PDB Short entry for 4H1Q HEADER HYDROLASE/HYDROLASE INHIBITOR 11-SEP-12 4H1Q TITLE CRYSTAL STRUCTURE OF MUTANT MMP-9 CATALYTIC DOMAIN IN COMPLEX WITH A TITLE 2 TWIN INHIBITOR. COMPND MOL_ID: 1; COMPND 2 MOLECULE: MATRIX METALLOPROTEINASE-9; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 110-214; COMPND 5 SYNONYM: MMP-9, 92 KDA GELATINASE, 92 KDA TYPE IV COLLAGENASE, COMPND 6 GELATINASE B, GELB, 67 KDA MATRIX METALLOPROTEINASE-9, 82 KDA MATRIX COMPND 7 METALLOPROTEINASE-9; COMPND 8 EC: 3.4.24.35; COMPND 9 ENGINEERED: YES; COMPND 10 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: CLG4B, MMP9; 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 5 13-SEP-23 4H1Q 1 REMARK SEQADV LINK REVDAT 4 09-AUG-17 4H1Q 1 SOURCE REMARK REVDAT 3 12-AUG-15 4H1Q 1 JRNL REVDAT 2 01-MAY-13 4H1Q 1 AUTHOR REVDAT 1 24-APR-13 4H1Q 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. 1.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8_1069) 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) : 1.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.09 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 36919 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1846 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 43.1012 - 3.7346 0.99 2844 150 0.1574 0.1838 REMARK 3 2 3.7346 - 2.9644 0.99 2761 145 0.1456 0.1718 REMARK 3 3 2.9644 - 2.5898 0.98 2742 145 0.1584 0.2148 REMARK 3 4 2.5898 - 2.3530 0.98 2717 143 0.1602 0.2070 REMARK 3 5 2.3530 - 2.1844 0.98 2724 143 0.1583 0.1980 REMARK 3 6 2.1844 - 2.0556 0.97 2687 142 0.1539 0.2037 REMARK 3 7 2.0556 - 1.9526 0.97 2719 143 0.1592 0.1876 REMARK 3 8 1.9526 - 1.8676 0.96 2647 139 0.1734 0.2451 REMARK 3 9 1.8676 - 1.7957 0.96 2685 141 0.1945 0.2309 REMARK 3 10 1.7957 - 1.7338 0.96 2625 139 0.2076 0.2621 REMARK 3 11 1.7338 - 1.6796 0.96 2662 140 0.2305 0.2677 REMARK 3 12 1.6796 - 1.6315 0.96 2654 139 0.2549 0.3236 REMARK 3 13 1.6315 - 1.5886 0.94 2606 137 0.2741 0.3163 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.910 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.71 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.70 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 : 0.008 2931 REMARK 3 ANGLE : 1.472 4010 REMARK 3 CHIRALITY : 0.083 376 REMARK 3 PLANARITY : 0.007 533 REMARK 3 DIHEDRAL : 24.462 1087 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 4H1Q 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_1000074908. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-10 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 : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9334 REMARK 200 MONOCHROMATOR : DIAMOND (111), GE(220) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36921 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.590 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 (%) : 96.8 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.01240 REMARK 200 R SYM (I) : 0.10900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.5300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.06 REMARK 200 R MERGE FOR SHELL (I) : 1.22900 REMARK 200 R SYM FOR SHELL (I) : 1.07600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.350 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: 2OW1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN: MMP9H NTER=GFQT E402Q V391Q REMARK 280 AT 130.3 MICRO-M WITH 5 MILLI-M AHA RESERVOIR: 40% MPEG 5K, REMARK 280 100MM HEPES. CRYOPROTECTANT: 35% MPEG 5K, 15% PEG 400, 15% AAB REMARK 280 (90/10), PH 8.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 24.33000 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 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 MET A 247 CG REMARK 480 THR B 152 N CA C O CB OG1 CG2 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 OD2 ASP B 235 C67 0XX B 306 1.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NE2 HIS A 119 N44 0XX B 306 2656 1.87 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 ASP A 113 123.96 -8.91 REMARK 500 ALA A 173 -134.90 49.09 REMARK 500 TYR A 179 76.93 -118.17 REMARK 500 ASP A 185 -164.11 57.90 REMARK 500 PRO A 246 40.44 -79.34 REMARK 500 ALA B 173 -136.53 44.42 REMARK 500 ALA B 173 -136.70 44.42 REMARK 500 ASP B 185 -164.82 62.81 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 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 131 OD2 REMARK 620 2 ASP A 206 OD1 101.6 REMARK 620 3 ASP A 206 O 177.0 76.3 REMARK 620 4 GLU A 208 O 87.7 122.0 95.2 REMARK 620 5 HOH A 421 O 83.9 93.3 94.1 144.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 306 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 149 O REMARK 620 2 SER A 149 O 3.1 REMARK 620 3 SER A 149 OG 73.3 73.4 REMARK 620 4 THR A 152 O 74.8 73.5 140.3 REMARK 620 5 LEU A 154 O 126.9 123.9 85.4 95.3 REMARK 620 6 HOH A 496 O 136.0 138.2 131.3 88.3 94.4 REMARK 620 N 1 2 3 4 5 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 168.4 REMARK 620 3 GLN A 199 O 109.1 81.4 REMARK 620 4 ASP A 201 OD1 89.5 94.2 96.6 REMARK 620 5 HOH A 477 O 84.1 92.9 81.8 172.4 REMARK 620 6 HOH A 481 O 88.6 80.2 159.3 94.1 89.8 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 175 NE2 REMARK 620 2 ASP A 177 OD1 107.4 REMARK 620 3 HIS A 190 NE2 120.4 113.9 REMARK 620 4 HIS A 203 ND1 105.7 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 305 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 182 OD1 REMARK 620 2 GLY A 183 O 87.3 REMARK 620 3 ASP A 185 O 85.9 85.9 REMARK 620 4 LEU A 187 O 92.4 178.3 95.7 REMARK 620 5 ASP A 205 OD2 90.9 87.9 173.2 90.4 REMARK 620 6 GLU A 208 OE2 173.0 94.0 87.3 86.5 96.0 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 98.3 REMARK 620 3 HIS A 236 NE2 108.6 100.1 REMARK 620 4 0XX A 307 O25 123.7 127.1 95.5 REMARK 620 5 0XX A 307 O23 82.1 84.7 167.2 72.3 REMARK 620 N 1 2 3 4 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 131 OD2 REMARK 620 2 ASP B 131 OD1 50.4 REMARK 620 3 ASP B 206 O 146.5 154.1 REMARK 620 4 ASP B 206 OD1 89.3 90.8 73.8 REMARK 620 5 GLU B 208 O 78.7 124.4 81.2 111.9 REMARK 620 6 HOH B 517 O 138.6 89.0 68.8 82.7 141.7 REMARK 620 7 HOH B 518 O 99.2 88.9 102.2 168.6 77.5 85.9 REMARK 620 N 1 2 3 4 5 6 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 169.3 REMARK 620 3 GLN B 199 O 107.2 81.4 REMARK 620 4 ASP B 201 OD1 90.0 95.4 96.7 REMARK 620 5 HOH B 487 O 81.7 93.3 82.9 171.2 REMARK 620 6 HOH B 489 O 86.9 83.2 159.8 97.6 85.1 REMARK 620 N 1 2 3 4 5 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 110.5 REMARK 620 3 HIS B 190 NE2 114.2 114.9 REMARK 620 4 HIS B 203 ND1 109.5 94.2 111.7 REMARK 620 N 1 2 3 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 ASP B 182 OD1 REMARK 620 2 GLY B 183 O 88.9 REMARK 620 3 ASP B 185 O 88.0 88.8 REMARK 620 4 LEU B 187 O 92.7 177.6 93.1 REMARK 620 5 ASP B 205 OD2 91.6 85.8 174.5 92.4 REMARK 620 6 GLU B 208 OE2 171.2 91.6 83.2 87.2 97.2 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 226 NE2 REMARK 620 2 HIS B 230 NE2 98.6 REMARK 620 3 HIS B 236 NE2 108.3 101.2 REMARK 620 4 0XX B 306 O25 133.5 119.8 90.1 REMARK 620 5 0XX B 306 O23 80.2 80.5 170.8 81.3 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 CA A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0XX A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0XX B 306 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2OW1 RELATED DB: PDB REMARK 900 MMP-9 ACTIVE SITE MUTANT WITH TRIFLUOROMETHYL HYDROXAMATE INHIBITOR REMARK 900 RELATED ID: 4H3X RELATED DB: PDB REMARK 900 RELATED ID: 4H2E RELATED DB: PDB REMARK 900 RELATED ID: 4H30 RELATED DB: PDB DBREF 4H1Q A 110 214 UNP P14780 MMP9_HUMAN 110 214 DBREF 4H1Q A 216 269 UNP P14780 MMP9_HUMAN 391 444 DBREF 4H1Q B 110 214 UNP P14780 MMP9_HUMAN 110 214 DBREF 4H1Q B 216 269 UNP P14780 MMP9_HUMAN 391 444 SEQADV 4H1Q GLN A 227 UNP P14780 GLU 402 ENGINEERED MUTATION SEQADV 4H1Q GLN B 227 UNP P14780 GLU 402 ENGINEERED MUTATION SEQRES 1 A 160 PHE GLU GLY ASP LEU LYS TRP HIS HIS HIS ASN ILE THR SEQRES 2 A 160 TYR TRP ILE GLN ASN TYR SER GLU ASP LEU PRO ARG ALA SEQRES 3 A 160 VAL ILE ASP ASP ALA PHE ALA ARG ALA PHE ALA LEU TRP SEQRES 4 A 160 SER ALA VAL THR PRO LEU THR PHE THR ARG VAL TYR SER SEQRES 5 A 160 ARG ASP ALA ASP ILE VAL ILE GLN PHE GLY VAL ALA GLU SEQRES 6 A 160 HIS GLY ASP GLY TYR PRO PHE ASP GLY LYS ASP GLY LEU SEQRES 7 A 160 LEU ALA HIS ALA PHE PRO PRO GLY PRO GLY ILE GLN GLY SEQRES 8 A 160 ASP ALA HIS PHE ASP ASP ASP GLU LEU TRP SER LEU GLY SEQRES 9 A 160 LYS GLY GLN GLY TYR SER LEU PHE LEU VAL ALA ALA HIS SEQRES 10 A 160 GLN PHE GLY HIS ALA LEU GLY LEU ASP HIS SER SER VAL SEQRES 11 A 160 PRO GLU ALA LEU MET TYR PRO MET TYR ARG PHE THR GLU SEQRES 12 A 160 GLY PRO PRO LEU HIS LYS ASP ASP VAL ASN GLY ILE ARG SEQRES 13 A 160 HIS LEU TYR GLY SEQRES 1 B 160 PHE GLU GLY ASP LEU LYS TRP HIS HIS HIS ASN ILE THR SEQRES 2 B 160 TYR TRP ILE GLN ASN TYR SER GLU ASP LEU PRO ARG ALA SEQRES 3 B 160 VAL ILE ASP ASP ALA PHE ALA ARG ALA PHE ALA LEU TRP SEQRES 4 B 160 SER ALA VAL THR PRO LEU THR PHE THR ARG VAL TYR SER SEQRES 5 B 160 ARG ASP ALA ASP ILE VAL ILE GLN PHE GLY VAL ALA GLU SEQRES 6 B 160 HIS GLY ASP GLY TYR PRO PHE ASP GLY LYS ASP GLY LEU SEQRES 7 B 160 LEU ALA HIS ALA PHE PRO PRO GLY PRO GLY ILE GLN GLY SEQRES 8 B 160 ASP ALA HIS PHE ASP ASP ASP GLU LEU TRP SER LEU GLY SEQRES 9 B 160 LYS GLY GLN GLY TYR SER LEU PHE LEU VAL ALA ALA HIS SEQRES 10 B 160 GLN PHE GLY HIS ALA LEU GLY LEU ASP HIS SER SER VAL SEQRES 11 B 160 PRO GLU ALA LEU MET TYR PRO MET TYR ARG PHE THR GLU SEQRES 12 B 160 GLY PRO PRO LEU HIS LYS ASP ASP VAL ASN GLY ILE ARG SEQRES 13 B 160 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 CA A 305 1 HET CA A 306 1 HET 0XX A 307 78 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 0XX B 306 78 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM 0XX N-(4-{[(3R)-3-[(BIPHENYL-4-YLSULFONYL)(PROPAN-2-YLOXY) HETNAM 2 0XX AMINO]-4-(HYDROXYAMINO)-4-OXOBUTYL]AMINO}-4-OXOBUTYL)- HETNAM 3 0XX N'-(4-{[(3S)-3-[(BIPHENYL-4-YLSULFONYL)(PROPAN-2- HETNAM 4 0XX YLOXY)AMINO]-4-(HYDROXYAMINO)-4-OXOBUTYL]AMINO}-4- HETNAM 5 0XX OXOBUTYL)BENZENE-1,3-DICARBOXAMIDE FORMUL 3 ZN 4(ZN 2+) FORMUL 5 CA 7(CA 2+) FORMUL 9 0XX 2(C54 H66 N8 O14 S2) FORMUL 16 HOH *326(H2 O) HELIX 1 1 PRO A 133 ALA A 150 1 18 HELIX 2 2 LEU A 220 LEU A 232 1 13 HELIX 3 3 HIS A 257 GLY A 269 1 13 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 GLY B 269 1 13 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 157 SHEET 3 A 5 ILE A 166 GLY A 171 1 O ILE A 168 N TRP A 124 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 VAL B 159 0 SHEET 2 C 5 ASN B 120 ILE B 125 1 N TYR B 123 O VAL B 159 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 GLN B 169 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 OD2 ASP A 131 CA CA A 304 1555 1555 2.34 LINK O ASER A 149 CA CA A 306 1555 1555 2.36 LINK O BSER A 149 CA CA A 306 1555 1555 2.37 LINK OG BSER A 149 CA CA A 306 1555 1555 2.93 LINK O THR A 152 CA CA A 306 1555 1555 2.57 LINK O LEU A 154 CA CA A 306 1555 1555 2.22 LINK O ASP A 165 CA CA A 303 1555 1555 2.34 LINK NE2 HIS A 175 ZN ZN A 302 1555 1555 1.95 LINK OD1 ASP A 177 ZN ZN A 302 1555 1555 1.93 LINK OD1 ASP A 182 CA CA A 305 1555 1555 2.35 LINK O GLY A 183 CA CA A 305 1555 1555 2.25 LINK O ASP A 185 CA CA A 305 1555 1555 2.33 LINK O LEU A 187 CA CA A 305 1555 1555 2.24 LINK NE2 HIS A 190 ZN ZN A 302 1555 1555 1.95 LINK O GLY A 197 CA CA A 303 1555 1555 2.26 LINK O GLN A 199 CA CA A 303 1555 1555 2.31 LINK OD1 ASP A 201 CA CA A 303 1555 1555 2.32 LINK ND1 HIS A 203 ZN ZN A 302 1555 1555 2.04 LINK OD2 ASP A 205 CA CA A 305 1555 1555 2.37 LINK OD1 ASP A 206 CA CA A 304 1555 1555 2.41 LINK O ASP A 206 CA CA A 304 1555 1555 2.41 LINK O GLU A 208 CA CA A 304 1555 1555 2.22 LINK OE2 GLU A 208 CA CA A 305 1555 1555 2.18 LINK NE2 HIS A 226 ZN ZN A 301 1555 1555 2.07 LINK NE2 HIS A 230 ZN ZN A 301 1555 1555 2.04 LINK NE2 HIS A 236 ZN ZN A 301 1555 1555 2.05 LINK ZN ZN A 301 O25 0XX A 307 1555 1555 2.11 LINK ZN ZN A 301 O23 0XX A 307 1555 1555 2.32 LINK CA CA A 303 O HOH A 477 1555 1555 2.34 LINK CA CA A 303 O HOH A 481 1555 1555 2.47 LINK CA CA A 304 O HOH A 421 1555 1555 2.46 LINK CA CA A 306 O HOH A 496 1555 1555 2.47 LINK OD2 ASP B 131 CA CA B 304 1555 1555 2.46 LINK OD1 ASP B 131 CA CA B 304 1555 1555 2.72 LINK O ASP B 165 CA CA B 303 1555 1555 2.31 LINK NE2 HIS B 175 ZN ZN B 302 1555 1555 1.99 LINK OD1 ASP B 177 ZN ZN B 302 1555 1555 1.87 LINK OD1 ASP B 182 CA CA B 305 1555 1555 2.39 LINK O GLY B 183 CA CA B 305 1555 1555 2.33 LINK O ASP B 185 CA CA B 305 1555 1555 2.36 LINK O LEU B 187 CA CA B 305 1555 1555 2.26 LINK NE2 HIS B 190 ZN ZN B 302 1555 1555 2.03 LINK O GLY B 197 CA CA B 303 1555 1555 2.27 LINK O GLN B 199 CA CA B 303 1555 1555 2.32 LINK OD1 ASP B 201 CA CA B 303 1555 1555 2.34 LINK ND1 HIS B 203 ZN ZN B 302 1555 1555 2.10 LINK OD2 ASP B 205 CA CA B 305 1555 1555 2.30 LINK O ASP B 206 CA CA B 304 1555 1555 2.29 LINK OD1 ASP B 206 CA CA B 304 1555 1555 2.37 LINK O GLU B 208 CA CA B 304 1555 1555 2.40 LINK OE2 GLU B 208 CA CA B 305 1555 1555 2.27 LINK NE2 HIS B 226 ZN ZN B 301 1555 1555 2.08 LINK NE2 HIS B 230 ZN ZN B 301 1555 1555 2.03 LINK NE2 HIS B 236 ZN ZN B 301 1555 1555 2.02 LINK ZN ZN B 301 O25 0XX B 306 1555 1555 2.11 LINK ZN ZN B 301 O23 0XX B 306 1555 1555 2.15 LINK CA CA B 303 O HOH B 487 1555 1555 2.31 LINK CA CA B 303 O HOH B 489 1555 1555 2.38 LINK CA CA B 304 O HOH B 517 1555 1555 2.45 LINK CA CA B 304 O HOH B 518 1555 1555 2.34 SITE 1 AC1 4 HIS A 226 HIS A 230 HIS A 236 0XX A 307 SITE 1 AC2 4 HIS A 175 ASP A 177 HIS A 190 HIS A 203 SITE 1 AC3 6 ASP A 165 GLY A 197 GLN A 199 ASP A 201 SITE 2 AC3 6 HOH A 477 HOH A 481 SITE 1 AC4 4 ASP A 131 ASP A 206 GLU A 208 HOH A 421 SITE 1 AC5 6 ASP A 182 GLY A 183 ASP A 185 LEU A 187 SITE 2 AC5 6 ASP A 205 GLU A 208 SITE 1 AC6 4 SER A 149 THR A 152 LEU A 154 HOH A 496 SITE 1 AC7 29 TYR A 179 PRO A 180 PHE A 181 ASP A 182 SITE 2 AC7 29 LEU A 187 LEU A 188 ALA A 189 HIS A 190 SITE 3 AC7 29 ALA A 191 PHE A 192 PRO A 193 LEU A 222 SITE 4 AC7 29 HIS A 226 GLN A 227 HIS A 230 HIS A 236 SITE 5 AC7 29 LEU A 243 TYR A 245 PRO A 246 MET A 247 SITE 6 AC7 29 TYR A 248 ZN A 301 HOH A 449 HOH A 526 SITE 7 AC7 29 PRO B 240 GLU B 241 TYR B 245 PRO B 246 SITE 8 AC7 29 ARG B 249 SITE 1 AC8 4 HIS B 226 HIS B 230 HIS B 236 0XX B 306 SITE 1 AC9 4 HIS B 175 ASP B 177 HIS B 190 HIS B 203 SITE 1 BC1 6 ASP B 165 GLY B 197 GLN B 199 ASP B 201 SITE 2 BC1 6 HOH B 487 HOH B 489 SITE 1 BC2 5 ASP B 131 ASP B 206 GLU B 208 HOH B 517 SITE 2 BC2 5 HOH B 518 SITE 1 BC3 6 ASP B 182 GLY B 183 ASP B 185 LEU B 187 SITE 2 BC3 6 ASP B 205 GLU B 208 SITE 1 BC4 30 TYR A 245 PRO A 246 HOH A 523 GLY B 112 SITE 2 BC4 30 LEU B 187 LEU B 188 ALA B 189 HIS B 190 SITE 3 BC4 30 ALA B 191 PRO B 193 LEU B 222 HIS B 226 SITE 4 BC4 30 GLN B 227 HIS B 230 GLY B 233 LEU B 234 SITE 5 BC4 30 ASP B 235 HIS B 236 LEU B 243 TYR B 245 SITE 6 BC4 30 PRO B 246 MET B 247 TYR B 248 HIS B 266 SITE 7 BC4 30 ZN B 301 HOH B 432 HOH B 433 HOH B 446 SITE 8 BC4 30 HOH B 483 HOH B 526 CRYST1 44.140 48.660 67.920 90.00 102.55 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 0.022655 0.000000 0.005043 0.00000 SCALE2 0.000000 0.020551 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015084 0.00000