HEADER HYDROLASE/HYDROLASE INHIBITOR 02-JUN-13 4L19 TITLE MATRIX METALLOPROTEINASE-13 COMPLEXED WITH SELECTIVE INHIBITOR TITLE 2 COMPOUND Q1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: COLLAGENASE 3; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN (UNP RESIDUES 104-274); COMPND 5 SYNONYM: MATRIX METALLOPROTEINASE-13, MMP-13; COMPND 6 EC: 3.4.24.-; 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 GENE: MMP13; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PKA8H KEYWDS METALLOPROTEASE, HYDROLASE, MMP-13, COLLAGENASE, EXOSITE INHIBITOR, KEYWDS 2 HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.MINOND,T.P.SPICER,J.JIANG,A.B.TAYLOR,P.J.HART,W.R.ROUSH,G.B.FIELDS, AUTHOR 2 P.S.HODDER REVDAT 2 20-SEP-23 4L19 1 REMARK LINK REVDAT 1 10-DEC-14 4L19 0 JRNL AUTH T.P.SPICER,J.JIANG,A.B.TAYLOR,J.Y.CHOI,P.J.HART,W.R.ROUSH, JRNL AUTH 2 G.B.FIELDS,P.S.HODDER,D.MINOND JRNL TITL CHARACTERIZATION OF SELECTIVE EXOSITE-BINDING INHIBITORS OF JRNL TITL 2 MATRIX METALLOPROTEINASE 13 THAT PREVENT ARTICULAR CARTILAGE JRNL TITL 3 DEGRADATION IN VITRO. JRNL REF J.MED.CHEM. V. 57 9598 2014 JRNL REFN ISSN 0022-2623 JRNL PMID 25330343 JRNL DOI 10.1021/JM501284E REMARK 2 REMARK 2 RESOLUTION. 1.66 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.75 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 41509 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.137 REMARK 3 R VALUE (WORKING SET) : 0.134 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.770 REMARK 3 FREE R VALUE TEST SET COUNT : 1980 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 47.7686 - 4.0002 0.97 2922 148 0.1378 0.1706 REMARK 3 2 4.0002 - 3.1752 0.97 2844 143 0.1238 0.1921 REMARK 3 3 3.1752 - 2.7739 0.98 2809 144 0.1403 0.1884 REMARK 3 4 2.7739 - 2.5203 1.00 2886 144 0.1358 0.2101 REMARK 3 5 2.5203 - 2.3397 0.98 2798 137 0.1238 0.2024 REMARK 3 6 2.3397 - 2.2017 0.98 2821 143 0.1216 0.2238 REMARK 3 7 2.2017 - 2.0915 0.98 2806 148 0.1116 0.1838 REMARK 3 8 2.0915 - 2.0004 0.99 2787 133 0.1097 0.1934 REMARK 3 9 2.0004 - 1.9234 0.99 2860 137 0.1392 0.2065 REMARK 3 10 1.9234 - 1.8570 0.98 2812 151 0.1325 0.2371 REMARK 3 11 1.8570 - 1.7990 0.98 2759 126 0.1422 0.2114 REMARK 3 12 1.7990 - 1.7475 0.98 2820 145 0.1723 0.2837 REMARK 3 13 1.7475 - 1.7015 0.99 2796 137 0.2102 0.3096 REMARK 3 14 1.7015 - 1.6600 0.99 2809 144 0.2216 0.3203 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.850 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.34 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.03 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.005 2882 REMARK 3 ANGLE : 0.939 3911 REMARK 3 CHIRALITY : 0.065 381 REMARK 3 PLANARITY : 0.005 505 REMARK 3 DIHEDRAL : 11.472 1011 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4L19 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000080053. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 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 : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41512 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.660 REMARK 200 RESOLUTION RANGE LOW (A) : 47.750 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05200 REMARK 200 FOR THE DATA SET : 15.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.66 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.59000 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3ZXH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS, 1.5M AMMONIUM FORMATE, 10% REMARK 280 -14% PEG4000, 0.017M COMPOUND Q1, PH 8.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 67.66000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.01450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 67.66000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 18.01450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -299.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 431 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 541 LIES ON A SPECIAL POSITION. 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 ASP A 270 REMARK 465 GLU A 271 REMARK 465 ASP A 272 REMARK 465 PRO A 273 REMARK 465 ASN A 274 REMARK 465 ASN B 274 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 LYS A 170 -136.87 48.67 REMARK 500 TYR A 176 77.47 -112.33 REMARK 500 SER A 182 -168.85 59.23 REMARK 500 ASN A 194 -121.14 60.52 REMARK 500 SER A 210 -152.26 -137.31 REMARK 500 LYS B 170 -129.66 45.98 REMARK 500 SER B 182 -172.90 61.56 REMARK 500 SER B 182 -172.68 60.32 REMARK 500 ASN B 194 -116.22 54.89 REMARK 500 SER B 210 -161.30 -128.91 REMARK 500 SER B 250 -69.60 -102.81 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 305 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 162 O REMARK 620 2 ASN A 194 O 175.2 REMARK 620 3 GLY A 196 O 89.2 94.8 REMARK 620 4 ASP A 198 OD1 87.7 94.9 90.8 REMARK 620 5 HOH A 407 O 95.1 80.4 167.7 100.9 REMARK 620 6 HOH A 458 O 88.6 89.4 80.7 170.8 87.8 REMARK 620 N 1 2 3 4 5 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 172 NE2 REMARK 620 2 ASP A 174 OD2 111.7 REMARK 620 3 HIS A 187 NE2 115.1 113.5 REMARK 620 4 HIS A 200 ND1 108.5 93.4 112.5 REMARK 620 N 1 2 3 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 179 OD1 REMARK 620 2 GLY A 180 O 89.4 REMARK 620 3 SER A 182 O 84.3 86.4 REMARK 620 4 LEU A 184 O 91.2 179.0 94.4 REMARK 620 5 ASP A 202 OD2 91.2 84.7 170.0 94.6 REMARK 620 6 GLU A 205 OE2 171.5 96.3 89.7 83.2 95.6 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 HIS A 222 NE2 REMARK 620 2 HIS A 226 NE2 103.2 REMARK 620 3 HIS A 232 NE2 110.7 106.8 REMARK 620 4 FMT A 306 O1 151.2 91.5 87.9 REMARK 620 5 FMT A 306 O2 99.2 108.9 125.7 52.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 303 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 251 NE2 REMARK 620 2 GOL A 309 O2 132.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 162 O REMARK 620 2 ASN B 194 O 174.6 REMARK 620 3 GLY B 196 O 88.6 94.0 REMARK 620 4 ASP B 198 OD1 88.8 95.8 91.1 REMARK 620 5 HOH B 489 O 86.4 89.3 81.1 170.9 REMARK 620 6 HOH B 505 O 91.8 84.8 170.1 98.8 89.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 172 NE2 REMARK 620 2 ASP B 174 OD2 111.2 REMARK 620 3 HIS B 187 NE2 112.5 116.9 REMARK 620 4 HIS B 200 ND1 107.2 96.8 110.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 179 OD1 REMARK 620 2 GLY B 180 O 85.3 REMARK 620 3 SER B 182 O 85.3 84.4 REMARK 620 4 SER B 182 O 84.8 84.0 0.6 REMARK 620 5 LEU B 184 O 95.7 177.6 93.4 93.9 REMARK 620 6 ASP B 202 OD2 93.9 90.8 175.2 174.7 91.3 REMARK 620 7 GLU B 205 OE2 169.2 94.0 83.9 84.4 84.5 96.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 222 NE2 REMARK 620 2 HIS B 226 NE2 102.9 REMARK 620 3 HIS B 232 NE2 109.5 101.2 REMARK 620 4 FMT B 305 O1 126.0 126.3 83.6 REMARK 620 5 FMT B 305 O2 99.8 97.8 140.2 57.1 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 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1UA A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1UA A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1UA B 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 311 DBREF 4L19 A 104 274 UNP P45452 MMP13_HUMAN 104 274 DBREF 4L19 B 104 274 UNP P45452 MMP13_HUMAN 104 274 SEQRES 1 A 171 TYR ASN VAL PHE PRO ARG THR LEU LYS TRP SER LYS MET SEQRES 2 A 171 ASN LEU THR TYR ARG ILE VAL ASN TYR THR PRO ASP MET SEQRES 3 A 171 THR HIS SER GLU VAL GLU LYS ALA PHE LYS LYS ALA PHE SEQRES 4 A 171 LYS VAL TRP SER ASP VAL THR PRO LEU ASN PHE THR ARG SEQRES 5 A 171 LEU HIS ASP GLY ILE ALA ASP ILE MET ILE SER PHE GLY SEQRES 6 A 171 ILE LYS GLU HIS GLY ASP PHE TYR PRO PHE ASP GLY PRO SEQRES 7 A 171 SER GLY LEU LEU ALA HIS ALA PHE PRO PRO GLY PRO ASN SEQRES 8 A 171 TYR GLY GLY ASP ALA HIS PHE ASP ASP ASP GLU THR TRP SEQRES 9 A 171 THR SER SER SER LYS GLY TYR ASN LEU PHE LEU VAL ALA SEQRES 10 A 171 ALA HIS GLU PHE GLY HIS SER LEU GLY LEU ASP HIS SER SEQRES 11 A 171 LYS ASP PRO GLY ALA LEU MET PHE PRO ILE TYR THR TYR SEQRES 12 A 171 THR GLY LYS SER HIS PHE MET LEU PRO ASP ASP ASP VAL SEQRES 13 A 171 GLN GLY ILE GLN SER LEU TYR GLY PRO GLY ASP GLU ASP SEQRES 14 A 171 PRO ASN SEQRES 1 B 171 TYR ASN VAL PHE PRO ARG THR LEU LYS TRP SER LYS MET SEQRES 2 B 171 ASN LEU THR TYR ARG ILE VAL ASN TYR THR PRO ASP MET SEQRES 3 B 171 THR HIS SER GLU VAL GLU LYS ALA PHE LYS LYS ALA PHE SEQRES 4 B 171 LYS VAL TRP SER ASP VAL THR PRO LEU ASN PHE THR ARG SEQRES 5 B 171 LEU HIS ASP GLY ILE ALA ASP ILE MET ILE SER PHE GLY SEQRES 6 B 171 ILE LYS GLU HIS GLY ASP PHE TYR PRO PHE ASP GLY PRO SEQRES 7 B 171 SER GLY LEU LEU ALA HIS ALA PHE PRO PRO GLY PRO ASN SEQRES 8 B 171 TYR GLY GLY ASP ALA HIS PHE ASP ASP ASP GLU THR TRP SEQRES 9 B 171 THR SER SER SER LYS GLY TYR ASN LEU PHE LEU VAL ALA SEQRES 10 B 171 ALA HIS GLU PHE GLY HIS SER LEU GLY LEU ASP HIS SER SEQRES 11 B 171 LYS ASP PRO GLY ALA LEU MET PHE PRO ILE TYR THR TYR SEQRES 12 B 171 THR GLY LYS SER HIS PHE MET LEU PRO ASP ASP ASP VAL SEQRES 13 B 171 GLN GLY ILE GLN SER LEU TYR GLY PRO GLY ASP GLU ASP SEQRES 14 B 171 PRO ASN HET ZN A 301 1 HET ZN A 302 1 HET ZN A 303 1 HET CA A 304 1 HET CA A 305 1 HET FMT A 306 3 HET 1UA A 307 19 HET 1UA A 308 19 HET GOL A 309 6 HET ZN B 301 1 HET ZN B 302 1 HET CA B 303 1 HET CA B 304 1 HET FMT B 305 3 HET FMT B 306 3 HET FMT B 307 3 HET FMT B 308 3 HET 1UA B 309 19 HET GOL B 310 6 HET GOL B 311 6 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM FMT FORMIC ACID HETNAM 1UA 2-[(4-METHYLBENZYL)SULFANYL]-3,5,6,7-TETRAHYDRO-4H- HETNAM 2 1UA CYCLOPENTA[D]PYRIMIDIN-4-ONE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ZN 5(ZN 2+) FORMUL 6 CA 4(CA 2+) FORMUL 8 FMT 5(C H2 O2) FORMUL 9 1UA 3(C15 H16 N2 O S) FORMUL 11 GOL 3(C3 H8 O3) FORMUL 23 HOH *268(H2 O) HELIX 1 1 THR A 130 ASP A 147 1 18 HELIX 2 2 LEU A 216 GLY A 229 1 14 HELIX 3 3 PRO A 255 GLY A 267 1 13 HELIX 4 4 THR B 130 ASP B 147 1 18 HELIX 5 5 LEU B 216 GLY B 229 1 14 HELIX 6 6 PRO B 255 GLY B 267 1 13 SHEET 1 A 5 ASN A 152 LEU A 156 0 SHEET 2 A 5 ASN A 117 ILE A 122 1 N TYR A 120 O LEU A 156 SHEET 3 A 5 ILE A 163 GLY A 168 1 O ILE A 165 N ARG A 121 SHEET 4 A 5 ALA A 199 ASP A 202 1 O PHE A 201 N SER A 166 SHEET 5 A 5 ALA A 186 ALA A 188 -1 N HIS A 187 O HIS A 200 SHEET 1 B 2 TRP A 207 THR A 208 0 SHEET 2 B 2 TYR A 214 ASN A 215 1 O TYR A 214 N THR A 208 SHEET 1 C 5 ASN B 152 LEU B 156 0 SHEET 2 C 5 ASN B 117 ILE B 122 1 N TYR B 120 O LEU B 156 SHEET 3 C 5 ILE B 163 GLY B 168 1 O ILE B 165 N ARG B 121 SHEET 4 C 5 ALA B 199 ASP B 202 1 O PHE B 201 N SER B 166 SHEET 5 C 5 ALA B 186 ALA B 188 -1 N HIS B 187 O HIS B 200 SHEET 1 D 2 TRP B 207 THR B 208 0 SHEET 2 D 2 TYR B 214 ASN B 215 1 O TYR B 214 N THR B 208 LINK O ASP A 162 CA CA A 305 1555 1555 2.29 LINK NE2 HIS A 172 ZN ZN A 301 1555 1555 1.96 LINK OD2 ASP A 174 ZN ZN A 301 1555 1555 2.03 LINK OD1 ASP A 179 CA CA A 304 1555 1555 2.44 LINK O GLY A 180 CA CA A 304 1555 1555 2.28 LINK O SER A 182 CA CA A 304 1555 1555 2.33 LINK O LEU A 184 CA CA A 304 1555 1555 2.28 LINK NE2 HIS A 187 ZN ZN A 301 1555 1555 2.08 LINK O ASN A 194 CA CA A 305 1555 1555 2.34 LINK O GLY A 196 CA CA A 305 1555 1555 2.39 LINK OD1 ASP A 198 CA CA A 305 1555 1555 2.40 LINK ND1 HIS A 200 ZN ZN A 301 1555 1555 2.10 LINK OD2 ASP A 202 CA CA A 304 1555 1555 2.33 LINK OE2 GLU A 205 CA CA A 304 1555 1555 2.20 LINK NE2 HIS A 222 ZN ZN A 302 1555 1555 2.05 LINK NE2 HIS A 226 ZN ZN A 302 1555 1555 2.10 LINK NE2 HIS A 232 ZN ZN A 302 1555 1555 2.11 LINK NE2 HIS A 251 ZN ZN A 303 1555 1555 1.86 LINK ZN ZN A 302 O1 FMT A 306 1555 1555 2.23 LINK ZN ZN A 302 O2 FMT A 306 1555 1555 2.63 LINK ZN ZN A 303 O2 GOL A 309 1555 1555 2.29 LINK CA CA A 305 O HOH A 407 1555 1555 2.39 LINK CA CA A 305 O HOH A 458 1555 1555 2.38 LINK O ASP B 162 CA CA B 303 1555 1555 2.37 LINK NE2 HIS B 172 ZN ZN B 301 1555 1555 2.03 LINK OD2 ASP B 174 ZN ZN B 301 1555 1555 1.96 LINK OD1 ASP B 179 CA CA B 304 1555 1555 2.37 LINK O GLY B 180 CA CA B 304 1555 1555 2.28 LINK O ASER B 182 CA CA B 304 1555 1555 2.40 LINK O BSER B 182 CA CA B 304 1555 1555 2.41 LINK O LEU B 184 CA CA B 304 1555 1555 2.24 LINK NE2 HIS B 187 ZN ZN B 301 1555 1555 2.08 LINK O ASN B 194 CA CA B 303 1555 1555 2.41 LINK O GLY B 196 CA CA B 303 1555 1555 2.31 LINK OD1 ASP B 198 CA CA B 303 1555 1555 2.39 LINK ND1 HIS B 200 ZN ZN B 301 1555 1555 2.03 LINK OD2 ASP B 202 CA CA B 304 1555 1555 2.32 LINK OE2 GLU B 205 CA CA B 304 1555 1555 2.22 LINK NE2 HIS B 222 ZN ZN B 302 1555 1555 2.08 LINK NE2 HIS B 226 ZN ZN B 302 1555 1555 2.07 LINK NE2 HIS B 232 ZN ZN B 302 1555 1555 2.08 LINK ZN ZN B 302 O1 FMT B 305 1555 1555 2.17 LINK ZN ZN B 302 O2 FMT B 305 1555 1555 2.33 LINK CA CA B 303 O HOH B 489 1555 1555 2.40 LINK CA CA B 303 O HOH B 505 1555 1555 2.35 SITE 1 AC1 4 HIS A 172 ASP A 174 HIS A 187 HIS A 200 SITE 1 AC2 4 HIS A 222 HIS A 226 HIS A 232 FMT A 306 SITE 1 AC3 4 HIS A 131 SER A 250 HIS A 251 GOL A 309 SITE 1 AC4 6 ASP A 179 GLY A 180 SER A 182 LEU A 184 SITE 2 AC4 6 ASP A 202 GLU A 205 SITE 1 AC5 6 ASP A 162 ASN A 194 GLY A 196 ASP A 198 SITE 2 AC5 6 HOH A 407 HOH A 458 SITE 1 AC6 6 HIS A 222 GLU A 223 HIS A 226 HIS A 232 SITE 2 AC6 6 ZN A 302 1UA A 308 SITE 1 AC7 8 LEU A 218 HIS A 222 LEU A 239 PHE A 241 SITE 2 AC7 8 ILE A 243 THR A 245 THR A 247 PHE A 252 SITE 1 AC8 6 TYR A 176 ALA A 188 PHE A 189 HIS A 226 SITE 2 AC8 6 FMT A 306 HOH A 494 SITE 1 AC9 6 HIS A 131 GLU A 135 ARG A 155 SER A 250 SITE 2 AC9 6 ZN A 303 PRO B 127 SITE 1 BC1 4 HIS B 172 ASP B 174 HIS B 187 HIS B 200 SITE 1 BC2 4 HIS B 222 HIS B 226 HIS B 232 FMT B 305 SITE 1 BC3 6 ASP B 162 ASN B 194 GLY B 196 ASP B 198 SITE 2 BC3 6 HOH B 489 HOH B 505 SITE 1 BC4 6 ASP B 179 GLY B 180 SER B 182 LEU B 184 SITE 2 BC4 6 ASP B 202 GLU B 205 SITE 1 BC5 6 HIS B 222 GLU B 223 HIS B 226 HIS B 232 SITE 2 BC5 6 ZN B 302 HOH B 458 SITE 1 BC6 5 THR A 130 HIS A 131 THR B 130 HIS B 131 SITE 2 BC6 5 HOH B 408 SITE 1 BC7 4 LYS B 234 GLN B 263 HOH B 442 HOH B 464 SITE 1 BC8 4 LYS B 115 MET B 116 ASN B 117 HOH B 460 SITE 1 BC9 8 HIS B 222 GLY B 237 LEU B 239 PHE B 241 SITE 2 BC9 8 ILE B 243 TYR B 244 THR B 245 PHE B 252 SITE 1 CC1 4 TYR B 176 ALA B 188 HOH B 493 HOH B 555 SITE 1 CC2 6 ARG B 155 LEU B 156 HIS B 157 ASP B 158 SITE 2 CC2 6 HOH B 413 HOH B 498 CRYST1 135.320 36.029 95.814 90.00 130.23 90.00 C 1 2 1 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 0.007390 0.000000 0.006252 0.00000 SCALE2 0.000000 0.027755 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013671 0.00000