PDB Short entry for 2OY4 HEADER HYDROLASE 21-FEB-07 2OY4 TITLE UNINHIBITED HUMAN MMP-8 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 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 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 3 30-AUG-23 2OY4 1 REMARK LINK REVDAT 2 24-FEB-09 2OY4 1 VERSN REVDAT 1 06-MAR-07 2OY4 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. 1.70 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 27574 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) : 0.231 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.293 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2753 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2130 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3000 REMARK 3 BIN FREE R VALUE SET COUNT : 233 REMARK 3 BIN FREE R VALUE : 0.3950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2481 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 296 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.71000 REMARK 3 B22 (A**2) : 1.10000 REMARK 3 B33 (A**2) : -0.88000 REMARK 3 B12 (A**2) : -0.56000 REMARK 3 B13 (A**2) : -0.64000 REMARK 3 B23 (A**2) : 2.26000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.163 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.163 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.533 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.886 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2555 ; 0.020 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3482 ; 1.614 ; 1.919 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 312 ; 6.213 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;37.423 ;24.366 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 358 ;14.770 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;19.688 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 354 ; 0.123 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2076 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1029 ; 0.221 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1685 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 176 ; 0.193 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 17 ; 0.098 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 47 ; 0.273 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 29 ; 0.258 ; 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): 1618 ; 1.021 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2492 ; 1.463 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1105 ; 2.362 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 990 ; 3.511 ; 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): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL 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 2OY4 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_1000041728. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-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 : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00800 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 : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30329 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 39.550 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.3 REMARK 200 DATA REDUNDANCY : 1.500 REMARK 200 R MERGE (I) : 0.10300 REMARK 200 R SYM (I) : 0.10300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 4.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.3 REMARK 200 DATA REDUNDANCY IN SHELL : 1.50 REMARK 200 R MERGE FOR SHELL (I) : 0.24500 REMARK 200 R SYM FOR SHELL (I) : 0.24500 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 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 (%): 52.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 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 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: F 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 O HOH A 1095 O HOH A 1143 2.13 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 -133.46 41.13 REMARK 500 ASN A 157 -154.92 63.31 REMARK 500 ARG F 145 -121.61 41.18 REMARK 500 ASN F 150 19.69 56.80 REMARK 500 ASN F 157 -157.72 64.64 REMARK 500 PRO F 230 151.69 -47.16 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 166.8 REMARK 620 3 GLY A 171 O 95.9 92.5 REMARK 620 4 ASP A 173 OD1 91.4 98.4 92.3 REMARK 620 5 HOH A1018 O 84.1 85.9 169.9 97.7 REMARK 620 6 HOH A1038 O 83.7 87.1 83.7 173.3 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 998 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 147 NE2 REMARK 620 2 ASP A 149 OD2 116.4 REMARK 620 3 HIS A 162 NE2 107.2 105.7 REMARK 620 4 HIS A 175 ND1 114.6 95.2 117.4 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 94.9 REMARK 620 3 ASN A 157 O 89.1 88.2 REMARK 620 4 ILE A 159 O 85.0 179.8 91.9 REMARK 620 5 ASP A 177 OD2 93.3 84.1 172.1 95.8 REMARK 620 6 GLU A 180 OE2 173.2 85.2 84.1 95.0 93.5 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 103.4 REMARK 620 3 HIS A 207 NE2 104.7 102.0 REMARK 620 4 HOH A1143 O 162.8 84.4 88.3 REMARK 620 N 1 2 3 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 166.5 REMARK 620 3 GLY F 171 O 90.9 92.6 REMARK 620 4 ASP F 173 OD1 91.3 101.7 88.7 REMARK 620 5 HOH F1050 O 87.9 79.6 83.3 171.9 REMARK 620 6 HOH F1064 O 85.3 88.7 168.2 102.6 85.4 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 111.4 REMARK 620 3 HIS F 162 NE2 106.9 116.4 REMARK 620 4 HIS F 175 ND1 107.2 100.9 113.7 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 92.8 REMARK 620 3 ASN F 157 O 92.1 88.9 REMARK 620 4 ILE F 159 O 88.2 177.1 88.4 REMARK 620 5 ASP F 177 OD2 93.6 82.5 169.9 100.1 REMARK 620 6 GLU F 180 OE2 178.5 87.9 86.6 91.0 87.9 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 96.4 REMARK 620 3 HIS F 207 NE2 105.0 113.4 REMARK 620 4 HOH F1072 O 87.9 111.4 131.3 REMARK 620 N 1 2 3 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: 2OY2 RELATED DB: PDB REMARK 900 HUMAN MMP-8 IN COMPLEX WITH PEPTIDE IAG 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 2OY4 A 85 242 UNP P22894 MMP8_HUMAN 105 262 DBREF 2OY4 F 85 242 UNP P22894 MMP8_HUMAN 105 262 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 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 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 3 CA 4(CA 2+) FORMUL 5 ZN 4(ZN 2+) FORMUL 11 HOH *296(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 GLY A 242 1 13 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 ILE A 127 SHEET 3 A 5 ILE A 138 TYR A 143 1 O ILE A 140 N ARG A 96 SHEET 4 A 5 ALA A 174 ASP A 177 1 O PHE A 176 N ALA A 141 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 2.44 LINK NE2 HIS A 147 ZN ZN A 998 1555 1555 2.27 LINK OD2 ASP A 149 ZN ZN A 998 1555 1555 2.00 LINK OD1 ASP A 154 CA CA A 997 1555 1555 2.53 LINK O GLY A 155 CA CA A 997 1555 1555 2.37 LINK O ASN A 157 CA CA A 997 1555 1555 2.35 LINK O ILE A 159 CA CA A 997 1555 1555 2.45 LINK NE2 HIS A 162 ZN ZN A 998 1555 1555 2.14 LINK O GLY A 169 CA CA A 996 1555 1555 2.49 LINK O GLY A 171 CA CA A 996 1555 1555 2.38 LINK OD1 ASP A 173 CA CA A 996 1555 1555 2.45 LINK ND1 HIS A 175 ZN ZN A 998 1555 1555 2.35 LINK OD2 ASP A 177 CA CA A 997 1555 1555 2.37 LINK OE2 GLU A 180 CA CA A 997 1555 1555 2.45 LINK NE2 HIS A 197 ZN ZN A 999 1555 1555 2.06 LINK NE2 HIS A 201 ZN ZN A 999 1555 1555 2.22 LINK NE2 HIS A 207 ZN ZN A 999 1555 1555 2.14 LINK CA CA A 996 O HOH A1018 1555 1555 2.55 LINK CA CA A 996 O HOH A1038 1555 1555 2.38 LINK ZN ZN A 999 O HOH A1143 1555 1555 2.70 LINK O ASP F 137 CA CA F 996 1555 1555 2.38 LINK NE2 HIS F 147 ZN ZN F 998 1555 1555 2.16 LINK OD2 ASP F 149 ZN ZN F 998 1555 1555 1.83 LINK OD1 ASP F 154 CA CA F 997 1555 1555 2.28 LINK O GLY F 155 CA CA F 997 1555 1555 2.23 LINK O ASN F 157 CA CA F 997 1555 1555 2.38 LINK O ILE F 159 CA CA F 997 1555 1555 2.27 LINK NE2 HIS F 162 ZN ZN F 998 1555 1555 2.10 LINK O GLY F 169 CA CA F 996 1555 1555 2.39 LINK O GLY F 171 CA CA F 996 1555 1555 2.47 LINK OD1 ASP F 173 CA CA F 996 1555 1555 2.37 LINK ND1 HIS F 175 ZN ZN F 998 1555 1555 2.36 LINK OD2 ASP F 177 CA CA F 997 1555 1555 2.31 LINK OE2 GLU F 180 CA CA F 997 1555 1555 2.29 LINK NE2 HIS F 197 ZN ZN F 999 1555 1555 2.09 LINK NE2 HIS F 201 ZN ZN F 999 1555 1555 2.06 LINK NE2 HIS F 207 ZN ZN F 999 1555 1555 2.20 LINK CA CA F 996 O HOH F1050 1555 1555 2.58 LINK CA CA F 996 O HOH F1064 1555 1555 2.62 LINK ZN ZN F 999 O HOH F1072 1555 1555 2.69 CISPEP 1 ASN A 188 TYR A 189 0 -4.78 CISPEP 2 ASN F 188 TYR F 189 0 -5.40 SITE 1 AC1 6 ASP A 137 GLY A 169 GLY A 171 ASP A 173 SITE 2 AC1 6 HOH A1018 HOH A1038 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 6 HIS A 197 HIS A 201 HIS A 207 HOH A1095 SITE 2 AC4 6 HOH A1140 HOH A1143 SITE 1 AC5 6 ASP F 137 GLY F 169 GLY F 171 ASP F 173 SITE 2 AC5 6 HOH F1050 HOH F1064 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 4 HIS F 197 HIS F 201 HIS F 207 HOH F1072 CRYST1 33.294 47.110 61.325 77.73 80.04 77.01 P 1 2 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 0.030036 -0.006927 -0.004091 0.00000 SCALE2 0.000000 0.021784 -0.004007 0.00000 SCALE3 0.000000 0.000000 0.016834 0.00000