HEADER HYDROLASE/ANTIBIOTIC 01-MAY-12 4EYF TITLE CRYSTAL STRUCTURE OF NDM-1 BOUND TO HYDROLYZED BENZYLPENICILLIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE NDM-1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: NDM-1, METALLO-BETA-LACTAMASE NDM-1; COMPND 5 EC: 3.5.2.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 573; SOURCE 4 GENE: BLANDM-1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS METALLO BETA LACTAMASE, ANTIBIOTIC, HYDROLASE-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.C.J.STRYNADKA,D.T.KING REVDAT 4 28-FEB-24 4EYF 1 REMARK LINK REVDAT 3 15-NOV-17 4EYF 1 REMARK REVDAT 2 15-AUG-12 4EYF 1 TITLE REVDAT 1 08-AUG-12 4EYF 0 JRNL AUTH D.T.KING,L.J.WORRALL,R.GRUNINGER,N.C.STRYNADKA JRNL TITL NEW DELHI METALLO-BETA-LACTAMASE: STRUCTURAL INSIGHTS INTO JRNL TITL 2 BETA-LACTAM RECOGNITION AND INHIBITION JRNL REF J.AM.CHEM.SOC. V. 134 11362 2012 JRNL REFN ISSN 0002-7863 JRNL PMID 22713171 JRNL DOI 10.1021/JA303579D REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 37046 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1952 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2668 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2270 REMARK 3 BIN FREE R VALUE SET COUNT : 141 REMARK 3 BIN FREE R VALUE : 0.2730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3594 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 54 REMARK 3 SOLVENT ATOMS : 310 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.09000 REMARK 3 B33 (A**2) : -0.09000 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): 0.130 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.119 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.072 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.296 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 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): 3733 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5087 ; 1.291 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 482 ; 7.281 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 161 ;32.774 ;24.534 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 554 ;14.131 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;24.075 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 567 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2892 ; 0.015 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2389 ; 1.430 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3806 ; 2.098 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1344 ; 3.488 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1280 ; 5.188 ; 4.500 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 4EYF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-MAY-12. REMARK 100 THE DEPOSITION ID IS D_1000072225. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-NOV-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08B1-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : TOROIDAL FOCUSING MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39036 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 29.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.6 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 32.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M MGCL2, 25% PEG3350, 0.1M BIS REMARK 280 -TRIS, PH 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 19.51500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.10500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.74500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 67.10500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.51500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.74500 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, 3 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 300 REMARK: IT IS UNCERTAIN WHETHER THE BIOLOGICALLY ACTIVE FORM IS REMARK 300 MONOMERIC OR DIMERIC 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 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 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -85.0 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -39.74500 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 67.10500 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 1 REMARK 465 GLU A 2 REMARK 465 LEU A 3 REMARK 465 PRO A 4 REMARK 465 ASN A 5 REMARK 465 ILE A 6 REMARK 465 MET A 7 REMARK 465 HIS A 8 REMARK 465 PRO A 9 REMARK 465 VAL A 10 REMARK 465 ALA A 11 REMARK 465 LYS A 12 REMARK 465 LEU A 13 REMARK 465 SER A 14 REMARK 465 THR A 15 REMARK 465 ALA A 16 REMARK 465 LEU A 17 REMARK 465 ALA A 18 REMARK 465 ALA A 19 REMARK 465 ALA A 20 REMARK 465 LEU A 21 REMARK 465 MET A 22 REMARK 465 LEU A 23 REMARK 465 SER A 24 REMARK 465 GLY A 25 REMARK 465 CYS A 26 REMARK 465 MET A 27 REMARK 465 PRO A 28 REMARK 465 GLY A 29 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 LEU B 3 REMARK 465 PRO B 4 REMARK 465 ASN B 5 REMARK 465 ILE B 6 REMARK 465 MET B 7 REMARK 465 HIS B 8 REMARK 465 PRO B 9 REMARK 465 VAL B 10 REMARK 465 ALA B 11 REMARK 465 LYS B 12 REMARK 465 LEU B 13 REMARK 465 SER B 14 REMARK 465 THR B 15 REMARK 465 ALA B 16 REMARK 465 LEU B 17 REMARK 465 ALA B 18 REMARK 465 ALA B 19 REMARK 465 ALA B 20 REMARK 465 LEU B 21 REMARK 465 MET B 22 REMARK 465 LEU B 23 REMARK 465 SER B 24 REMARK 465 GLY B 25 REMARK 465 CYS B 26 REMARK 465 MET B 27 REMARK 465 PRO B 28 REMARK 465 GLY B 29 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 O HOH B 454 O HOH B 557 2.10 REMARK 500 OH TYR A 64 O HOH A 541 2.16 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 90 138.49 82.12 REMARK 500 ASP B 90 142.45 72.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 HYDROLYSIS OF PENICILLIN BY BETA-LACTAMASE NDM-1 OCCURRED DURING REMARK 600 CRYSTALLIZATION 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 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 120 NE2 REMARK 620 2 HIS A 122 ND1 99.4 REMARK 620 3 HIS A 189 NE2 100.2 122.2 REMARK 620 4 PNK A 301 O4 172.4 86.7 79.9 REMARK 620 5 HOH A 401 O 88.4 118.6 115.8 84.7 REMARK 620 N 1 2 3 4 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 ASP A 124 OD2 REMARK 620 2 CYS A 208 SG 95.0 REMARK 620 3 HIS A 250 NE2 91.3 111.1 REMARK 620 4 PNK A 301 O2 166.5 97.6 88.6 REMARK 620 5 PNK A 301 N1 92.1 129.9 118.3 76.2 REMARK 620 N 1 2 3 4 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 GLU A 152 OE2 REMARK 620 2 ASP A 223 OD2 105.4 REMARK 620 3 HOH A 475 O 116.8 82.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 303 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 120 NE2 REMARK 620 2 HIS B 122 ND1 100.6 REMARK 620 3 HIS B 189 NE2 97.0 123.9 REMARK 620 4 PNK B 301 O3 172.9 86.3 80.4 REMARK 620 5 HOH B 401 O 90.1 120.9 111.8 84.8 REMARK 620 N 1 2 3 4 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 ASP B 124 OD2 REMARK 620 2 CYS B 208 SG 95.3 REMARK 620 3 HIS B 250 NE2 90.0 111.9 REMARK 620 4 PNK B 301 O1 166.6 95.9 92.6 REMARK 620 5 PNK B 301 N1 91.9 129.4 118.2 75.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 304 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 152 OE2 REMARK 620 2 GLU B 152 OE1 51.9 REMARK 620 3 ASP B 223 OD2 105.6 94.7 REMARK 620 4 HOH B 488 O 132.1 89.1 104.2 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 PNK 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 ZN A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PNK B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3Q6X RELATED DB: PDB REMARK 900 RELATED ID: 3SPU RELATED DB: PDB REMARK 900 RELATED ID: 4EXS RELATED DB: PDB REMARK 900 RELATED ID: 4EXY RELATED DB: PDB REMARK 900 RELATED ID: 4EY2 RELATED DB: PDB REMARK 900 RELATED ID: 4EYB RELATED DB: PDB REMARK 900 RELATED ID: 4EYL RELATED DB: PDB DBREF 4EYF A 1 270 UNP C7C422 BLAN1_KLEPN 1 270 DBREF 4EYF B 1 270 UNP C7C422 BLAN1_KLEPN 1 270 SEQRES 1 A 270 MET GLU LEU PRO ASN ILE MET HIS PRO VAL ALA LYS LEU SEQRES 2 A 270 SER THR ALA LEU ALA ALA ALA LEU MET LEU SER GLY CYS SEQRES 3 A 270 MET PRO GLY GLU ILE ARG PRO THR ILE GLY GLN GLN MET SEQRES 4 A 270 GLU THR GLY ASP GLN ARG PHE GLY ASP LEU VAL PHE ARG SEQRES 5 A 270 GLN LEU ALA PRO ASN VAL TRP GLN HIS THR SER TYR LEU SEQRES 6 A 270 ASP MET PRO GLY PHE GLY ALA VAL ALA SER ASN GLY LEU SEQRES 7 A 270 ILE VAL ARG ASP GLY GLY ARG VAL LEU VAL VAL ASP THR SEQRES 8 A 270 ALA TRP THR ASP ASP GLN THR ALA GLN ILE LEU ASN TRP SEQRES 9 A 270 ILE LYS GLN GLU ILE ASN LEU PRO VAL ALA LEU ALA VAL SEQRES 10 A 270 VAL THR HIS ALA HIS GLN ASP LYS MET GLY GLY MET ASP SEQRES 11 A 270 ALA LEU HIS ALA ALA GLY ILE ALA THR TYR ALA ASN ALA SEQRES 12 A 270 LEU SER ASN GLN LEU ALA PRO GLN GLU GLY MET VAL ALA SEQRES 13 A 270 ALA GLN HIS SER LEU THR PHE ALA ALA ASN GLY TRP VAL SEQRES 14 A 270 GLU PRO ALA THR ALA PRO ASN PHE GLY PRO LEU LYS VAL SEQRES 15 A 270 PHE TYR PRO GLY PRO GLY HIS THR SER ASP ASN ILE THR SEQRES 16 A 270 VAL GLY ILE ASP GLY THR ASP ILE ALA PHE GLY GLY CYS SEQRES 17 A 270 LEU ILE LYS ASP SER LYS ALA LYS SER LEU GLY ASN LEU SEQRES 18 A 270 GLY ASP ALA ASP THR GLU HIS TYR ALA ALA SER ALA ARG SEQRES 19 A 270 ALA PHE GLY ALA ALA PHE PRO LYS ALA SER MET ILE VAL SEQRES 20 A 270 MET SER HIS SER ALA PRO ASP SER ARG ALA ALA ILE THR SEQRES 21 A 270 HIS THR ALA ARG MET ALA ASP LYS LEU ARG SEQRES 1 B 270 MET GLU LEU PRO ASN ILE MET HIS PRO VAL ALA LYS LEU SEQRES 2 B 270 SER THR ALA LEU ALA ALA ALA LEU MET LEU SER GLY CYS SEQRES 3 B 270 MET PRO GLY GLU ILE ARG PRO THR ILE GLY GLN GLN MET SEQRES 4 B 270 GLU THR GLY ASP GLN ARG PHE GLY ASP LEU VAL PHE ARG SEQRES 5 B 270 GLN LEU ALA PRO ASN VAL TRP GLN HIS THR SER TYR LEU SEQRES 6 B 270 ASP MET PRO GLY PHE GLY ALA VAL ALA SER ASN GLY LEU SEQRES 7 B 270 ILE VAL ARG ASP GLY GLY ARG VAL LEU VAL VAL ASP THR SEQRES 8 B 270 ALA TRP THR ASP ASP GLN THR ALA GLN ILE LEU ASN TRP SEQRES 9 B 270 ILE LYS GLN GLU ILE ASN LEU PRO VAL ALA LEU ALA VAL SEQRES 10 B 270 VAL THR HIS ALA HIS GLN ASP LYS MET GLY GLY MET ASP SEQRES 11 B 270 ALA LEU HIS ALA ALA GLY ILE ALA THR TYR ALA ASN ALA SEQRES 12 B 270 LEU SER ASN GLN LEU ALA PRO GLN GLU GLY MET VAL ALA SEQRES 13 B 270 ALA GLN HIS SER LEU THR PHE ALA ALA ASN GLY TRP VAL SEQRES 14 B 270 GLU PRO ALA THR ALA PRO ASN PHE GLY PRO LEU LYS VAL SEQRES 15 B 270 PHE TYR PRO GLY PRO GLY HIS THR SER ASP ASN ILE THR SEQRES 16 B 270 VAL GLY ILE ASP GLY THR ASP ILE ALA PHE GLY GLY CYS SEQRES 17 B 270 LEU ILE LYS ASP SER LYS ALA LYS SER LEU GLY ASN LEU SEQRES 18 B 270 GLY ASP ALA ASP THR GLU HIS TYR ALA ALA SER ALA ARG SEQRES 19 B 270 ALA PHE GLY ALA ALA PHE PRO LYS ALA SER MET ILE VAL SEQRES 20 B 270 MET SER HIS SER ALA PRO ASP SER ARG ALA ALA ILE THR SEQRES 21 B 270 HIS THR ALA ARG MET ALA ASP LYS LEU ARG HET PNK A 301 24 HET ZN A 302 1 HET ZN A 303 1 HET ZN A 304 1 HET PNK B 301 24 HET ZN B 302 1 HET ZN B 303 1 HET ZN B 304 1 HETNAM PNK (2R,4S)-2-{(R)-CARBOXY[(PHENYLACETYL)AMINO]METHYL}-5,5- HETNAM 2 PNK DIMETHYL-1,3-THIAZOLIDINE-4-CARBOXYLIC ACID HETNAM ZN ZINC ION HETSYN PNK PENICILLIN, HYDROXYLATED FORM FORMUL 3 PNK 2(C16 H20 N2 O5 S) FORMUL 4 ZN 6(ZN 2+) FORMUL 11 HOH *310(H2 O) HELIX 1 1 THR A 94 ILE A 109 1 16 HELIX 2 2 HIS A 122 GLY A 127 1 6 HELIX 3 3 GLY A 128 ALA A 135 1 8 HELIX 4 4 ALA A 143 ALA A 149 1 7 HELIX 5 5 PRO A 150 GLY A 153 5 4 HELIX 6 6 GLU A 170 ALA A 174 5 5 HELIX 7 7 HIS A 228 PHE A 240 1 13 HELIX 8 8 ARG A 256 LYS A 268 1 13 HELIX 9 9 THR B 94 ILE B 109 1 16 HELIX 10 10 HIS B 122 GLY B 127 1 6 HELIX 11 11 GLY B 128 ALA B 135 1 8 HELIX 12 12 ALA B 143 ALA B 149 1 7 HELIX 13 13 PRO B 150 GLY B 153 5 4 HELIX 14 14 GLU B 170 ALA B 174 5 5 HELIX 15 15 HIS B 228 PHE B 240 1 13 HELIX 16 16 ARG B 256 LYS B 268 1 13 SHEET 1 A 8 ASP A 43 PHE A 46 0 SHEET 2 A 8 LEU A 49 ALA A 55 -1 O LEU A 49 N PHE A 46 SHEET 3 A 8 VAL A 58 MET A 67 -1 O GLN A 60 N ARG A 52 SHEET 4 A 8 GLY A 71 ASP A 82 -1 O GLY A 71 N MET A 67 SHEET 5 A 8 ARG A 85 VAL A 89 -1 O ARG A 85 N ASP A 82 SHEET 6 A 8 VAL A 113 VAL A 117 1 O ALA A 114 N VAL A 86 SHEET 7 A 8 ALA A 138 ASN A 142 1 O TYR A 140 N ALA A 116 SHEET 8 A 8 HIS A 159 LEU A 161 1 O LEU A 161 N ALA A 141 SHEET 1 B 4 LEU A 180 PHE A 183 0 SHEET 2 B 4 THR A 195 ILE A 198 -1 O GLY A 197 N LYS A 181 SHEET 3 B 4 ILE A 203 GLY A 207 -1 O PHE A 205 N VAL A 196 SHEET 4 B 4 MET A 245 MET A 248 1 O VAL A 247 N GLY A 206 SHEET 1 C 8 ASP B 43 PHE B 46 0 SHEET 2 C 8 LEU B 49 ALA B 55 -1 O PHE B 51 N GLN B 44 SHEET 3 C 8 VAL B 58 MET B 67 -1 O VAL B 58 N LEU B 54 SHEET 4 C 8 GLY B 71 ASP B 82 -1 O ILE B 79 N TRP B 59 SHEET 5 C 8 ARG B 85 VAL B 89 -1 O VAL B 89 N LEU B 78 SHEET 6 C 8 VAL B 113 VAL B 117 1 O VAL B 117 N VAL B 88 SHEET 7 C 8 ALA B 138 ASN B 142 1 O TYR B 140 N ALA B 116 SHEET 8 C 8 HIS B 159 LEU B 161 1 O LEU B 161 N ALA B 141 SHEET 1 D 4 LEU B 180 PHE B 183 0 SHEET 2 D 4 THR B 195 ILE B 198 -1 O THR B 195 N PHE B 183 SHEET 3 D 4 ILE B 203 PHE B 205 -1 O PHE B 205 N VAL B 196 SHEET 4 D 4 MET B 245 VAL B 247 1 O VAL B 247 N ALA B 204 LINK NE2 HIS A 120 ZN ZN A 302 1555 1555 2.17 LINK ND1 HIS A 122 ZN ZN A 302 1555 1555 1.97 LINK OD2 ASP A 124 ZN ZN A 303 1555 1555 2.14 LINK OE2 GLU A 152 ZN ZN A 304 1555 1555 2.19 LINK NE2 HIS A 189 ZN ZN A 302 1555 1555 1.99 LINK SG CYS A 208 ZN ZN A 303 1555 1555 2.38 LINK OD2 ASP A 223 ZN ZN A 304 1555 1555 2.28 LINK NE2 HIS A 250 ZN ZN A 303 1555 1555 2.04 LINK O4 PNK A 301 ZN ZN A 302 1555 1555 2.45 LINK O2 PNK A 301 ZN ZN A 303 1555 1555 2.19 LINK N1 PNK A 301 ZN ZN A 303 1555 1555 2.20 LINK ZN ZN A 302 O HOH A 401 1555 1555 1.98 LINK ZN ZN A 304 O HOH A 475 1555 1555 2.49 LINK NE2 HIS B 120 ZN ZN B 303 1555 1555 2.16 LINK ND1 HIS B 122 ZN ZN B 303 1555 1555 2.00 LINK OD2 ASP B 124 ZN ZN B 302 1555 1555 2.09 LINK OE2 GLU B 152 ZN ZN B 304 1555 1555 2.13 LINK OE1 GLU B 152 ZN ZN B 304 1555 1555 2.70 LINK NE2 HIS B 189 ZN ZN B 303 1555 1555 2.03 LINK SG CYS B 208 ZN ZN B 302 1555 1555 2.35 LINK OD2 ASP B 223 ZN ZN B 304 1555 1555 2.10 LINK NE2 HIS B 250 ZN ZN B 302 1555 1555 2.01 LINK O1 PNK B 301 ZN ZN B 302 1555 1555 2.15 LINK N1 PNK B 301 ZN ZN B 302 1555 1555 2.23 LINK O3 PNK B 301 ZN ZN B 303 1555 1555 2.44 LINK ZN ZN B 303 O HOH B 401 1555 1555 1.93 LINK ZN ZN B 304 O HOH B 488 1555 1555 1.87 SITE 1 AC1 19 LEU A 65 MET A 67 TRP A 93 HIS A 122 SITE 2 AC1 19 GLN A 123 ASP A 124 HIS A 189 CYS A 208 SITE 3 AC1 19 LYS A 211 GLY A 219 ASN A 220 HIS A 250 SITE 4 AC1 19 ZN A 302 ZN A 303 HOH A 401 HOH A 489 SITE 5 AC1 19 HOH A 491 THR B 34 GLY B 69 SITE 1 AC2 5 HIS A 120 HIS A 122 HIS A 189 PNK A 301 SITE 2 AC2 5 HOH A 401 SITE 1 AC3 4 ASP A 124 CYS A 208 HIS A 250 PNK A 301 SITE 1 AC4 4 GLU A 152 ASP A 223 HOH A 475 GLU B 227 SITE 1 AC5 19 THR A 34 GLY A 69 LEU B 65 MET B 67 SITE 2 AC5 19 TRP B 93 HIS B 122 GLN B 123 ASP B 124 SITE 3 AC5 19 HIS B 189 CYS B 208 LYS B 211 GLY B 219 SITE 4 AC5 19 ASN B 220 HIS B 250 ZN B 302 ZN B 303 SITE 5 AC5 19 HOH B 401 HOH B 427 HOH B 441 SITE 1 AC6 5 ASP B 124 CYS B 208 HIS B 250 PNK B 301 SITE 2 AC6 5 HOH B 401 SITE 1 AC7 5 HIS B 120 HIS B 122 HIS B 189 PNK B 301 SITE 2 AC7 5 HOH B 401 SITE 1 AC8 4 GLU A 227 GLU B 152 ASP B 223 HOH B 488 CRYST1 39.030 79.490 134.210 90.00 90.00 90.00 P 21 21 21 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 0.025621 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012580 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007451 0.00000