HEADER HYDROLASE/HYDROLASE INHIBITOR 13-DEC-16 5U86 TITLE STRUCTURE OF THE AQUIFEX AEOLICUS LPXC/LPC-069 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-3-O-ACYL-N-ACETYLGLUCOSAMINE DEACETYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UDP-3-O-ACYL-GLCNAC DEACETYLASE,UDP-3-O-[R-3- COMPND 5 HYDROXYMYRISTOYL]-N-ACETYLGLUCOSAMINE DEACETYLASE; COMPND 6 EC: 3.5.1.108; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS (STRAIN VF5); SOURCE 3 ORGANISM_TAXID: 224324; SOURCE 4 STRAIN: VF5; SOURCE 5 GENE: LPXC, ENVA, AQ_1772; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LPXC LIPID A ANTIBIOTIC LPS, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.NAJEEB,C.-J.LEE,P.ZHOU REVDAT 3 04-OCT-23 5U86 1 REMARK REVDAT 2 11-DEC-19 5U86 1 REMARK REVDAT 1 09-AUG-17 5U86 0 JRNL AUTH N.LEMAITRE,X.LIANG,J.NAJEEB,C.J.LEE,M.TITECAT,E.LETEURTRE, JRNL AUTH 2 M.SIMONET,E.J.TOONE,P.ZHOU,F.SEBBANE JRNL TITL CURATIVE TREATMENT OF SEVERE GRAM-NEGATIVE BACTERIAL JRNL TITL 2 INFECTIONS BY A NEW CLASS OF ANTIBIOTICS TARGETING LPXC. JRNL REF MBIO V. 8 2017 JRNL REFN ESSN 2150-7511 JRNL PMID 28743813 JRNL DOI 10.1128/MBIO.00674-17 REMARK 2 REMARK 2 RESOLUTION. 1.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.53 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.400 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 41379 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.140 REMARK 3 R VALUE (WORKING SET) : 0.139 REMARK 3 FREE R VALUE : 0.154 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.860 REMARK 3 FREE R VALUE TEST SET COUNT : 2009 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 29.5361 - 3.9015 1.00 2832 146 0.1238 0.1343 REMARK 3 2 3.9015 - 3.0978 1.00 2843 145 0.1247 0.1138 REMARK 3 3 3.0978 - 2.7066 1.00 2814 143 0.1473 0.1722 REMARK 3 4 2.7066 - 2.4592 1.00 2792 144 0.1406 0.1467 REMARK 3 5 2.4592 - 2.2830 1.00 2810 144 0.1394 0.1473 REMARK 3 6 2.2830 - 2.1485 1.00 2824 142 0.1373 0.1557 REMARK 3 7 2.1485 - 2.0409 1.00 2826 147 0.1380 0.1769 REMARK 3 8 2.0409 - 1.9521 1.00 2792 143 0.1448 0.1684 REMARK 3 9 1.9521 - 1.8769 1.00 2785 144 0.1492 0.1754 REMARK 3 10 1.8769 - 1.8122 1.00 2833 140 0.1506 0.1849 REMARK 3 11 1.8122 - 1.7555 1.00 2819 144 0.1543 0.1731 REMARK 3 12 1.7555 - 1.7053 1.00 2793 142 0.1516 0.1726 REMARK 3 13 1.7053 - 1.6605 1.00 2793 143 0.1624 0.2035 REMARK 3 14 1.6605 - 1.6199 1.00 2814 142 0.1675 0.2112 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.080 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 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 : 0.006 2485 REMARK 3 ANGLE : 0.899 3371 REMARK 3 CHIRALITY : 0.062 363 REMARK 3 PLANARITY : 0.009 433 REMARK 3 DIHEDRAL : 10.106 1504 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 30 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.9128 30.6512 -16.9110 REMARK 3 T TENSOR REMARK 3 T11: 0.0918 T22: 0.1005 REMARK 3 T33: 0.0848 T12: -0.0076 REMARK 3 T13: 0.0070 T23: 0.0017 REMARK 3 L TENSOR REMARK 3 L11: 5.2481 L22: 0.9335 REMARK 3 L33: 1.2707 L12: 0.0913 REMARK 3 L13: 2.2565 L23: 0.2495 REMARK 3 S TENSOR REMARK 3 S11: -0.1294 S12: -0.2002 S13: 0.5077 REMARK 3 S21: 0.0549 S22: -0.0355 S23: 0.0146 REMARK 3 S31: -0.0700 S32: -0.0560 S33: 0.1609 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 31 THROUGH 103 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.1866 25.7023 -24.7554 REMARK 3 T TENSOR REMARK 3 T11: 0.0622 T22: 0.0664 REMARK 3 T33: 0.0746 T12: 0.0017 REMARK 3 T13: -0.0029 T23: 0.0142 REMARK 3 L TENSOR REMARK 3 L11: 1.9389 L22: 1.2327 REMARK 3 L33: 1.3947 L12: 0.1030 REMARK 3 L13: -0.0697 L23: -0.2027 REMARK 3 S TENSOR REMARK 3 S11: 0.0086 S12: 0.1393 S13: 0.1473 REMARK 3 S21: -0.0950 S22: -0.0505 S23: -0.0709 REMARK 3 S31: -0.0269 S32: 0.1046 S33: 0.0419 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 104 THROUGH 129 ) REMARK 3 ORIGIN FOR THE GROUP (A): -38.0979 19.7068 -20.6872 REMARK 3 T TENSOR REMARK 3 T11: 0.0671 T22: 0.0826 REMARK 3 T33: 0.0625 T12: -0.0230 REMARK 3 T13: 0.0277 T23: 0.0252 REMARK 3 L TENSOR REMARK 3 L11: 2.4353 L22: 2.0994 REMARK 3 L33: 0.0575 L12: -0.9260 REMARK 3 L13: 0.3108 L23: -0.2905 REMARK 3 S TENSOR REMARK 3 S11: 0.0199 S12: -0.0590 S13: -0.0168 REMARK 3 S21: -0.0397 S22: -0.0888 S23: 0.1450 REMARK 3 S31: -0.0236 S32: -0.1784 S33: 0.0769 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 130 THROUGH 167 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.9161 2.2308 -18.8572 REMARK 3 T TENSOR REMARK 3 T11: 0.1559 T22: 0.0973 REMARK 3 T33: 0.1338 T12: 0.0239 REMARK 3 T13: 0.0154 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 1.6330 L22: 1.5008 REMARK 3 L33: 3.4320 L12: -0.2551 REMARK 3 L13: 1.3496 L23: 0.1787 REMARK 3 S TENSOR REMARK 3 S11: 0.1144 S12: 0.1546 S13: -0.2306 REMARK 3 S21: -0.0694 S22: -0.0253 S23: -0.0522 REMARK 3 S31: 0.3627 S32: 0.3138 S33: -0.0610 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 168 THROUGH 191 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.1977 13.9176 -11.6346 REMARK 3 T TENSOR REMARK 3 T11: 0.1138 T22: 0.0611 REMARK 3 T33: 0.0543 T12: 0.0167 REMARK 3 T13: 0.0012 T23: -0.0004 REMARK 3 L TENSOR REMARK 3 L11: 3.9997 L22: 1.5866 REMARK 3 L33: 1.2955 L12: 0.7973 REMARK 3 L13: -0.4462 L23: -0.3341 REMARK 3 S TENSOR REMARK 3 S11: -0.0228 S12: -0.1900 S13: -0.2079 REMARK 3 S21: 0.0062 S22: -0.0156 S23: -0.0558 REMARK 3 S31: 0.0795 S32: 0.0965 S33: 0.0486 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 192 THROUGH 221 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.0020 14.7260 -5.0627 REMARK 3 T TENSOR REMARK 3 T11: 0.0814 T22: 0.0976 REMARK 3 T33: 0.0787 T12: 0.0167 REMARK 3 T13: -0.0158 T23: 0.0074 REMARK 3 L TENSOR REMARK 3 L11: 2.1969 L22: 1.9040 REMARK 3 L33: 2.3793 L12: 1.0186 REMARK 3 L13: -1.0061 L23: -0.7685 REMARK 3 S TENSOR REMARK 3 S11: 0.0757 S12: -0.2111 S13: -0.1170 REMARK 3 S21: 0.1535 S22: -0.0970 S23: -0.0494 REMARK 3 S31: 0.0871 S32: 0.2212 S33: -0.0098 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 222 THROUGH 252 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.7716 10.2381 -20.5173 REMARK 3 T TENSOR REMARK 3 T11: 0.0747 T22: 0.0469 REMARK 3 T33: 0.0677 T12: 0.0157 REMARK 3 T13: 0.0087 T23: 0.0009 REMARK 3 L TENSOR REMARK 3 L11: 1.2831 L22: 1.6486 REMARK 3 L33: 2.6716 L12: 0.3768 REMARK 3 L13: 0.6227 L23: -0.0886 REMARK 3 S TENSOR REMARK 3 S11: 0.0348 S12: 0.0045 S13: -0.1118 REMARK 3 S21: -0.0491 S22: -0.0364 S23: 0.0027 REMARK 3 S31: 0.1447 S32: 0.0313 S33: 0.0074 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 253 THROUGH 270 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.7699 10.3389 -33.4151 REMARK 3 T TENSOR REMARK 3 T11: 0.2101 T22: 0.1626 REMARK 3 T33: 0.0879 T12: 0.0306 REMARK 3 T13: 0.0299 T23: -0.0013 REMARK 3 L TENSOR REMARK 3 L11: 6.0251 L22: 3.3511 REMARK 3 L33: 6.5671 L12: 1.2811 REMARK 3 L13: 3.3266 L23: 0.8218 REMARK 3 S TENSOR REMARK 3 S11: -0.0082 S12: 0.6401 S13: 0.0272 REMARK 3 S21: -0.5260 S22: 0.0265 S23: 0.0594 REMARK 3 S31: 0.0559 S32: -0.1011 S33: -0.0129 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 5U86 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1000225419. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-OCT-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41386 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.620 REMARK 200 RESOLUTION RANGE LOW (A) : 29.531 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.40 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.1300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5DRO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.25 MG/ML COMPOUND, 4 MG/ML PROTEIN, REMARK 280 50 MM POTASSIUM CHLORIDE, 12.5 MM HEPES PH 7.0, 1 MM REMARK 280 DITHIOTHREITOL, 25 MICROM ZINC SULFATE, 0.5% DMSO, 1.25 M REMARK 280 DIAMMONIUM HYDROGEN PHOSPHATE, 0.05 M TRIS PH 7.7, 2.5% GLYCEROL, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 44.14000 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 88.28000 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 66.21000 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 110.35000 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 22.07000 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 1 REMARK 465 ARG A 271 REMARK 465 ASP A 272 REMARK 465 LEU A 273 REMARK 465 PRO A 274 REMARK 465 HIS A 275 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 9 CD OE1 OE2 REMARK 470 GLU A 135 CG CD OE1 OE2 REMARK 470 GLU A 172 CG CD OE1 OE2 REMARK 470 GLU A 187 CD OE1 OE2 REMARK 470 LYS A 265 CE NZ 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 528 O HOH A 645 2.15 REMARK 500 O HOH A 423 O HOH A 771 2.18 REMARK 500 O HOH A 740 O HOH A 836 2.18 REMARK 500 O HOH A 681 O HOH A 716 2.19 REMARK 500 O1 PO4 A 305 O HOH A 401 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 O HOH A 684 O HOH A 719 5454 2.02 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 HIS A 58 -7.95 77.05 REMARK 500 THR A 71 64.27 65.56 REMARK 500 LEU A 99 -130.90 55.09 REMARK 500 GLN A 117 -168.18 -113.87 REMARK 500 LYS A 156 41.43 -87.50 REMARK 500 ASN A 157 -158.97 -148.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 837 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH A 838 DISTANCE = 6.28 ANGSTROMS REMARK 525 HOH A 839 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH A 840 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A 841 DISTANCE = 7.25 ANGSTROMS 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 74 NE2 REMARK 620 2 HIS A 226 NE2 102.7 REMARK 620 3 ASP A 230 OD1 96.2 94.9 REMARK 620 4 81V A 302 O29 93.8 163.0 87.4 REMARK 620 5 81V A 302 O29 92.1 164.8 86.8 1.9 REMARK 620 6 81V A 302 O27 126.3 90.7 134.6 75.9 77.6 REMARK 620 7 81V A 302 O27 114.1 94.8 145.2 74.3 75.8 12.3 REMARK 620 N 1 2 3 4 5 6 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 81V A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 308 DBREF 5U86 A 1 275 UNP O67648 LPXC_AQUAE 1 275 SEQADV 5U86 ALA A 181 UNP O67648 CYS 181 ENGINEERED MUTATION SEQRES 1 A 275 MET GLY LEU GLU LYS THR VAL LYS GLU LYS LEU SER PHE SEQRES 2 A 275 GLU GLY VAL GLY ILE HIS THR GLY GLU TYR SER LYS LEU SEQRES 3 A 275 ILE ILE HIS PRO GLU LYS GLU GLY THR GLY ILE ARG PHE SEQRES 4 A 275 PHE LYS ASN GLY VAL TYR ILE PRO ALA ARG HIS GLU PHE SEQRES 5 A 275 VAL VAL HIS THR ASN HIS SER THR ASP LEU GLY PHE LYS SEQRES 6 A 275 GLY GLN ARG ILE LYS THR VAL GLU HIS ILE LEU SER VAL SEQRES 7 A 275 LEU HIS LEU LEU GLU ILE THR ASN VAL THR ILE GLU VAL SEQRES 8 A 275 ILE GLY ASN GLU ILE PRO ILE LEU ASP GLY SER GLY TRP SEQRES 9 A 275 GLU PHE TYR GLU ALA ILE ARG LYS ASN ILE LEU ASN GLN SEQRES 10 A 275 ASN ARG GLU ILE ASP TYR PHE VAL VAL GLU GLU PRO ILE SEQRES 11 A 275 ILE VAL GLU ASP GLU GLY ARG LEU ILE LYS ALA GLU PRO SEQRES 12 A 275 SER ASP THR LEU GLU VAL THR TYR GLU GLY GLU PHE LYS SEQRES 13 A 275 ASN PHE LEU GLY ARG GLN LYS PHE THR PHE VAL GLU GLY SEQRES 14 A 275 ASN GLU GLU GLU ILE VAL LEU ALA ARG THR PHE ALA PHE SEQRES 15 A 275 ASP TRP GLU ILE GLU HIS ILE LYS LYS VAL GLY LEU GLY SEQRES 16 A 275 LYS GLY GLY SER LEU LYS ASN THR LEU VAL LEU GLY LYS SEQRES 17 A 275 ASP LYS VAL TYR ASN PRO GLU GLY LEU ARG TYR GLU ASN SEQRES 18 A 275 GLU PRO VAL ARG HIS LYS VAL PHE ASP LEU ILE GLY ASP SEQRES 19 A 275 LEU TYR LEU LEU GLY SER PRO VAL LYS GLY LYS PHE TYR SEQRES 20 A 275 SER PHE ARG GLY GLY HIS SER LEU ASN VAL LYS LEU VAL SEQRES 21 A 275 LYS GLU LEU ALA LYS LYS GLN LYS LEU THR ARG ASP LEU SEQRES 22 A 275 PRO HIS HET ZN A 301 1 HET 81V A 302 70 HET CL A 303 1 HET PO4 A 304 5 HET PO4 A 305 5 HET EDO A 306 8 HET EDO A 307 4 HET EDO A 308 4 HETNAM ZN ZINC ION HETNAM 81V N-[(2S,3S)-4,4-DIFLUORO-3-HYDROXY-1-(HYDROXYAMINO)-3- HETNAM 2 81V METHYL-1-OXOBUTAN-2-YL]-4-({4-[(MORPHOLIN-4-YL) HETNAM 3 81V METHYL]PHENYL}ETHYNYL)BENZAMIDE HETNAM CL CHLORIDE ION HETNAM PO4 PHOSPHATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN ZN 2+ FORMUL 3 81V C25 H27 F2 N3 O5 FORMUL 4 CL CL 1- FORMUL 5 PO4 2(O4 P 3-) FORMUL 7 EDO 3(C2 H6 O2) FORMUL 10 HOH *441(H2 O) HELIX 1 AA1 ARG A 49 GLU A 51 5 3 HELIX 2 AA2 VAL A 72 GLU A 83 1 12 HELIX 3 AA3 GLY A 103 LYS A 112 1 10 HELIX 4 AA4 ASN A 170 ILE A 174 5 5 HELIX 5 AA5 GLU A 185 VAL A 192 1 8 HELIX 6 AA6 ASN A 221 TYR A 236 1 16 HELIX 7 AA7 LEU A 237 GLY A 239 5 3 HELIX 8 AA8 GLY A 252 GLN A 267 1 16 SHEET 1 AA1 2 LEU A 3 VAL A 7 0 SHEET 2 AA1 2 ILE A 114 GLU A 120 -1 O ARG A 119 N GLU A 4 SHEET 1 AA2 5 LEU A 11 VAL A 16 0 SHEET 2 AA2 5 TYR A 23 PRO A 30 -1 O ILE A 28 N LEU A 11 SHEET 3 AA2 5 VAL A 87 ILE A 92 -1 O THR A 88 N HIS A 29 SHEET 4 AA2 5 ILE A 37 LYS A 41 1 N ARG A 38 O ILE A 89 SHEET 5 AA2 5 VAL A 44 PRO A 47 -1 O ILE A 46 N PHE A 39 SHEET 1 AA3 3 VAL A 53 HIS A 55 0 SHEET 2 AA3 3 ASP A 61 PHE A 64 -1 O ASP A 61 N VAL A 54 SHEET 3 AA3 3 GLN A 67 ILE A 69 -1 O ILE A 69 N LEU A 62 SHEET 1 AA4 2 PHE A 124 VAL A 125 0 SHEET 2 AA4 2 VAL A 242 LYS A 243 1 O LYS A 243 N PHE A 124 SHEET 1 AA5 5 ILE A 130 ASP A 134 0 SHEET 2 AA5 5 ARG A 137 GLU A 142 -1 O ILE A 139 N VAL A 132 SHEET 3 AA5 5 LYS A 245 PHE A 249 -1 O PHE A 249 N LEU A 138 SHEET 4 AA5 5 GLU A 148 GLU A 154 1 N GLU A 148 O PHE A 246 SHEET 5 AA5 5 ARG A 161 VAL A 167 -1 O PHE A 166 N VAL A 149 SHEET 1 AA6 2 PHE A 180 PHE A 182 0 SHEET 2 AA6 2 LEU A 204 LEU A 206 1 O LEU A 206 N ALA A 181 LINK NE2 HIS A 74 ZN ZN A 301 1555 1555 2.07 LINK NE2 HIS A 226 ZN ZN A 301 1555 1555 2.10 LINK OD1 ASP A 230 ZN ZN A 301 1555 1555 2.09 LINK ZN ZN A 301 O29A81V A 302 1555 1555 2.13 LINK ZN ZN A 301 O29B81V A 302 1555 1555 2.10 LINK ZN ZN A 301 O27A81V A 302 1555 1555 2.08 LINK ZN ZN A 301 O27B81V A 302 1555 1555 2.22 SITE 1 AC1 4 HIS A 74 HIS A 226 ASP A 230 81V A 302 SITE 1 AC2 23 ILE A 18 HIS A 58 GLU A 73 HIS A 74 SITE 2 AC2 23 THR A 179 PHE A 180 ILE A 186 GLY A 198 SITE 3 AC2 23 SER A 199 THR A 203 VAL A 205 TYR A 212 SITE 4 AC2 23 HIS A 226 LYS A 227 ASP A 230 HIS A 253 SITE 5 AC2 23 ZN A 301 PO4 A 304 HOH A 510 HOH A 538 SITE 6 AC2 23 HOH A 597 HOH A 635 HOH A 665 SITE 1 AC3 2 GLU A 127 GLN A 267 SITE 1 AC4 11 THR A 56 HIS A 58 LYS A 227 GLY A 252 SITE 2 AC4 11 HIS A 253 81V A 302 HOH A 530 HOH A 568 SITE 3 AC4 11 HOH A 596 HOH A 665 HOH A 726 SITE 1 AC5 6 ASN A 57 HIS A 58 PHE A 158 HIS A 188 SITE 2 AC5 6 HOH A 401 HOH A 418 SITE 1 AC6 6 ASP A 122 TYR A 123 PHE A 124 SER A 240 SITE 2 AC6 6 GLN A 267 HOH A 486 SITE 1 AC7 2 TYR A 45 HOH A 430 SITE 1 AC8 5 HOH A 447 HOH A 454 HOH A 529 HOH A 614 SITE 2 AC8 5 HOH A 677 CRYST1 65.990 65.990 132.420 90.00 90.00 120.00 P 61 6 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 0.015154 0.008749 0.000000 0.00000 SCALE2 0.000000 0.017498 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007552 0.00000