HEADER HYDROLASE 12-APR-06 2GO3 TITLE CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS LPXC COMPLEXED WITH IMIDAZOLE. 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: DELTA 11 C-TERMINAL DELETION; 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, ENVA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS LPXC-IMIDAZOLE COMPLEX, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.A.GENNADIOS,D.A.WHITTINGTON,X.LI,C.A.FIERKE,D.W.CHRISTIANSON REVDAT 5 14-FEB-24 2GO3 1 REMARK REVDAT 4 20-OCT-21 2GO3 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 2GO3 1 VERSN REVDAT 2 24-FEB-09 2GO3 1 VERSN REVDAT 1 04-JUL-06 2GO3 0 JRNL AUTH H.A.GENNADIOS,D.A.WHITTINGTON,X.LI,C.A.FIERKE, JRNL AUTH 2 D.W.CHRISTIANSON JRNL TITL MECHANISTIC INFERENCES FROM THE BINDING OF LIGANDS TO LPXC, JRNL TITL 2 A METAL-DEPENDENT DEACETYLASE JRNL REF BIOCHEMISTRY V. 45 7940 2006 JRNL REFN ISSN 0006-2960 JRNL PMID 16800620 JRNL DOI 10.1021/BI060823M REMARK 2 REMARK 2 RESOLUTION. 2.00 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) : 2.00 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 : 47793 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) : 0.195 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2393 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.07 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.70 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 : 4298 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 101 REMARK 3 SOLVENT ATOMS : 410 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.17 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) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.700 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) : 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 2GO3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000037349. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-AUG-03 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 : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97930 REMARK 200 MONOCHROMATOR : A KOHZU DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR WITH A SAGITTALLY REMARK 200 FOCUSED SECOND CRYSTAL. TWO REMARK 200 SPHERICAL MIRRORS, ONE WILL BE REMARK 200 RHODIUM COATED. REMARK 200 OPTICS : A KOHZU DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR WITH A SAGITTALLY REMARK 200 FOCUSED SECOND CRYSTAL. TWO REMARK 200 SPHERICAL MIRRORS, ONE WILL BE REMARK 200 RHODIUM COATED. REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47936 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.08100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.4000 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 (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.31900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS 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 (%): 58.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES (PH 8.0), 180 MM NACL, REMARK 280 10% PEG 3350, AND 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 40.72067 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 81.44133 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 61.08100 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 101.80167 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 20.36033 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 2 CHAIN(S). ALTHOUGH IN THE CRYSTAL THIS REMARK 300 MOLECULE APPEARS TO FORM A DIMER, THE MONOMER IS REMARK 300 BIOLOGICALLY ACTIVE. SEE REMARK 350 FOR INFORMATION ON REMARK 300 GENERATING THE BIOLOGICAL MOLECULE(S). 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: 4720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -201.0 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 -50.61700 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 87.67122 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 40.72067 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 MET B 1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 190 C ARG A 190 O -0.159 REMARK 500 ARG A 190 C THR A 191 N 0.201 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 A 190 CA - C - N ANGL. DEV. = -22.7 DEGREES REMARK 500 ARG A 230 NE - CZ - NH2 ANGL. DEV. = -4.9 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 SER A 59 162.89 171.72 REMARK 500 LEU A 104 -127.11 57.00 REMARK 500 ARG A 125 131.87 -172.45 REMARK 500 ASP A 140 98.11 -169.00 REMARK 500 SER A 150 141.26 -172.42 REMARK 500 ASP A 221 21.85 -146.75 REMARK 500 HIS B 58 1.74 80.35 REMARK 500 SER B 59 163.35 176.68 REMARK 500 LEU B 104 -124.90 57.13 REMARK 500 ASN B 124 42.31 -98.48 REMARK 500 ASP B 140 107.62 -167.08 REMARK 500 GLU B 141 77.97 35.17 REMARK 500 SER B 150 139.61 -173.02 REMARK 500 LYS B 162 31.00 -91.78 REMARK 500 ASP B 221 18.85 -140.63 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 B 603 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 29 NE2 REMARK 620 2 GLU A 95 OE1 111.1 REMARK 620 3 GLY B 2 N 97.9 119.7 REMARK 620 4 GLU B 126 OE2 86.9 150.5 78.4 REMARK 620 5 GLU B 126 OE1 125.1 94.7 110.3 56.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 604 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 58 NE2 REMARK 620 2 HIS A 200 NE2 123.8 REMARK 620 3 CL A 607 CL 107.0 113.2 REMARK 620 4 IMD A 801 N1 102.0 106.5 101.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 602 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 79 NE2 REMARK 620 2 HIS A 238 NE2 99.6 REMARK 620 3 ASP A 242 OD1 103.4 104.7 REMARK 620 4 IMD A 803 N1 104.2 122.3 119.2 REMARK 620 5 HOH A1094 O 92.6 95.4 151.6 32.7 REMARK 620 6 HOH A1095 O 108.6 143.4 91.3 28.4 61.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 605 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 58 NE2 REMARK 620 2 HIS B 200 NE2 114.6 REMARK 620 3 CL B 606 CL 112.3 114.0 REMARK 620 4 IMD B 802 N1 102.3 94.1 118.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 79 NE2 REMARK 620 2 HIS B 238 NE2 98.9 REMARK 620 3 ASP B 242 OD1 102.6 103.0 REMARK 620 4 IMD B 804 N1 103.4 128.2 116.5 REMARK 620 5 HOH B1117 O 95.3 92.9 153.7 39.4 REMARK 620 6 HOH B1118 O 108.8 145.1 91.3 25.2 64.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 603 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 B 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLM A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYR B 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYR A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD B 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 904 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1P42 RELATED DB: PDB REMARK 900 ZINC-INHIBITED FORM REMARK 900 RELATED ID: 1YH8 RELATED DB: PDB REMARK 900 LPXC-PALMITATE COMPLEX REMARK 900 RELATED ID: 1YHC RELATED DB: PDB REMARK 900 LPXC-CACODYLATE COMPLEX REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE RESIDUE NUMBERING SCHEME FOR THIS STRUCTURE FOLLOWS REMARK 999 THAT OF THE E. COLI ENZYME. THIS TREATMENT RESULTS IN A REMARK 999 BREAK IN THE SEQUENTIAL NUMBERING IN A COUPLE OF PLACES. DBREF 2GO3 A 1 267 UNP O67648 LPXC_AQUAE 1 267 DBREF 2GO3 B 1 267 UNP O67648 LPXC_AQUAE 1 267 SEQADV 2GO3 ALA A 193 UNP O67648 CYS 181 ENGINEERED MUTATION SEQADV 2GO3 ALA B 193 UNP O67648 CYS 181 ENGINEERED MUTATION SEQRES 1 A 267 MET GLY LEU GLU LYS THR VAL LYS GLU LYS LEU SER PHE SEQRES 2 A 267 GLU GLY VAL GLY ILE HIS THR GLY GLU TYR SER LYS LEU SEQRES 3 A 267 ILE ILE HIS PRO GLU LYS GLU GLY THR GLY ILE ARG PHE SEQRES 4 A 267 PHE LYS ASN GLY VAL TYR ILE PRO ALA ARG HIS GLU PHE SEQRES 5 A 267 VAL VAL HIS THR ASN HIS SER THR ASP LEU GLY PHE LYS SEQRES 6 A 267 GLY GLN ARG ILE LYS THR VAL GLU HIS ILE LEU SER VAL SEQRES 7 A 267 LEU HIS LEU LEU GLU ILE THR ASN VAL THR ILE GLU VAL SEQRES 8 A 267 ILE GLY ASN GLU ILE PRO ILE LEU ASP GLY SER GLY TRP SEQRES 9 A 267 GLU PHE TYR GLU ALA ILE ARG LYS ASN ILE LEU ASN GLN SEQRES 10 A 267 ASN ARG GLU ILE ASP TYR PHE VAL VAL GLU GLU PRO ILE SEQRES 11 A 267 ILE VAL GLU ASP GLU GLY ARG LEU ILE LYS ALA GLU PRO SEQRES 12 A 267 SER ASP THR LEU GLU VAL THR TYR GLU GLY GLU PHE LYS SEQRES 13 A 267 ASN PHE LEU GLY ARG GLN LYS PHE THR PHE VAL GLU GLY SEQRES 14 A 267 ASN GLU GLU GLU ILE VAL LEU ALA ARG THR PHE ALA PHE SEQRES 15 A 267 ASP TRP GLU ILE GLU HIS ILE LYS LYS VAL GLY LEU GLY SEQRES 16 A 267 LYS GLY GLY SER LEU LYS ASN THR LEU VAL LEU GLY LYS SEQRES 17 A 267 ASP LYS VAL TYR ASN PRO GLU GLY LEU ARG TYR GLU ASN SEQRES 18 A 267 GLU PRO VAL ARG HIS LYS VAL PHE ASP LEU ILE GLY ASP SEQRES 19 A 267 LEU TYR LEU LEU GLY SER PRO VAL LYS GLY LYS PHE TYR SEQRES 20 A 267 SER PHE ARG GLY GLY HIS SER LEU ASN VAL LYS LEU VAL SEQRES 21 A 267 LYS GLU LEU ALA LYS LYS GLN SEQRES 1 B 267 MET GLY LEU GLU LYS THR VAL LYS GLU LYS LEU SER PHE SEQRES 2 B 267 GLU GLY VAL GLY ILE HIS THR GLY GLU TYR SER LYS LEU SEQRES 3 B 267 ILE ILE HIS PRO GLU LYS GLU GLY THR GLY ILE ARG PHE SEQRES 4 B 267 PHE LYS ASN GLY VAL TYR ILE PRO ALA ARG HIS GLU PHE SEQRES 5 B 267 VAL VAL HIS THR ASN HIS SER THR ASP LEU GLY PHE LYS SEQRES 6 B 267 GLY GLN ARG ILE LYS THR VAL GLU HIS ILE LEU SER VAL SEQRES 7 B 267 LEU HIS LEU LEU GLU ILE THR ASN VAL THR ILE GLU VAL SEQRES 8 B 267 ILE GLY ASN GLU ILE PRO ILE LEU ASP GLY SER GLY TRP SEQRES 9 B 267 GLU PHE TYR GLU ALA ILE ARG LYS ASN ILE LEU ASN GLN SEQRES 10 B 267 ASN ARG GLU ILE ASP TYR PHE VAL VAL GLU GLU PRO ILE SEQRES 11 B 267 ILE VAL GLU ASP GLU GLY ARG LEU ILE LYS ALA GLU PRO SEQRES 12 B 267 SER ASP THR LEU GLU VAL THR TYR GLU GLY GLU PHE LYS SEQRES 13 B 267 ASN PHE LEU GLY ARG GLN LYS PHE THR PHE VAL GLU GLY SEQRES 14 B 267 ASN GLU GLU GLU ILE VAL LEU ALA ARG THR PHE ALA PHE SEQRES 15 B 267 ASP TRP GLU ILE GLU HIS ILE LYS LYS VAL GLY LEU GLY SEQRES 16 B 267 LYS GLY GLY SER LEU LYS ASN THR LEU VAL LEU GLY LYS SEQRES 17 B 267 ASP LYS VAL TYR ASN PRO GLU GLY LEU ARG TYR GLU ASN SEQRES 18 B 267 GLU PRO VAL ARG HIS LYS VAL PHE ASP LEU ILE GLY ASP SEQRES 19 B 267 LEU TYR LEU LEU GLY SER PRO VAL LYS GLY LYS PHE TYR SEQRES 20 B 267 SER PHE ARG GLY GLY HIS SER LEU ASN VAL LYS LEU VAL SEQRES 21 B 267 LYS GLU LEU ALA LYS LYS GLN HET ZN A 602 1 HET ZN A 604 1 HET CL A 607 1 HET PLM A 701 18 HET MYR A 703 16 HET IMD A 801 5 HET IMD A 803 5 HET GOL A 902 6 HET ZN B 601 1 HET ZN B 603 1 HET ZN B 605 1 HET CL B 606 1 HET MYR B 702 16 HET IMD B 802 5 HET IMD B 804 5 HET GOL B 901 6 HET GOL B 903 6 HET GOL B 904 6 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM PLM PALMITIC ACID HETNAM MYR MYRISTIC ACID HETNAM IMD IMIDAZOLE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ZN 5(ZN 2+) FORMUL 5 CL 2(CL 1-) FORMUL 6 PLM C16 H32 O2 FORMUL 7 MYR 2(C14 H28 O2) FORMUL 8 IMD 4(C3 H5 N2 1+) FORMUL 10 GOL 4(C3 H8 O3) FORMUL 21 HOH *410(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 GLN A 279 1 16 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 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 ARG A 38 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 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 158 O SER A 260 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 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 GLN B 123 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 THR B 93 N HIS B 29 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 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 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 NE2 HIS A 29 ZN ZN B 603 3454 1555 2.11 LINK NE2 HIS A 58 ZN ZN A 604 1555 1555 2.26 LINK NE2 HIS A 79 ZN ZN A 602 1555 1555 2.08 LINK OE1 GLU A 95 ZN ZN B 603 3454 1555 1.99 LINK NE2 HIS A 200 ZN ZN A 604 1555 1555 2.42 LINK NE2 HIS A 238 ZN ZN A 602 1555 1555 2.08 LINK OD1 ASP A 242 ZN ZN A 602 1555 1555 2.05 LINK ZN ZN A 602 N1 IMD A 803 1555 1555 2.08 LINK ZN ZN A 602 O HOH A1094 1555 1555 2.29 LINK ZN ZN A 602 O HOH A1095 1555 1555 2.31 LINK ZN ZN A 604 CL CL A 607 1555 1555 2.37 LINK ZN ZN A 604 N1 IMD A 801 1555 1555 2.22 LINK N GLY B 2 ZN ZN B 603 1555 1555 2.24 LINK NE2 HIS B 58 ZN ZN B 605 1555 1555 2.21 LINK NE2 HIS B 79 ZN ZN B 601 1555 1555 2.07 LINK OE2 GLU B 126 ZN ZN B 603 1555 1555 2.56 LINK OE1 GLU B 126 ZN ZN B 603 1555 1555 2.01 LINK NE2 HIS B 200 ZN ZN B 605 1555 1555 2.38 LINK NE2 HIS B 238 ZN ZN B 601 1555 1555 2.05 LINK OD1 ASP B 242 ZN ZN B 601 1555 1555 2.05 LINK ZN ZN B 601 N1 IMD B 804 1555 1555 2.03 LINK ZN ZN B 601 O HOH B1117 1555 1555 2.26 LINK ZN ZN B 601 O HOH B1118 1555 1555 2.33 LINK ZN ZN B 605 CL CL B 606 1555 1555 2.25 LINK ZN ZN B 605 N1 IMD B 802 1555 1555 2.09 SITE 1 AC1 6 HIS B 79 HIS B 238 ASP B 242 IMD B 804 SITE 2 AC1 6 HOH B1117 HOH B1118 SITE 1 AC2 6 HIS A 79 HIS A 238 ASP A 242 IMD A 803 SITE 2 AC2 6 HOH A1094 HOH A1095 SITE 1 AC3 4 HIS A 29 GLU A 95 GLY B 2 GLU B 126 SITE 1 AC4 4 HIS A 58 HIS A 200 CL A 607 IMD A 801 SITE 1 AC5 4 HIS B 58 HIS B 200 CL B 606 IMD B 802 SITE 1 AC6 3 PHE B 167 ZN B 605 IMD B 802 SITE 1 AC7 4 PHE A 167 ZN A 604 IMD A 801 HOH A1049 SITE 1 AC8 5 HIS A 58 ILE A 198 TYR A 224 ILE B 198 SITE 2 AC8 5 MYR B 702 SITE 1 AC9 8 PLM A 701 ILE B 18 HIS B 58 PHE B 192 SITE 2 AC9 8 GLY B 210 HOH B 905 HOH B 972 HOH B1049 SITE 1 BC1 14 LYS A 202 GLY A 210 SER A 211 LEU A 212 SITE 2 BC1 14 LYS A 213 HOH A 962 HOH A1044 HOH A1096 SITE 3 BC1 14 LYS B 202 GLY B 210 SER B 211 LEU B 212 SITE 4 BC1 14 LYS B 213 HOH B 919 SITE 1 BC2 5 HIS A 58 PHE A 167 HIS A 200 ZN A 604 SITE 2 BC2 5 CL A 607 SITE 1 BC3 5 HIS B 58 PHE B 167 HIS B 200 ZN B 605 SITE 2 BC3 5 CL B 606 SITE 1 BC4 10 HIS A 58 GLU A 78 HIS A 79 THR A 191 SITE 2 BC4 10 HIS A 238 ASP A 242 HIS A 265 ZN A 602 SITE 3 BC4 10 HOH A1094 HOH A1095 SITE 1 BC5 10 HIS B 58 GLU B 78 HIS B 79 THR B 191 SITE 2 BC5 10 HIS B 238 ASP B 242 HIS B 265 ZN B 601 SITE 3 BC5 10 HOH B1117 HOH B1118 SITE 1 BC6 9 HIS B 85 LEU B 86 GLU B 88 TYR B 129 SITE 2 BC6 9 LEU B 153 VAL B 254 LYS B 255 HOH B 941 SITE 3 BC6 9 HOH B1119 SITE 1 BC7 7 HIS A 85 LEU A 86 GLU A 88 LEU A 153 SITE 2 BC7 7 VAL A 254 LYS A 255 HOH A 992 SITE 1 BC8 9 VAL B 53 VAL B 54 HIS B 55 GLU B 158 SITE 2 BC8 9 ARG B 170 LYS B 172 LYS B 273 HOH B 976 SITE 3 BC8 9 HOH B1097 SITE 1 BC9 6 LYS A 10 HIS A 29 TYR B 129 ASP B 151 SITE 2 BC9 6 HOH B 984 HOH B1084 CRYST1 101.234 101.234 122.162 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 0.009878 0.005703 0.000000 0.00000 SCALE2 0.000000 0.011406 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008186 0.00000