HEADER HYDROLASE 23-MAY-18 5ZYB TITLE CRYSTAL STRUCTURE OF MOX-1 COMPLEXED WITH A BORONIC ACID TRANSITION TITLE 2 STATE INHIBITOR S02030 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.5.2.6; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 573; SOURCE 4 GENE: BLAMOX-1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS SERINE BETA-LACTAMASE, INHIBITOR, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.SHIMIZU-IBUKA,N.FURUKAWA REVDAT 2 22-NOV-23 5ZYB 1 LINK REVDAT 1 26-JUN-19 5ZYB 0 JRNL AUTH T.ISHIKAWA,N.FURUKAWA,E.CASELLI,F.PRATI,M.A.TARACILA, JRNL AUTH 2 R.A.BONOMO,Y.ISHII,A.SHIMIZU-IBUKA JRNL TITL CRYSTAL STRUCTURE OF MOX-1 COMPLEXED WITH A BORONIC ACID JRNL TITL 2 TRANSITION STATE INHIBITOR S02030 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.13 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0222 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.13 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 19050 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) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 957 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) : 2.13 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.19 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1397 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1730 REMARK 3 BIN FREE R VALUE SET COUNT : 62 REMARK 3 BIN FREE R VALUE : 0.2310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2631 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 186 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.11000 REMARK 3 B22 (A**2) : -1.85000 REMARK 3 B33 (A**2) : 1.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.41000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.212 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.173 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.107 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.046 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.927 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2741 ; 0.009 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 2477 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3713 ; 1.279 ; 1.660 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5781 ; 0.950 ; 1.643 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 347 ; 6.768 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 120 ;31.804 ;22.417 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 424 ;12.629 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;17.721 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 346 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3121 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 503 ; 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): 1402 ; 1.533 ; 2.265 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1393 ; 1.511 ; 2.260 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1739 ; 2.276 ; 3.381 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1740 ; 2.275 ; 3.381 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1339 ; 2.355 ; 2.582 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1340 ; 2.355 ; 2.582 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1975 ; 3.683 ; 3.763 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3140 ; 5.149 ;27.991 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3104 ; 5.119 ;27.829 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 : NULL 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 5ZYB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-MAY-18. REMARK 100 THE DEPOSITION ID IS D_1300007566. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-NOV-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20024 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.130 REMARK 200 RESOLUTION RANGE LOW (A) : 61.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.13 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 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 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: MOLREP REMARK 200 STARTING MODEL: 3W8K REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, 100 MM SODIUM CACODYLATE REMARK 280 BUFFER (PH 6.5), 0.2 M ZINC ACETATE, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 289K 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 29.60000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 -20 REMARK 465 GLY A -19 REMARK 465 SER A -18 REMARK 465 SER A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 SER A -10 REMARK 465 SER A -9 REMARK 465 GLY A -8 REMARK 465 LEU A -7 REMARK 465 VAL A -6 REMARK 465 PRO A -5 REMARK 465 ARG A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 GLY A 1 REMARK 465 GLU A 2 REMARK 465 ALA A 3 REMARK 465 SER A 4 REMARK 465 PRO A 5 REMARK 465 VAL A 6 REMARK 465 GLU A 303 REMARK 465 SER A 304 REMARK 465 GLY A 305 REMARK 465 SER A 306 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 257 CD CE NZ 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 OE2 GLU A 50 O HOH A 501 1.82 REMARK 500 OE2 GLU A 57 O HOH A 502 1.92 REMARK 500 OG SER A 65 B1 ZXM A 401 1.94 REMARK 500 OD2 ASP A 245 O HOH A 503 2.08 REMARK 500 O HOH A 514 O HOH A 655 2.09 REMARK 500 OD1 ASP A 36 O HOH A 504 2.13 REMARK 500 OD2 ASP A 127 O HOH A 505 2.14 REMARK 500 OD1 ASP A 244 O HOH A 506 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 THR A 178 -62.14 -121.61 REMARK 500 TYR A 223 21.00 -159.53 REMARK 500 ILE A 240 -64.14 -109.84 REMARK 500 ASN A 338 42.81 -104.68 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 10 0.14 SIDE CHAIN 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 ZN A 419 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 14 OD2 REMARK 620 2 GLU A 294 OE2 55.6 REMARK 620 3 HOH A 672 O 118.9 71.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 418 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 24 ND1 REMARK 620 2 GLY A 359 OXT 16.4 REMARK 620 3 ACT A 402 OXT 20.5 5.5 REMARK 620 4 HOH A 666 O 15.5 6.2 5.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 415 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 50 OE2 REMARK 620 2 HIS A 148 NE2 102.1 REMARK 620 3 HOH A 501 O 99.3 3.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 411 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 130 OE1 REMARK 620 2 HIS A 186 ND1 95.7 REMARK 620 3 ACT A 403 OXT 104.5 108.7 REMARK 620 4 HOH A 552 O 92.0 4.4 111.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 410 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 161 NE2 REMARK 620 2 ACT A 404 OXT 105.2 REMARK 620 3 ACT A 405 O 108.1 95.8 REMARK 620 4 ACT A 407 O 141.8 98.5 98.7 REMARK 620 5 ACT A 407 OXT 89.9 140.9 113.8 53.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 417 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 187 ND1 REMARK 620 2 ASP A 231 OD1 132.0 REMARK 620 3 HOH A 600 O 110.2 117.8 REMARK 620 4 HOH A 630 O 101.1 99.5 61.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 413 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 191 ND2 REMARK 620 2 HOH A 506 O 111.4 REMARK 620 3 HOH A 524 O 172.3 74.3 REMARK 620 4 HOH A 531 O 90.5 88.4 84.3 REMARK 620 5 HOH A 537 O 97.6 98.9 86.6 166.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 412 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 207 OE2 REMARK 620 2 VAL A 278 O 104.0 REMARK 620 3 HIS A 351 NE2 99.4 5.1 REMARK 620 4 ACT A 409 O 98.5 15.1 12.1 REMARK 620 5 ACT A 409 OXT 89.7 72.7 70.2 58.2 REMARK 620 6 HOH A 585 O 101.4 75.0 77.8 89.8 147.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 416 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 256 ND1 REMARK 620 2 ACT A 408 O 112.8 REMARK 620 3 ACT A 408 OXT 108.4 51.9 REMARK 620 4 HOH A 545 O 104.1 113.5 65.0 REMARK 620 5 HOH A 671 O 114.4 101.1 136.2 111.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 414 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 259 ND1 REMARK 620 2 ACT A 406 O 87.9 REMARK 620 3 HOH A 643 O 114.2 138.0 REMARK 620 4 HOH A 657 O 101.4 95.4 113.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZXM A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 416 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 417 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 418 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 419 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 420 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3W8K RELATED DB: PDB REMARK 900 RELATED ID: 4WBG RELATED DB: PDB DBREF 5ZYB A 1 359 UNP Q51578 Q51578_KLEPN 24 382 SEQADV 5ZYB MET A -20 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB GLY A -19 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB SER A -18 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB SER A -17 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB HIS A -16 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB HIS A -15 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB HIS A -14 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB HIS A -13 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB HIS A -12 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB HIS A -11 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB SER A -10 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB SER A -9 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB GLY A -8 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB LEU A -7 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB VAL A -6 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB PRO A -5 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB ARG A -4 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB GLY A -3 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB SER A -2 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB HIS A -1 UNP Q51578 EXPRESSION TAG SEQADV 5ZYB MET A 0 UNP Q51578 EXPRESSION TAG SEQRES 1 A 380 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 380 LEU VAL PRO ARG GLY SER HIS MET GLY GLU ALA SER PRO SEQRES 3 A 380 VAL ASP PRO LEU ARG PRO VAL VAL ASP ALA SER ILE GLN SEQRES 4 A 380 PRO LEU LEU LYS GLU HIS ARG ILE PRO GLY MET ALA VAL SEQRES 5 A 380 ALA VAL LEU LYS ASP GLY LYS ALA HIS TYR PHE ASN TYR SEQRES 6 A 380 GLY VAL ALA ASN ARG GLU SER GLY ALA SER VAL SER GLU SEQRES 7 A 380 GLN THR LEU PHE GLU ILE GLY SER VAL SER LYS THR LEU SEQRES 8 A 380 THR ALA THR LEU GLY ALA TYR ALA VAL VAL LYS GLY ALA SEQRES 9 A 380 MET GLN LEU ASP ASP LYS ALA SER ARG HIS ALA PRO TRP SEQRES 10 A 380 LEU LYS GLY SER VAL PHE ASP SER ILE THR MET GLY GLU SEQRES 11 A 380 LEU ALA THR TYR SER ALA GLY GLY LEU PRO LEU GLN PHE SEQRES 12 A 380 PRO GLU GLU VAL ASP SER SER GLU LYS MET ARG ALA TYR SEQRES 13 A 380 TYR ARG GLN TRP ALA PRO VAL TYR SER PRO GLY SER HIS SEQRES 14 A 380 ARG GLN TYR SER ASN PRO SER ILE GLY LEU PHE GLY HIS SEQRES 15 A 380 LEU ALA ALA SER SER LEU LYS GLN PRO PHE ALA GLN LEU SEQRES 16 A 380 MET GLU GLN THR LEU LEU PRO GLY LEU GLY MET HIS HIS SEQRES 17 A 380 THR TYR VAL ASN VAL PRO LYS GLN ALA MET ALA SER TYR SEQRES 18 A 380 ALA TYR GLY TYR SER LYS GLU ASP LYS PRO ILE ARG VAL SEQRES 19 A 380 ASN PRO GLY MET LEU ALA ASP GLU ALA TYR GLY ILE LYS SEQRES 20 A 380 THR SER SER ALA ASP LEU LEU ALA PHE VAL LYS ALA ASN SEQRES 21 A 380 ILE GLY GLY VAL ASP ASP LYS ALA LEU GLN GLN ALA ILE SEQRES 22 A 380 SER LEU THR HIS LYS GLY HIS TYR SER VAL GLY GLY MET SEQRES 23 A 380 THR GLN GLY LEU GLY TRP GLU SER TYR ALA TYR PRO VAL SEQRES 24 A 380 THR GLU GLN THR LEU LEU ALA GLY ASN SER ALA LYS VAL SEQRES 25 A 380 ILE LEU GLU ALA ASN PRO THR ALA ALA PRO ARG GLU SER SEQRES 26 A 380 GLY SER GLN VAL LEU PHE ASN LYS THR GLY SER SER ASN SEQRES 27 A 380 GLY PHE GLY ALA TYR VAL ALA PHE VAL PRO ALA ARG GLY SEQRES 28 A 380 ILE GLY ILE VAL MET LEU ALA ASN ARG ASN TYR PRO ILE SEQRES 29 A 380 PRO ALA ARG VAL LYS ALA ALA HIS ALA ILE LEU ALA GLN SEQRES 30 A 380 LEU ALA GLY HET ZXM A 401 22 HET ACT A 402 4 HET ACT A 403 4 HET ACT A 404 4 HET ACT A 405 4 HET ACT A 406 4 HET ACT A 407 4 HET ACT A 408 4 HET ACT A 409 4 HET ZN A 410 1 HET ZN A 411 1 HET ZN A 412 1 HET ZN A 413 1 HET ZN A 414 1 HET ZN A 415 1 HET ZN A 416 1 HET ZN A 417 1 HET ZN A 418 1 HET ZN A 419 1 HET ZN A 420 1 HETNAM ZXM 1-{(2R)-2-(DIHYDROXYBORANYL)-2-[(THIOPHEN-2-YLACETYL) HETNAM 2 ZXM AMINO]ETHYL}-1H-1,2,3-TRIAZOLE-4-CARBOXYLIC ACID HETNAM ACT ACETATE ION HETNAM ZN ZINC ION FORMUL 2 ZXM C11 H13 B N4 O5 S FORMUL 3 ACT 8(C2 H3 O2 1-) FORMUL 11 ZN 11(ZN 2+) FORMUL 22 HOH *186(H2 O) HELIX 1 AA1 LEU A 9 HIS A 24 1 16 HELIX 2 AA2 VAL A 66 LYS A 81 1 16 HELIX 3 AA3 LYS A 89 LYS A 98 5 10 HELIX 4 AA4 SER A 100 SER A 104 5 5 HELIX 5 AA5 THR A 106 THR A 112 1 7 HELIX 6 AA6 SER A 128 GLN A 138 1 11 HELIX 7 AA7 SER A 152 LEU A 167 1 16 HELIX 8 AA8 PRO A 170 THR A 178 1 9 HELIX 9 AA9 THR A 178 LEU A 183 1 6 HELIX 10 AB1 PRO A 193 TYR A 200 5 8 HELIX 11 AB2 LEU A 218 GLY A 224 1 7 HELIX 12 AB3 SER A 228 GLY A 241 1 14 HELIX 13 AB4 ASP A 245 THR A 255 1 11 HELIX 14 AB5 THR A 279 ASN A 287 1 9 HELIX 15 AB6 SER A 288 GLU A 294 1 7 HELIX 16 AB7 PRO A 327 ARG A 329 5 3 HELIX 17 AB8 PRO A 342 GLY A 359 1 18 SHEET 1 AA1 9 ALA A 53 SER A 54 0 SHEET 2 AA1 9 LYS A 38 ASN A 48 -1 N ALA A 47 O ALA A 53 SHEET 3 AA1 9 GLY A 28 LYS A 35 -1 N MET A 29 O TYR A 44 SHEET 4 AA1 9 ILE A 331 ALA A 337 -1 O VAL A 334 N ALA A 32 SHEET 5 AA1 9 PHE A 319 VAL A 326 -1 N ALA A 324 O ILE A 333 SHEET 6 AA1 9 VAL A 308 SER A 316 -1 N GLY A 314 O ALA A 321 SHEET 7 AA1 9 GLU A 272 ALA A 275 -1 N TYR A 274 O LEU A 309 SHEET 8 AA1 9 MET A 265 GLN A 267 -1 N THR A 266 O SER A 273 SHEET 9 AA1 9 TYR A 260 VAL A 262 -1 N TYR A 260 O GLN A 267 SHEET 1 AA2 2 PHE A 61 GLU A 62 0 SHEET 2 AA2 2 LYS A 226 THR A 227 -1 O THR A 227 N PHE A 61 SHEET 1 AA3 2 HIS A 148 ARG A 149 0 SHEET 2 AA3 2 ASN A 296 PRO A 297 -1 O ASN A 296 N ARG A 149 SHEET 1 AA4 2 GLY A 203 TYR A 204 0 SHEET 2 AA4 2 PRO A 210 ILE A 211 -1 O ILE A 211 N GLY A 203 LINK OD2 ASP A 14 ZN ZN A 419 1555 1555 2.09 LINK ND1 HIS A 24 ZN ZN A 418 1555 2646 2.17 LINK OE2 GLU A 50 ZN ZN A 415 1555 1655 2.51 LINK OE1 GLU A 130 ZN ZN A 411 1555 2645 2.03 LINK NE2 HIS A 148 ZN ZN A 415 1555 1555 2.16 LINK NE2 HIS A 161 ZN ZN A 410 1555 1555 2.05 LINK ND1 HIS A 186 ZN ZN A 411 1555 1555 2.03 LINK ND1 HIS A 187 ZN ZN A 417 1555 1555 2.40 LINK NE2 HIS A 187 ZN ZN A 420 1555 1555 2.44 LINK ND2 ASN A 191 ZN ZN A 413 1555 1555 2.21 LINK OE2 GLU A 207 ZN ZN A 412 1555 1555 2.01 LINK OD1 ASP A 231 ZN ZN A 417 1555 1555 2.23 LINK ND1 HIS A 256 ZN ZN A 416 1555 1555 2.23 LINK ND1 HIS A 259 ZN ZN A 414 1555 1555 2.08 LINK O VAL A 278 ZN ZN A 412 1555 2656 2.32 LINK OE2 GLU A 294 ZN ZN A 419 1555 2646 1.94 LINK NE2 HIS A 351 ZN ZN A 412 1555 2656 2.21 LINK OXT GLY A 359 ZN ZN A 418 1555 1555 1.88 LINK OXT ACT A 402 ZN ZN A 418 1555 1555 2.23 LINK OXT ACT A 403 ZN ZN A 411 1555 2645 1.97 LINK OXT ACT A 404 ZN ZN A 410 1555 1555 2.09 LINK O ACT A 405 ZN ZN A 410 1555 1555 1.98 LINK O ACT A 406 ZN ZN A 414 1555 1555 2.06 LINK O ACT A 407 ZN ZN A 410 1555 1555 2.30 LINK OXT ACT A 407 ZN ZN A 410 1555 1555 2.42 LINK O ACT A 408 ZN ZN A 416 1555 1555 2.48 LINK OXT ACT A 408 ZN ZN A 416 1555 1555 2.55 LINK O ACT A 409 ZN ZN A 412 1555 1555 2.16 LINK OXT ACT A 409 ZN ZN A 412 1555 1555 2.40 LINK ZN ZN A 411 O HOH A 552 1555 1555 2.01 LINK ZN ZN A 412 O HOH A 585 1555 2646 2.14 LINK ZN ZN A 413 O HOH A 506 1555 2645 2.31 LINK ZN ZN A 413 O HOH A 524 1555 2645 2.11 LINK ZN ZN A 413 O HOH A 531 1555 2645 2.34 LINK ZN ZN A 413 O HOH A 537 1555 1555 2.28 LINK ZN ZN A 414 O HOH A 643 1555 1555 2.14 LINK ZN ZN A 414 O HOH A 657 1555 1555 2.23 LINK ZN ZN A 415 O HOH A 501 1555 1455 1.85 LINK ZN ZN A 416 O HOH A 545 1555 1555 2.32 LINK ZN ZN A 416 O HOH A 671 1555 1555 2.38 LINK ZN ZN A 417 O HOH A 600 1555 1555 2.48 LINK ZN ZN A 417 O HOH A 630 1555 1555 2.62 LINK ZN ZN A 418 O HOH A 666 1555 2656 2.22 LINK ZN ZN A 419 O HOH A 672 1555 2656 2.54 CISPEP 1 TYR A 276 PRO A 277 0 -4.99 SITE 1 AC1 9 SER A 65 GLN A 121 TYR A 151 ASN A 153 SITE 2 AC1 9 TYR A 223 GLY A 314 SER A 315 SER A 316 SITE 3 AC1 9 ASN A 340 SITE 1 AC2 4 ARG A 329 ALA A 358 GLY A 359 ZN A 418 SITE 1 AC3 3 GLU A 130 ARG A 133 HOH A 590 SITE 1 AC4 8 HIS A 93 TRP A 96 ARG A 133 HIS A 161 SITE 2 AC4 8 SER A 165 ACT A 405 ACT A 407 ZN A 410 SITE 1 AC5 7 SER A 129 MET A 132 ARG A 133 HIS A 161 SITE 2 AC5 7 ACT A 404 ACT A 407 ZN A 410 SITE 1 AC6 2 HIS A 259 ZN A 414 SITE 1 AC7 5 ARG A 133 HIS A 161 ACT A 404 ACT A 405 SITE 2 AC7 5 ZN A 410 SITE 1 AC8 5 VAL A 308 PHE A 310 PRO A 327 ZN A 416 SITE 2 AC8 5 HOH A 545 SITE 1 AC9 4 LYS A 206 GLU A 207 ZN A 412 HOH A 519 SITE 1 AD1 4 HIS A 161 ACT A 404 ACT A 405 ACT A 407 SITE 1 AD2 2 HIS A 186 HOH A 552 SITE 1 AD3 2 GLU A 207 ACT A 409 SITE 1 AD4 2 ASN A 191 HOH A 537 SITE 1 AD5 4 HIS A 259 ACT A 406 HOH A 643 HOH A 657 SITE 1 AD6 3 GLU A 50 HIS A 148 HOH A 501 SITE 1 AD7 4 HIS A 256 ACT A 408 HOH A 545 HOH A 671 SITE 1 AD8 6 HIS A 187 ASP A 231 HOH A 600 HOH A 606 SITE 2 AD8 6 HOH A 630 HOH A 647 SITE 1 AD9 2 GLY A 359 ACT A 402 SITE 1 AE1 2 ARG A 10 ASP A 14 SITE 1 AE2 1 HIS A 187 CRYST1 49.640 59.200 62.890 90.00 102.03 90.00 P 1 21 1 2 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 0.020145 0.000000 0.004293 0.00000 SCALE2 0.000000 0.016892 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016258 0.00000