HEADER HYDROLASE/HYDROLASE INHIBITOR 16-SEP-15 5DRR TITLE CRYSTAL STRUCTURE OF THE PSEUDOMONAS AERUGINOSA LPXC/LPC-058 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-3-O-[3-HYDROXYMYRISTOYL] N-ACETYLGLUCOSAMINE COMPND 3 DEACETYLASE; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: PROTEIN ENVA,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: PSEUDOMONAS AERUGINOSA (STRAIN ATCC 15692 / SOURCE 3 PAO1 / 1C / PRS 101 / LMG 12228); SOURCE 4 ORGANISM_TAXID: 208964; SOURCE 5 STRAIN: ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228; SOURCE 6 GENE: LPXC, ENVA, PA4406; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET21B KEYWDS LPXC, LIPID A, INHIBITOR, GRAM-NEGATIVE BACTERIA, HYDROLASE-HYDROLASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.-J.LEE,J.NAJEEB,P.ZHOU REVDAT 4 27-SEP-23 5DRR 1 LINK REVDAT 3 11-DEC-19 5DRR 1 REMARK REVDAT 2 20-SEP-17 5DRR 1 REMARK REVDAT 1 09-MAR-16 5DRR 0 JRNL AUTH C.J.LEE,X.LIANG,Q.WU,J.NAJEEB,J.ZHAO,R.GOPALASWAMY, JRNL AUTH 2 M.TITECAT,F.SEBBANE,N.LEMAITRE,E.J.TOONE,P.ZHOU JRNL TITL DRUG DESIGN FROM THE CRYPTIC INHIBITOR ENVELOPE. JRNL REF NAT COMMUN V. 7 10638 2016 JRNL REFN ESSN 2041-1723 JRNL PMID 26912110 JRNL DOI 10.1038/NCOMMS10638 REMARK 2 REMARK 2 RESOLUTION. 1.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.32 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 46039 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 2321 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 28.3230 - 4.0845 1.00 2793 173 0.1463 0.1787 REMARK 3 2 4.0845 - 3.2435 1.00 2711 127 0.1452 0.1689 REMARK 3 3 3.2435 - 2.8339 1.00 2676 140 0.1800 0.1938 REMARK 3 4 2.8339 - 2.5750 1.00 2646 139 0.1822 0.2241 REMARK 3 5 2.5750 - 2.3906 1.00 2605 141 0.1776 0.2108 REMARK 3 6 2.3906 - 2.2497 0.99 2601 162 0.1840 0.2381 REMARK 3 7 2.2497 - 2.1371 0.98 2582 136 0.2083 0.2297 REMARK 3 8 2.1371 - 2.0441 1.00 2612 131 0.1779 0.1921 REMARK 3 9 2.0441 - 1.9654 0.99 2584 138 0.1844 0.2181 REMARK 3 10 1.9654 - 1.8976 0.98 2542 118 0.2057 0.2817 REMARK 3 11 1.8976 - 1.8383 0.97 2516 143 0.2232 0.2736 REMARK 3 12 1.8383 - 1.7857 0.96 2521 122 0.2245 0.2638 REMARK 3 13 1.7857 - 1.7387 0.95 2482 126 0.2301 0.2828 REMARK 3 14 1.7387 - 1.6963 0.95 2454 145 0.2244 0.2590 REMARK 3 15 1.6963 - 1.6577 0.95 2491 122 0.2256 0.2262 REMARK 3 16 1.6577 - 1.6225 0.94 2441 129 0.2369 0.2786 REMARK 3 17 1.6225 - 1.5900 0.95 2461 129 0.2625 0.2771 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.26 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.52 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.004 2455 REMARK 3 ANGLE : 0.802 3310 REMARK 3 CHIRALITY : 0.029 371 REMARK 3 PLANARITY : 0.004 443 REMARK 3 DIHEDRAL : 12.897 900 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 22 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.7882 2.8664 3.4683 REMARK 3 T TENSOR REMARK 3 T11: 0.0966 T22: 0.1630 REMARK 3 T33: 0.1443 T12: -0.0257 REMARK 3 T13: 0.0028 T23: 0.0294 REMARK 3 L TENSOR REMARK 3 L11: 1.0177 L22: 4.2267 REMARK 3 L33: 2.9778 L12: -1.0909 REMARK 3 L13: 1.2606 L23: 0.7716 REMARK 3 S TENSOR REMARK 3 S11: -0.0720 S12: -0.0061 S13: -0.0092 REMARK 3 S21: 0.0547 S22: 0.2327 S23: -0.0174 REMARK 3 S31: 0.0388 S32: 0.1617 S33: -0.1490 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 23 THROUGH 47 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.3376 -2.4770 8.4911 REMARK 3 T TENSOR REMARK 3 T11: 0.2116 T22: 0.1489 REMARK 3 T33: 0.1272 T12: 0.0166 REMARK 3 T13: -0.0333 T23: 0.0257 REMARK 3 L TENSOR REMARK 3 L11: 4.1004 L22: 1.5891 REMARK 3 L33: 4.6162 L12: -0.9744 REMARK 3 L13: -2.6623 L23: 2.0946 REMARK 3 S TENSOR REMARK 3 S11: -0.0647 S12: -0.1513 S13: -0.2299 REMARK 3 S21: 0.2798 S22: 0.0017 S23: 0.0292 REMARK 3 S31: 0.2874 S32: -0.0548 S33: 0.0679 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 48 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.5014 -3.1176 -0.6024 REMARK 3 T TENSOR REMARK 3 T11: 0.1262 T22: 0.1440 REMARK 3 T33: 0.1426 T12: -0.0027 REMARK 3 T13: -0.0054 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 6.3748 L22: 7.1681 REMARK 3 L33: 7.4870 L12: 0.9583 REMARK 3 L13: -0.3378 L23: 0.0325 REMARK 3 S TENSOR REMARK 3 S11: 0.0991 S12: -0.0603 S13: -0.1040 REMARK 3 S21: -0.0323 S22: -0.0434 S23: 0.4385 REMARK 3 S31: 0.1949 S32: -0.4456 S33: -0.0739 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 77 THROUGH 117 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.1281 5.0783 0.6706 REMARK 3 T TENSOR REMARK 3 T11: 0.1819 T22: 0.1759 REMARK 3 T33: 0.1435 T12: 0.0280 REMARK 3 T13: -0.0038 T23: 0.0084 REMARK 3 L TENSOR REMARK 3 L11: 1.3130 L22: 1.3905 REMARK 3 L33: 1.3938 L12: -0.3804 REMARK 3 L13: -0.0555 L23: 0.6266 REMARK 3 S TENSOR REMARK 3 S11: -0.0241 S12: -0.0120 S13: -0.0780 REMARK 3 S21: -0.0268 S22: 0.0535 S23: -0.0365 REMARK 3 S31: 0.1476 S32: 0.1159 S33: -0.0254 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 118 THROUGH 147 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.6582 -5.5806 -15.5915 REMARK 3 T TENSOR REMARK 3 T11: 0.1535 T22: 0.1586 REMARK 3 T33: 0.1741 T12: 0.0083 REMARK 3 T13: 0.0233 T23: -0.0124 REMARK 3 L TENSOR REMARK 3 L11: 3.2544 L22: 1.1534 REMARK 3 L33: 5.0217 L12: 0.2035 REMARK 3 L13: 3.2560 L23: 0.7628 REMARK 3 S TENSOR REMARK 3 S11: 0.1174 S12: 0.1838 S13: -0.1525 REMARK 3 S21: -0.0834 S22: 0.0925 S23: -0.0374 REMARK 3 S31: 0.2114 S32: 0.2040 S33: -0.1843 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 148 THROUGH 170 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.7700 11.7464 -21.8463 REMARK 3 T TENSOR REMARK 3 T11: 0.2107 T22: 0.1928 REMARK 3 T33: 0.1292 T12: 0.0001 REMARK 3 T13: -0.0160 T23: 0.0188 REMARK 3 L TENSOR REMARK 3 L11: 6.2770 L22: 9.3045 REMARK 3 L33: 0.0115 L12: -7.0294 REMARK 3 L13: 0.4126 L23: -0.7500 REMARK 3 S TENSOR REMARK 3 S11: 0.0309 S12: 0.3504 S13: 0.1130 REMARK 3 S21: -0.1291 S22: -0.0785 S23: -0.0708 REMARK 3 S31: -0.0901 S32: 0.0983 S33: 0.0584 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 171 THROUGH 217 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.6953 14.9913 -8.4109 REMARK 3 T TENSOR REMARK 3 T11: 0.1772 T22: 0.1018 REMARK 3 T33: 0.1640 T12: -0.0246 REMARK 3 T13: -0.0242 T23: 0.0243 REMARK 3 L TENSOR REMARK 3 L11: 7.9786 L22: 1.5575 REMARK 3 L33: 3.0260 L12: -2.5939 REMARK 3 L13: -3.0229 L23: 1.5121 REMARK 3 S TENSOR REMARK 3 S11: -0.1684 S12: 0.0540 S13: 0.0515 REMARK 3 S21: 0.0291 S22: 0.0441 S23: -0.0077 REMARK 3 S31: -0.0726 S32: 0.0063 S33: 0.1056 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 218 THROUGH 232 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.7984 24.4493 -12.2234 REMARK 3 T TENSOR REMARK 3 T11: 0.2602 T22: 0.1931 REMARK 3 T33: 0.2446 T12: -0.0312 REMARK 3 T13: -0.0289 T23: 0.0186 REMARK 3 L TENSOR REMARK 3 L11: 3.9883 L22: 4.7170 REMARK 3 L33: 1.6034 L12: -3.8927 REMARK 3 L13: 0.8485 L23: -0.9367 REMARK 3 S TENSOR REMARK 3 S11: -0.0679 S12: -0.0626 S13: 0.6526 REMARK 3 S21: -0.0369 S22: 0.0984 S23: -0.2777 REMARK 3 S31: -0.1955 S32: -0.1484 S33: -0.0442 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 233 THROUGH 276 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.0107 0.5635 -14.4964 REMARK 3 T TENSOR REMARK 3 T11: 0.1576 T22: 0.1764 REMARK 3 T33: 0.1331 T12: 0.0072 REMARK 3 T13: -0.0073 T23: -0.0138 REMARK 3 L TENSOR REMARK 3 L11: 0.8336 L22: 3.4366 REMARK 3 L33: 1.1341 L12: -0.2430 REMARK 3 L13: 0.2013 L23: -0.2036 REMARK 3 S TENSOR REMARK 3 S11: -0.0000 S12: 0.0504 S13: -0.0525 REMARK 3 S21: -0.0497 S22: 0.0054 S23: 0.0293 REMARK 3 S31: 0.0729 S32: 0.0347 S33: 0.0035 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 277 THROUGH 296 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.9775 -10.2495 -16.3506 REMARK 3 T TENSOR REMARK 3 T11: 0.2332 T22: 0.3750 REMARK 3 T33: 0.3031 T12: 0.0388 REMARK 3 T13: -0.0383 T23: -0.0547 REMARK 3 L TENSOR REMARK 3 L11: 1.4742 L22: 2.9348 REMARK 3 L33: 3.9646 L12: -2.0261 REMARK 3 L13: 0.4325 L23: -0.2285 REMARK 3 S TENSOR REMARK 3 S11: 0.0543 S12: 0.3331 S13: -0.2395 REMARK 3 S21: -0.0330 S22: 0.0454 S23: -0.7205 REMARK 3 S31: 0.0530 S32: 0.9363 S33: -0.1474 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5DRR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000213625. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.8 - 5.1 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 MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.542 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 : NULL REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46207 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.590 REMARK 200 RESOLUTION RANGE LOW (A) : 28.319 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04700 REMARK 200 FOR THE DATA SET : 14.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.42400 REMARK 200 R SYM FOR SHELL (I) : 0.42400 REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.6 REMARK 200 STARTING MODEL: 3P3E REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE TRIHYDRATE, 2.4 - REMARK 280 2.6 M AMMONIUM NITRATE,, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 26.41500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.08500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.95000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.08500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.41500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.95000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 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: PISA 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 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 297 REMARK 465 ARG A 298 REMARK 465 PRO A 299 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 59 CG CD OE1 OE2 REMARK 470 GLU A 287 CG CD OE1 OE2 REMARK 470 ARG A 290 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 634 O HOH A 657 2.19 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 MET A 62 -61.80 -101.94 REMARK 500 MET A 62 -61.86 -101.94 REMARK 500 MET A 103 -120.50 54.88 REMARK 500 SER A 106 -168.35 -116.68 REMARK 500 ASP A 159 53.42 -142.34 REMARK 500 ASP A 218 -157.86 -99.81 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 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 78 NE2 REMARK 620 2 HIS A 237 NE2 95.4 REMARK 620 3 ASP A 241 OD1 98.1 100.6 REMARK 620 4 5EN A 303 O01 120.9 88.1 139.3 REMARK 620 5 5EN A 303 O04 96.9 162.1 90.5 74.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 162 ND1 REMARK 620 2 GLU A 219 OE1 104.5 REMARK 620 3 GLU A 219 OE2 88.3 54.1 REMARK 620 4 ASP A 277 OD2 37.7 142.2 112.2 REMARK 620 5 ASP A 279 OD1 36.3 140.2 114.0 3.7 REMARK 620 6 ASP A 279 OD2 38.2 142.4 114.1 2.1 2.4 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 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5EN A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 313 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 314 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 315 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 316 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 317 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 318 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 319 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 320 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5DRO RELATED DB: PDB REMARK 900 RELATED ID: 5DRQ RELATED DB: PDB REMARK 900 RELATED ID: 5DRP RELATED DB: PDB DBREF 5DRR A 1 299 UNP P47205 LPXC_PSEAE 1 299 SEQADV 5DRR SER A 40 UNP P47205 CYS 40 ENGINEERED MUTATION SEQRES 1 A 299 MET ILE LYS GLN ARG THR LEU LYS ASN ILE ILE ARG ALA SEQRES 2 A 299 THR GLY VAL GLY LEU HIS SER GLY GLU LYS VAL TYR LEU SEQRES 3 A 299 THR LEU LYS PRO ALA PRO VAL ASP THR GLY ILE VAL PHE SEQRES 4 A 299 SER ARG THR ASP LEU ASP PRO VAL VAL GLU ILE PRO ALA SEQRES 5 A 299 ARG ALA GLU ASN VAL GLY GLU THR THR MET SER THR THR SEQRES 6 A 299 LEU VAL LYS GLY ASP VAL LYS VAL ASP THR VAL GLU HIS SEQRES 7 A 299 LEU LEU SER ALA MET ALA GLY LEU GLY ILE ASP ASN ALA SEQRES 8 A 299 TYR VAL GLU LEU SER ALA SER GLU VAL PRO ILE MET ASP SEQRES 9 A 299 GLY SER ALA GLY PRO PHE VAL PHE LEU ILE GLN SER ALA SEQRES 10 A 299 GLY LEU GLN GLU GLN GLU ALA ALA LYS LYS PHE ILE ARG SEQRES 11 A 299 ILE LYS ARG GLU VAL SER VAL GLU GLU GLY ASP LYS ARG SEQRES 12 A 299 ALA VAL PHE VAL PRO PHE ASP GLY PHE LYS VAL SER PHE SEQRES 13 A 299 GLU ILE ASP PHE ASP HIS PRO VAL PHE ARG GLY ARG THR SEQRES 14 A 299 GLN GLN ALA SER VAL ASP PHE SER SER THR SER PHE VAL SEQRES 15 A 299 LYS GLU VAL SER ARG ALA ARG THR PHE GLY PHE MET ARG SEQRES 16 A 299 ASP ILE GLU TYR LEU ARG SER GLN ASN LEU ALA LEU GLY SEQRES 17 A 299 GLY SER VAL GLU ASN ALA ILE VAL VAL ASP GLU ASN ARG SEQRES 18 A 299 VAL LEU ASN GLU ASP GLY LEU ARG TYR GLU ASP GLU PHE SEQRES 19 A 299 VAL LYS HIS LYS ILE LEU ASP ALA ILE GLY ASP LEU TYR SEQRES 20 A 299 LEU LEU GLY ASN SER LEU ILE GLY GLU PHE ARG GLY PHE SEQRES 21 A 299 LYS SER GLY HIS ALA LEU ASN ASN GLN LEU LEU ARG THR SEQRES 22 A 299 LEU ILE ALA ASP LYS ASP ALA TRP GLU VAL VAL THR PHE SEQRES 23 A 299 GLU ASP ALA ARG THR ALA PRO ILE SER TYR MET ARG PRO HET ZN A 301 1 HET ZN A 302 1 HET 5EN A 303 31 HET NO3 A 304 4 HET NO3 A 305 4 HET NO3 A 306 4 HET NO3 A 307 4 HET NO3 A 308 4 HET NO3 A 309 4 HET NO3 A 310 4 HET NO3 A 311 4 HET NO3 A 312 4 HET NO3 A 313 4 HET NO3 A 314 4 HET NO3 A 315 4 HET NO3 A 316 4 HET NO3 A 317 4 HET NO3 A 318 4 HET NO3 A 319 4 HET NO3 A 320 4 HETNAM ZN ZINC ION HETNAM 5EN 4-[4-(4-AMINOPHENYL)BUTA-1,3-DIYN-1-YL]-N-[(2S,3S)-4,4- HETNAM 2 5EN DIFLUORO-3-HYDROXY-1-(HYDROXYAMINO)-3-METHYL-1- HETNAM 3 5EN OXOBUTAN-2-YL]BENZAMIDE HETNAM NO3 NITRATE ION FORMUL 2 ZN 2(ZN 2+) FORMUL 4 5EN C22 H19 F2 N3 O4 FORMUL 5 NO3 17(N O3 1-) FORMUL 22 HOH *261(H2 O) HELIX 1 AA1 ARG A 53 VAL A 57 5 5 HELIX 2 AA2 VAL A 76 LEU A 86 1 11 HELIX 3 AA3 ALA A 107 GLY A 118 1 12 HELIX 4 AA4 HIS A 162 ARG A 166 5 5 HELIX 5 AA5 SER A 180 VAL A 185 1 6 HELIX 6 AA6 MET A 194 GLN A 203 1 10 HELIX 7 AA7 ASP A 232 TYR A 247 1 16 HELIX 8 AA8 LEU A 248 GLY A 250 5 3 HELIX 9 AA9 GLY A 263 ASP A 277 1 15 HELIX 10 AB1 ASP A 288 ALA A 292 5 5 SHEET 1 AA1 2 LYS A 3 LEU A 7 0 SHEET 2 AA1 2 LEU A 119 ALA A 125 -1 O GLN A 120 N THR A 6 SHEET 1 AA2 5 ILE A 11 VAL A 16 0 SHEET 2 AA2 5 LYS A 23 PRO A 30 -1 O VAL A 24 N GLY A 15 SHEET 3 AA2 5 ALA A 91 LEU A 95 -1 O GLU A 94 N THR A 27 SHEET 4 AA2 5 ILE A 37 ARG A 41 1 N VAL A 38 O VAL A 93 SHEET 5 AA2 5 VAL A 48 PRO A 51 -1 O ILE A 50 N PHE A 39 SHEET 1 AA3 2 LEU A 66 LYS A 68 0 SHEET 2 AA3 2 VAL A 71 VAL A 73 -1 O VAL A 73 N LEU A 66 SHEET 1 AA4 5 VAL A 135 GLU A 139 0 SHEET 2 AA4 5 LYS A 142 VAL A 147 -1 O PHE A 146 N VAL A 135 SHEET 3 AA4 5 SER A 252 PHE A 260 -1 O GLU A 256 N VAL A 147 SHEET 4 AA4 5 PHE A 152 GLU A 157 1 N SER A 155 O PHE A 257 SHEET 5 AA4 5 GLN A 171 ASP A 175 -1 O VAL A 174 N VAL A 154 SHEET 1 AA5 5 VAL A 135 GLU A 139 0 SHEET 2 AA5 5 LYS A 142 VAL A 147 -1 O PHE A 146 N VAL A 135 SHEET 3 AA5 5 SER A 252 PHE A 260 -1 O GLU A 256 N VAL A 147 SHEET 4 AA5 5 PHE A 128 ILE A 131 1 N ILE A 129 O ILE A 254 SHEET 5 AA5 5 TRP A 281 VAL A 284 -1 O GLU A 282 N ARG A 130 SHEET 1 AA6 2 PHE A 191 PHE A 193 0 SHEET 2 AA6 2 ILE A 215 VAL A 217 1 O ILE A 215 N GLY A 192 LINK NE2 HIS A 78 ZN ZN A 301 1555 1555 2.10 LINK ND1 HIS A 162 ZN ZN A 302 1555 1555 2.11 LINK OE1 GLU A 219 ZN ZN A 302 1555 1555 2.12 LINK OE2 GLU A 219 ZN ZN A 302 1555 1555 2.61 LINK NE2 HIS A 237 ZN ZN A 301 1555 1555 2.07 LINK OD1 ASP A 241 ZN ZN A 301 1555 1555 2.07 LINK OD2 ASP A 277 ZN ZN A 302 1555 3444 2.02 LINK OD1 ASP A 279 ZN ZN A 302 1555 3444 2.54 LINK OD2 ASP A 279 ZN ZN A 302 1555 3444 2.25 LINK ZN ZN A 301 O01 5EN A 303 1555 1555 2.15 LINK ZN ZN A 301 O04 5EN A 303 1555 1555 2.22 CISPEP 1 ASP A 45 PRO A 46 0 1.78 SITE 1 AC1 4 HIS A 78 HIS A 237 ASP A 241 5EN A 303 SITE 1 AC2 4 HIS A 162 GLU A 219 ASP A 277 ASP A 279 SITE 1 AC3 21 MET A 62 GLU A 77 HIS A 78 PHE A 112 SITE 2 AC3 21 GLN A 115 THR A 190 PHE A 191 ILE A 197 SITE 3 AC3 21 GLY A 209 SER A 210 VAL A 211 VAL A 216 SITE 4 AC3 21 HIS A 237 LYS A 238 ASP A 241 HIS A 264 SITE 5 AC3 21 ZN A 301 HOH A 405 HOH A 426 HOH A 493 SITE 6 AC3 21 HOH A 594 SITE 1 AC4 9 ILE A 158 ARG A 168 THR A 169 GLN A 170 SITE 2 AC4 9 ASP A 232 GLU A 233 PHE A 234 VAL A 235 SITE 3 AC4 9 HOH A 445 SITE 1 AC5 4 ARG A 168 VAL A 222 GLY A 227 LEU A 228 SITE 1 AC6 5 GLU A 184 TYR A 230 LYS A 236 NO3 A 320 SITE 2 AC6 5 HOH A 410 SITE 1 AC7 2 SER A 295 TYR A 296 SITE 1 AC8 5 HIS A 19 MET A 62 LEU A 200 LEU A 205 SITE 2 AC8 5 ALA A 206 SITE 1 AC9 5 SER A 136 GLU A 138 ARG A 143 ASN A 220 SITE 2 AC9 5 HOH A 403 SITE 1 AD1 5 VAL A 137 GLU A 138 GLN A 269 HOH A 403 SITE 2 AD1 5 HOH A 420 SITE 1 AD2 7 PHE A 176 SER A 177 PRO A 293 ILE A 294 SITE 2 AD2 7 SER A 295 HOH A 513 HOH A 525 SITE 1 AD3 4 THR A 14 GLY A 15 VAL A 16 LYS A 23 SITE 1 AD4 6 LYS A 142 SER A 262 GLY A 263 ALA A 265 SITE 2 AD4 6 LEU A 266 HOH A 404 SITE 1 AD5 8 ARG A 189 SER A 202 GLN A 203 ASN A 204 SITE 2 AD5 8 ARG A 229 HOH A 429 HOH A 446 HOH A 533 SITE 1 AD6 5 ILE A 10 ARG A 12 ARG A 143 ARG A 258 SITE 2 AD6 5 PHE A 260 SITE 1 AD7 6 ILE A 158 ASP A 159 PHE A 160 LYS A 261 SITE 2 AD7 6 HOH A 437 HOH A 541 SITE 1 AD8 8 ARG A 12 THR A 14 ARG A 133 GLU A 134 SITE 2 AD8 8 PRO A 148 ARG A 195 HOH A 497 HOH A 516 SITE 1 AD9 8 TYR A 25 SER A 96 PRO A 148 PHE A 149 SITE 2 AD9 8 ASP A 150 HOH A 423 HOH A 454 HOH A 604 SITE 1 AE1 4 ARG A 166 GLN A 269 ARG A 272 THR A 273 SITE 1 AE2 5 TYR A 230 GLU A 231 ASP A 232 LYS A 236 SITE 2 AE2 5 NO3 A 306 CRYST1 52.830 73.900 88.170 90.00 90.00 90.00 P 21 21 21 4 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 0.018929 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013532 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011342 0.00000