD1 REMARK 620 2 GLY A 155 O 89.5 REMARK 620 3 ASN A 157 O 86.9 86.3 REMARK 620 4 ILE A 159 O 87.3 176.8 93.5 REMARK 620 5 ASP A 177 OD2 95.0 84.7 170.8 95.6 REMARK 620 6 GLU A 180 OE2 172.8 93.6 86.8 89.6 91.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 999 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 197 NE2 REMARK 620 2 HIS A 201 NE2 103.2 REMARK 620 3 HIS A 207 NE2 105.9 100.6 REMARK 620 4 HOH A1059 O 98.5 95.9 146.4 REMARK 620 5 HOH A1183 O 118.3 134.9 85.2 62.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA F 996 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP F 137 O REMARK 620 2 GLY F 169 O 163.4 REMARK 620 3 GLY F 171 O 95.6 95.9 REMARK 620 4 ASP F 173 OD1 88.9 103.0 90.2 REMARK 620 5 HOH F1010 O 84.6 82.2 171.4 98.4 REMARK 620 6 HOH F1027 O 84.1 86.2 80.1 167.4 91.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN F 998 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS F 147 NE2 REMARK 620 2 ASP F 149 OD2 105.7 REMARK 620 3 HIS F 162 NE2 116.5 116.5 REMARK 620 4 HIS F 175 ND1 108.0 96.0 112.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA F 997 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP F 154 OD1 REMARK 620 2 GLY F 155 O 90.9 REMARK 620 3 ASN F 157 O 90.7 85.8 REMARK 620 4 ILE F 159 O 86.6 177.3 93.3 REMARK 620 5 ASP F 177 OD2 90.1 86.3 172.0 94.6 REMARK 620 6 GLU F 180 OE2 175.0 93.4 87.2 89.1 92.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN F 999 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS F 197 NE2 REMARK 620 2 HIS F 201 NE2 102.3 REMARK 620 3 HIS F 207 NE2 107.0 100.2 REMARK 620 4 HOH Y 59 O 100.9 95.4 144.0 REMARK 620 5 HOH Y 401 O 120.5 133.6 84.6 61.6 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 CA A 996 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 997 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 998 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 999 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA F 996 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA F 997 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN F 998 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN F 999 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BZS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MMP8 COMPLEXED WITH HMR2909 REMARK 900 RELATED ID: 2OY4 RELATED DB: PDB REMARK 900 RELATED ID: 2OXU RELATED DB: PDB REMARK 900 RELATED ID: 2OXW RELATED DB: PDB REMARK 900 RELATED ID: 2OXZ RELATED DB: PDB DBREF 2OY2 A 85 242 UNP P22894 MMP8_HUMAN 105 262 DBREF 2OY2 F 85 242 UNP P22894 MMP8_HUMAN 105 262 DBREF 2OY2 W 207 209 PDB 2OY2 2OY2 207 209 DBREF 2OY2 Y 207 209 PDB 2OY2 2OY2 207 209 SEQRES 1 A 158 ASN PRO LYS TRP GLU ARG THR ASN LEU THR TYR ARG ILE SEQRES 2 A 158 ARG ASN TYR THR PRO GLN LEU SER GLU ALA GLU VAL GLU SEQRES 3 A 158 ARG ALA ILE LYS ASP ALA PHE GLU LEU TRP SER VAL ALA SEQRES 4 A 158 SER PRO LEU ILE PHE THR ARG ILE SER GLN GLY GLU ALA SEQRES 5 A 158 ASP ILE ASN ILE ALA PHE TYR GLN ARG ASP HIS GLY ASP SEQRES 6 A 158 ASN SER PRO PHE ASP GLY PRO ASN GLY ILE LEU ALA HIS SEQRES 7 A 158 ALA PHE GLN PRO GLY GLN GLY ILE GLY GLY ASP ALA HIS SEQRES 8 A 158 PHE ASP ALA GLU GLU THR TRP THR ASN THR SER ALA ASN SEQRES 9 A 158 TYR ASN LEU PHE LEU VAL ALA ALA HIS GLU PHE GLY HIS SEQRES 10 A 158 SER LEU GLY LEU ALA HIS SER SER ASP PRO GLY ALA LEU SEQRES 11 A 158 MET TYR PRO ASN TYR ALA PHE ARG GLU THR SER ASN TYR SEQRES 12 A 158 SER LEU PRO GLN ASP ASP ILE ASP GLY ILE GLN ALA ILE SEQRES 13 A 158 TYR GLY SEQRES 1 W 3 ILE ALA GLY SEQRES 1 F 158 ASN PRO LYS TRP GLU ARG THR ASN LEU THR TYR ARG ILE SEQRES 2 F 158 ARG ASN TYR THR PRO GLN LEU SER GLU ALA GLU VAL GLU SEQRES 3 F 158 ARG ALA ILE LYS ASP ALA PHE GLU LEU TRP SER VAL ALA SEQRES 4 F 158 SER PRO LEU ILE PHE THR ARG ILE SER GLN GLY GLU ALA SEQRES 5 F 158 ASP ILE ASN ILE ALA PHE TYR GLN ARG ASP HIS GLY ASP SEQRES 6 F 158 ASN SER PRO PHE ASP GLY PRO ASN GLY ILE LEU ALA HIS SEQRES 7 F 158 ALA PHE GLN PRO GLY GLN GLY ILE GLY GLY ASP ALA HIS SEQRES 8 F 158 PHE ASP ALA GLU GLU THR TRP THR ASN THR SER ALA ASN SEQRES 9 F 158 TYR ASN LEU PHE LEU VAL ALA ALA HIS GLU PHE GLY HIS SEQRES 10 F 158 SER LEU GLY LEU ALA HIS SER SER ASP PRO GLY ALA LEU SEQRES 11 F 158 MET TYR PRO ASN TYR ALA PHE ARG GLU THR SER ASN TYR SEQRES 12 F 158 SER LEU PRO GLN ASP ASP ILE ASP GLY ILE GLN ALA ILE SEQRES 13 F 158 TYR GLY SEQRES 1 Y 3 ILE ALA GLY HET CA A 996 1 HET CA A 997 1 HET ZN A 998 1 HET ZN A 999 1 HET CA F 996 1 HET CA F 997 1 HET ZN F 998 1 HET ZN F 999 1 HETNAM CA CALCIUM ION HETNAM ZN ZINC ION FORMUL 5 CA 4(CA 2+) FORMUL 7 ZN 4(ZN 2+) FORMUL 13 HOH *565(H2 O) HELIX 1 1 SER A 105 VAL A 122 1 18 HELIX 2 2 ASN A 190 LEU A 203 1 14 HELIX 3 3 PRO A 230 TYR A 241 1 12 HELIX 4 4 SER F 105 VAL F 122 1 18 HELIX 5 5 ASN F 190 GLY F 204 1 15 HELIX 6 6 PRO F 230 GLY F 242 1 13 SHEET 1 A 5 ILE A 127 ARG A 130 0 SHEET 2 A 5 ASN A 92 ILE A 97 1 N LEU A 93 O THR A 129 SHEET 3 A 5 ILE A 138 TYR A 143 1 O ILE A 138 N THR A 94 SHEET 4 A 5 ALA A 174 ASP A 177 1 O ALA A 174 N ASN A 139 SHEET 5 A 5 ALA A 161 ALA A 163 -1 N HIS A 162 O HIS A 175 SHEET 1 B 5 ILE F 127 ARG F 130 0 SHEET 2 B 5 ASN F 92 ILE F 97 1 N LEU F 93 O THR F 129 SHEET 3 B 5 ILE F 138 TYR F 143 1 O ILE F 140 N ARG F 96 SHEET 4 B 5 ALA F 174 ASP F 177 1 O ALA F 174 N ASN F 139 SHEET 5 B 5 ALA F 161 ALA F 163 -1 N HIS F 162 O HIS F 175 LINK O ASP A 137 CA CA A 996 1555 1555 2.35 LINK NE2 HIS A 147 ZN ZN A 998 1555 1555 2.03 LINK OD2 ASP A 149 ZN ZN A 998 1555 1555 1.91 LINK OD1 ASP A 154 CA CA A 997 1555 1555 2.35 LINK O GLY A 155 CA CA A 997 1555 1555 2.28 LINK O ASN A 157 CA CA A 997 1555 1555 2.33 LINK O ILE A 159 CA CA A 997 1555 1555 2.31 LINK NE2 HIS A 162 ZN ZN A 998 1555 1555 2.05 LINK O GLY A 169 CA CA A 996 1555 1555 2.30 LINK O GLY A 171 CA CA A 996 1555 1555 2.32 LINK OD1 ASP A 173 CA CA A 996 1555 1555 2.45 LINK ND1 HIS A 175 ZN ZN A 998 1555 1555 2.09 LINK OD2 ASP A 177 CA CA A 997 1555 1555 2.35 LINK OE2 GLU A 180 CA CA A 997 1555 1555 2.30 LINK NE2 HIS A 197 ZN ZN A 999 1555 1555 2.07 LINK NE2 HIS A 201 ZN ZN A 999 1555 1555 2.10 LINK NE2 HIS A 207 ZN ZN A 999 1555 1555 2.04 LINK CA CA A 996 O HOH A1015 1555 1555 2.32 LINK CA CA A 996 O HOH A1027 1555 1555 2.46 LINK ZN ZN A 999 O HOH A1059 1555 1555 2.27 LINK ZN ZN A 999 O HOH A1183 1555 1555 2.35 LINK O ASP F 137 CA CA F 996 1555 1555 2.34 LINK NE2 HIS F 147 ZN ZN F 998 1555 1555 2.04 LINK OD2 ASP F 149 ZN ZN F 998 1555 1555 1.95 LINK OD1 ASP F 154 CA CA F 997 1555 1555 2.37 LINK O GLY F 155 CA CA F 997 1555 1555 2.24 LINK O ASN F 157 CA CA F 997 1555 1555 2.32 LINK O ILE F 159 CA CA F 997 1555 1555 2.32 LINK NE2 HIS F 162 ZN ZN F 998 1555 1555 2.02 LINK O GLY F 169 CA CA F 996 1555 1555 2.31 LINK O GLY F 171 CA CA F 996 1555 1555 2.32 LINK OD1 ASP F 173 CA CA F 996 1555 1555 2.47 LINK ND1 HIS F 175 ZN ZN F 998 1555 1555 2.06 LINK OD2 ASP F 177 CA CA F 997 1555 1555 2.37 LINK OE2 GLU F 180 CA CA F 997 1555 1555 2.31 LINK NE2 HIS F 197 ZN ZN F 999 1555 1555 2.06 LINK NE2 HIS F 201 ZN ZN F 999 1555 1555 2.12 LINK NE2 HIS F 207 ZN ZN F 999 1555 1555 2.00 LINK CA CA F 996 O HOH F1010 1555 1555 2.35 LINK CA CA F 996 O HOH F1027 1555 1555 2.42 LINK ZN ZN F 999 O HOH Y 59 1555 1555 2.19 LINK ZN ZN F 999 O HOH Y 401 1555 1555 2.48 CISPEP 1 ASN A 188 TYR A 189 0 -5.05 CISPEP 2 ASN F 188 TYR F 189 0 -5.36 SITE 1 AC1 6 ASP A 137 GLY A 169 GLY A 171 ASP A 173 SITE 2 AC1 6 HOH A1015 HOH A1027 SITE 1 AC2 6 ASP A 154 GLY A 155 ASN A 157 ILE A 159 SITE 2 AC2 6 ASP A 177 GLU A 180 SITE 1 AC3 4 HIS A 147 ASP A 149 HIS A 162 HIS A 175 SITE 1 AC4 5 HIS A 197 HIS A 201 HIS A 207 HOH A1059 SITE 2 AC4 5 HOH A1183 SITE 1 AC5 6 ASP F 137 GLY F 169 GLY F 171 ASP F 173 SITE 2 AC5 6 HOH F1010 HOH F1027 SITE 1 AC6 6 ASP F 154 GLY F 155 ASN F 157 ILE F 159 SITE 2 AC6 6 ASP F 177 GLU F 180 SITE 1 AC7 4 HIS F 147 ASP F 149 HIS F 162 HIS F 175 SITE 1 AC8 5 HIS F 197 HIS F 201 HIS F 207 HOH Y 59 SITE 2 AC8 5 HOH Y 401 CRYST1 33.207 68.533 78.281 90.00 98.10 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.030114 0.000000 0.004288 0.00000 SCALE2 0.000000 0.014591 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012903 0.00000