HEADER HYDROLASE 05-JAN-04 1S17 TITLE IDENTIFICATION OF NOVEL POTENT BICYCLIC PEPTIDE DEFORMYLASE INHIBITORS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE DEFORMYLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PDF, POLYPEPTIDE DEFORMYLASE; COMPND 5 EC: 3.5.1.88; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 GENE: DEF, PA0019; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: GENEHOGS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMH4 KEYWDS PEPTIDE DEFORMYLASE INHIBITOR, RATIONAL DRUG DESIGN, ANTIBIOTIC, KEYWDS 2 PROTEIN-LIGAND COMPLEX, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR V.MOLTENI,X.HE,J.NABAKKA,K.YANG,A.KREUSCH,P.GORDON,B.BURSULAYA, AUTHOR 2 N.S.RYDER,R.GOLDBERG,Y.HE REVDAT 3 13-JUL-11 1S17 1 VERSN REVDAT 2 24-FEB-09 1S17 1 VERSN REVDAT 1 30-MAR-04 1S17 0 JRNL AUTH V.MOLTENI,X.HE,J.NABAKKA,K.YANG,A.KREUSCH,P.GORDON, JRNL AUTH 2 B.BURSULAYA,I.WARNER,T.SHIN,T.BIORAC,N.S.RYDER,R.GOLDBERG, JRNL AUTH 3 J.DOUGHTY,Y.HE JRNL TITL IDENTIFICATION OF NOVEL POTENT BICYCLIC PEPTIDE DEFORMYLASE JRNL TITL 2 INHIBITORS JRNL REF BIOORG.MED.CHEM.LETT. V. 14 1477 2004 JRNL REFN ISSN 0960-894X JRNL PMID 15006385 JRNL DOI 10.1016/J.BMCL.2004.01.014 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.KREUSCH,G.SPRAGGON,C.C.LEE,H.KLOCK,D.MCMULLAN,K.NG,T.SHIN, REMARK 1 AUTH 2 J.VINCENT,I.WARNER,C.ERICSON,S.A.LESLEY REMARK 1 TITL STRUCTURE ANALYSIS OF PEPTIDE DEFORMYLASES FROM REMARK 1 TITL 2 STREPTOCOCCUS PNEUMONIAE, STAPHYLOCOCCUS AUREUS, THERMOTOGA REMARK 1 TITL 3 MARITIMA AND PSEUDOMONAS AERUGINOSA: SNAPSHOTS OF THE OXYGEN REMARK 1 TITL 4 SENSITIVITY OF PEPTIDE DEFORMYLASE REMARK 1 REF J.MOL.BIOL. V. 330 309 2003 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1016/S0022-2836(03)00596-5 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 28955 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 SET) : 0.196 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1455 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE : 0.2800 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 242 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.018 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2670 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 208 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.01000 REMARK 3 B22 (A**2) : -1.46000 REMARK 3 B33 (A**2) : -2.55000 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) : 0.21 REMARK 3 ESD FROM SIGMAA (A) : 0.11 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.26 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.20 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.019 REMARK 3 BOND ANGLES (DEGREES) : 1.80 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.33 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1S17 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JAN-04. REMARK 100 THE RCSB ID CODE IS RCSB021237. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-SEP-02 REMARK 200 TEMPERATURE (KELVIN) : 108 REMARK 200 PH : 5.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : OSMIC MIRRORS REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28955 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 25.680 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 17.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07000 REMARK 200 FOR THE DATA SET : 11.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.41500 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: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1N5N REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, MGSO4, PH 5.9, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 34.50450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 38.43200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.99700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 38.43200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.50450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.99700 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 300 REMARK: THE FUNCTIONAL UNIT IS A MONOMER 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 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 -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 ILE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 168 REMARK 465 MET B -11 REMARK 465 GLY B -10 REMARK 465 SER B -9 REMARK 465 ASP B -8 REMARK 465 LYS B -7 REMARK 465 ILE B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 GLN B 166 REMARK 465 GLN B 167 REMARK 465 ALA B 168 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 GLN A 167 CG CD OE1 NE2 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 GLU B 84 O HOH B 674 2.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG B 13 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES 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 25 -160.21 -100.63 REMARK 500 PRO B 10 31.21 -92.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 579 DISTANCE = 5.13 ANGSTROMS 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 NI A 301 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 134 NE2 REMARK 620 2 CYS A 92 SG 117.2 REMARK 620 3 HIS A 138 NE2 104.5 99.9 REMARK 620 4 GNR A 501 OAN 112.8 84.9 135.0 REMARK 620 5 GNR A 501 OAP 97.8 142.4 82.9 68.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 302 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 134 NE2 REMARK 620 2 HIS B 138 NE2 107.7 REMARK 620 3 GNR B 601 OAP 96.2 86.5 REMARK 620 4 GNR B 601 NAO 85.4 114.7 28.3 REMARK 620 5 CYS B 92 SG 118.9 96.2 141.6 133.1 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 NI A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNR A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNR B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1N5N RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PEPTIDE DEFORMYLASE FROM PSEUDOMONAS REMARK 900 AERUGINOSA REMARK 900 RELATED ID: 1IX1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF P. AERUGINOSA PEPTIDE DEFORMYLASE REMARK 900 COMPLEXED WITH ANTIBIOTIC ACTINONIN DBREF 1S17 A 1 168 UNP Q9I7A8 DEF_PSEAE 1 168 DBREF 1S17 B 1 168 UNP Q9I7A8 DEF_PSEAE 1 168 SEQADV 1S17 MET A -11 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 GLY A -10 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 SER A -9 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 ASP A -8 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 LYS A -7 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 ILE A -6 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS A -5 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS A -4 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS A -3 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS A -2 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS A -1 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS A 0 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 GLU A 84 UNP Q9I7A8 ASP 84 CONFLICT SEQADV 1S17 MET B -11 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 GLY B -10 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 SER B -9 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 ASP B -8 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 LYS B -7 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 ILE B -6 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS B -5 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS B -4 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS B -3 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS B -2 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS B -1 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 HIS B 0 UNP Q9I7A8 EXPRESSION TAG SEQADV 1S17 GLU B 84 UNP Q9I7A8 ASP 84 CONFLICT SEQRES 1 A 180 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MET SEQRES 2 A 180 ALA ILE LEU ASN ILE LEU GLU PHE PRO ASP PRO ARG LEU SEQRES 3 A 180 ARG THR ILE ALA LYS PRO VAL GLU VAL VAL ASP ASP ALA SEQRES 4 A 180 VAL ARG GLN LEU ILE ASP ASP MET PHE GLU THR MET TYR SEQRES 5 A 180 GLU ALA PRO GLY ILE GLY LEU ALA ALA THR GLN VAL ASN SEQRES 6 A 180 VAL HIS LYS ARG ILE VAL VAL MET ASP LEU SER GLU ASP SEQRES 7 A 180 LYS SER GLU PRO ARG VAL PHE ILE ASN PRO GLU PHE GLU SEQRES 8 A 180 PRO LEU THR GLU GLU MET ASP GLN TYR GLN GLU GLY CYS SEQRES 9 A 180 LEU SER VAL PRO GLY PHE TYR GLU ASN VAL ASP ARG PRO SEQRES 10 A 180 GLN LYS VAL ARG ILE LYS ALA LEU ASP ARG ASP GLY ASN SEQRES 11 A 180 PRO PHE GLU GLU VAL ALA GLU GLY LEU LEU ALA VAL CYS SEQRES 12 A 180 ILE GLN HIS GLU CYS ASP HIS LEU ASN GLY LYS LEU PHE SEQRES 13 A 180 VAL ASP TYR LEU SER THR LEU LYS ARG ASP ARG ILE ARG SEQRES 14 A 180 LYS LYS LEU GLU LYS GLN HIS ARG GLN GLN ALA SEQRES 1 B 180 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MET SEQRES 2 B 180 ALA ILE LEU ASN ILE LEU GLU PHE PRO ASP PRO ARG LEU SEQRES 3 B 180 ARG THR ILE ALA LYS PRO VAL GLU VAL VAL ASP ASP ALA SEQRES 4 B 180 VAL ARG GLN LEU ILE ASP ASP MET PHE GLU THR MET TYR SEQRES 5 B 180 GLU ALA PRO GLY ILE GLY LEU ALA ALA THR GLN VAL ASN SEQRES 6 B 180 VAL HIS LYS ARG ILE VAL VAL MET ASP LEU SER GLU ASP SEQRES 7 B 180 LYS SER GLU PRO ARG VAL PHE ILE ASN PRO GLU PHE GLU SEQRES 8 B 180 PRO LEU THR GLU GLU MET ASP GLN TYR GLN GLU GLY CYS SEQRES 9 B 180 LEU SER VAL PRO GLY PHE TYR GLU ASN VAL ASP ARG PRO SEQRES 10 B 180 GLN LYS VAL ARG ILE LYS ALA LEU ASP ARG ASP GLY ASN SEQRES 11 B 180 PRO PHE GLU GLU VAL ALA GLU GLY LEU LEU ALA VAL CYS SEQRES 12 B 180 ILE GLN HIS GLU CYS ASP HIS LEU ASN GLY LYS LEU PHE SEQRES 13 B 180 VAL ASP TYR LEU SER THR LEU LYS ARG ASP ARG ILE ARG SEQRES 14 B 180 LYS LYS LEU GLU LYS GLN HIS ARG GLN GLN ALA HET NI A 301 1 HET NI B 302 1 HET GNR A 501 16 HET GNR B 601 16 HET GOL A 401 6 HETNAM NI NICKEL (II) ION HETNAM GNR 2-(3,4-DIHYDRO-3-OXO-2H-BENZO[B][1,4]THIAZIN-2-YL)-N- HETNAM 2 GNR HYDROXYACETAMIDE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 NI 2(NI 2+) FORMUL 5 GNR 2(C10 H10 N2 O3 S) FORMUL 7 GOL C3 H8 O3 FORMUL 8 HOH *208(H2 O) HELIX 1 1 ASP A 11 THR A 16 5 6 HELIX 2 2 ASP A 25 ALA A 42 1 18 HELIX 3 3 THR A 50 ASN A 53 5 4 HELIX 4 4 GLY A 126 ASN A 140 1 15 HELIX 5 5 LEU A 143 LEU A 148 5 6 HELIX 6 6 SER A 149 GLN A 167 1 19 HELIX 7 7 ASP B 11 THR B 16 5 6 HELIX 8 8 ASP B 25 ALA B 42 1 18 HELIX 9 9 THR B 50 ASN B 53 5 4 HELIX 10 10 GLY B 126 ASN B 140 1 15 HELIX 11 11 LEU B 143 LEU B 148 5 6 HELIX 12 12 SER B 149 ARG B 165 1 17 SHEET 1 A 5 GLY A 46 ALA A 48 0 SHEET 2 A 5 ILE A 58 ASP A 62 -1 O VAL A 60 N LEU A 47 SHEET 3 A 5 PRO A 70 PRO A 80 -1 O PHE A 73 N VAL A 59 SHEET 4 A 5 LYS A 107 LEU A 113 -1 O ARG A 109 N GLU A 79 SHEET 5 A 5 PRO A 119 GLU A 125 -1 O GLU A 122 N ILE A 110 SHEET 1 B 2 MET A 85 GLU A 90 0 SHEET 2 B 2 GLU A 100 PRO A 105 -1 O GLU A 100 N GLU A 90 SHEET 1 C 5 GLY B 46 ALA B 48 0 SHEET 2 C 5 ILE B 58 ASP B 62 -1 O VAL B 60 N LEU B 47 SHEET 3 C 5 PRO B 70 PRO B 80 -1 O PHE B 73 N VAL B 59 SHEET 4 C 5 LYS B 107 LEU B 113 -1 O ARG B 109 N GLU B 79 SHEET 5 C 5 PRO B 119 GLU B 125 -1 O GLU B 122 N ILE B 110 SHEET 1 D 2 MET B 85 GLU B 90 0 SHEET 2 D 2 GLU B 100 PRO B 105 -1 O GLU B 100 N GLU B 90 LINK NI NI A 301 NE2 HIS A 134 1555 1555 2.02 LINK NI NI A 301 SG CYS A 92 1555 1555 2.31 LINK NI NI A 301 NE2 HIS A 138 1555 1555 2.02 LINK NI NI A 301 OAN GNR A 501 1555 1555 2.61 LINK NI NI A 301 OAP GNR A 501 1555 1555 2.13 LINK NI NI B 302 NE2 HIS B 134 1555 1555 2.01 LINK NI NI B 302 NE2 HIS B 138 1555 1555 2.03 LINK NI NI B 302 OAP GNR B 601 1555 1555 2.08 LINK NI NI B 302 NAO GNR B 601 1555 1555 2.74 LINK NI NI B 302 SG CYS B 92 1555 1555 2.38 CISPEP 1 PHE A 9 PRO A 10 0 0.76 CISPEP 2 ALA A 42 PRO A 43 0 -0.36 CISPEP 3 PHE B 9 PRO B 10 0 0.51 CISPEP 4 ALA B 42 PRO B 43 0 -0.34 SITE 1 AC1 5 GLN A 51 CYS A 92 HIS A 134 HIS A 138 SITE 2 AC1 5 GNR A 501 SITE 1 AC2 5 GLN B 51 CYS B 92 HIS B 134 HIS B 138 SITE 2 AC2 5 GNR B 601 SITE 1 AC3 14 GLY A 44 ILE A 45 GLY A 46 GLN A 51 SITE 2 AC3 14 TYR A 88 GLU A 90 GLY A 91 CYS A 92 SITE 3 AC3 14 LEU A 93 HIS A 134 GLU A 135 HIS A 138 SITE 4 AC3 14 NI A 301 HOH A 584 SITE 1 AC4 13 GLY B 44 ILE B 45 GLY B 46 GLN B 51 SITE 2 AC4 13 TYR B 88 GLU B 90 GLY B 91 CYS B 92 SITE 3 AC4 13 LEU B 93 HIS B 134 GLU B 135 HIS B 138 SITE 4 AC4 13 NI B 302 SITE 1 AC5 6 ARG A 71 VAL A 72 ASP A 114 ARG A 115 SITE 2 AC5 6 PHE A 120 HOH A 503 CRYST1 69.009 73.994 76.864 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 0.014491 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013515 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013010 0.00000 MASTER 385 0 5 12 14 0 14 6 0 0 0 28 END