HEADER HYDROLASE/HYDROLASE INHIBITOR 26-JUN-23 8JUG TITLE CRYSTAL STRUCTURE OF HUMAN MMP-7 IN COMPLEX WITH INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: MATRILYSIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MATRIN,MATRIX METALLOPROTEINASE-7,MMP-7,PUMP-1 PROTEASE, COMPND 5 UTERINE METALLOPROTEINASE; COMPND 6 EC: 3.4.24.23; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: PEPTIDE INHIBITOR; COMPND 11 CHAIN: C; COMPND 12 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: MMP7, MPSL1, PUMP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A(+); SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630 KEYWDS MATRILYSIN, MATRIN, MATRIX METALLOPROTEINASE-7, PUMP-1 PROTEASE, KEYWDS 2 UTERINE METALLOPROTEINASE, HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.KAMITANI,K.ABE-SATO,Y.OKA REVDAT 3 22-NOV-23 8JUG 1 JRNL REVDAT 2 15-NOV-23 8JUG 1 LINK ATOM REVDAT 1 01-NOV-23 8JUG 0 JRNL AUTH K.ABE-SATO,H.TABUSE,H.KANAZAWA,M.KAMITANI,M.ENDO,S.TOKURA, JRNL AUTH 2 S.WAKABAYASHI,T.YAHARA,T.TAKEDA,K.HITAKA,E.GUNJI,N.KOJIMA, JRNL AUTH 3 Y.OKA JRNL TITL STRUCTURE-BASED OPTIMIZATION AND BIOLOGICAL EVALUATION OF JRNL TITL 2 POTENT AND SELECTIVE MMP-7 INHIBITORS FOR KIDNEY FIBROSIS. JRNL REF J.MED.CHEM. V. 66 14653 2023 JRNL REFN ISSN 0022-2623 JRNL PMID 37861435 JRNL DOI 10.1021/ACS.JMEDCHEM.3C01166 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 40782 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2108 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.34 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3000 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3790 REMARK 3 BIN FREE R VALUE SET COUNT : 155 REMARK 3 BIN FREE R VALUE : 0.3830 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1332 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 113 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.00000 REMARK 3 B22 (A**2) : -1.00000 REMARK 3 B33 (A**2) : 2.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.061 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.061 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.073 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.906 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1449 ; 0.011 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 1299 ; 0.001 ; 0.018 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1981 ; 1.979 ; 1.773 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2988 ; 1.475 ; 1.698 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 162 ; 7.657 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 66 ;31.178 ;21.515 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 200 ;12.577 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;18.183 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 178 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1606 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 346 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 651 ; 1.335 ; 1.442 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 650 ; 1.307 ; 1.439 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 812 ; 1.989 ; 2.157 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 813 ; 1.988 ; 2.159 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 798 ; 1.796 ; 1.666 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 799 ; 1.795 ; 1.669 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1170 ; 2.714 ; 2.427 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1647 ; 3.884 ;17.106 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 1628 ; 3.799 ;16.866 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 8JUG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1300038962. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-AUG-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00004 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42891 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 48.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 12.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.37 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% W/V POLYETHYLENE GLYCOL 20000, 2% REMARK 280 V/V 1,4-DIOXANE, 100MM BICINE PH9.0, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 8555 Y+1/2,-X+1/2,Z+1/2 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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 38.03000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.03000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 30.94500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 38.03000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.03000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 30.94500 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 38.03000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 38.03000 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 30.94500 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 38.03000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 38.03000 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 30.94500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 93 REMARK 465 GLY A 237 REMARK 465 ASN A 238 REMARK 465 GLY A 239 REMARK 465 ASP A 240 REMARK 465 PRO A 241 REMARK 465 GLN A 242 REMARK 465 SER A 262 REMARK 465 ASN A 263 REMARK 465 SER A 264 REMARK 465 ARG A 265 REMARK 465 LYS A 266 REMARK 465 LYS A 267 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 N SER A 166 O HOH A 401 1.82 REMARK 500 O HOH A 488 O HOH C 101 2.02 REMARK 500 O HOH A 401 O HOH A 403 2.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 V1C C 4 C - N - CA ANGL. DEV. = 19.4 DEGREES REMARK 500 EOE C 6 C - N - CA ANGL. DEV. = -21.7 DEGREES REMARK 500 EOE C 6 C - N - CA ANGL. DEV. = -16.7 DEGREES 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 LEU A 97 -157.20 -98.53 REMARK 500 HIS A 163 27.98 -147.81 REMARK 500 ASN A 174 -124.01 51.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 TBG C 5 EOE C 6 148.76 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 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 153 O REMARK 620 2 GLY A 185 O 168.1 REMARK 620 3 GLY A 187 O 94.0 92.4 REMARK 620 4 ASP A 189 OD1 89.7 100.2 90.3 REMARK 620 5 HOH A 413 O 89.2 82.7 168.3 101.0 REMARK 620 6 HOH A 418 O 84.1 87.0 81.6 169.4 87.5 REMARK 620 N 1 2 3 4 5 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 163 NE2 REMARK 620 2 ASP A 165 OD2 107.4 REMARK 620 3 HIS A 178 NE2 116.9 119.2 REMARK 620 4 HIS A 191 ND1 102.9 97.2 110.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 170 OD1 REMARK 620 2 GLY A 171 O 89.7 REMARK 620 3 GLY A 173 O 87.4 89.0 REMARK 620 4 THR A 175 O 91.9 174.0 85.4 REMARK 620 5 ASP A 193 OD2 89.9 91.4 177.3 94.3 REMARK 620 6 GLU A 196 OE2 178.0 92.2 92.2 86.1 90.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 304 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 214 NE2 REMARK 620 2 HIS A 218 NE2 103.3 REMARK 620 3 HIS A 224 NE2 109.1 101.8 REMARK 620 4 GGL C 2 O 121.8 123.6 94.1 REMARK 620 5 GGL C 2 O 127.2 117.0 95.2 6.6 REMARK 620 N 1 2 3 4 DBREF 8JUG A 95 267 UNP P09237 MMP7_HUMAN 95 267 DBREF 8JUG C 1 7 PDB 8JUG 8JUG 1 7 SEQADV 8JUG MET A 93 UNP P09237 INITIATING METHIONINE SEQADV 8JUG GLY A 94 UNP P09237 EXPRESSION TAG SEQADV 8JUG GLN A 215 UNP P09237 GLU 215 ENGINEERED MUTATION SEQRES 1 A 175 MET GLY TYR SER LEU PHE PRO ASN SER PRO LYS TRP THR SEQRES 2 A 175 SER LYS VAL VAL THR TYR ARG ILE VAL SER TYR THR ARG SEQRES 3 A 175 ASP LEU PRO HIS ILE THR VAL ASP ARG LEU VAL SER LYS SEQRES 4 A 175 ALA LEU ASN MET TRP GLY LYS GLU ILE PRO LEU HIS PHE SEQRES 5 A 175 ARG LYS VAL VAL TRP GLY THR ALA ASP ILE MET ILE GLY SEQRES 6 A 175 PHE ALA ARG GLY ALA HIS GLY ASP SER TYR PRO PHE ASP SEQRES 7 A 175 GLY PRO GLY ASN THR LEU ALA HIS ALA PHE ALA PRO GLY SEQRES 8 A 175 THR GLY LEU GLY GLY ASP ALA HIS PHE ASP GLU ASP GLU SEQRES 9 A 175 ARG TRP THR ASP GLY SER SER LEU GLY ILE ASN PHE LEU SEQRES 10 A 175 TYR ALA ALA THR HIS GLN LEU GLY HIS SER LEU GLY MET SEQRES 11 A 175 GLY HIS SER SER ASP PRO ASN ALA VAL MET TYR PRO THR SEQRES 12 A 175 TYR GLY ASN GLY ASP PRO GLN ASN PHE LYS LEU SER GLN SEQRES 13 A 175 ASP ASP ILE LYS GLY ILE GLN LYS LEU TYR GLY LYS ARG SEQRES 14 A 175 SER ASN SER ARG LYS LYS SEQRES 1 C 7 7SF GGL GLY V1C TBG EOE NH2 HET 7SF C 1 28 HET GGL C 2 18 HET V1C C 4 40 HET TBG C 5 16 HET EOE C 6 16 HET NH2 C 7 2 HET CA A 301 1 HET CA A 302 1 HET ZN A 303 1 HET ZN A 304 1 HETNAM 7SF 4-CHLORANYL-3-(TRIFLUOROMETHYL)BENZENESULFONIC ACID HETNAM GGL GAMMA-L-GLUTAMIC ACID HETNAM V1C (2S)-2-AZANYL-3-[4-[1-(2-METHYLPROPYL)PYRAZOL-4- HETNAM 2 V1C YL]PHENYL]PROPANOIC ACID HETNAM TBG 3-METHYL-L-VALINE HETNAM EOE BETA3-PROLINE HETNAM NH2 AMINO GROUP HETNAM CA CALCIUM ION HETNAM ZN ZINC ION HETSYN GGL L-GLUTAMIC ACID FORMUL 2 7SF C7 H4 CL F3 O3 S FORMUL 2 GGL C5 H9 N O4 FORMUL 2 V1C C16 H21 N3 O2 FORMUL 2 TBG C6 H13 N O2 FORMUL 2 EOE C6 H11 N O2 FORMUL 2 NH2 H2 N FORMUL 3 CA 2(CA 2+) FORMUL 5 ZN 2(ZN 2+) FORMUL 7 HOH *113(H2 O) HELIX 1 AA1 PRO A 121 LYS A 138 1 18 HELIX 2 AA2 PHE A 208 LEU A 220 1 13 HELIX 3 AA3 SER A 247 GLY A 259 1 13 SHEET 1 AA1 5 HIS A 143 LYS A 146 0 SHEET 2 AA1 5 VAL A 108 SER A 115 1 N VAL A 109 O HIS A 143 SHEET 3 AA1 5 ILE A 154 ALA A 159 1 O ILE A 156 N VAL A 114 SHEET 4 AA1 5 ALA A 190 ASP A 193 1 O PHE A 192 N ALA A 159 SHEET 5 AA1 5 ALA A 177 ALA A 179 -1 N HIS A 178 O HIS A 191 SHEET 1 AA2 2 TRP A 198 THR A 199 0 SHEET 2 AA2 2 ILE A 206 ASN A 207 1 O ILE A 206 N THR A 199 LINK S34A7SF C 1 N AGGL C 2 1555 1555 1.63 LINK S34B7SF C 1 N BGGL C 2 1555 1555 1.63 LINK CD AGGL C 2 N AGLY C 3 1555 1555 1.32 LINK CD BGGL C 2 N BGLY C 3 1555 1555 1.33 LINK C AGLY C 3 N AV1C C 4 1555 1555 1.34 LINK C BGLY C 3 N BV1C C 4 1555 1555 1.34 LINK C AV1C C 4 N ATBG C 5 1555 1555 1.32 LINK C BV1C C 4 N BTBG C 5 1555 1555 1.33 LINK C ATBG C 5 N AEOE C 6 1555 1555 1.32 LINK C BTBG C 5 N BEOE C 6 1555 1555 1.32 LINK C AEOE C 6 N ANH2 C 7 1555 1555 1.32 LINK C BEOE C 6 N BNH2 C 7 1555 1555 1.32 LINK O ASP A 153 CA CA A 301 1555 1555 2.34 LINK NE2 HIS A 163 ZN ZN A 303 1555 1555 2.03 LINK OD2 ASP A 165 ZN ZN A 303 1555 1555 1.95 LINK OD1 ASP A 170 CA CA A 302 1555 1555 2.35 LINK O GLY A 171 CA CA A 302 1555 1555 2.26 LINK O GLY A 173 CA CA A 302 1555 1555 2.37 LINK O THR A 175 CA CA A 302 1555 1555 2.29 LINK NE2 HIS A 178 ZN ZN A 303 1555 1555 1.98 LINK O GLY A 185 CA CA A 301 1555 1555 2.28 LINK O GLY A 187 CA CA A 301 1555 1555 2.29 LINK OD1 ASP A 189 CA CA A 301 1555 1555 2.38 LINK ND1 HIS A 191 ZN ZN A 303 1555 1555 2.01 LINK OD2 ASP A 193 CA CA A 302 1555 1555 2.27 LINK OE2 GLU A 196 CA CA A 302 1555 1555 2.26 LINK NE2 HIS A 214 ZN ZN A 304 1555 1555 2.00 LINK NE2 HIS A 218 ZN ZN A 304 1555 1555 2.05 LINK NE2 HIS A 224 ZN ZN A 304 1555 1555 2.00 LINK CA CA A 301 O HOH A 413 1555 1555 2.42 LINK CA CA A 301 O HOH A 418 1555 1555 2.38 LINK ZN ZN A 304 O AGGL C 2 1555 1555 1.94 LINK ZN ZN A 304 O BGGL C 2 1555 1555 1.99 CRYST1 76.060 76.060 61.890 90.00 90.00 90.00 I 4 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 0.013148 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013148 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016158 0.00000