PDB Short entry for 3U1Y HEADER HYDROLASE/HYDROLASE INHIBITOR 30-SEP-11 3U1Y TITLE POTENT INHIBITORS OF LPXC FOR THE TREATMENT OF GRAM-NEGATIVE TITLE 2 INFECTIONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-3-O-[3-HYDROXYMYRISTOYL] N-ACETYLGLUCOSAMINE COMPND 3 DEACETYLASE; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: PROTEIN ENVA, UDP-3-O-ACYL-GLCNAC DEACETYLASE; COMPND 6 EC: 3.5.1.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 GENE: LPXC, ENVA, PA4406; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PSEUDOMONAS AERUGINOSA, LPXC, GRAM NEGATIVE, HYDROLASE-HYDROLASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.BROWN,J.ABRAMITE,S.LIU REVDAT 3 13-SEP-23 3U1Y 1 REMARK SEQADV LINK REVDAT 2 02-JAN-13 3U1Y 1 JRNL REVDAT 1 04-JAN-12 3U1Y 0 JRNL AUTH M.F.BROWN,U.REILLY,J.A.ABRAMITE,J.T.ARCARI,R.OLIVER, JRNL AUTH 2 R.A.BARHAM,Y.CHE,J.M.CHEN,E.M.COLLANTES,S.W.CHUNG, JRNL AUTH 3 C.DESBONNET,J.DOTY,M.DOROSKI,J.J.ENGTRAKUL,T.M.HARRIS, JRNL AUTH 4 M.HUBAND,J.D.KNAFELS,K.L.LEACH,S.LIU,A.MARFAT,A.MARRA, JRNL AUTH 5 E.MCELROY,M.MELNICK,C.A.MENARD,J.I.MONTGOMERY,L.MULLINS, JRNL AUTH 6 M.C.NOE,J.O'DONNELL,J.PENZIEN,M.S.PLUMMER,L.M.PRICE, JRNL AUTH 7 V.SHANMUGASUNDARAM,C.THOMA,D.P.UCCELLO,J.S.WARMUS,D.G.WISHKA JRNL TITL POTENT INHIBITORS OF LPXC FOR THE TREATMENT OF GRAM-NEGATIVE JRNL TITL 2 INFECTIONS. JRNL REF J.MED.CHEM. V. 55 914 2012 JRNL REFN ISSN 0022-2623 JRNL PMID 22175825 JRNL DOI 10.1021/JM2014748 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 37790 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) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1893 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 19 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.06 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 0.97 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2565 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2370 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2426 REMARK 3 BIN R VALUE (WORKING SET) : 0.2364 REMARK 3 BIN FREE R VALUE : 0.2477 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.42 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 139 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4668 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 71 REMARK 3 SOLVENT ATOMS : 312 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.93 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.21480 REMARK 3 B22 (A**2) : -6.11590 REMARK 3 B33 (A**2) : 4.90110 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.269 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.215 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4846 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 6549 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1715 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 128 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 714 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4846 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 623 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 5683 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.05 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.00 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 16.26 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|1 - A|400 } REMARK 3 ORIGIN FOR THE GROUP (A): 10.9839 3.1751 41.7302 REMARK 3 T TENSOR REMARK 3 T11: -0.0864 T22: -0.0447 REMARK 3 T33: -0.0807 T12: 0.0005 REMARK 3 T13: -0.0291 T23: 0.0137 REMARK 3 L TENSOR REMARK 3 L11: 0.5653 L22: 0.7783 REMARK 3 L33: 1.4487 L12: 0.1165 REMARK 3 L13: -0.2588 L23: -0.4636 REMARK 3 S TENSOR REMARK 3 S11: -0.0121 S12: 0.0340 S13: -0.0228 REMARK 3 S21: -0.1231 S22: 0.0336 S23: 0.0795 REMARK 3 S31: 0.1200 S32: 0.0131 S33: -0.0215 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|1 - B|400 } REMARK 3 ORIGIN FOR THE GROUP (A): 25.1913 36.5582 11.6877 REMARK 3 T TENSOR REMARK 3 T11: -0.0546 T22: -0.0490 REMARK 3 T33: -0.0749 T12: 0.0133 REMARK 3 T13: 0.0201 T23: 0.0150 REMARK 3 L TENSOR REMARK 3 L11: 0.9188 L22: 0.5700 REMARK 3 L33: 1.4073 L12: -0.0280 REMARK 3 L13: 0.3905 L23: -0.2167 REMARK 3 S TENSOR REMARK 3 S11: 0.0009 S12: -0.0547 S13: -0.0490 REMARK 3 S21: -0.0404 S22: 0.0001 S23: -0.0314 REMARK 3 S31: 0.1341 S32: -0.0555 S33: -0.0011 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3U1Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000068203. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-AUG-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID 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 : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37925 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 1.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2VES REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 17.99750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 109.80850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.19800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 109.80850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 17.99750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.19800 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 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 35.99500 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 35.19800 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 109.80850 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 MET A 62 34.12 -142.43 REMARK 500 SER A 63 172.47 176.14 REMARK 500 MET A 103 -126.09 60.67 REMARK 500 ASP A 159 83.70 -154.43 REMARK 500 MET B 62 33.05 -142.24 REMARK 500 SER B 63 172.94 178.27 REMARK 500 MET B 103 -126.70 58.92 REMARK 500 ASP B 159 84.97 -150.73 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 400 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 78 NE2 REMARK 620 2 HIS A 237 NE2 93.2 REMARK 620 3 ASP A 241 OD1 94.0 94.5 REMARK 620 4 ASP A 241 OD2 147.3 92.1 53.4 REMARK 620 5 03I A 405 O28 95.6 164.3 97.9 87.5 REMARK 620 6 03I A 405 O24 125.0 93.7 139.5 86.7 70.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 300 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS B 3 NZ REMARK 620 2 GLU B 123 OE1 112.9 REMARK 620 3 GLU B 123 OE2 86.8 53.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 400 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 78 NE2 REMARK 620 2 HIS B 237 NE2 94.2 REMARK 620 3 ASP B 241 OD1 95.1 96.9 REMARK 620 4 ASP B 241 OD2 149.2 93.2 54.4 REMARK 620 5 03I B 405 O28 94.5 162.5 97.4 87.1 REMARK 620 6 03I B 405 O24 122.8 92.7 140.1 86.6 69.8 REMARK 620 N 1 2 3 4 5 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 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 03I A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 03I B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 300 DBREF 3U1Y A 1 299 UNP P47205 LPXC_PSEAE 1 299 DBREF 3U1Y B 1 299 UNP P47205 LPXC_PSEAE 1 299 SEQADV 3U1Y SER A 40 UNP P47205 CYS 40 ENGINEERED MUTATION SEQADV 3U1Y SER B 40 UNP P47205 CYS 40 ENGINEERED MUTATION SEQRES 1 A 299 MET ILE LYS GLN ARG THR LEU LYS ASN ILE ILE ARG ALA SEQRES 2 A 299 THR GLY VAL GLY LEU HIS SER GLY GLU LYS VAL TYR LEU SEQRES 3 A 299 THR LEU LYS PRO ALA PRO VAL ASP THR GLY ILE VAL PHE SEQRES 4 A 299 SER ARG THR ASP LEU ASP PRO VAL VAL GLU ILE PRO ALA SEQRES 5 A 299 ARG ALA GLU ASN VAL GLY GLU THR THR MET SER THR THR SEQRES 6 A 299 LEU VAL LYS GLY ASP VAL LYS VAL ASP THR VAL GLU HIS SEQRES 7 A 299 LEU LEU SER ALA MET ALA GLY LEU GLY ILE ASP ASN ALA SEQRES 8 A 299 TYR VAL GLU LEU SER ALA SER GLU VAL PRO ILE MET ASP SEQRES 9 A 299 GLY SER ALA GLY PRO PHE VAL PHE LEU ILE GLN SER ALA SEQRES 10 A 299 GLY LEU GLN GLU GLN GLU ALA ALA LYS LYS PHE ILE ARG SEQRES 11 A 299 ILE LYS ARG GLU VAL SER VAL GLU GLU GLY ASP LYS ARG SEQRES 12 A 299 ALA VAL PHE VAL PRO PHE ASP GLY PHE LYS VAL SER PHE SEQRES 13 A 299 GLU ILE ASP PHE ASP HIS PRO VAL PHE ARG GLY ARG THR SEQRES 14 A 299 GLN GLN ALA SER VAL ASP PHE SER SER THR SER PHE VAL SEQRES 15 A 299 LYS GLU VAL SER ARG ALA ARG THR PHE GLY PHE MET ARG SEQRES 16 A 299 ASP ILE GLU TYR LEU ARG SER GLN ASN LEU ALA LEU GLY SEQRES 17 A 299 GLY SER VAL GLU ASN ALA ILE VAL VAL ASP GLU ASN ARG SEQRES 18 A 299 VAL LEU ASN GLU ASP GLY LEU ARG TYR GLU ASP GLU PHE SEQRES 19 A 299 VAL LYS HIS LYS ILE LEU ASP ALA ILE GLY ASP LEU TYR SEQRES 20 A 299 LEU LEU GLY ASN SER LEU ILE GLY GLU PHE ARG GLY PHE SEQRES 21 A 299 LYS SER GLY HIS ALA LEU ASN ASN GLN LEU LEU ARG THR SEQRES 22 A 299 LEU ILE ALA ASP LYS ASP ALA TRP GLU VAL VAL THR PHE SEQRES 23 A 299 GLU ASP ALA ARG THR ALA PRO ILE SER TYR MET ARG PRO SEQRES 1 B 299 MET ILE LYS GLN ARG THR LEU LYS ASN ILE ILE ARG ALA SEQRES 2 B 299 THR GLY VAL GLY LEU HIS SER GLY GLU LYS VAL TYR LEU SEQRES 3 B 299 THR LEU LYS PRO ALA PRO VAL ASP THR GLY ILE VAL PHE SEQRES 4 B 299 SER ARG THR ASP LEU ASP PRO VAL VAL GLU ILE PRO ALA SEQRES 5 B 299 ARG ALA GLU ASN VAL GLY GLU THR THR MET SER THR THR SEQRES 6 B 299 LEU VAL LYS GLY ASP VAL LYS VAL ASP THR VAL GLU HIS SEQRES 7 B 299 LEU LEU SER ALA MET ALA GLY LEU GLY ILE ASP ASN ALA SEQRES 8 B 299 TYR VAL GLU LEU SER ALA SER GLU VAL PRO ILE MET ASP SEQRES 9 B 299 GLY SER ALA GLY PRO PHE VAL PHE LEU ILE GLN SER ALA SEQRES 10 B 299 GLY LEU GLN GLU GLN GLU ALA ALA LYS LYS PHE ILE ARG SEQRES 11 B 299 ILE LYS ARG GLU VAL SER VAL GLU GLU GLY ASP LYS ARG SEQRES 12 B 299 ALA VAL PHE VAL PRO PHE ASP GLY PHE LYS VAL SER PHE SEQRES 13 B 299 GLU ILE ASP PHE ASP HIS PRO VAL PHE ARG GLY ARG THR SEQRES 14 B 299 GLN GLN ALA SER VAL ASP PHE SER SER THR SER PHE VAL SEQRES 15 B 299 LYS GLU VAL SER ARG ALA ARG THR PHE GLY PHE MET ARG SEQRES 16 B 299 ASP ILE GLU TYR LEU ARG SER GLN ASN LEU ALA LEU GLY SEQRES 17 B 299 GLY SER VAL GLU ASN ALA ILE VAL VAL ASP GLU ASN ARG SEQRES 18 B 299 VAL LEU ASN GLU ASP GLY LEU ARG TYR GLU ASP GLU PHE SEQRES 19 B 299 VAL LYS HIS LYS ILE LEU ASP ALA ILE GLY ASP LEU TYR SEQRES 20 B 299 LEU LEU GLY ASN SER LEU ILE GLY GLU PHE ARG GLY PHE SEQRES 21 B 299 LYS SER GLY HIS ALA LEU ASN ASN GLN LEU LEU ARG THR SEQRES 22 B 299 LEU ILE ALA ASP LYS ASP ALA TRP GLU VAL VAL THR PHE SEQRES 23 B 299 GLU ASP ALA ARG THR ALA PRO ILE SER TYR MET ARG PRO HET ZN A 400 1 HET 03I A 405 34 HET ZN B 400 1 HET 03I B 405 34 HET ZN B 300 1 HETNAM ZN ZINC ION HETNAM 03I (2R)-N-HYDROXY-2-METHYL-2-(METHYLSULFONYL)-4-{4'-[3- HETNAM 2 03I (MORPHOLIN-4-YL)PROPOXY]BIPHENYL-4-YL}BUTANAMIDE FORMUL 3 ZN 3(ZN 2+) FORMUL 4 03I 2(C25 H34 N2 O6 S) FORMUL 8 HOH *312(H2 O) HELIX 1 1 ARG A 53 GLU A 55 5 3 HELIX 2 2 VAL A 76 LEU A 86 1 11 HELIX 3 3 ALA A 107 GLY A 118 1 12 HELIX 4 4 SER A 180 VAL A 185 1 6 HELIX 5 5 ASP A 196 GLN A 203 1 8 HELIX 6 6 ASP A 232 TYR A 247 1 16 HELIX 7 7 LEU A 248 GLY A 250 5 3 HELIX 8 8 GLY A 263 ASP A 277 1 15 HELIX 9 9 ASP A 288 ALA A 292 5 5 HELIX 10 10 ARG B 53 GLU B 55 5 3 HELIX 11 11 VAL B 76 LEU B 86 1 11 HELIX 12 12 ALA B 107 GLY B 118 1 12 HELIX 13 13 SER B 180 VAL B 185 1 6 HELIX 14 14 ASP B 196 SER B 202 1 7 HELIX 15 15 ASP B 232 TYR B 247 1 16 HELIX 16 16 LEU B 248 GLY B 250 5 3 HELIX 17 17 GLY B 263 ASP B 277 1 15 HELIX 18 18 ASP B 288 ALA B 292 5 5 SHEET 1 A 2 LYS A 3 LEU A 7 0 SHEET 2 A 2 LEU A 119 ALA A 125 -1 O GLN A 120 N THR A 6 SHEET 1 B 5 ILE A 11 VAL A 16 0 SHEET 2 B 5 LYS A 23 PRO A 30 -1 O LEU A 26 N ALA A 13 SHEET 3 B 5 ALA A 91 LEU A 95 -1 O GLU A 94 N THR A 27 SHEET 4 B 5 ILE A 37 ARG A 41 1 N VAL A 38 O VAL A 93 SHEET 5 B 5 VAL A 48 PRO A 51 -1 O ILE A 50 N PHE A 39 SHEET 1 C 3 VAL A 57 GLU A 59 0 SHEET 2 C 3 THR A 65 LYS A 68 -1 O THR A 65 N GLY A 58 SHEET 3 C 3 VAL A 71 VAL A 73 -1 O VAL A 73 N LEU A 66 SHEET 1 D 5 VAL A 135 GLU A 139 0 SHEET 2 D 5 LYS A 142 VAL A 147 -1 O PHE A 146 N VAL A 135 SHEET 3 D 5 SER A 252 PHE A 260 -1 O PHE A 260 N ARG A 143 SHEET 4 D 5 PHE A 152 GLU A 157 1 N SER A 155 O PHE A 257 SHEET 5 D 5 GLN A 171 ASP A 175 -1 O VAL A 174 N VAL A 154 SHEET 1 E 5 VAL A 135 GLU A 139 0 SHEET 2 E 5 LYS A 142 VAL A 147 -1 O PHE A 146 N VAL A 135 SHEET 3 E 5 SER A 252 PHE A 260 -1 O PHE A 260 N ARG A 143 SHEET 4 E 5 PHE A 128 ILE A 131 1 N ILE A 131 O ILE A 254 SHEET 5 E 5 TRP A 281 VAL A 284 -1 O GLU A 282 N ARG A 130 SHEET 1 F 2 PHE A 191 PHE A 193 0 SHEET 2 F 2 ILE A 215 VAL A 217 1 O VAL A 217 N GLY A 192 SHEET 1 G 2 LYS B 3 LEU B 7 0 SHEET 2 G 2 LEU B 119 ALA B 125 -1 O GLN B 120 N THR B 6 SHEET 1 H 5 ILE B 11 VAL B 16 0 SHEET 2 H 5 LYS B 23 PRO B 30 -1 O LEU B 26 N ALA B 13 SHEET 3 H 5 ALA B 91 LEU B 95 -1 O GLU B 94 N THR B 27 SHEET 4 H 5 ILE B 37 ARG B 41 1 N VAL B 38 O VAL B 93 SHEET 5 H 5 VAL B 48 PRO B 51 -1 O ILE B 50 N PHE B 39 SHEET 1 I 3 VAL B 57 GLU B 59 0 SHEET 2 I 3 THR B 65 LYS B 68 -1 O THR B 65 N GLY B 58 SHEET 3 I 3 VAL B 71 VAL B 73 -1 O VAL B 73 N LEU B 66 SHEET 1 J 5 VAL B 135 GLU B 139 0 SHEET 2 J 5 LYS B 142 VAL B 147 -1 O PHE B 146 N VAL B 135 SHEET 3 J 5 SER B 252 PHE B 260 -1 O PHE B 260 N ARG B 143 SHEET 4 J 5 PHE B 152 GLU B 157 1 N SER B 155 O PHE B 257 SHEET 5 J 5 GLN B 171 ASP B 175 -1 O VAL B 174 N VAL B 154 SHEET 1 K 5 VAL B 135 GLU B 139 0 SHEET 2 K 5 LYS B 142 VAL B 147 -1 O PHE B 146 N VAL B 135 SHEET 3 K 5 SER B 252 PHE B 260 -1 O PHE B 260 N ARG B 143 SHEET 4 K 5 PHE B 128 ILE B 131 1 N ILE B 129 O SER B 252 SHEET 5 K 5 TRP B 281 VAL B 284 -1 O VAL B 284 N PHE B 128 SHEET 1 L 2 PHE B 191 PHE B 193 0 SHEET 2 L 2 ILE B 215 VAL B 217 1 O VAL B 217 N GLY B 192 LINK NE2 HIS A 78 ZN ZN A 400 1555 1555 2.07 LINK NE2 HIS A 237 ZN ZN A 400 1555 1555 2.09 LINK OD1 ASP A 241 ZN ZN A 400 1555 1555 2.06 LINK OD2 ASP A 241 ZN ZN A 400 1555 1555 2.69 LINK ZN ZN A 400 O28 03I A 405 1555 1555 2.13 LINK ZN ZN A 400 O24 03I A 405 1555 1555 2.19 LINK NZ LYS B 3 ZN ZN B 300 1555 1555 2.06 LINK NE2 HIS B 78 ZN ZN B 400 1555 1555 2.06 LINK OE1 GLU B 123 ZN ZN B 300 1555 1555 2.04 LINK OE2 GLU B 123 ZN ZN B 300 1555 1555 2.67 LINK NE2 HIS B 237 ZN ZN B 400 1555 1555 2.08 LINK OD1 ASP B 241 ZN ZN B 400 1555 1555 2.02 LINK OD2 ASP B 241 ZN ZN B 400 1555 1555 2.65 LINK ZN ZN B 400 O28 03I B 405 1555 1555 2.17 LINK ZN ZN B 400 O24 03I B 405 1555 1555 2.22 CISPEP 1 ASP A 45 PRO A 46 0 1.20 CISPEP 2 ASP B 45 PRO B 46 0 1.67 SITE 1 AC1 4 HIS A 78 HIS A 237 ASP A 241 03I A 405 SITE 1 AC2 14 MET A 62 GLU A 77 HIS A 78 THR A 190 SITE 2 AC2 14 PHE A 191 GLY A 192 PHE A 193 VAL A 216 SITE 3 AC2 14 HIS A 237 LYS A 238 ASP A 241 HIS A 264 SITE 4 AC2 14 HOH A 337 ZN A 400 SITE 1 AC3 4 HIS B 78 HIS B 237 ASP B 241 03I B 405 SITE 1 AC4 14 MET B 62 GLU B 77 HIS B 78 THR B 190 SITE 2 AC4 14 PHE B 191 GLY B 192 PHE B 193 VAL B 216 SITE 3 AC4 14 HIS B 237 LYS B 238 ASP B 241 HIS B 264 SITE 4 AC4 14 HOH B 318 ZN B 400 SITE 1 AC5 4 LYS A 3 GLU A 123 LYS B 3 GLU B 123 CRYST1 35.995 70.396 219.617 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 0.027782 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014205 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004553 0.00000