HEADER HYDROLASE 21-APR-03 1P42 TITLE CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC DEACETYLASE (ZINC-INHIBITED TITLE 2 FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-3-O-[3-HYDROXYMYRISTOYL] N-ACETYLGLUCOSAMINE COMPND 3 DEACETYLASE; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: SEQUENCE DATABASE RESIDUE 2-271; COMPND 6 SYNONYM: UDP-3-O-ACYL-GLCNAC DEACETYLASE; COMPND 7 EC: 3.5.1.-; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 63363; SOURCE 4 GENE: LPXC OR ENVA OR AQ_1772; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS ALPHA+BETA FOLD, HYDROPHOBIC TUNNEL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR D.A.WHITTINGTON,K.M.RUSCHE,H.SHIN,C.A.FIERKE,D.W.CHRISTIANSON REVDAT 7 14-FEB-24 1P42 1 REMARK REVDAT 6 27-OCT-21 1P42 1 REMARK SEQADV LINK REVDAT 5 11-OCT-17 1P42 1 REMARK REVDAT 4 13-JUL-11 1P42 1 VERSN REVDAT 3 24-FEB-09 1P42 1 VERSN REVDAT 2 15-JUL-03 1P42 1 JRNL REVDAT 1 10-JUN-03 1P42 0 JRNL AUTH D.A.WHITTINGTON,K.M.RUSCHE,H.SHIN,C.A.FIERKE, JRNL AUTH 2 D.W.CHRISTIANSON JRNL TITL CRYSTAL STRUCTURE OF LPXC, A ZINC-DEPENDENT DEACETYLASE JRNL TITL 2 ESSENTIAL FOR ENDOTOXIN BIOSYNTHESIS JRNL REF PROC.NATL.ACAD.SCI.USA V. 100 8146 2003 JRNL REFN ISSN 0027-8424 JRNL PMID 12819349 JRNL DOI 10.1073/PNAS.1432990100 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2389966.370 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 97852 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) : 0.199 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 4815 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.003 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.13 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 15503 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE : 0.2750 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 783 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4314 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 309 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.26000 REMARK 3 B22 (A**2) : -5.26000 REMARK 3 B33 (A**2) : 10.51000 REMARK 3 B12 (A**2) : -0.69000 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) : 0.23 REMARK 3 ESD FROM SIGMAA (A) : 0.18 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) : 0.25 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.21 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.710 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.260 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.920 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.110 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.340 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.39 REMARK 3 BSOL : 50.93 REMARK 3 REMARK 3 NCS MODEL : CONSTR 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : MYR.PAR REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : MYR.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESOLUTION-DEPENDENT WEIGHTING SCHEME, REMARK 3 BULK SOLVENT MODEL USED REMARK 4 REMARK 4 1P42 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-APR-03. REMARK 100 THE DEPOSITION ID IS D_1000018980. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUN-02 REMARK 200 TEMPERATURE (KELVIN) : 98 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2825, 1.2832, 1.2565 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 97852 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05900 REMARK 200 FOR THE DATA SET : 19.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.32900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NACL, HEPES, ZNSO4, MAGNESIUM ACETATE, REMARK 280 PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.70000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 83.40000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 62.55000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 104.25000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 20.85000 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: THE BIOLOGICAL ASSEMBLY 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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: 2870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -247.0 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 -0.500000 -0.866025 0.000000 101.66000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 41.70000 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 LEU A 281 REMARK 465 THR A 282 REMARK 465 ARG A 283 REMARK 465 LEU B 281 REMARK 465 THR B 282 REMARK 465 ARG B 283 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 SER A 59 168.95 173.89 REMARK 500 LEU A 104 -126.54 55.02 REMARK 500 SER A 107 -169.45 -120.22 REMARK 500 ASN A 124 56.47 -100.38 REMARK 500 ASN A 124 56.27 -100.38 REMARK 500 ASP A 140 111.44 -173.45 REMARK 500 SER A 150 140.46 -170.58 REMARK 500 ASN A 163 -160.73 -108.66 REMARK 500 ASP A 221 24.37 -144.82 REMARK 500 LYS A 278 9.92 -66.80 REMARK 500 GLN A 279 35.17 37.20 REMARK 500 SER B 59 168.35 170.03 REMARK 500 LEU B 104 -125.28 56.61 REMARK 500 SER B 107 -169.15 -119.72 REMARK 500 ARG B 125 138.30 179.55 REMARK 500 ASP B 140 111.42 -174.04 REMARK 500 SER B 150 141.60 -170.97 REMARK 500 ASN B 163 -160.85 -109.13 REMARK 500 ASP B 221 25.82 -145.71 REMARK 500 GLN B 279 -7.87 83.11 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 504 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 2 N REMARK 620 2 GLU A 126 OE1 111.6 REMARK 620 3 GLU A 126 OE2 81.3 57.2 REMARK 620 4 HIS B 29 NE2 100.1 130.9 93.9 REMARK 620 5 GLU B 95 OE1 113.7 100.0 156.9 100.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 503 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 58 NE2 REMARK 620 2 HIS A 200 NE2 97.6 REMARK 620 3 HOH A 603 O 109.8 117.7 REMARK 620 4 HOH A 604 O 103.2 95.3 128.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 78 OE2 REMARK 620 2 HIS A 265 NE2 102.1 REMARK 620 3 MYR A 601 O1 111.4 106.9 REMARK 620 4 HOH A 602 O 115.5 124.3 96.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 79 NE2 REMARK 620 2 HIS A 238 NE2 96.2 REMARK 620 3 ASP A 242 OD1 107.9 103.3 REMARK 620 4 HOH A 602 O 110.7 115.1 120.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 507 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 58 NE2 REMARK 620 2 HIS B 200 NE2 114.9 REMARK 620 3 HOH B 604 O 107.9 118.5 REMARK 620 4 HOH B 605 O 109.2 98.8 106.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 506 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 78 OE2 REMARK 620 2 HIS B 265 NE2 94.9 REMARK 620 3 MYR B 602 O1 106.7 104.3 REMARK 620 4 HOH B 603 O 119.6 129.2 100.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 505 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 79 NE2 REMARK 620 2 HIS B 238 NE2 103.8 REMARK 620 3 ASP B 242 OD1 105.0 104.3 REMARK 620 4 HOH B 603 O 109.0 118.7 114.7 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 ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYR A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYR B 602 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE RESIDUE NUMBERING SCHEME FOR THIS REMARK 999 STRUCTURE FOLLOWS THAT OF THE E. COLI REMARK 999 ENZYME. THIS TREATMENT RESULTS IN A BREAK REMARK 999 IN THE SEQUENTIAL NUMBERING IN A COUPLE REMARK 999 OF PLACES. DBREF 1P42 A 2 283 UNP O67648 LPXC_AQUAE 2 271 DBREF 1P42 B 2 283 UNP O67648 LPXC_AQUAE 2 271 SEQADV 1P42 ALA A 114 UNP O67648 CYS 181 ENGINEERED MUTATION SEQADV 1P42 ALA B 114 UNP O67648 CYS 181 ENGINEERED MUTATION SEQRES 1 A 270 GLY LEU GLU LYS THR VAL LYS GLU LYS LEU SER PHE GLU SEQRES 2 A 270 GLY VAL GLY ILE HIS THR GLY GLU TYR SER LYS LEU ILE SEQRES 3 A 270 ILE HIS PRO GLU LYS GLU GLY THR GLY ILE ARG PHE PHE SEQRES 4 A 270 LYS ASN GLY VAL TYR ILE PRO ALA ARG HIS GLU PHE VAL SEQRES 5 A 270 VAL HIS THR ASN HIS SER THR ASP LEU GLY PHE LYS GLY SEQRES 6 A 270 GLN ARG ILE LYS THR VAL GLU HIS ILE LEU SER VAL LEU SEQRES 7 A 270 HIS LEU LEU GLU ILE THR ASN VAL THR ILE GLU VAL ILE SEQRES 8 A 270 GLY ASN GLU ILE PRO ILE LEU ASP GLY SER GLY TRP GLU SEQRES 9 A 270 PHE TYR GLU ALA ILE ARG LYS ASN ILE LEU ASN GLN ASN SEQRES 10 A 270 ARG GLU ILE ASP TYR PHE VAL VAL GLU GLU PRO ILE ILE SEQRES 11 A 270 VAL GLU ASP GLU GLY ARG LEU ILE LYS ALA GLU PRO SER SEQRES 12 A 270 ASP THR LEU GLU VAL THR TYR GLU GLY GLU PHE LYS ASN SEQRES 13 A 270 PHE LEU GLY ARG GLN LYS PHE THR PHE VAL GLU GLY ASN SEQRES 14 A 270 GLU GLU GLU ILE VAL LEU ALA ARG THR PHE ALA PHE ASP SEQRES 15 A 270 TRP GLU ILE GLU HIS ILE LYS LYS VAL GLY LEU GLY LYS SEQRES 16 A 270 GLY GLY SER LEU LYS ASN THR LEU VAL LEU GLY LYS ASP SEQRES 17 A 270 LYS VAL TYR ASN PRO GLU GLY LEU ARG TYR GLU ASN GLU SEQRES 18 A 270 PRO VAL ARG HIS LYS VAL PHE ASP LEU ILE GLY ASP LEU SEQRES 19 A 270 TYR LEU LEU GLY SER PRO VAL LYS GLY LYS PHE TYR SER SEQRES 20 A 270 PHE ARG GLY GLY HIS SER LEU ASN VAL LYS LEU VAL LYS SEQRES 21 A 270 GLU LEU ALA LYS LYS GLN LYS LEU THR ARG SEQRES 1 B 270 GLY LEU GLU LYS THR VAL LYS GLU LYS LEU SER PHE GLU SEQRES 2 B 270 GLY VAL GLY ILE HIS THR GLY GLU TYR SER LYS LEU ILE SEQRES 3 B 270 ILE HIS PRO GLU LYS GLU GLY THR GLY ILE ARG PHE PHE SEQRES 4 B 270 LYS ASN GLY VAL TYR ILE PRO ALA ARG HIS GLU PHE VAL SEQRES 5 B 270 VAL HIS THR ASN HIS SER THR ASP LEU GLY PHE LYS GLY SEQRES 6 B 270 GLN ARG ILE LYS THR VAL GLU HIS ILE LEU SER VAL LEU SEQRES 7 B 270 HIS LEU LEU GLU ILE THR ASN VAL THR ILE GLU VAL ILE SEQRES 8 B 270 GLY ASN GLU ILE PRO ILE LEU ASP GLY SER GLY TRP GLU SEQRES 9 B 270 PHE TYR GLU ALA ILE ARG LYS ASN ILE LEU ASN GLN ASN SEQRES 10 B 270 ARG GLU ILE ASP TYR PHE VAL VAL GLU GLU PRO ILE ILE SEQRES 11 B 270 VAL GLU ASP GLU GLY ARG LEU ILE LYS ALA GLU PRO SER SEQRES 12 B 270 ASP THR LEU GLU VAL THR TYR GLU GLY GLU PHE LYS ASN SEQRES 13 B 270 PHE LEU GLY ARG GLN LYS PHE THR PHE VAL GLU GLY ASN SEQRES 14 B 270 GLU GLU GLU ILE VAL LEU ALA ARG THR PHE ALA PHE ASP SEQRES 15 B 270 TRP GLU ILE GLU HIS ILE LYS LYS VAL GLY LEU GLY LYS SEQRES 16 B 270 GLY GLY SER LEU LYS ASN THR LEU VAL LEU GLY LYS ASP SEQRES 17 B 270 LYS VAL TYR ASN PRO GLU GLY LEU ARG TYR GLU ASN GLU SEQRES 18 B 270 PRO VAL ARG HIS LYS VAL PHE ASP LEU ILE GLY ASP LEU SEQRES 19 B 270 TYR LEU LEU GLY SER PRO VAL LYS GLY LYS PHE TYR SER SEQRES 20 B 270 PHE ARG GLY GLY HIS SER LEU ASN VAL LYS LEU VAL LYS SEQRES 21 B 270 GLU LEU ALA LYS LYS GLN LYS LEU THR ARG HET ZN A 501 1 HET ZN A 502 1 HET ZN A 503 1 HET ZN A 504 1 HET MYR A 601 16 HET ZN B 505 1 HET ZN B 506 1 HET ZN B 507 1 HET MYR B 602 16 HETNAM ZN ZINC ION HETNAM MYR MYRISTIC ACID FORMUL 3 ZN 7(ZN 2+) FORMUL 7 MYR 2(C14 H28 O2) FORMUL 12 HOH *309(H2 O) HELIX 1 1 ARG A 49 GLU A 51 5 3 HELIX 2 2 VAL A 77 LEU A 87 1 11 HELIX 3 3 GLY A 108 LYS A 117 1 10 HELIX 4 4 ASN A 182 ILE A 186 5 5 HELIX 5 5 GLU A 197 VAL A 204 1 8 HELIX 6 6 ASN A 233 TYR A 248 1 16 HELIX 7 7 LEU A 249 GLY A 251 5 3 HELIX 8 8 GLY A 264 LYS A 278 1 15 HELIX 9 9 ARG B 49 GLU B 51 5 3 HELIX 10 10 VAL B 77 LEU B 87 1 11 HELIX 11 11 GLY B 108 LYS B 117 1 10 HELIX 12 12 ASN B 182 ILE B 186 5 5 HELIX 13 13 GLU B 197 VAL B 204 1 8 HELIX 14 14 ASN B 233 TYR B 248 1 16 HELIX 15 15 LEU B 249 GLY B 251 5 3 HELIX 16 16 GLY B 264 GLN B 279 1 16 SHEET 1 A 2 LEU A 3 VAL A 7 0 SHEET 2 A 2 ILE A 120 GLU A 126 -1 O LEU A 121 N THR A 6 SHEET 1 B 5 LEU A 11 VAL A 16 0 SHEET 2 B 5 TYR A 23 PRO A 30 -1 O ILE A 28 N LEU A 11 SHEET 3 B 5 VAL A 92 ILE A 97 -1 O THR A 93 N HIS A 29 SHEET 4 B 5 ILE A 37 LYS A 41 1 N PHE A 40 O VAL A 96 SHEET 5 B 5 VAL A 44 PRO A 47 -1 O ILE A 46 N PHE A 39 SHEET 1 C 3 VAL A 53 HIS A 55 0 SHEET 2 C 3 ASP A 61 PHE A 69 -1 O ASP A 61 N HIS A 55 SHEET 3 C 3 GLN A 72 ILE A 74 -1 O ILE A 74 N LEU A 62 SHEET 1 D 2 PHE A 130 VAL A 131 0 SHEET 2 D 2 VAL A 254 LYS A 255 1 O LYS A 255 N PHE A 130 SHEET 1 E 5 ILE A 136 ASP A 140 0 SHEET 2 E 5 ARG A 143 GLU A 148 -1 O ALA A 147 N ILE A 136 SHEET 3 E 5 LYS A 257 PHE A 261 -1 O PHE A 261 N LEU A 144 SHEET 4 E 5 GLU A 154 GLU A 160 1 N GLU A 154 O PHE A 258 SHEET 5 E 5 ARG A 170 VAL A 179 -1 O PHE A 175 N VAL A 155 SHEET 1 F 2 PHE A 192 PHE A 194 0 SHEET 2 F 2 LEU A 216 LEU A 218 1 O LEU A 218 N ALA A 193 SHEET 1 G 2 LEU B 3 VAL B 7 0 SHEET 2 G 2 ILE B 120 GLU B 126 -1 O LEU B 121 N THR B 6 SHEET 1 H 5 LEU B 11 VAL B 16 0 SHEET 2 H 5 TYR B 23 PRO B 30 -1 O ILE B 28 N LEU B 11 SHEET 3 H 5 VAL B 92 ILE B 97 -1 O ILE B 97 N LYS B 25 SHEET 4 H 5 ILE B 37 LYS B 41 1 N PHE B 40 O VAL B 96 SHEET 5 H 5 VAL B 44 PRO B 47 -1 O ILE B 46 N PHE B 39 SHEET 1 I 3 VAL B 53 HIS B 55 0 SHEET 2 I 3 ASP B 61 PHE B 69 -1 O ASP B 61 N HIS B 55 SHEET 3 I 3 GLN B 72 ILE B 74 -1 O ILE B 74 N LEU B 62 SHEET 1 J 2 PHE B 130 VAL B 131 0 SHEET 2 J 2 VAL B 254 LYS B 255 1 O LYS B 255 N PHE B 130 SHEET 1 K 5 ILE B 136 ASP B 140 0 SHEET 2 K 5 ARG B 143 GLU B 148 -1 O ALA B 147 N ILE B 136 SHEET 3 K 5 LYS B 257 PHE B 261 -1 O PHE B 261 N LEU B 144 SHEET 4 K 5 GLU B 154 GLU B 160 1 N GLU B 154 O PHE B 258 SHEET 5 K 5 ARG B 170 VAL B 179 -1 O PHE B 175 N VAL B 155 SHEET 1 L 2 PHE B 192 PHE B 194 0 SHEET 2 L 2 LEU B 216 LEU B 218 1 O LEU B 218 N ALA B 193 LINK N GLY A 2 ZN ZN A 504 1555 1555 2.25 LINK NE2 HIS A 58 ZN ZN A 503 1555 1555 2.24 LINK OE2 GLU A 78 ZN ZN A 502 1555 1555 1.98 LINK NE2 HIS A 79 ZN ZN A 501 1555 1555 2.08 LINK OE1 GLU A 126 ZN ZN A 504 1555 1555 1.98 LINK OE2 GLU A 126 ZN ZN A 504 1555 1555 2.50 LINK NE2 HIS A 200 ZN ZN A 503 1555 1555 2.26 LINK NE2 HIS A 238 ZN ZN A 501 1555 1555 2.17 LINK OD1 ASP A 242 ZN ZN A 501 1555 1555 1.99 LINK NE2 HIS A 265 ZN ZN A 502 1555 1555 2.01 LINK ZN ZN A 501 O HOH A 602 1555 1555 1.80 LINK ZN ZN A 502 O1 MYR A 601 1555 1555 2.11 LINK ZN ZN A 502 O HOH A 602 1555 1555 2.11 LINK ZN ZN A 503 O HOH A 603 1555 1555 2.03 LINK ZN ZN A 503 O HOH A 604 1555 1555 1.92 LINK ZN ZN A 504 NE2 HIS B 29 1555 2655 2.04 LINK ZN ZN A 504 OE1 GLU B 95 1555 2655 2.05 LINK NE2 HIS B 58 ZN ZN B 507 1555 1555 2.03 LINK OE2 GLU B 78 ZN ZN B 506 1555 1555 2.05 LINK NE2 HIS B 79 ZN ZN B 505 1555 1555 2.04 LINK NE2 HIS B 200 ZN ZN B 507 1555 1555 2.02 LINK NE2 HIS B 238 ZN ZN B 505 1555 1555 2.00 LINK OD1 ASP B 242 ZN ZN B 505 1555 1555 2.13 LINK NE2 HIS B 265 ZN ZN B 506 1555 1555 2.14 LINK ZN ZN B 505 O HOH B 603 1555 1555 1.87 LINK ZN ZN B 506 O1 MYR B 602 1555 1555 2.04 LINK ZN ZN B 506 O HOH B 603 1555 1555 1.98 LINK ZN ZN B 507 O HOH B 604 1555 1555 2.28 LINK ZN ZN B 507 O HOH B 605 1555 1555 2.05 SITE 1 AC1 5 HIS A 79 HIS A 238 ASP A 242 ZN A 502 SITE 2 AC1 5 HOH A 602 SITE 1 AC2 5 GLU A 78 HIS A 265 ZN A 501 MYR A 601 SITE 2 AC2 5 HOH A 602 SITE 1 AC3 4 HIS A 58 HIS A 200 HOH A 603 HOH A 604 SITE 1 AC4 5 GLY A 2 GLU A 126 ILE B 27 HIS B 29 SITE 2 AC4 5 GLU B 95 SITE 1 AC5 5 HIS B 79 HIS B 238 ASP B 242 ZN B 506 SITE 2 AC5 5 HOH B 603 SITE 1 AC6 5 GLU B 78 HIS B 265 ZN B 505 MYR B 602 SITE 2 AC6 5 HOH B 603 SITE 1 AC7 4 HIS B 58 HIS B 200 HOH B 604 HOH B 605 SITE 1 AC8 9 HIS A 58 GLU A 78 THR A 191 ILE A 201 SITE 2 AC8 9 GLY A 207 HIS A 265 ZN A 502 HOH A 633 SITE 3 AC8 9 HOH A 732 SITE 1 AC9 11 HIS B 58 SER B 59 GLU B 78 THR B 191 SITE 2 AC9 11 ILE B 201 GLY B 207 HIS B 265 ZN B 506 SITE 3 AC9 11 HOH B 603 HOH B 624 HOH B 734 CRYST1 101.660 101.660 125.100 90.00 90.00 120.00 P 61 12 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 0.009837 0.005679 0.000000 0.00000 SCALE2 0.000000 0.011358 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007994 0.00000