PDB Short entry for 2IER HEADER HYDROLASE 19-SEP-06 2IER TITLE CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC COMPLEXED WITH URIDINE 5'- TITLE 2 DIPHOSPHATE 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 2IER 1 REMARK REVDAT 4 20-OCT-21 2IER 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 2IER 1 VERSN REVDAT 2 24-FEB-09 2IER 1 VERSN REVDAT 1 09-JAN-07 2IER 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. 2.70 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 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 : 19510 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1920 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.80 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.20 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 : 101 REMARK 3 SOLVENT ATOMS : 77 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.05000 REMARK 3 B22 (A**2) : -1.05000 REMARK 3 B33 (A**2) : 2.10000 REMARK 3 B12 (A**2) : 3.77000 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) : 0.30 REMARK 3 ESD FROM SIGMAA (A) : 0.30 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) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 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) : 1.220 ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.090 ; 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 2IER 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_1000039492. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUL-06 REMARK 200 TEMPERATURE (KELVIN) : 200 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X12C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.283 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19510 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.12800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.33300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.200 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: 1P42 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.88 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES (PH 8.0), 180 MM NACL, REMARK 280 14% PEG 3350, 0.5 MM ZNSO4, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 40.74667 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 81.49333 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 61.12000 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 101.86667 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 20.37333 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: 4820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -344.0 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: 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 59 165.15 173.38 REMARK 500 LEU A 104 -126.90 54.13 REMARK 500 SER A 107 -161.09 -117.96 REMARK 500 ASN A 118 23.84 -145.64 REMARK 500 ASN A 124 54.59 -94.99 REMARK 500 ASP A 140 97.60 -168.24 REMARK 500 GLU A 141 70.39 38.30 REMARK 500 LYS A 162 47.86 -90.63 REMARK 500 ASP A 221 28.15 -160.29 REMARK 500 LYS A 278 37.22 -75.55 REMARK 500 GLN A 279 49.04 18.96 REMARK 500 SER B 59 164.77 172.29 REMARK 500 LEU B 104 -126.76 54.30 REMARK 500 SER B 107 -161.63 -117.61 REMARK 500 ASN B 118 24.05 -146.68 REMARK 500 ASN B 124 55.19 -95.45 REMARK 500 ASP B 140 97.28 -168.21 REMARK 500 GLU B 141 69.93 38.68 REMARK 500 LYS B 162 48.59 -90.76 REMARK 500 ASP B 221 27.89 -159.63 REMARK 500 LYS B 278 37.17 -75.48 REMARK 500 GLN B 279 49.29 19.07 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 605 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 2 N REMARK 620 2 GLU A 126 OE1 116.4 REMARK 620 3 GLU A 126 OE2 76.6 55.1 REMARK 620 4 HIS B 29 NE2 106.2 131.4 119.1 REMARK 620 5 GLU B 95 OE1 113.2 84.5 136.1 99.7 REMARK 620 6 GLU B 95 OE2 85.2 135.8 161.8 67.0 51.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 603 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 58 NE2 REMARK 620 2 HIS A 200 NE2 102.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 608 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 58 ND1 REMARK 620 2 UDP A 801 O2B 121.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 606 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 78 OE2 REMARK 620 2 HIS A 265 NE2 81.8 REMARK 620 3 HOH A 802 O 122.2 150.4 REMARK 620 4 HOH A 830 O 132.8 84.3 89.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 79 NE2 REMARK 620 2 HIS A 238 NE2 98.3 REMARK 620 3 ASP A 242 OD1 97.2 103.2 REMARK 620 4 HOH A 802 O 103.6 104.3 142.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 604 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 58 NE2 REMARK 620 2 HIS B 200 NE2 96.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 609 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 58 ND1 REMARK 620 2 UDP B 802 O3A 115.4 REMARK 620 3 UDP B 802 O2B 129.3 56.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 607 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 78 OE2 REMARK 620 2 HIS B 265 NE2 92.3 REMARK 620 3 HOH B 808 O 121.3 116.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 602 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 79 NE2 REMARK 620 2 HIS B 238 NE2 98.5 REMARK 620 3 ASP B 242 OD1 101.4 104.9 REMARK 620 4 HOH B 808 O 106.5 125.0 116.5 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 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 608 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 609 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLM A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLM B 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 501 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: 2IES RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC COMPLEXED WITH REMARK 900 PYROPHOSPHATE 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 2IER A 1 283 UNP O67648 LPXC_AQUAE 1 271 DBREF 2IER B 1 283 UNP O67648 LPXC_AQUAE 1 271 SEQADV 2IER ALA A 193 UNP O67648 CYS 181 ENGINEERED MUTATION SEQADV 2IER 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 601 1 HET ZN A 603 1 HET ZN A 605 1 HET ZN A 606 1 HET ZN A 608 1 HET UDP A 801 25 HET PLM A 701 18 HET GOL A 501 6 HET ZN B 602 1 HET ZN B 604 1 HET ZN B 607 1 HET ZN B 609 1 HET UDP B 802 25 HET PLM B 702 18 HETNAM ZN ZINC ION HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM PLM PALMITIC ACID HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ZN 9(ZN 2+) FORMUL 8 UDP 2(C9 H14 N2 O12 P2) FORMUL 9 PLM 2(C16 H32 O2) FORMUL 10 GOL C3 H8 O3 FORMUL 17 HOH *77(H2 O) HELIX 1 1 ARG A 49 GLU A 51 5 3 HELIX 2 2 VAL A 77 GLU A 88 1 12 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 GLU B 88 1 12 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 LYS B 278 1 15 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 ILE A 28 N LEU A 11 SHEET 3 B 5 VAL A 92 ILE A 97 -1 O ILE A 97 N LYS A 25 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 VAL A 54 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 GLU A 148 -1 N LEU A 144 O PHE A 261 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 LEU A 153 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 PHE A 192 PHE A 194 0 SHEET 2 F 2 LEU A 216 LEU A 218 1 O LEU A 216 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 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 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 VAL B 54 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 GLU B 148 -1 N LEU B 144 O PHE B 261 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 LEU B 153 GLU B 160 1 N GLU B 154 O PHE B 258 SHEET 4 K 4 ARG B 170 VAL B 179 -1 O GLN B 171 N GLY B 159 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 216 N ALA B 193 LINK N GLY A 2 ZN ZN A 605 1555 1555 2.34 LINK NE2 HIS A 58 ZN ZN A 603 1555 1555 2.14 LINK ND1 HIS A 58 ZN ZN A 608 1555 1555 2.50 LINK OE2 GLU A 78 ZN ZN A 606 1555 1555 2.50 LINK NE2 HIS A 79 ZN ZN A 601 1555 1555 2.17 LINK OE1 GLU A 126 ZN ZN A 605 1555 1555 2.14 LINK OE2 GLU A 126 ZN ZN A 605 1555 1555 2.53 LINK NE2 HIS A 200 ZN ZN A 603 1555 1555 2.42 LINK NE2 HIS A 238 ZN ZN A 601 1555 1555 2.11 LINK OD1 ASP A 242 ZN ZN A 601 1555 1555 2.18 LINK NE2 HIS A 265 ZN ZN A 606 1555 1555 2.41 LINK ZN ZN A 601 O HOH A 802 1555 1555 2.48 LINK ZN ZN A 605 NE2 HIS B 29 1555 1555 2.04 LINK ZN ZN A 605 OE1 GLU B 95 1555 1555 2.26 LINK ZN ZN A 605 OE2 GLU B 95 1555 1555 2.69 LINK ZN ZN A 606 O HOH A 802 1555 1555 2.33 LINK ZN ZN A 606 O HOH A 830 1555 1555 2.06 LINK ZN ZN A 608 O2B UDP A 801 1555 1555 2.31 LINK NE2 HIS B 58 ZN ZN B 604 1555 1555 2.40 LINK ND1 HIS B 58 ZN ZN B 609 1555 1555 2.53 LINK OE2 GLU B 78 ZN ZN B 607 1555 1555 2.04 LINK NE2 HIS B 79 ZN ZN B 602 1555 1555 2.13 LINK NE2 HIS B 200 ZN ZN B 604 1555 1555 2.39 LINK NE2 HIS B 238 ZN ZN B 602 1555 1555 2.15 LINK OD1 ASP B 242 ZN ZN B 602 1555 1555 2.07 LINK NE2 HIS B 265 ZN ZN B 607 1555 1555 2.37 LINK ZN ZN B 602 O HOH B 808 1555 1555 1.89 LINK ZN ZN B 607 O HOH B 808 1555 1555 1.79 LINK ZN ZN B 609 O3A UDP B 802 1555 1555 2.71 LINK ZN ZN B 609 O2B UDP B 802 1555 1555 2.43 SITE 1 AC1 5 HIS A 79 HIS A 238 ASP A 242 ZN A 606 SITE 2 AC1 5 HOH A 802 SITE 1 AC2 5 HIS B 79 HIS B 238 ASP B 242 ZN B 607 SITE 2 AC2 5 HOH B 808 SITE 1 AC3 2 HIS A 58 HIS A 200 SITE 1 AC4 2 HIS B 58 HIS B 200 SITE 1 AC5 5 GLY A 2 GLU A 126 ILE B 27 HIS B 29 SITE 2 AC5 5 GLU B 95 SITE 1 AC6 5 GLU A 78 HIS A 265 ZN A 601 HOH A 802 SITE 2 AC6 5 HOH A 830 SITE 1 AC7 6 HIS B 58 SER B 59 GLU B 78 HIS B 265 SITE 2 AC7 6 ZN B 602 HOH B 808 SITE 1 AC8 3 HIS A 58 PLM A 701 UDP A 801 SITE 1 AC9 3 HIS B 58 PLM B 702 UDP B 802 SITE 1 BC1 17 HIS A 58 TYR A 157 GLY A 159 GLU A 160 SITE 2 BC1 17 PHE A 161 GLU A 197 LYS A 239 ARG A 262 SITE 3 BC1 17 GLY A 264 HIS A 265 ZN A 608 PLM A 701 SITE 4 BC1 17 HOH A 808 HOH A 817 HOH A 830 HOH A 837 SITE 5 BC1 17 HOH A 840 SITE 1 BC2 13 HIS B 58 TYR B 157 GLY B 159 GLU B 160 SITE 2 BC2 13 PHE B 161 PHE B 194 GLU B 197 LYS B 239 SITE 3 BC2 13 ARG B 262 GLY B 264 HIS B 265 ZN B 609 SITE 4 BC2 13 HOH B 810 SITE 1 BC3 12 ILE A 18 HIS A 19 PHE A 192 GLU A 197 SITE 2 BC3 12 ILE A 198 GLY A 210 ZN A 608 UDP A 801 SITE 3 BC3 12 HOH A 843 SER B 211 LEU B 212 PLM B 702 SITE 1 BC4 9 TYR A 224 PLM A 701 ILE B 18 HIS B 19 SITE 2 BC4 9 ILE B 198 GLY B 210 SER B 211 TYR B 224 SITE 3 BC4 9 ZN B 609 SITE 1 BC5 5 HIS A 85 GLU A 88 LEU A 153 VAL A 254 SITE 2 BC5 5 LYS A 255 CRYST1 101.206 101.206 122.240 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 0.009881 0.005705 0.000000 0.00000 SCALE2 0.000000 0.011409 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008181 0.00000