HEADER HYDROLASE 19-SEP-06 2IES TITLE CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC COMPLEXED WITH TITLE 2 PYROPHOSPHATE 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: 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: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 63363; SOURCE 4 GENE: LPXC; 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 KEYWDS ALPHA + BETA FOLD, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.A.GENNADIOS,D.W.CHRISTIANSON REVDAT 5 30-AUG-23 2IES 1 REMARK REVDAT 4 20-OCT-21 2IES 1 REMARK SEQADV REVDAT 3 04-APR-18 2IES 1 REMARK REVDAT 2 24-FEB-09 2IES 1 VERSN REVDAT 1 09-JAN-07 2IES 0 JRNL AUTH H.A.GENNADIOS,D.W.CHRISTIANSON JRNL TITL BINDING OF URIDINE 5-DIPHOSPHATE IN THE BASIC PATCH OF THE JRNL TITL 2 ZINC METALLOENZYME DEACETYLASE LPXC AND IMPLICATIONS FOR JRNL TITL 3 SUBSTRATE BINDING JRNL REF BIOCHEMISTRY V. 45 15216 2006 JRNL REFN ISSN 0006-2960 JRNL PMID 17176043 JRNL DOI 10.1021/BI0619021 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 12560 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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) : 3.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.21 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 4314 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 61 REMARK 3 SOLVENT ATOMS : 24 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.89000 REMARK 3 B22 (A**2) : 0.89000 REMARK 3 B33 (A**2) : -1.78000 REMARK 3 B12 (A**2) : 7.43000 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.100 ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.000 ; 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 2IES COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000039493. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-JUN-06 REMARK 200 TEMPERATURE (KELVIN) : 200 REMARK 200 PH : 7.5 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 RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12560 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 2.650 REMARK 200 R MERGE (I) : 0.13400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.21 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 2.65 REMARK 200 R MERGE FOR SHELL (I) : 0.13400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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 1P42 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES (PH 7.5), 180 MM NACL, REMARK 280 10% PEG 3350, 0.5 MM ZNSO4, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 41.88667 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 83.77333 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 62.83000 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 104.71667 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 20.94333 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 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: THIS PROTEIN FORMS A CRYSTALLOGRAPHIC DIMER AND IS NOT REMARK 300 KNOWN TO BE A DIMER IN SOLUTION. THE SECOND MONOMER CAN BE REMARK 300 GENERATED BY THE FOLLOWING SYMMETRY OPERATIONS: -Y, X-Y, Z+1/3 AND - REMARK 300 X+Y, -X, Z+2/3 AND -X, -Y, Z+1/2 AND Y, -X+Y, Z+5/6 AND X-Y, X, Z+1/ REMARK 300 6. 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -222.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 1 REMARK 465 LEU A 281 REMARK 465 THR A 282 REMARK 465 ARG A 283 REMARK 465 MET B 1 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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CL CL A 608 C4 PLM B 802 3464 0.98 REMARK 500 CL CL A 608 C5 PLM B 802 3464 1.63 REMARK 500 C4 PLM A 801 CL CL A 607 6665 1.94 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 TRP A 196 CA - C - N ANGL. DEV. = -16.8 DEGREES REMARK 500 TRP B 196 CA - C - N ANGL. DEV. = -16.7 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 ASN A 57 -90.13 -68.60 REMARK 500 SER A 59 159.87 175.15 REMARK 500 LYS A 70 55.41 38.21 REMARK 500 THR A 76 72.17 63.68 REMARK 500 LEU A 104 -131.08 52.29 REMARK 500 ARG A 125 111.90 -174.28 REMARK 500 PRO A 135 148.23 -31.85 REMARK 500 ASP A 140 69.82 171.36 REMARK 500 GLU A 141 89.19 57.28 REMARK 500 PHE A 167 -19.17 -49.43 REMARK 500 GLU A 184 -5.24 -57.48 REMARK 500 GLU A 197 -3.91 124.43 REMARK 500 ILE A 198 -42.78 -146.66 REMARK 500 ASP A 221 47.16 -173.72 REMARK 500 SER A 252 152.91 177.94 REMARK 500 HIS A 265 -49.40 -28.71 REMARK 500 LYS A 278 33.22 -98.49 REMARK 500 GLN A 279 5.05 42.02 REMARK 500 ASN B 57 -90.12 -67.74 REMARK 500 SER B 59 159.54 174.68 REMARK 500 LYS B 70 55.17 37.80 REMARK 500 THR B 76 71.81 63.66 REMARK 500 LEU B 104 -131.49 52.34 REMARK 500 ARG B 125 112.48 -174.64 REMARK 500 PRO B 135 147.13 -31.76 REMARK 500 ASP B 140 70.60 170.82 REMARK 500 GLU B 141 89.16 56.52 REMARK 500 PHE B 167 -20.00 -49.62 REMARK 500 GLU B 184 -5.84 -57.06 REMARK 500 GLU B 197 -18.38 138.06 REMARK 500 ILE B 198 -44.86 -147.25 REMARK 500 ASP B 221 47.68 -173.69 REMARK 500 SER B 252 152.79 179.19 REMARK 500 HIS B 265 -49.58 -29.69 REMARK 500 LYS B 278 33.34 -98.37 REMARK 500 GLN B 279 5.28 41.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 TRP A 196 -15.72 REMARK 500 TRP A 196 17.06 REMARK 500 TRP B 196 17.51 REMARK 500 TRP B 196 -14.92 REMARK 500 REMARK 500 REMARK: NULL 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 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE POP A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLM A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE POP B 700 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLM B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 608 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1P42 RELATED DB: PDB REMARK 900 ZINC-INHIBITED CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC REMARK 900 RELATED ID: 1YH8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC DEACETYLASE COMPLEXED REMARK 900 WITH PALMITATE REMARK 900 RELATED ID: 1YHC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC DEACETYLASE COMPLEXED REMARK 900 WITH CACODYLATE REMARK 900 RELATED ID: 2GO4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC COMPLEXED WITH TU-514 REMARK 900 RELATED ID: 2GO3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC COMPLEXED WITH IMIDAZOLE. REMARK 900 RELATED ID: 2IER RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC COMPLEXED WITH URIDINE 5' REMARK 900 -DIPHOSPHATE 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 2IES A 1 283 UNP O67648 LPXC_AQUAE 1 271 DBREF 2IES B 1 283 UNP O67648 LPXC_AQUAE 1 271 SEQADV 2IES ALA A 193 UNP O67648 CYS 181 ENGINEERED MUTATION SEQADV 2IES ALA B 193 UNP O67648 CYS 181 ENGINEERED MUTATION SEQRES 1 A 271 MET GLY LEU GLU LYS THR VAL LYS GLU LYS LEU SER PHE SEQRES 2 A 271 GLU GLY VAL GLY ILE HIS THR GLY GLU TYR SER LYS LEU SEQRES 3 A 271 ILE ILE HIS PRO GLU LYS GLU GLY THR GLY ILE ARG PHE SEQRES 4 A 271 PHE LYS ASN GLY VAL TYR ILE PRO ALA ARG HIS GLU PHE SEQRES 5 A 271 VAL VAL HIS THR ASN HIS SER THR ASP LEU GLY PHE LYS SEQRES 6 A 271 GLY GLN ARG ILE LYS THR VAL GLU HIS ILE LEU SER VAL SEQRES 7 A 271 LEU HIS LEU LEU GLU ILE THR ASN VAL THR ILE GLU VAL SEQRES 8 A 271 ILE GLY ASN GLU ILE PRO ILE LEU ASP GLY SER GLY TRP SEQRES 9 A 271 GLU PHE TYR GLU ALA ILE ARG LYS ASN ILE LEU ASN GLN SEQRES 10 A 271 ASN ARG GLU ILE ASP TYR PHE VAL VAL GLU GLU PRO ILE SEQRES 11 A 271 ILE VAL GLU ASP GLU GLY ARG LEU ILE LYS ALA GLU PRO SEQRES 12 A 271 SER ASP THR LEU GLU VAL THR TYR GLU GLY GLU PHE LYS SEQRES 13 A 271 ASN PHE LEU GLY ARG GLN LYS PHE THR PHE VAL GLU GLY SEQRES 14 A 271 ASN GLU GLU GLU ILE VAL LEU ALA ARG THR PHE ALA PHE SEQRES 15 A 271 ASP TRP GLU ILE GLU HIS ILE LYS LYS VAL GLY LEU GLY SEQRES 16 A 271 LYS GLY GLY SER LEU LYS ASN THR LEU VAL LEU GLY LYS SEQRES 17 A 271 ASP LYS VAL TYR ASN PRO GLU GLY LEU ARG TYR GLU ASN SEQRES 18 A 271 GLU PRO VAL ARG HIS LYS VAL PHE ASP LEU ILE GLY ASP SEQRES 19 A 271 LEU TYR LEU LEU GLY SER PRO VAL LYS GLY LYS PHE TYR SEQRES 20 A 271 SER PHE ARG GLY GLY HIS SER LEU ASN VAL LYS LEU VAL SEQRES 21 A 271 LYS GLU LEU ALA LYS LYS GLN LYS LEU THR ARG SEQRES 1 B 271 MET GLY LEU GLU LYS THR VAL LYS GLU LYS LEU SER PHE SEQRES 2 B 271 GLU GLY VAL GLY ILE HIS THR GLY GLU TYR SER LYS LEU SEQRES 3 B 271 ILE ILE HIS PRO GLU LYS GLU GLY THR GLY ILE ARG PHE SEQRES 4 B 271 PHE LYS ASN GLY VAL TYR ILE PRO ALA ARG HIS GLU PHE SEQRES 5 B 271 VAL VAL HIS THR ASN HIS SER THR ASP LEU GLY PHE LYS SEQRES 6 B 271 GLY GLN ARG ILE LYS THR VAL GLU HIS ILE LEU SER VAL SEQRES 7 B 271 LEU HIS LEU LEU GLU ILE THR ASN VAL THR ILE GLU VAL SEQRES 8 B 271 ILE GLY ASN GLU ILE PRO ILE LEU ASP GLY SER GLY TRP SEQRES 9 B 271 GLU PHE TYR GLU ALA ILE ARG LYS ASN ILE LEU ASN GLN SEQRES 10 B 271 ASN ARG GLU ILE ASP TYR PHE VAL VAL GLU GLU PRO ILE SEQRES 11 B 271 ILE VAL GLU ASP GLU GLY ARG LEU ILE LYS ALA GLU PRO SEQRES 12 B 271 SER ASP THR LEU GLU VAL THR TYR GLU GLY GLU PHE LYS SEQRES 13 B 271 ASN PHE LEU GLY ARG GLN LYS PHE THR PHE VAL GLU GLY SEQRES 14 B 271 ASN GLU GLU GLU ILE VAL LEU ALA ARG THR PHE ALA PHE SEQRES 15 B 271 ASP TRP GLU ILE GLU HIS ILE LYS LYS VAL GLY LEU GLY SEQRES 16 B 271 LYS GLY GLY SER LEU LYS ASN THR LEU VAL LEU GLY LYS SEQRES 17 B 271 ASP LYS VAL TYR ASN PRO GLU GLY LEU ARG TYR GLU ASN SEQRES 18 B 271 GLU PRO VAL ARG HIS LYS VAL PHE ASP LEU ILE GLY ASP SEQRES 19 B 271 LEU TYR LEU LEU GLY SER PRO VAL LYS GLY LYS PHE TYR SEQRES 20 B 271 SER PHE ARG GLY GLY HIS SER LEU ASN VAL LYS LEU VAL SEQRES 21 B 271 LYS GLU LEU ALA LYS LYS GLN LYS LEU THR ARG HET ZN A 602 1 HET ZN A 603 1 HET POP A 701 9 HET ZN A 604 1 HET ZN A 606 1 HET PLM A 801 18 HET ZN A 605 1 HET CL A 607 1 HET CL A 608 1 HET POP B 700 9 HET PLM B 802 18 HETNAM ZN ZINC ION HETNAM POP PYROPHOSPHATE 2- HETNAM PLM PALMITIC ACID HETNAM CL CHLORIDE ION FORMUL 3 ZN 5(ZN 2+) FORMUL 5 POP 2(H2 O7 P2 2-) FORMUL 8 PLM 2(C16 H32 O2) FORMUL 10 CL 2(CL 1-) FORMUL 14 HOH *24(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 ASN A 118 1 11 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 277 1 14 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 ASN B 118 1 11 HELIX 12 12 ASN B 182 ILE B 186 5 5 HELIX 13 13 ILE B 198 VAL B 204 1 7 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 LYS B 277 1 14 SHEET 1 A 2 LEU A 3 VAL A 7 0 SHEET 2 A 2 ILE A 120 GLU A 126 -1 O ARG A 125 N GLU A 4 SHEET 1 B 5 LEU A 11 VAL A 16 0 SHEET 2 B 5 TYR A 23 PRO A 30 -1 O LEU A 26 N PHE A 13 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 ILE A 94 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 4 PHE A 130 VAL A 131 0 SHEET 2 D 4 VAL A 254 PHE A 261 1 O LYS A 255 N PHE A 130 SHEET 3 D 4 ARG A 143 PRO A 149 -1 N LYS A 146 O TYR A 259 SHEET 4 D 4 ILE A 136 ASP A 140 -1 N ILE A 136 O ALA A 147 SHEET 1 E 4 PHE A 130 VAL A 131 0 SHEET 2 E 4 VAL A 254 PHE A 261 1 O LYS A 255 N PHE A 130 SHEET 3 E 4 GLU A 154 GLU A 160 1 N GLU A 154 O PHE A 258 SHEET 4 E 4 ARG A 170 VAL A 179 -1 O PHE A 175 N VAL A 155 SHEET 1 F 2 THR A 191 PHE A 194 0 SHEET 2 F 2 THR A 215 LEU A 218 1 O LEU A 216 N THR A 191 SHEET 1 G 2 LEU B 3 VAL B 7 0 SHEET 2 G 2 ILE B 120 GLU B 126 -1 O ARG B 125 N GLU B 4 SHEET 1 H 5 LEU B 11 VAL B 16 0 SHEET 2 H 5 TYR B 23 PRO B 30 -1 O LEU B 26 N PHE B 13 SHEET 3 H 5 VAL B 92 ILE B 97 -1 O THR B 93 N HIS B 29 SHEET 4 H 5 ILE B 37 LYS B 41 1 N PHE B 40 O ILE B 94 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 4 PHE B 130 VAL B 131 0 SHEET 2 J 4 VAL B 254 PHE B 261 1 O LYS B 255 N PHE B 130 SHEET 3 J 4 ARG B 143 PRO B 149 -1 N LYS B 146 O TYR B 259 SHEET 4 J 4 ILE B 136 ASP B 140 -1 N ILE B 136 O ALA B 147 SHEET 1 K 4 PHE B 130 VAL B 131 0 SHEET 2 K 4 VAL B 254 PHE B 261 1 O LYS B 255 N PHE B 130 SHEET 3 K 4 GLU B 154 GLU B 160 1 N GLU B 154 O PHE B 258 SHEET 4 K 4 ARG B 170 VAL B 179 -1 O PHE B 175 N VAL B 155 SHEET 1 L 2 THR B 191 PHE B 194 0 SHEET 2 L 2 THR B 215 LEU B 218 1 O LEU B 216 N THR B 191 SITE 1 AC1 4 CL A 608 HIS B 58 POP B 700 PLM B 802 SITE 1 AC2 4 HIS A 79 HIS A 238 ASP A 242 PLM A 801 SITE 1 AC3 5 ASN A 57 HIS A 58 LYS A 239 HIS A 265 SITE 2 AC3 5 ZN A 604 SITE 1 AC4 4 HIS A 58 CL A 607 POP A 701 PLM A 801 SITE 1 AC5 3 VAL A 254 LYS A 255 HOH A 814 SITE 1 AC6 11 HIS A 58 GLU A 78 HIS A 79 THR A 191 SITE 2 AC6 11 ILE A 198 HIS A 238 ASP A 242 HIS A 265 SITE 3 AC6 11 ZN A 603 ZN A 604 CL A 607 SITE 1 AC7 4 HIS B 79 HIS B 238 ASP B 242 PLM B 802 SITE 1 AC8 4 PHE A 192 GLU A 197 ZN A 604 PLM A 801 SITE 1 AC9 8 ZN A 602 ASN B 57 HIS B 58 LYS B 239 SITE 2 AC9 8 HIS B 265 PLM B 802 HOH B 806 HOH B 807 SITE 1 BC1 16 ZN A 602 ZN A 605 CL A 608 HIS B 58 SITE 2 BC1 16 GLU B 78 HIS B 79 THR B 191 ILE B 198 SITE 3 BC1 16 ILE B 201 GLY B 210 SER B 211 LEU B 212 SITE 4 BC1 16 HIS B 238 ASP B 242 HIS B 265 POP B 700 SITE 1 BC2 3 ZN A 602 GLU B 197 PLM B 802 CRYST1 98.850 98.850 125.660 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 0.010116 0.005841 0.000000 0.00000 SCALE2 0.000000 0.011681 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007958 0.00000