HEADER HYDROLASE/HYDROLASE INHIBITOR 12-SEP-12 4H2E TITLE CRYSTAL STRUCTURE OF AN MMP TWIN INHIBITOR COMPLEXING TWO MMP-9 TITLE 2 CATALYTIC DOMAINS COMPND MOL_ID: 1; COMPND 2 MOLECULE: MATRIX METALLOPROTEINASE-9; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 110-214 AND 391-444; COMPND 5 SYNONYM: MMP-9,92 KDA GELATINASE,92 KDA TYPE IV COLLAGENASE, COMPND 6 GELATINASE B; COMPND 7 EC: 3.4.24.35,3.4.24.35; COMPND 8 ENGINEERED: YES; COMPND 9 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: MMP9, CLG4B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3 STAR); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PT7 PROMOTER; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-14B KEYWDS HYDROLASE/TWIN INHIBITOR, ZINCIN-LIKE, GELATINASE, COLLAGENASE KEYWDS 2 (CATALYTIC DOMAIN), HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.A.STURA,L.VERA,E.CASSAR-LAJEUNESSE,E.NUTI,M.P.CATALANI,V.DIVE, AUTHOR 2 A.ROSSELLO REVDAT 6 20-SEP-23 4H2E 1 REMARK LINK REVDAT 5 31-MAY-17 4H2E 1 COMPND REMARK DBREF REVDAT 4 12-AUG-15 4H2E 1 JRNL REVDAT 3 08-OCT-14 4H2E 1 AUTHOR REVDAT 2 01-MAY-13 4H2E 1 AUTHOR REVDAT 1 24-APR-13 4H2E 0 JRNL AUTH C.ANTONI,L.VERA,L.DEVEL,M.P.CATALANI,B.CZARNY, JRNL AUTH 2 E.CASSAR-LAJEUNESSE,E.NUTI,A.ROSSELLO,V.DIVE,E.A.STURA JRNL TITL CRYSTALLIZATION OF BI-FUNCTIONAL LIGAND PROTEIN COMPLEXES. JRNL REF J.STRUCT.BIOL. V. 182 246 2013 JRNL REFN ISSN 1047-8477 JRNL PMID 23567804 JRNL DOI 10.1016/J.JSB.2013.03.015 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8_1069)/REFMAC 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.85 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 7128 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.279 REMARK 3 R VALUE (WORKING SET) : 0.277 REMARK 3 FREE R VALUE : 0.311 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 357 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 38.8534 - 4.1849 0.98 2273 120 0.2979 0.3083 REMARK 3 2 4.1849 - 3.3223 0.99 2260 119 0.2621 0.3218 REMARK 3 3 3.3223 - 2.9025 0.97 2238 118 0.2665 0.3009 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) : 0.450 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.800 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.65 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.73000 REMARK 3 B22 (A**2) : -1.10000 REMARK 3 B33 (A**2) : 1.17000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.07000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.011 2910 REMARK 3 ANGLE : 1.458 3928 REMARK 3 CHIRALITY : 0.084 368 REMARK 3 PLANARITY : 0.008 519 REMARK 3 DIHEDRAL : 26.662 1056 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: BOTH REFMAC AND PHENIX USED REMARK 4 REMARK 4 4H2E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1000074932. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-DEC-10 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 : 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) : 0.98011 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7158 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 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 (%) : 98.0 REMARK 200 DATA REDUNDANCY : 4.150 REMARK 200 R MERGE (I) : 0.19500 REMARK 200 R SYM (I) : 0.17000 REMARK 200 FOR THE DATA SET : 7.0100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.12 REMARK 200 R MERGE FOR SHELL (I) : 0.53000 REMARK 200 R SYM FOR SHELL (I) : 0.46300 REMARK 200 FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLREP REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 4H1Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN: HMMP-9-WT AT 2 MG/ML WITH 120 REMARK 280 MILLI-M ACETOHYDROXAMIC ACID. RESERVOIR: 40% MONOMETHYL PEG 5, REMARK 280 000, 0.1 M GLYCINE. CRYOPROTECTANT: 35% MPEG 5K, 15% PEG 400, 15% REMARK 280 AAB BUFFER AT PH 8.0 , VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K, PH 8.5 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 48.70000 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 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 ALA A 173 -125.58 51.59 REMARK 500 HIS A 175 -156.43 -150.09 REMARK 500 ASP A 185 -160.62 67.11 REMARK 500 TYR A 268 -57.76 -122.89 REMARK 500 ARG B 134 -37.65 -36.33 REMARK 500 ARG B 134 -36.07 -23.35 REMARK 500 ALA B 173 -130.52 56.70 REMARK 500 HIS B 175 -121.99 -133.66 REMARK 500 ASP B 185 -166.18 68.27 REMARK 500 PRO B 246 -4.00 -54.83 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 461 DISTANCE = 6.41 ANGSTROMS 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 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 165 O REMARK 620 2 GLY A 197 O 163.9 REMARK 620 3 GLN A 199 O 95.8 88.3 REMARK 620 4 ASP A 201 OD1 82.9 81.7 87.0 REMARK 620 N 1 2 3 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 175 NE2 REMARK 620 2 ASP A 177 OD1 139.7 REMARK 620 3 HIS A 190 NE2 120.5 87.8 REMARK 620 4 HIS A 203 ND1 108.7 88.7 104.4 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 182 OD2 REMARK 620 2 GLY A 183 O 109.2 REMARK 620 3 ASP A 185 O 83.9 87.4 REMARK 620 4 LEU A 187 O 73.5 169.2 82.5 REMARK 620 5 ASP A 205 OD2 112.4 84.6 163.5 104.3 REMARK 620 6 GLU A 208 OE2 167.7 76.0 85.3 99.4 78.8 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 226 NE2 REMARK 620 2 HIS A 230 NE2 105.0 REMARK 620 3 HIS A 236 NE2 104.9 87.8 REMARK 620 4 0Y3 B 306 O23 89.2 83.9 165.0 REMARK 620 5 0Y3 B 306 O25 128.8 123.5 93.2 81.1 REMARK 620 6 0Y3 B 306 N22 97.7 109.0 147.2 29.8 54.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 305 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 129 OG REMARK 620 2 ASP B 131 OD2 85.4 REMARK 620 3 ASP B 206 OD1 51.8 134.2 REMARK 620 4 ASP B 206 O 118.4 152.7 66.7 REMARK 620 5 GLU B 208 O 140.7 84.9 137.6 83.8 REMARK 620 N 1 2 3 4 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 165 O REMARK 620 2 GLY B 197 O 168.8 REMARK 620 3 GLN B 199 O 83.8 87.9 REMARK 620 4 ASP B 201 OD1 77.8 94.3 87.7 REMARK 620 N 1 2 3 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 175 NE2 REMARK 620 2 ASP B 177 OD1 122.1 REMARK 620 3 HIS B 190 NE2 115.9 99.0 REMARK 620 4 HIS B 203 ND1 123.5 85.9 104.5 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 GLY B 183 O REMARK 620 2 ASP B 185 O 93.4 REMARK 620 3 LEU B 187 O 158.4 87.9 REMARK 620 4 ASP B 205 OD2 76.4 164.8 97.5 REMARK 620 5 GLU B 208 OE2 74.6 62.7 87.0 103.3 REMARK 620 N 1 2 3 4 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 226 NE2 REMARK 620 2 HIS B 230 NE2 103.7 REMARK 620 3 HIS B 236 NE2 102.2 90.1 REMARK 620 4 0Y3 B 306 O78 126.6 128.2 90.3 REMARK 620 5 0Y3 B 306 O77 94.9 81.5 162.3 82.8 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 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 PEG A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 313 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BCN A 314 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BCN A 315 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0Y3 B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BCN B 311 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4H1Q RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MUTANT MMP-9 CATALYTIC DOMAIN IN COMPLEX WITH REMARK 900 A TWIN INHIBITOR. REMARK 900 RELATED ID: 2OW1 RELATED DB: PDB REMARK 900 MMP-9 ACTIVE SITE MUTANT WITH TRIFLUOROMETHYL HYDROXAMATE INHIBITOR REMARK 900 RELATED ID: 4H30 RELATED DB: PDB REMARK 900 RELATED ID: 4H3X RELATED DB: PDB DBREF 4H2E A 107 216 UNP P14780 MMP9_HUMAN 107 216 DBREF 4H2E A 217 269 UNP P14780 MMP9_HUMAN 392 444 DBREF 4H2E B 107 216 UNP P14780 MMP9_HUMAN 107 216 DBREF 4H2E B 217 269 UNP P14780 MMP9_HUMAN 392 444 SEQADV 4H2E GLY A 106 UNP P14780 EXPRESSION TAG SEQADV 4H2E GLY B 106 UNP P14780 EXPRESSION TAG SEQRES 1 A 164 GLY PHE GLN THR PHE GLU GLY ASP LEU LYS TRP HIS HIS SEQRES 2 A 164 HIS ASN ILE THR TYR TRP ILE GLN ASN TYR SER GLU ASP SEQRES 3 A 164 LEU PRO ARG ALA VAL ILE ASP ASP ALA PHE ALA ARG ALA SEQRES 4 A 164 PHE ALA LEU TRP SER ALA VAL THR PRO LEU THR PHE THR SEQRES 5 A 164 ARG VAL TYR SER ARG ASP ALA ASP ILE VAL ILE GLN PHE SEQRES 6 A 164 GLY VAL ALA GLU HIS GLY ASP GLY TYR PRO PHE ASP GLY SEQRES 7 A 164 LYS ASP GLY LEU LEU ALA HIS ALA PHE PRO PRO GLY PRO SEQRES 8 A 164 GLY ILE GLN GLY ASP ALA HIS PHE ASP ASP ASP GLU LEU SEQRES 9 A 164 TRP SER LEU GLY LYS GLY VAL GLY TYR SER LEU PHE LEU SEQRES 10 A 164 VAL ALA ALA HIS GLU PHE GLY HIS ALA LEU GLY LEU ASP SEQRES 11 A 164 HIS SER SER VAL PRO GLU ALA LEU MET TYR PRO MET TYR SEQRES 12 A 164 ARG PHE THR GLU GLY PRO PRO LEU HIS LYS ASP ASP VAL SEQRES 13 A 164 ASN GLY ILE ARG HIS LEU TYR GLY SEQRES 1 B 164 GLY PHE GLN THR PHE GLU GLY ASP LEU LYS TRP HIS HIS SEQRES 2 B 164 HIS ASN ILE THR TYR TRP ILE GLN ASN TYR SER GLU ASP SEQRES 3 B 164 LEU PRO ARG ALA VAL ILE ASP ASP ALA PHE ALA ARG ALA SEQRES 4 B 164 PHE ALA LEU TRP SER ALA VAL THR PRO LEU THR PHE THR SEQRES 5 B 164 ARG VAL TYR SER ARG ASP ALA ASP ILE VAL ILE GLN PHE SEQRES 6 B 164 GLY VAL ALA GLU HIS GLY ASP GLY TYR PRO PHE ASP GLY SEQRES 7 B 164 LYS ASP GLY LEU LEU ALA HIS ALA PHE PRO PRO GLY PRO SEQRES 8 B 164 GLY ILE GLN GLY ASP ALA HIS PHE ASP ASP ASP GLU LEU SEQRES 9 B 164 TRP SER LEU GLY LYS GLY VAL GLY TYR SER LEU PHE LEU SEQRES 10 B 164 VAL ALA ALA HIS GLU PHE GLY HIS ALA LEU GLY LEU ASP SEQRES 11 B 164 HIS SER SER VAL PRO GLU ALA LEU MET TYR PRO MET TYR SEQRES 12 B 164 ARG PHE THR GLU GLY PRO PRO LEU HIS LYS ASP ASP VAL SEQRES 13 B 164 ASN GLY ILE ARG HIS LEU TYR GLY HET ZN A 301 1 HET ZN A 302 1 HET CA A 303 1 HET CA A 304 1 HET PEG A 305 7 HET PEG A 306 7 HET PEG A 307 7 HET PEG A 308 7 HET PEG A 309 7 HET PEG A 310 7 HET ACT A 311 4 HET ACT A 312 4 HET ACT A 313 4 HET BCN A 314 11 HET BCN A 315 11 HET ZN B 301 1 HET ZN B 302 1 HET CA B 303 1 HET CA B 304 1 HET CA B 305 1 HET 0Y3 B 306 78 HET PEG B 307 7 HET PEG B 308 7 HET PEG B 309 7 HET ACT B 310 4 HET BCN B 311 11 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM ACT ACETATE ION HETNAM BCN BICINE HETNAM 0Y3 N,N'-BIS(4-{[(3R)-3-[(BIPHENYL-4-YLSULFONYL)(PROPAN-2- HETNAM 2 0Y3 YLOXY)AMINO]-4-(HYDROXYAMINO)-4-OXOBUTYL]AMINO}-4- HETNAM 3 0Y3 OXOBUTYL)BENZENE-1,3-DICARBOXAMIDE FORMUL 3 ZN 4(ZN 2+) FORMUL 5 CA 5(CA 2+) FORMUL 7 PEG 9(C4 H10 O3) FORMUL 13 ACT 4(C2 H3 O2 1-) FORMUL 16 BCN 3(C6 H13 N O4) FORMUL 23 0Y3 C54 H66 N8 O14 S2 FORMUL 29 HOH *148(H2 O) HELIX 1 1 PRO A 133 THR A 152 1 20 HELIX 2 2 LEU A 220 LEU A 232 1 13 HELIX 3 3 HIS A 257 TYR A 268 1 12 HELIX 4 4 PRO B 133 ALA B 150 1 18 HELIX 5 5 LEU B 220 LEU B 232 1 13 HELIX 6 6 HIS B 257 TYR B 268 1 12 SHEET 1 A 5 THR A 155 ARG A 158 0 SHEET 2 A 5 ASN A 120 ILE A 125 1 N ILE A 121 O THR A 155 SHEET 3 A 5 ILE A 166 GLY A 171 1 O ILE A 166 N THR A 122 SHEET 4 A 5 ALA A 202 ASP A 205 1 O PHE A 204 N GLN A 169 SHEET 5 A 5 ALA A 189 ALA A 191 -1 N HIS A 190 O HIS A 203 SHEET 1 B 2 TRP A 210 SER A 211 0 SHEET 2 B 2 TYR A 218 SER A 219 1 O TYR A 218 N SER A 211 SHEET 1 C 5 THR B 155 ARG B 158 0 SHEET 2 C 5 ASN B 120 ILE B 125 1 N ILE B 121 O THR B 155 SHEET 3 C 5 ILE B 166 GLY B 171 1 O ILE B 168 N TRP B 124 SHEET 4 C 5 ALA B 202 ASP B 205 1 O PHE B 204 N GLY B 171 SHEET 5 C 5 ALA B 189 ALA B 191 -1 N HIS B 190 O HIS B 203 SHEET 1 D 2 TRP B 210 SER B 211 0 SHEET 2 D 2 TYR B 218 SER B 219 1 O TYR B 218 N SER B 211 LINK O ASP A 165 CA CA A 303 1555 1555 2.62 LINK NE2 HIS A 175 ZN ZN A 302 1555 1555 2.09 LINK OD1 ASP A 177 ZN ZN A 302 1555 1555 2.02 LINK OD2 ASP A 182 CA CA A 304 1555 1555 2.54 LINK O GLY A 183 CA CA A 304 1555 1555 2.10 LINK O ASP A 185 CA CA A 304 1555 1555 2.43 LINK O LEU A 187 CA CA A 304 1555 1555 2.21 LINK NE2 HIS A 190 ZN ZN A 302 1555 1555 2.28 LINK O GLY A 197 CA CA A 303 1555 1555 2.59 LINK O GLN A 199 CA CA A 303 1555 1555 2.51 LINK OD1 ASP A 201 CA CA A 303 1555 1555 2.67 LINK ND1 HIS A 203 ZN ZN A 302 1555 1555 1.97 LINK OD2 ASP A 205 CA CA A 304 1555 1555 2.28 LINK OE2 GLU A 208 CA CA A 304 1555 1555 2.49 LINK NE2 HIS A 226 ZN ZN A 301 1555 1555 1.88 LINK NE2 HIS A 230 ZN ZN A 301 1555 1555 2.21 LINK NE2 HIS A 236 ZN ZN A 301 1555 1555 1.91 LINK ZN ZN A 301 O23 0Y3 B 306 1555 1555 2.00 LINK ZN ZN A 301 O25 0Y3 B 306 1555 1555 2.14 LINK ZN ZN A 301 N22 0Y3 B 306 1555 1555 2.69 LINK OG SER B 129 CA CA B 305 1555 1555 3.13 LINK OD2 ASP B 131 CA CA B 305 1555 1555 2.85 LINK O ASP B 165 CA CA B 303 1555 1555 2.72 LINK NE2 HIS B 175 ZN ZN B 302 1555 1555 2.48 LINK OD1 ASP B 177 ZN ZN B 302 1555 1555 2.00 LINK O GLY B 183 CA CA B 304 1555 1555 2.30 LINK O ASP B 185 CA CA B 304 1555 1555 2.37 LINK O LEU B 187 CA CA B 304 1555 1555 2.18 LINK NE2 HIS B 190 ZN ZN B 302 1555 1555 2.37 LINK O GLY B 197 CA CA B 303 1555 1555 2.45 LINK O GLN B 199 CA CA B 303 1555 1555 2.69 LINK OD1 ASP B 201 CA CA B 303 1555 1555 2.52 LINK ND1 HIS B 203 ZN ZN B 302 1555 1555 2.15 LINK OD2 ASP B 205 CA CA B 304 1555 1555 2.31 LINK OD1 ASP B 206 CA CA B 305 1555 1555 2.55 LINK O ASP B 206 CA CA B 305 1555 1555 2.62 LINK OE2 GLU B 208 CA CA B 304 1555 1555 2.69 LINK O GLU B 208 CA CA B 305 1555 1555 2.38 LINK NE2 HIS B 226 ZN ZN B 301 1555 1555 2.12 LINK NE2 HIS B 230 ZN ZN B 301 1555 1555 2.34 LINK NE2 HIS B 236 ZN ZN B 301 1555 1555 1.98 LINK ZN ZN B 301 O78 0Y3 B 306 1555 1555 1.99 LINK ZN ZN B 301 O77 0Y3 B 306 1555 1555 2.00 CISPEP 1 GLY A 253 PRO A 254 0 16.06 CISPEP 2 TYR B 268 GLY B 269 0 2.09 SITE 1 AC1 4 HIS A 226 HIS A 230 HIS A 236 0Y3 B 306 SITE 1 AC2 4 HIS A 175 ASP A 177 HIS A 190 HIS A 203 SITE 1 AC3 4 ASP A 165 GLY A 197 GLN A 199 ASP A 201 SITE 1 AC4 6 ASP A 182 GLY A 183 ASP A 185 LEU A 187 SITE 2 AC4 6 ASP A 205 GLU A 208 SITE 1 AC5 2 LYS A 258 ALA B 146 SITE 1 AC6 4 GLU A 241 HOH A 425 PEG B 308 HOH B 460 SITE 1 AC7 1 PEG A 308 SITE 1 AC8 3 TYR A 179 PEG A 307 HOH A 420 SITE 1 AC9 5 ALA A 173 GLU A 174 PHE A 181 ACT A 312 SITE 2 AC9 5 BCN A 314 SITE 1 BC1 2 ASN A 127 VAL A 172 SITE 1 BC2 1 HOH A 440 SITE 1 BC3 1 PEG A 309 SITE 1 BC4 1 HOH A 463 SITE 1 BC5 4 ASP A 182 PEG A 309 ARG B 249 GLU B 252 SITE 1 BC6 1 HOH A 473 SITE 1 BC7 4 HIS B 226 HIS B 230 HIS B 236 0Y3 B 306 SITE 1 BC8 4 HIS B 175 ASP B 177 HIS B 190 HIS B 203 SITE 1 BC9 5 ALA B 164 ASP B 165 GLY B 197 GLN B 199 SITE 2 BC9 5 ASP B 201 SITE 1 CC1 6 ASP B 182 GLY B 183 ASP B 185 LEU B 187 SITE 2 CC1 6 ASP B 205 GLU B 208 SITE 1 CC2 5 SER B 129 ASP B 131 ASP B 206 GLU B 208 SITE 2 CC2 5 TRP B 210 SITE 1 CC3 33 LEU A 187 LEU A 188 ALA A 189 LEU A 222 SITE 2 CC3 33 HIS A 226 GLU A 227 HIS A 230 ASP A 235 SITE 3 CC3 33 HIS A 236 LEU A 243 TYR A 245 PRO A 246 SITE 4 CC3 33 TYR A 248 ZN A 301 GLY B 106 PHE B 107 SITE 5 CC3 33 LEU B 188 ALA B 189 LEU B 222 VAL B 223 SITE 6 CC3 33 HIS B 226 GLU B 227 HIS B 230 ASP B 235 SITE 7 CC3 33 HIS B 236 LEU B 243 TYR B 245 PRO B 246 SITE 8 CC3 33 MET B 247 TYR B 248 ZN B 301 HOH B 437 SITE 9 CC3 33 HOH B 459 SITE 1 CC4 1 PEG B 308 SITE 1 CC5 4 PEG A 306 PRO B 180 PEG B 307 PEG B 309 SITE 1 CC6 3 GLY B 178 TYR B 179 PEG B 308 SITE 1 CC7 4 PHE B 250 THR B 251 GLU B 252 HOH B 458 SITE 1 CC8 6 ALA B 173 GLU B 174 PRO B 180 PHE B 181 SITE 2 CC8 6 HOH B 449 HOH B 457 CRYST1 40.180 97.400 45.690 90.00 111.99 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 0.024888 0.000000 0.010050 0.00000 SCALE2 0.000000 0.010267 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023604 0.00000