HEADER HYDROLASE/HYDROLASE INHIBITOR 19-AUG-20 7JU8 TITLE X-RAY STRUCTURE OF MMP-13 IN COMPLEX WITH 4-(1,2,3-THIADIAZOL-4-YL) TITLE 2 PYRIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: COLLAGENASE 3; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PROTEASE; COMPND 5 SYNONYM: MATRIX METALLOPROTEINASE-13,MMP-13; COMPND 6 EC: 3.4.24.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: MMP13; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEASE, HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.A.FARROW REVDAT 2 18-OCT-23 7JU8 1 REMARK REVDAT 1 04-AUG-21 7JU8 0 JRNL AUTH S.J.TAYLOR,A.ABEYWARDANE,S.LIANG,Z.XIONG,J.R.PROUDFOOT, JRNL AUTH 2 B.S.FARMER,D.A.GAO,A.HEIM-RIETHER,L.L.SMITH-KEENAN,I.MUEGGE, JRNL AUTH 3 Y.YU,Q.ZHANG,D.SOUZA,M.PANZENBECK,D.GOLDBERG,M.HILL-DRZEWI, JRNL AUTH 4 M.MARGARIT,B.COLLINS,J.X.LI,L.ZUVELA-JELASKA,J.LI,N.A.FARROW JRNL TITL INDOLE INHIBITORS OF MMP-13 FOR ARTHRITIC DISORDERS JRNL REF ACS OMEGA V. 6 18635 2021 JRNL REFN ESSN 2470-1343 JRNL DOI 10.1021/ACSOMEGA.1C01320 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 72.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 22822 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1202 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1637 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.48 REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE SET COUNT : 86 REMARK 3 BIN FREE R VALUE : 0.2540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2651 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 371 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.50000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : -0.06000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.31000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.223 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.200 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.171 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.104 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.925 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.855 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2853 ; 0.008 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2387 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3873 ; 1.075 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5595 ; 0.785 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 344 ; 5.914 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 134 ;35.898 ;24.104 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 413 ;12.862 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;16.999 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 388 ; 0.067 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3172 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 614 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 642 ; 0.188 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2466 ; 0.171 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1379 ; 0.185 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1402 ; 0.083 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 310 ; 0.147 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 13 ; 0.125 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 31 ; 0.151 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 84 ; 0.193 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 49 ; 0.153 ; 0.200 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : BABINET MODEL WITH 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 7JU8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-AUG-20. REMARK 100 THE DEPOSITION ID IS D_1000251394. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-AUG-08 REMARK 200 TEMPERATURE (KELVIN) : 100.000 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9840 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24211 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 72.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.16900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 2.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.19780 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: 1XUD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% W/V PEG4000, 1 M AMMONIUM FORMATE, REMARK 280 AND 100 MM TRIS, PH 8.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 67.88200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.99350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 67.88200 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.99350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 597 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 250 REMARK 465 HIS A 251 REMARK 465 PRO A 273 REMARK 465 ASN A 274 REMARK 465 ASP B 270 REMARK 465 GLU B 271 REMARK 465 ASP B 272 REMARK 465 PRO B 273 REMARK 465 ASN B 274 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 O HOH A 472 O HOH B 488 2657 2.18 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 LYS A 170 -130.90 41.96 REMARK 500 SER A 182 -177.35 76.13 REMARK 500 LEU A 185 -55.64 -138.82 REMARK 500 ASN A 194 -104.62 60.70 REMARK 500 ASN A 194 -102.25 57.51 REMARK 500 LYS B 170 -127.28 37.33 REMARK 500 TYR B 176 72.32 -116.00 REMARK 500 SER B 182 164.95 64.52 REMARK 500 ASN B 194 -104.69 63.95 REMARK 500 SER B 210 -143.48 -149.60 REMARK 500 SER B 250 -69.67 -123.36 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 162 O REMARK 620 2 ASN A 194 O 155.4 REMARK 620 3 GLY A 196 O 74.4 90.4 REMARK 620 4 ASP A 198 OD1 86.8 112.4 88.1 REMARK 620 5 HOH A 416 O 117.0 76.5 166.6 99.3 REMARK 620 6 HOH A 536 O 86.7 69.3 66.5 154.6 105.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 172 NE2 REMARK 620 2 ASP A 174 OD2 109.2 REMARK 620 3 HIS A 187 NE2 111.8 112.0 REMARK 620 4 HIS A 200 ND1 111.2 102.0 110.3 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 179 OD1 REMARK 620 2 GLY A 180 O 93.8 REMARK 620 3 SER A 182 O 77.4 90.6 REMARK 620 4 LEU A 184 O 84.7 176.4 85.9 REMARK 620 5 ASP A 202 OD2 97.3 97.3 170.8 86.1 REMARK 620 6 GLU A 205 OE2 145.8 102.2 72.5 77.5 110.1 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 222 NE2 REMARK 620 2 HIS A 226 NE2 102.2 REMARK 620 3 HIS A 232 NE2 109.5 93.9 REMARK 620 4 FMT A 312 O1 108.8 99.6 135.4 REMARK 620 5 FMT A 312 O2 124.4 130.2 86.9 52.3 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 162 O REMARK 620 2 ASN B 194 O 149.2 REMARK 620 3 GLY B 196 O 75.6 90.5 REMARK 620 4 ASP B 198 OD1 95.3 114.0 98.1 REMARK 620 5 HOH B 458 O 104.5 82.3 165.5 96.3 REMARK 620 6 HOH B 465 O 60.4 88.8 64.3 152.1 102.8 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 172 NE2 REMARK 620 2 ASP B 174 OD2 112.3 REMARK 620 3 HIS B 187 NE2 110.9 126.0 REMARK 620 4 HIS B 200 ND1 105.9 88.2 109.5 REMARK 620 N 1 2 3 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 GLY B 180 O REMARK 620 2 SER B 182 O 73.9 REMARK 620 3 LEU B 184 O 153.1 120.9 REMARK 620 4 ASP B 202 OD2 63.9 134.8 93.5 REMARK 620 5 GLU B 205 OE2 89.4 80.9 114.0 112.9 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 222 NE2 REMARK 620 2 HIS B 226 NE2 97.6 REMARK 620 3 HIS B 232 NE2 103.4 98.7 REMARK 620 4 FMT B 306 O1 106.4 101.7 141.0 REMARK 620 5 HOH B 452 O 92.3 170.1 77.9 76.3 REMARK 620 N 1 2 3 4 DBREF 7JU8 A 104 274 UNP P45452 MMP13_HUMAN 104 274 DBREF 7JU8 B 104 274 UNP P45452 MMP13_HUMAN 104 274 SEQRES 1 A 171 TYR ASN VAL PHE PRO ARG THR LEU LYS TRP SER LYS MET SEQRES 2 A 171 ASN LEU THR TYR ARG ILE VAL ASN TYR THR PRO ASP MET SEQRES 3 A 171 THR HIS SER GLU VAL GLU LYS ALA PHE LYS LYS ALA PHE SEQRES 4 A 171 LYS VAL TRP SER ASP VAL THR PRO LEU ASN PHE THR ARG SEQRES 5 A 171 LEU HIS ASP GLY ILE ALA ASP ILE MET ILE SER PHE GLY SEQRES 6 A 171 ILE LYS GLU HIS GLY ASP PHE TYR PRO PHE ASP GLY PRO SEQRES 7 A 171 SER GLY LEU LEU ALA HIS ALA PHE PRO PRO GLY PRO ASN SEQRES 8 A 171 TYR GLY GLY ASP ALA HIS PHE ASP ASP ASP GLU THR TRP SEQRES 9 A 171 THR SER SER SER LYS GLY TYR ASN LEU PHE LEU VAL ALA SEQRES 10 A 171 ALA HIS GLU PHE GLY HIS SER LEU GLY LEU ASP HIS SER SEQRES 11 A 171 LYS ASP PRO GLY ALA LEU MET PHE PRO ILE TYR THR TYR SEQRES 12 A 171 THR GLY LYS SER HIS PHE MET LEU PRO ASP ASP ASP VAL SEQRES 13 A 171 GLN GLY ILE GLN SER LEU TYR GLY PRO GLY ASP GLU ASP SEQRES 14 A 171 PRO ASN SEQRES 1 B 171 TYR ASN VAL PHE PRO ARG THR LEU LYS TRP SER LYS MET SEQRES 2 B 171 ASN LEU THR TYR ARG ILE VAL ASN TYR THR PRO ASP MET SEQRES 3 B 171 THR HIS SER GLU VAL GLU LYS ALA PHE LYS LYS ALA PHE SEQRES 4 B 171 LYS VAL TRP SER ASP VAL THR PRO LEU ASN PHE THR ARG SEQRES 5 B 171 LEU HIS ASP GLY ILE ALA ASP ILE MET ILE SER PHE GLY SEQRES 6 B 171 ILE LYS GLU HIS GLY ASP PHE TYR PRO PHE ASP GLY PRO SEQRES 7 B 171 SER GLY LEU LEU ALA HIS ALA PHE PRO PRO GLY PRO ASN SEQRES 8 B 171 TYR GLY GLY ASP ALA HIS PHE ASP ASP ASP GLU THR TRP SEQRES 9 B 171 THR SER SER SER LYS GLY TYR ASN LEU PHE LEU VAL ALA SEQRES 10 B 171 ALA HIS GLU PHE GLY HIS SER LEU GLY LEU ASP HIS SER SEQRES 11 B 171 LYS ASP PRO GLY ALA LEU MET PHE PRO ILE TYR THR TYR SEQRES 12 B 171 THR GLY LYS SER HIS PHE MET LEU PRO ASP ASP ASP VAL SEQRES 13 B 171 GLN GLY ILE GLN SER LEU TYR GLY PRO GLY ASP GLU ASP SEQRES 14 B 171 PRO ASN HET ZN A 301 1 HET ZN A 302 1 HET CA A 303 1 HET CA A 304 1 HET 9DY A 305 11 HET FMT A 306 3 HET FMT A 307 3 HET FMT A 308 3 HET FMT A 309 3 HET FMT A 310 3 HET PGE A 311 10 HET FMT A 312 3 HET ZN B 301 1 HET ZN B 302 1 HET CA B 303 1 HET CA B 304 1 HET 9DY B 305 11 HET FMT B 306 3 HET FMT B 307 3 HET FMT B 308 3 HET FMT B 309 3 HET FMT B 310 3 HET PG4 B 311 13 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM 9DY 4-(1,2,3-THIADIAZOL-4-YL)PYRIDINE HETNAM FMT FORMIC ACID HETNAM PGE TRIETHYLENE GLYCOL HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 3 ZN 4(ZN 2+) FORMUL 5 CA 4(CA 2+) FORMUL 7 9DY 2(C7 H5 N3 S) FORMUL 8 FMT 11(C H2 O2) FORMUL 13 PGE C6 H14 O4 FORMUL 25 PG4 C8 H18 O5 FORMUL 26 HOH *371(H2 O) HELIX 1 AA1 THR A 130 ASP A 147 1 18 HELIX 2 AA2 LEU A 216 GLY A 229 1 14 HELIX 3 AA3 PRO A 255 GLY A 267 1 13 HELIX 4 AA4 THR B 130 ASP B 147 1 18 HELIX 5 AA5 LEU B 216 GLY B 229 1 14 HELIX 6 AA6 PRO B 255 GLY B 267 1 13 SHEET 1 AA1 5 ASN A 152 LEU A 156 0 SHEET 2 AA1 5 ASN A 117 ILE A 122 1 N TYR A 120 O LEU A 156 SHEET 3 AA1 5 ILE A 163 GLY A 168 1 O ILE A 165 N ARG A 121 SHEET 4 AA1 5 ALA A 199 ASP A 202 1 O PHE A 201 N GLY A 168 SHEET 5 AA1 5 ALA A 186 ALA A 188 -1 N HIS A 187 O HIS A 200 SHEET 1 AA2 2 TRP A 207 THR A 208 0 SHEET 2 AA2 2 TYR A 214 ASN A 215 1 O TYR A 214 N THR A 208 SHEET 1 AA3 5 ASN B 152 LEU B 156 0 SHEET 2 AA3 5 ASN B 117 ILE B 122 1 N TYR B 120 O LEU B 156 SHEET 3 AA3 5 ILE B 163 GLY B 168 1 O ILE B 165 N ARG B 121 SHEET 4 AA3 5 ALA B 199 ASP B 202 1 O PHE B 201 N GLY B 168 SHEET 5 AA3 5 ALA B 186 ALA B 188 -1 N HIS B 187 O HIS B 200 SHEET 1 AA4 2 TRP B 207 THR B 208 0 SHEET 2 AA4 2 TYR B 214 ASN B 215 1 O TYR B 214 N THR B 208 LINK O ASP A 162 CA CA A 304 1555 1555 2.42 LINK NE2 HIS A 172 ZN ZN A 302 1555 1555 2.12 LINK OD2 ASP A 174 ZN ZN A 302 1555 1555 2.02 LINK OD1 ASP A 179 CA CA A 303 1555 1555 2.49 LINK O GLY A 180 CA CA A 303 1555 1555 2.15 LINK O SER A 182 CA CA A 303 1555 1555 2.38 LINK O LEU A 184 CA CA A 303 1555 1555 2.38 LINK NE2 HIS A 187 ZN ZN A 302 1555 1555 2.05 LINK O ASN A 194 CA CA A 304 1555 1555 2.82 LINK O GLY A 196 CA CA A 304 1555 1555 2.65 LINK OD1 ASP A 198 CA CA A 304 1555 1555 2.46 LINK ND1 HIS A 200 ZN ZN A 302 1555 1555 2.04 LINK OD2 ASP A 202 CA CA A 303 1555 1555 2.20 LINK OE2 GLU A 205 CA CA A 303 1555 1555 2.43 LINK NE2 HIS A 222 ZN ZN A 301 1555 1555 2.08 LINK NE2 HIS A 226 ZN ZN A 301 1555 1555 2.15 LINK NE2 HIS A 232 ZN ZN A 301 1555 1555 2.07 LINK ZN ZN A 301 O1 FMT A 312 1555 1555 2.67 LINK ZN ZN A 301 O2 FMT A 312 1555 1555 1.82 LINK CA CA A 304 O HOH A 416 1555 1555 2.60 LINK CA CA A 304 O HOH A 536 1555 1555 2.98 LINK O ASP B 162 CA CA B 304 1555 1555 2.62 LINK NE2 HIS B 172 ZN ZN B 302 1555 1555 1.94 LINK OD2 ASP B 174 ZN ZN B 302 1555 1555 1.91 LINK O GLY B 180 CA CA B 303 1555 1555 2.81 LINK O SER B 182 CA CA B 303 1555 1555 2.75 LINK O LEU B 184 CA CA B 303 1555 1555 2.68 LINK NE2 HIS B 187 ZN ZN B 302 1555 1555 2.06 LINK O ASN B 194 CA CA B 304 1555 1555 2.73 LINK O GLY B 196 CA CA B 304 1555 1555 2.57 LINK OD1 ASP B 198 CA CA B 304 1555 1555 2.58 LINK ND1 HIS B 200 ZN ZN B 302 1555 1555 2.11 LINK OD2 ASP B 202 CA CA B 303 1555 1555 2.63 LINK OE2 GLU B 205 CA CA B 303 1555 1555 2.75 LINK NE2 HIS B 222 ZN ZN B 301 1555 1555 2.03 LINK NE2 HIS B 226 ZN ZN B 301 1555 1555 2.15 LINK NE2 HIS B 232 ZN ZN B 301 1555 1555 1.97 LINK ZN ZN B 301 O1 FMT B 306 1555 1555 2.09 LINK ZN ZN B 301 O HOH B 452 1555 1555 2.29 LINK CA CA B 304 O HOH B 458 1555 1555 3.15 LINK CA CA B 304 O HOH B 465 1555 1555 2.81 CRYST1 135.764 35.987 95.724 90.00 130.55 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.007366 0.000000 0.006302 0.00000 SCALE2 0.000000 0.027788 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013748 0.00000