HEADER HYDROLASE 02-JUN-16 5L79 TITLE CRYSTAL STRUCTURE OF MMP12 IN COMPLEX WITH RXP470.1 CONJUGATED WITH TITLE 2 FLUOROPHORE CY5,5 IN SPACE GROUP P21212. COMPND MOL_ID: 1; COMPND 2 MOLECULE: MACROPHAGE METALLOELASTASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MME,MACROPHAGE ELASTASE,HME,MATRIX METALLOPROTEINASE-12,MMP- COMPND 5 12; COMPND 6 EC: 3.4.24.65; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: MMP12, HME; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROBES FOR OPTICAL IMAGING, MMP-12, METALLOPROTEASE, INFLAMMATION, KEYWDS 2 ANEURYSM, FLUOROPHORE, CY5, 5, CYANINE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.TEPSHI,T.BORDENAVE,L.DEVEL,V.DIVE,E.A.STURA REVDAT 5 10-JAN-24 5L79 1 LINK REVDAT 4 20-JUN-18 5L79 1 LINK ATOM REVDAT 3 26-OCT-16 5L79 1 JRNL REVDAT 2 21-SEP-16 5L79 1 JRNL REVDAT 1 14-SEP-16 5L79 0 JRNL AUTH T.BORDENAVE,M.HELLE,F.BEAU,D.GEORGIADIS,L.TEPSHI,M.BERNES, JRNL AUTH 2 Y.YE,L.LEVENEZ,E.POQUET,H.NOZACH,M.RAZAVIAN,J.TOCZEK, JRNL AUTH 3 E.A.STURA,V.DIVE,M.M.SADEGHI,L.DEVEL JRNL TITL SYNTHESIS AND IN VITRO AND IN VIVO EVALUATION OF MMP-12 JRNL TITL 2 SELECTIVE OPTICAL PROBES. JRNL REF BIOCONJUG.CHEM. V. 27 2407 2016 JRNL REFN ISSN 1043-1802 JRNL PMID 27564088 JRNL DOI 10.1021/ACS.BIOCONJCHEM.6B00377 REMARK 2 REMARK 2 RESOLUTION. 2.07 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 2.07 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 19713 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 986 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 47.0183 - 3.9628 1.00 2695 140 0.1583 0.2051 REMARK 3 2 3.9628 - 3.1456 1.00 2660 144 0.1735 0.1849 REMARK 3 3 3.1456 - 2.7480 1.00 2685 143 0.2178 0.2642 REMARK 3 4 2.7480 - 2.4968 0.99 2676 142 0.2427 0.2870 REMARK 3 5 2.4968 - 2.3178 0.99 2678 140 0.2636 0.2821 REMARK 3 6 2.3178 - 2.1812 0.99 2666 141 0.3049 0.3155 REMARK 3 7 2.1812 - 2.0719 0.99 2667 136 0.3230 0.3646 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.190 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 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 : 0.003 1442 REMARK 3 ANGLE : 1.239 1962 REMARK 3 CHIRALITY : 0.035 190 REMARK 3 PLANARITY : 0.003 244 REMARK 3 DIHEDRAL : 17.061 498 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 1:504) REMARK 3 ORIGIN FOR THE GROUP (A): 6.8974 15.9605 3.6352 REMARK 3 T TENSOR REMARK 3 T11: 0.2445 T22: 0.2567 REMARK 3 T33: 0.2041 T12: -0.0011 REMARK 3 T13: 0.0297 T23: 0.0877 REMARK 3 L TENSOR REMARK 3 L11: 5.5040 L22: 2.7748 REMARK 3 L33: 1.0486 L12: 0.3503 REMARK 3 L13: 0.6690 L23: 0.4578 REMARK 3 S TENSOR REMARK 3 S11: -0.0377 S12: -0.5160 S13: -0.0523 REMARK 3 S21: 0.2374 S22: 0.0171 S23: 0.2226 REMARK 3 S31: 0.0599 S32: -0.1502 S33: -0.0155 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 5L79 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1200000244. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8-9.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978570 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19792 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.070 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.690 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : 0.13900 REMARK 200 FOR THE DATA SET : 10.1500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.07 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.13 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.73 REMARK 200 R MERGE FOR SHELL (I) : 1.27800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.670 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: 4GQL REMARK 200 REMARK 200 REMARK: FLAT PLATE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN: HMMP12 689 MICRO-M + 10 MILLI REMARK 280 -M HYDROXAMIC ACID IN .2 M NACL, .02 M TRIS PH 7.5, 3 MILLI-M REMARK 280 CACL2, 0.1 MILLI-M ZNCL2 + 1 MILLI-M RXP470.1-PEG-CY5.5 REMARK 280 PRECIPITANT: 20% PEG4K, 2% DIOXANE, 0.2 MILLI-M TRIS PH 9.5 REMARK 280 CRYOPROTECTANT: 40% CM26 (12.5 % DIETHYLENE GLYCOL + 12.5 % REMARK 280 ETHYLENE GLYCOL + 12.5 % GLYCEROL + 25 % 2,3-BUTANEDIOL + 12.5 % REMARK 280 DMSO), 25% MPEG 6K, 100 MILII-M BISTRISPHOSPHATE/NA CITRATE PH REMARK 280 6.8, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 35.45000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.39500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.45000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.39500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL 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 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 473 LIES ON A SPECIAL POSITION. 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 460 O HOH A 474 1.94 REMARK 500 O HOH A 408 O HOH A 439 2.02 REMARK 500 O15 6PJ A 307 O HOH A 401 2.10 REMARK 500 O HOH A 418 O HOH A 469 2.11 REMARK 500 O2 GOL A 312 O HOH A 402 2.12 REMARK 500 NH1 ARG A 249 O HOH A 403 2.15 REMARK 500 OD1 ASP A 158 O HOH A 404 2.15 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 HIS A 168 40.88 -141.94 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 124 OD1 REMARK 620 2 ASP A 124 OD2 51.0 REMARK 620 3 GLU A 199 O 163.0 140.4 REMARK 620 4 GLU A 199 OE2 88.2 85.8 81.4 REMARK 620 5 GLU A 201 O 120.0 76.5 76.9 117.9 REMARK 620 6 HOH A 458 O 81.8 94.3 106.2 167.0 74.6 REMARK 620 7 HOH A 467 O 86.0 137.0 81.3 93.1 138.2 78.0 REMARK 620 N 1 2 3 4 5 6 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 158 O REMARK 620 2 GLY A 190 O 166.4 REMARK 620 3 GLY A 192 O 92.7 98.3 REMARK 620 4 ASP A 194 OD1 89.7 97.9 92.3 REMARK 620 5 HOH A 409 O 86.4 89.0 73.2 164.8 REMARK 620 6 HOH A 424 O 81.6 86.1 168.5 97.7 96.3 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 168 NE2 REMARK 620 2 ASP A 170 OD2 104.1 REMARK 620 3 HIS A 183 NE2 115.7 121.5 REMARK 620 4 HIS A 196 ND1 107.0 91.4 113.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 175 OD1 REMARK 620 2 GLY A 176 O 93.9 REMARK 620 3 GLY A 178 O 90.6 84.7 REMARK 620 4 ILE A 180 O 89.6 176.5 95.4 REMARK 620 5 ASP A 198 OD2 96.0 86.6 169.4 92.9 REMARK 620 6 GLU A 201 OE2 167.2 90.1 77.6 86.5 96.4 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 218 NE2 REMARK 620 2 HIS A 222 NE2 103.2 REMARK 620 3 HIS A 228 NE2 115.3 107.0 REMARK 620 4 R47 A 306 O2 110.5 125.7 95.6 REMARK 620 N 1 2 3 REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE INHIBITOR REMARK 630 MOLECULE NAME: N-[(2S)-3-[(S)-(4-BROMOPHENYL)(HYDROXY)PHOSPHORYL]- REMARK 630 2-{[3-(3'-CHLOROBIPHENYL-4-YL)-1,2-OXAZOL-5-YL]METHYL}PROPANOYL]-L- REMARK 630 ALPHA-GLUTAMYL-L-ALPHA-GLUTAMINE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 R47 A 306 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: 0YL GLU GLU NH2 REMARK 630 DETAILS: NULL 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 CA 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 EDO A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residues R47 A 306 and 6PJ A REMARK 800 307 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4GQL RELATED DB: PDB REMARK 900 SAME ENZYME RELATED LIGAND DBREF 5L79 A 106 263 UNP P39900 MMP12_HUMAN 106 263 SEQADV 5L79 MET A 105 UNP P39900 INITIATING METHIONINE SEQADV 5L79 ASP A 171 UNP P39900 PHE 171 ENGINEERED MUTATION SEQRES 1 A 159 MET GLY PRO VAL TRP ARG LYS HIS TYR ILE THR TYR ARG SEQRES 2 A 159 ILE ASN ASN TYR THR PRO ASP MET ASN ARG GLU ASP VAL SEQRES 3 A 159 ASP TYR ALA ILE ARG LYS ALA PHE GLN VAL TRP SER ASN SEQRES 4 A 159 VAL THR PRO LEU LYS PHE SER LYS ILE ASN THR GLY MET SEQRES 5 A 159 ALA ASP ILE LEU VAL VAL PHE ALA ARG GLY ALA HIS GLY SEQRES 6 A 159 ASP ASP HIS ALA PHE ASP GLY LYS GLY GLY ILE LEU ALA SEQRES 7 A 159 HIS ALA PHE GLY PRO GLY SER GLY ILE GLY GLY ASP ALA SEQRES 8 A 159 HIS PHE ASP GLU ASP GLU PHE TRP THR THR HIS SER GLY SEQRES 9 A 159 GLY THR ASN LEU PHE LEU THR ALA VAL HIS GLU ILE GLY SEQRES 10 A 159 HIS SER LEU GLY LEU GLY HIS SER SER ASP PRO LYS ALA SEQRES 11 A 159 VAL MET PHE PRO THR TYR LYS TYR VAL ASP ILE ASN THR SEQRES 12 A 159 PHE ARG LEU SER ALA ASP ASP ILE ARG GLY ILE GLN SER SEQRES 13 A 159 LEU TYR GLY HET ZN A 301 1 HET ZN A 302 1 HET CA A 303 1 HET CA A 304 1 HET CA A 305 1 HET R47 A 306 52 HET 6PJ A 307 73 HET EDO A 308 4 HET EDO A 309 4 HET EDO A 310 4 HET EDO A 311 4 HET GOL A 312 6 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM R47 N-[(2S)-3-[(S)-(4-BROMOPHENYL)(HYDROXY)PHOSPHORYL]-2- HETNAM 2 R47 {[3-(3'-CHLOROBIPHENYL-4-YL)-1,2-OXAZOL-5- HETNAM 3 R47 YL]METHYL}PROPANOYL]-L-ALPHA-GLUTAMYL-L-ALPHA- HETNAM 4 R47 GLUTAMINE HETNAM 6PJ CY5.5-PEG2 HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETSYN R47 RXP470.1 HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN 2(ZN 2+) FORMUL 4 CA 3(CA 2+) FORMUL 7 R47 C35 H35 BR CL N4 O10 P FORMUL 8 6PJ C50 H65 N3 O16 S4 FORMUL 9 EDO 4(C2 H6 O2) FORMUL 13 GOL C3 H8 O3 FORMUL 14 HOH *81(H2 O) HELIX 1 AA1 ASN A 126 ASN A 143 1 18 HELIX 2 AA2 LEU A 212 LEU A 224 1 13 HELIX 3 AA3 SER A 251 SER A 260 1 10 SHEET 1 AA1 5 LYS A 148 LYS A 151 0 SHEET 2 AA1 5 TYR A 113 ILE A 118 1 N ILE A 114 O LYS A 148 SHEET 3 AA1 5 ILE A 159 ALA A 164 1 O VAL A 161 N ARG A 117 SHEET 4 AA1 5 ALA A 195 ASP A 198 1 O PHE A 197 N VAL A 162 SHEET 5 AA1 5 ALA A 182 ALA A 184 -1 N HIS A 183 O HIS A 196 SHEET 1 AA2 2 TRP A 203 THR A 204 0 SHEET 2 AA2 2 THR A 210 ASN A 211 1 O THR A 210 N THR A 204 LINK N4 R47 A 306 C32 6PJ A 307 1555 1555 1.39 LINK OD1 ASP A 124 CA CA A 305 1555 1555 2.71 LINK OD2 ASP A 124 CA CA A 305 1555 1555 2.33 LINK O ASP A 158 CA CA A 304 1555 1555 2.39 LINK NE2 HIS A 168 ZN ZN A 302 1555 1555 2.07 LINK OD2 ASP A 170 ZN ZN A 302 1555 1555 2.04 LINK OD1 ASP A 175 CA CA A 303 1555 1555 2.42 LINK O GLY A 176 CA CA A 303 1555 1555 2.33 LINK O GLY A 178 CA CA A 303 1555 1555 2.42 LINK O ILE A 180 CA CA A 303 1555 1555 2.34 LINK NE2 HIS A 183 ZN ZN A 302 1555 1555 2.07 LINK O GLY A 190 CA CA A 304 1555 1555 2.42 LINK O GLY A 192 CA CA A 304 1555 1555 2.40 LINK OD1 ASP A 194 CA CA A 304 1555 1555 2.42 LINK ND1 HIS A 196 ZN ZN A 302 1555 1555 2.13 LINK OD2 ASP A 198 CA CA A 303 1555 1555 2.45 LINK O GLU A 199 CA CA A 305 1555 1555 2.32 LINK OE2 GLU A 199 CA CA A 305 1555 1555 2.56 LINK OE2 GLU A 201 CA CA A 303 1555 1555 2.35 LINK O GLU A 201 CA CA A 305 1555 1555 2.51 LINK NE2 HIS A 218 ZN ZN A 301 1555 1555 2.08 LINK NE2 HIS A 222 ZN ZN A 301 1555 1555 2.01 LINK NE2 HIS A 228 ZN ZN A 301 1555 1555 2.05 LINK ZN ZN A 301 O2 R47 A 306 1555 1555 1.94 LINK CA CA A 304 O HOH A 409 1555 1555 2.39 LINK CA CA A 304 O HOH A 424 1555 1555 2.11 LINK CA CA A 305 O HOH A 458 1555 1555 2.42 LINK CA CA A 305 O HOH A 467 1555 1555 2.64 SITE 1 AC1 4 HIS A 218 HIS A 222 HIS A 228 R47 A 306 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 6 ASP A 158 GLY A 190 GLY A 192 ASP A 194 SITE 2 AC4 6 HOH A 409 HOH A 424 SITE 1 AC5 5 ASP A 124 GLU A 199 GLU A 201 HOH A 458 SITE 2 AC5 5 HOH A 467 SITE 1 AC6 3 ASP A 124 GLY A 188 SER A 189 SITE 1 AC7 2 GLY A 186 PRO A 187 SITE 1 AC8 6 TYR A 113 VAL A 144 PRO A 146 GLY A 166 SITE 2 AC8 6 ALA A 167 HOH A 407 SITE 1 AC9 4 ALA A 157 GLY A 190 6PJ A 307 HOH A 404 SITE 1 AD1 6 HIS A 168 ARG A 249 LEU A 250 ILE A 255 SITE 2 AD1 6 6PJ A 307 HOH A 402 SITE 1 AD2 40 ARG A 127 THR A 154 GLY A 178 GLY A 179 SITE 2 AD2 40 LEU A 181 ALA A 182 HIS A 183 GLY A 190 SITE 3 AD2 40 THR A 215 HIS A 218 GLU A 219 HIS A 222 SITE 4 AD2 40 HIS A 228 PRO A 232 LYS A 233 ALA A 234 SITE 5 AD2 40 VAL A 235 PHE A 237 PRO A 238 THR A 239 SITE 6 AD2 40 TYR A 240 LYS A 241 VAL A 243 PHE A 248 SITE 7 AD2 40 ARG A 249 LEU A 250 SER A 251 ALA A 252 SITE 8 AD2 40 ZN A 301 EDO A 311 GOL A 312 HOH A 401 SITE 9 AD2 40 HOH A 402 HOH A 410 HOH A 412 HOH A 423 SITE 10 AD2 40 HOH A 424 HOH A 427 HOH A 435 HOH A 446 CRYST1 70.900 62.790 37.740 90.00 90.00 90.00 P 21 21 2 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 0.014104 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015926 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026497 0.00000