HEADER HYDROLASE 31-AUG-19 6SP7 TITLE CRYSTAL STRUCTURE OF THE VIM-2 ACQUIRED METALLO-BETA-LACTAMASE IN TITLE 2 COMPLEX WITH TANIBORBACTAM (VNRX-5133) COMPND MOL_ID: 1; COMPND 2 MOLECULE: METALLO-BETA-LACTAMASE VIM-2; COMPND 3 CHAIN: A, E; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET-9A KEYWDS METALLO-CARBAPENEMASE, ANTIBIOTIC RESISTANCE, METALLO-BETA-LACTAMASE KEYWDS 2 SUPERFAMILY, ZINC-HYDROLASE, TANIBORBACTAM, BETA-LACTAMASE KEYWDS 3 INHIBITOR, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.D.DOCQUIER,C.POZZI,F.DE LUCA,M.BENVENUTI,S.MANGANI REVDAT 3 24-JAN-24 6SP7 1 LINK REVDAT 2 08-APR-20 6SP7 1 JRNL REVDAT 1 22-JAN-20 6SP7 0 JRNL AUTH B.LIU,R.E.L.TROUT,G.H.CHU,D.MCGARRY,R.W.JACKSON,J.C.HAMRICK, JRNL AUTH 2 D.M.DAIGLE,S.M.CUSICK,C.POZZI,F.DE LUCA,M.BENVENUTI, JRNL AUTH 3 S.MANGANI,J.D.DOCQUIER,W.J.WEISS,D.C.PEVEAR,L.XERRI, JRNL AUTH 4 C.J.BURNS JRNL TITL DISCOVERY OF TANIBORBACTAM (VNRX-5133): A BROAD-SPECTRUM JRNL TITL 2 SERINE- AND METALLO-BETA-LACTAMASE INHIBITOR FOR JRNL TITL 3 CARBAPENEM-RESISTANT BACTERIAL INFECTIONS. JRNL REF J.MED.CHEM. V. 63 2789 2020 JRNL REFN ISSN 0022-2623 JRNL PMID 31765155 JRNL DOI 10.1021/ACS.JMEDCHEM.9B01518 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.C.HAMRICK,J.D.DOCQUIER,T.UEHARA,C.L.MYERS,D.A.SIX, REMARK 1 AUTH 2 C.L.CHATWIN,K.J.JOHN,S.F.VERNACCHIO,S.M.CUSICK,R.E.L.TROUT, REMARK 1 AUTH 3 C.POZZI,F.DE LUCA,M.BENVENUTI,S.MANGANI,B.LIU,R.W.JACKSON, REMARK 1 AUTH 4 G.MOECK,L.XERRI,C.J.BURNS,D.C.PEVEAR,D.M.DAIGLE REMARK 1 TITL VNRX-5133 (TANIBORBACTAM), A BROAD-SPECTRUM INHIBITOR OF REMARK 1 TITL 2 SERINE- AND METALLO-BETA-LACTAMASES, RESTORES ACTIVITY OF REMARK 1 TITL 3 CEFEPIME IN ENTEROBACTERALES AND PSEUDOMONAS AERUGINOSA. REMARK 1 REF ANTIMICROB. AGENTS 2019 REMARK 1 REF 2 CHEMOTHER. REMARK 1 REFN ESSN 1098-6596 REMARK 1 PMID 31871094 REMARK 1 DOI 10.1128/AAC.01963-19 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 28.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 34979 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1894 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) : 2574 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2800 REMARK 3 BIN FREE R VALUE SET COUNT : 114 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3466 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 80 REMARK 3 SOLVENT ATOMS : 200 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.01000 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): 0.152 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.115 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.815 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3635 ; 0.018 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3384 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4978 ; 2.067 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7782 ; 1.116 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 462 ; 6.813 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 154 ;37.201 ;24.026 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 518 ;14.894 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;21.684 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 569 ; 0.175 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4172 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 806 ; 0.002 ; 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): 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 : 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6SP7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-SEP-19. REMARK 100 THE DEPOSITION ID IS D_1292104030. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-14 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 : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97949 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM 7.1.1 REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36880 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 55.609 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08000 REMARK 200 FOR THE DATA SET : 7.4000 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 (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.38300 REMARK 200 R SYM FOR SHELL (I) : 0.38300 REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP 11.2.08 REMARK 200 STARTING MODEL: 1KO3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M CACODILATE (PH 6.5), 5 MM DTT , REMARK 280 0.2 M NA-ACETATE, 26% PEG 8000, VAPOR DIFFUSION, SITTING 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 51.45500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.52000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 51.45500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.52000 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: E 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 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 84 148.52 78.68 REMARK 500 TRP A 87 63.75 72.22 REMARK 500 ALA A 195 -113.23 -154.82 REMARK 500 ASP E 84 147.23 72.35 REMARK 500 ALA E 86 37.03 -99.56 REMARK 500 ALA E 195 -105.33 -154.26 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 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 116 NE2 REMARK 620 2 HIS A 118 ND1 97.9 REMARK 620 3 HIS A 196 NE2 101.5 119.1 REMARK 620 4 K9B A 306 O06 102.4 107.9 122.8 REMARK 620 5 K9B A 306 O07 162.5 90.6 87.5 60.3 REMARK 620 N 1 2 3 4 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 ASP A 120 OD2 REMARK 620 2 CYS A 221 SG 94.9 REMARK 620 3 HIS A 263 NE2 82.0 105.3 REMARK 620 4 K9B A 306 O08 91.1 144.4 110.3 REMARK 620 5 K9B A 306 O12 164.8 99.1 88.6 81.0 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 HIS A 170 NE2 REMARK 620 2 HIS A 285 ND1 48.2 REMARK 620 3 ACT A 304 OXT 110.4 96.0 REMARK 620 4 ACT A 305 O 126.6 90.5 105.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN E 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS E 116 NE2 REMARK 620 2 HIS E 118 ND1 101.7 REMARK 620 3 HIS E 196 NE2 103.4 118.9 REMARK 620 4 K9B E 306 O06 103.6 115.7 111.0 REMARK 620 5 K9B E 306 O07 162.3 85.3 86.9 59.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN E 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP E 120 OD2 REMARK 620 2 CYS E 221 SG 95.5 REMARK 620 3 HIS E 263 NE2 87.9 109.0 REMARK 620 4 K9B E 306 O12 159.4 103.9 79.2 REMARK 620 5 K9B E 306 O08 92.4 146.9 103.3 75.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN E 303 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS E 170 NE2 REMARK 620 2 HIS E 285 ND1 47.1 REMARK 620 3 ACT E 304 OXT 108.1 92.8 REMARK 620 4 ACT E 305 O 126.0 92.2 107.5 REMARK 620 5 ACT E 305 OXT 91.2 92.1 157.5 50.4 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K9B A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN E 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN E 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN E 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT E 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT E 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K9B E 306 DBREF 6SP7 A 30 295 UNP S5M6K4 S5M6K4_PSEAI 5 234 DBREF 6SP7 E 30 295 UNP S5M6K4 S5M6K4_PSEAI 5 234 SEQRES 1 A 230 GLU TYR PRO THR VAL SER GLU ILE PRO VAL GLY GLU VAL SEQRES 2 A 230 ARG LEU TYR GLN ILE ALA ASP GLY VAL TRP SER HIS ILE SEQRES 3 A 230 ALA THR GLN SER PHE ASP GLY ALA VAL TYR PRO SER ASN SEQRES 4 A 230 GLY LEU ILE VAL ARG ASP GLY ASP GLU LEU LEU LEU ILE SEQRES 5 A 230 ASP THR ALA TRP GLY ALA LYS ASN THR ALA ALA LEU LEU SEQRES 6 A 230 ALA GLU ILE GLU LYS GLN ILE GLY LEU PRO VAL THR ARG SEQRES 7 A 230 ALA VAL SER THR HIS PHE HIS ASP ASP ARG VAL GLY GLY SEQRES 8 A 230 VAL ASP VAL LEU ARG ALA ALA GLY VAL ALA THR TYR ALA SEQRES 9 A 230 SER PRO SER THR ARG ARG LEU ALA GLU VAL GLU GLY ASN SEQRES 10 A 230 GLU ILE PRO THR HIS SER LEU GLU GLY LEU SER SER SER SEQRES 11 A 230 GLY ASP ALA VAL ARG PHE GLY PRO VAL GLU LEU PHE TYR SEQRES 12 A 230 PRO GLY ALA ALA HIS SER THR ASP ASN LEU VAL VAL TYR SEQRES 13 A 230 VAL PRO SER ALA SER VAL LEU TYR GLY GLY CYS ALA ILE SEQRES 14 A 230 TYR GLU LEU SER ARG THR SER ALA GLY ASN VAL ALA ASP SEQRES 15 A 230 ALA ASP LEU ALA GLU TRP PRO THR SER ILE GLU ARG ILE SEQRES 16 A 230 GLN GLN HIS TYR PRO GLU ALA GLN PHE VAL ILE PRO GLY SEQRES 17 A 230 HIS GLY LEU PRO GLY GLY LEU ASP LEU LEU LYS HIS THR SEQRES 18 A 230 THR ASN VAL VAL LYS ALA HIS THR ASN SEQRES 1 E 230 GLU TYR PRO THR VAL SER GLU ILE PRO VAL GLY GLU VAL SEQRES 2 E 230 ARG LEU TYR GLN ILE ALA ASP GLY VAL TRP SER HIS ILE SEQRES 3 E 230 ALA THR GLN SER PHE ASP GLY ALA VAL TYR PRO SER ASN SEQRES 4 E 230 GLY LEU ILE VAL ARG ASP GLY ASP GLU LEU LEU LEU ILE SEQRES 5 E 230 ASP THR ALA TRP GLY ALA LYS ASN THR ALA ALA LEU LEU SEQRES 6 E 230 ALA GLU ILE GLU LYS GLN ILE GLY LEU PRO VAL THR ARG SEQRES 7 E 230 ALA VAL SER THR HIS PHE HIS ASP ASP ARG VAL GLY GLY SEQRES 8 E 230 VAL ASP VAL LEU ARG ALA ALA GLY VAL ALA THR TYR ALA SEQRES 9 E 230 SER PRO SER THR ARG ARG LEU ALA GLU VAL GLU GLY ASN SEQRES 10 E 230 GLU ILE PRO THR HIS SER LEU GLU GLY LEU SER SER SER SEQRES 11 E 230 GLY ASP ALA VAL ARG PHE GLY PRO VAL GLU LEU PHE TYR SEQRES 12 E 230 PRO GLY ALA ALA HIS SER THR ASP ASN LEU VAL VAL TYR SEQRES 13 E 230 VAL PRO SER ALA SER VAL LEU TYR GLY GLY CYS ALA ILE SEQRES 14 E 230 TYR GLU LEU SER ARG THR SER ALA GLY ASN VAL ALA ASP SEQRES 15 E 230 ALA ASP LEU ALA GLU TRP PRO THR SER ILE GLU ARG ILE SEQRES 16 E 230 GLN GLN HIS TYR PRO GLU ALA GLN PHE VAL ILE PRO GLY SEQRES 17 E 230 HIS GLY LEU PRO GLY GLY LEU ASP LEU LEU LYS HIS THR SEQRES 18 E 230 THR ASN VAL VAL LYS ALA HIS THR ASN HET ZN A 301 1 HET ZN A 302 1 HET ZN A 303 1 HET ACT A 304 4 HET ACT A 305 4 HET K9B A 306 29 HET ZN E 301 1 HET ZN E 302 1 HET ZN E 303 1 HET ACT E 304 4 HET ACT E 305 4 HET K9B E 306 29 HETNAM ZN ZINC ION HETNAM ACT ACETATE ION HETNAM K9B (4~{R})-4-[2-[4-(2-AZANYLETHYLAMINO) HETNAM 2 K9B CYCLOHEXYL]ETHANOYLAMINO]-3,3-BIS(OXIDANYL)-2-OXA-3- HETNAM 3 K9B BORANUIDABICYCLO[4.4.0]DECA-1(10),6,8-TRIENE-10- HETNAM 4 K9B CARBOXYLIC ACID FORMUL 3 ZN 6(ZN 2+) FORMUL 6 ACT 4(C2 H3 O2 1-) FORMUL 8 K9B 2(C19 H29 B N3 O6 1-) FORMUL 15 HOH *200(H2 O) HELIX 1 AA1 THR A 33 ILE A 37 5 5 HELIX 2 AA2 GLY A 88 ILE A 104 1 16 HELIX 3 AA3 HIS A 118 GLY A 123 1 6 HELIX 4 AA4 GLY A 124 ALA A 131 1 8 HELIX 5 AA5 SER A 139 GLY A 150 1 12 HELIX 6 AA6 PRO A 209 ALA A 211 5 3 HELIX 7 AA7 CYS A 221 ILE A 223 5 3 HELIX 8 AA8 GLU A 241 TYR A 253 1 13 HELIX 9 AA9 LEU A 280 ASN A 295 1 16 HELIX 10 AB1 THR E 33 ILE E 37 5 5 HELIX 11 AB2 GLY E 88 ILE E 104 1 16 HELIX 12 AB3 HIS E 118 GLY E 123 1 6 HELIX 13 AB4 GLY E 124 ALA E 131 1 8 HELIX 14 AB5 SER E 139 GLY E 150 1 12 HELIX 15 AB6 CYS E 221 ILE E 223 5 3 HELIX 16 AB7 GLU E 241 TYR E 253 1 13 HELIX 17 AB8 LEU E 280 ASN E 295 1 16 SHEET 1 AA1 7 ARG A 43 ALA A 49 0 SHEET 2 AA1 7 VAL A 52 PHE A 61 -1 O ILE A 56 N ARG A 43 SHEET 3 AA1 7 ALA A 64 ASP A 76 -1 O ILE A 73 N TRP A 53 SHEET 4 AA1 7 GLU A 79 ILE A 83 -1 O GLU A 79 N ASP A 76 SHEET 5 AA1 7 VAL A 109 VAL A 113 1 O ARG A 111 N LEU A 82 SHEET 6 AA1 7 ALA A 135 ALA A 138 1 O TYR A 137 N ALA A 112 SHEET 7 AA1 7 HIS A 170 SER A 171 1 O HIS A 170 N THR A 136 SHEET 1 AA2 5 ALA A 181 PHE A 184 0 SHEET 2 AA2 5 VAL A 187 PHE A 190 -1 O LEU A 189 N VAL A 182 SHEET 3 AA2 5 VAL A 202 VAL A 205 -1 O VAL A 202 N PHE A 190 SHEET 4 AA2 5 VAL A 216 GLY A 220 -1 O TYR A 218 N VAL A 203 SHEET 5 AA2 5 PHE A 258 PRO A 261 1 O ILE A 260 N GLY A 219 SHEET 1 AA3 7 ARG E 43 ALA E 49 0 SHEET 2 AA3 7 VAL E 52 PHE E 61 -1 O VAL E 52 N ILE E 48 SHEET 3 AA3 7 ALA E 64 ASP E 76 -1 O TYR E 67 N GLN E 59 SHEET 4 AA3 7 GLU E 79 ILE E 83 -1 O ILE E 83 N LEU E 72 SHEET 5 AA3 7 VAL E 109 VAL E 113 1 O VAL E 113 N LEU E 82 SHEET 6 AA3 7 ALA E 135 ALA E 138 1 O TYR E 137 N ALA E 112 SHEET 7 AA3 7 HIS E 170 SER E 171 1 O HIS E 170 N THR E 136 SHEET 1 AA4 5 ALA E 181 PHE E 184 0 SHEET 2 AA4 5 VAL E 187 PHE E 190 -1 O LEU E 189 N VAL E 182 SHEET 3 AA4 5 VAL E 202 VAL E 205 -1 O TYR E 204 N GLU E 188 SHEET 4 AA4 5 VAL E 216 GLY E 220 -1 O TYR E 218 N VAL E 203 SHEET 5 AA4 5 PHE E 258 PRO E 261 1 O PHE E 258 N LEU E 217 LINK NE2 HIS A 116 ZN ZN A 301 1555 1555 2.07 LINK ND1 HIS A 118 ZN ZN A 301 1555 1555 1.90 LINK OD2 ASP A 120 ZN ZN A 302 1555 1555 2.28 LINK NE2 HIS A 170 ZN ZN A 303 1555 1555 2.17 LINK NE2 HIS A 196 ZN ZN A 301 1555 1555 2.09 LINK SG CYS A 221 ZN ZN A 302 1555 1555 2.28 LINK NE2 HIS A 263 ZN ZN A 302 1555 1555 2.16 LINK ND1 HIS A 285 ZN ZN A 303 1555 4555 2.23 LINK ZN ZN A 301 O06 K9B A 306 1555 1555 1.90 LINK ZN ZN A 301 O07 K9B A 306 1555 1555 2.53 LINK ZN ZN A 302 O08 K9B A 306 1555 1555 1.95 LINK ZN ZN A 302 O12 K9B A 306 1555 1555 2.24 LINK ZN ZN A 303 OXT ACT A 304 1555 1555 1.90 LINK ZN ZN A 303 O ACT A 305 1555 1555 1.93 LINK NE2 HIS E 116 ZN ZN E 301 1555 1555 2.18 LINK ND1 HIS E 118 ZN ZN E 301 1555 1555 2.12 LINK OD2 ASP E 120 ZN ZN E 302 1555 1555 2.29 LINK NE2 HIS E 170 ZN ZN E 303 1555 1555 2.07 LINK NE2 HIS E 196 ZN ZN E 301 1555 1555 2.13 LINK SG CYS E 221 ZN ZN E 302 1555 1555 2.18 LINK NE2 HIS E 263 ZN ZN E 302 1555 1555 2.26 LINK ND1 HIS E 285 ZN ZN E 303 1555 4646 2.24 LINK ZN ZN E 301 O06 K9B E 306 1555 1555 1.96 LINK ZN ZN E 301 O07 K9B E 306 1555 1555 2.51 LINK ZN ZN E 302 O12 K9B E 306 1555 1555 2.33 LINK ZN ZN E 302 O08 K9B E 306 1555 1555 2.02 LINK ZN ZN E 303 OXT ACT E 304 1555 1555 2.04 LINK ZN ZN E 303 O ACT E 305 1555 1555 2.09 LINK ZN ZN E 303 OXT ACT E 305 1555 1555 2.69 SITE 1 AC1 4 HIS A 116 HIS A 118 HIS A 196 K9B A 306 SITE 1 AC2 4 ASP A 120 CYS A 221 HIS A 263 K9B A 306 SITE 1 AC3 4 HIS A 170 HIS A 285 ACT A 304 ACT A 305 SITE 1 AC4 8 ALA A 135 THR A 169 HIS A 170 HIS A 285 SITE 2 AC4 8 ASN A 288 ZN A 303 ACT A 305 HOH A 425 SITE 1 AC5 8 ALA A 135 HIS A 170 HIS A 285 ASN A 288 SITE 2 AC5 8 ZN A 303 ACT A 304 HOH A 424 HOH A 512 SITE 1 AC6 16 PHE A 61 TRP A 87 HIS A 116 HIS A 118 SITE 2 AC6 16 ASP A 120 GLU A 149 HIS A 196 CYS A 221 SITE 3 AC6 16 ASN A 233 ASP A 236 HIS A 263 ZN A 301 SITE 4 AC6 16 ZN A 302 HOH A 416 HOH A 451 HOH A 476 SITE 1 AC7 4 HIS E 116 HIS E 118 HIS E 196 K9B E 306 SITE 1 AC8 4 ASP E 120 CYS E 221 HIS E 263 K9B E 306 SITE 1 AC9 4 HIS E 170 HIS E 285 ACT E 304 ACT E 305 SITE 1 AD1 8 ALA E 135 THR E 169 HIS E 170 ASP E 281 SITE 2 AD1 8 HIS E 285 ZN E 303 ACT E 305 HOH E 422 SITE 1 AD2 6 ALA E 135 HIS E 170 HIS E 285 ASN E 288 SITE 2 AD2 6 ZN E 303 ACT E 304 SITE 1 AD3 17 TRP E 87 HIS E 116 HIS E 118 ASP E 120 SITE 2 AD3 17 GLU E 149 HIS E 196 CYS E 221 GLY E 232 SITE 3 AD3 17 ASN E 233 ASP E 236 HIS E 263 ZN E 301 SITE 4 AD3 17 ZN E 302 HOH E 431 HOH E 436 HOH E 437 SITE 5 AD3 17 HOH E 441 CRYST1 102.910 79.040 67.490 90.00 130.50 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 0.009717 0.000000 0.008299 0.00000 SCALE2 0.000000 0.012652 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019486 0.00000