HEADER HYDROLASE/HYDROLASE INHIBITOR 20-JUN-18 6DUI TITLE CRYSTAL STRUCTURE OF LPXC FROM PSEUDOMONAS AERUGINOSA IN COMPLEX WITH TITLE 2 PT801 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-3-O-ACYL-N-ACETYLGLUCOSAMINE DEACETYLASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PSAEA.00166.A.DG15; COMPND 5 SYNONYM: UDP-3-O-ACYL-GLCNAC DEACETYLASE,UDP-3-O-[R-3- COMPND 6 HYDROXYMYRISTOYL]-N-ACETYLGLUCOSAMINE DEACETYLASE; COMPND 7 EC: 3.5.1.108; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA (STRAIN LESB58); SOURCE 3 ORGANISM_TAXID: 557722; SOURCE 4 STRAIN: LESB58; SOURCE 5 GENE: LPXC, PLES_47851; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PSAEA.00166.A.DG15 KEYWDS SSGCID, LPXC, LIPID A BIOSYNTHESIS, STRUCTURAL GENOMICS, SEATTLE KEYWDS 2 STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, HYDROLASE- KEYWDS 3 HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 2 11-OCT-23 6DUI 1 REMARK REVDAT 1 26-JUN-19 6DUI 0 JRNL AUTH J.N.PHAN,S.L.DELKER,D.D.LORIMER,P.S.HORANYI,T.E.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF LPXC FROM PSEUDOMONAS AERUGINOSA IN JRNL TITL 2 COMPLEX WITH PT801 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14_3211: ???) 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) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.59 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.980 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 37735 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.152 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.390 REMARK 3 FREE R VALUE TEST SET COUNT : 2034 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 42.6014 - 3.8215 0.99 2468 119 0.1205 0.1482 REMARK 3 2 3.8215 - 3.0335 0.99 2401 158 0.1208 0.1614 REMARK 3 3 3.0335 - 2.6501 0.98 2408 153 0.1485 0.1790 REMARK 3 4 2.6501 - 2.4078 0.98 2393 138 0.1571 0.1918 REMARK 3 5 2.4078 - 2.2353 0.98 2429 144 0.1545 0.1937 REMARK 3 6 2.2353 - 2.1035 0.97 2353 147 0.1469 0.1950 REMARK 3 7 2.1035 - 1.9981 0.97 2409 120 0.1472 0.1654 REMARK 3 8 1.9981 - 1.9112 0.97 2403 125 0.1534 0.2254 REMARK 3 9 1.9112 - 1.8376 0.96 2399 117 0.1701 0.2196 REMARK 3 10 1.8376 - 1.7742 0.96 2339 139 0.1821 0.2327 REMARK 3 11 1.7742 - 1.7187 0.96 2375 118 0.1798 0.2154 REMARK 3 12 1.7187 - 1.6696 0.96 2367 147 0.1884 0.2281 REMARK 3 13 1.6696 - 1.6256 0.96 2341 127 0.1991 0.2803 REMARK 3 14 1.6256 - 1.5860 0.95 2324 151 0.2023 0.2257 REMARK 3 15 1.5860 - 1.5499 0.95 2292 131 0.2150 0.2506 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.630 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.64 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 2597 REMARK 3 ANGLE : 0.838 3550 REMARK 3 CHIRALITY : 0.056 405 REMARK 3 PLANARITY : 0.005 458 REMARK 3 DIHEDRAL : 19.310 1592 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 0 THROUGH 22 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.5766 2.9064 -10.4881 REMARK 3 T TENSOR REMARK 3 T11: 0.0534 T22: 0.0967 REMARK 3 T33: 0.0539 T12: -0.0244 REMARK 3 T13: 0.0430 T23: 0.0449 REMARK 3 L TENSOR REMARK 3 L11: 1.6508 L22: 4.4136 REMARK 3 L33: 2.7740 L12: -1.2170 REMARK 3 L13: 0.3342 L23: 2.2319 REMARK 3 S TENSOR REMARK 3 S11: 0.0514 S12: 0.1104 S13: -0.0875 REMARK 3 S21: -0.2694 S22: -0.2166 S23: 0.3482 REMARK 3 S31: -0.1709 S32: -0.1789 S33: 0.1716 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 23 THROUGH 47 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.2199 9.5756 -14.3136 REMARK 3 T TENSOR REMARK 3 T11: 0.1389 T22: 0.1200 REMARK 3 T33: 0.1120 T12: 0.0192 REMARK 3 T13: -0.0079 T23: 0.0516 REMARK 3 L TENSOR REMARK 3 L11: 0.6678 L22: 1.1442 REMARK 3 L33: 0.4569 L12: 0.4265 REMARK 3 L13: 0.0317 L23: 0.5519 REMARK 3 S TENSOR REMARK 3 S11: -0.0285 S12: 0.1790 S13: 0.1621 REMARK 3 S21: -0.1478 S22: -0.0084 S23: -0.0543 REMARK 3 S31: -0.0915 S32: -0.0554 S33: 0.0294 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 48 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.8994 9.8284 -4.1194 REMARK 3 T TENSOR REMARK 3 T11: 0.0859 T22: 0.0823 REMARK 3 T33: 0.0992 T12: -0.0105 REMARK 3 T13: -0.0017 T23: 0.0236 REMARK 3 L TENSOR REMARK 3 L11: 3.7938 L22: 4.3756 REMARK 3 L33: 4.5454 L12: 0.0948 REMARK 3 L13: -0.5179 L23: -1.2055 REMARK 3 S TENSOR REMARK 3 S11: 0.0211 S12: -0.0627 S13: 0.2134 REMARK 3 S21: 0.1472 S22: 0.0064 S23: -0.1159 REMARK 3 S31: -0.2700 S32: 0.2296 S33: -0.0261 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 77 THROUGH 117 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.9601 3.5370 -6.0234 REMARK 3 T TENSOR REMARK 3 T11: 0.1002 T22: 0.1111 REMARK 3 T33: 0.0724 T12: 0.0129 REMARK 3 T13: -0.0077 T23: 0.0200 REMARK 3 L TENSOR REMARK 3 L11: 0.8395 L22: 1.6963 REMARK 3 L33: 0.3971 L12: -0.0351 REMARK 3 L13: -0.2112 L23: 0.6539 REMARK 3 S TENSOR REMARK 3 S11: 0.0198 S12: 0.0605 S13: 0.0686 REMARK 3 S21: -0.0529 S22: -0.0396 S23: 0.0175 REMARK 3 S31: -0.0274 S32: -0.0698 S33: 0.0171 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 118 THROUGH 147 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.9312 -9.3071 -2.7150 REMARK 3 T TENSOR REMARK 3 T11: 0.0628 T22: 0.0414 REMARK 3 T33: 0.0813 T12: -0.0240 REMARK 3 T13: 0.0318 T23: 0.0278 REMARK 3 L TENSOR REMARK 3 L11: 2.7463 L22: 1.4902 REMARK 3 L33: 3.1043 L12: -0.4492 REMARK 3 L13: 0.9792 L23: 0.5113 REMARK 3 S TENSOR REMARK 3 S11: 0.1206 S12: 0.0022 S13: -0.1203 REMARK 3 S21: 0.0826 S22: 0.0468 S23: -0.1267 REMARK 3 S31: 0.1951 S32: 0.2519 S33: -0.1739 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 148 THROUGH 170 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.1121 -5.6703 14.8149 REMARK 3 T TENSOR REMARK 3 T11: 0.1517 T22: 0.1473 REMARK 3 T33: 0.0838 T12: -0.0312 REMARK 3 T13: -0.0099 T23: 0.0151 REMARK 3 L TENSOR REMARK 3 L11: 1.1380 L22: 5.6097 REMARK 3 L33: 8.1630 L12: -2.5239 REMARK 3 L13: -2.8925 L23: 6.3697 REMARK 3 S TENSOR REMARK 3 S11: 0.0165 S12: -0.0946 S13: -0.0437 REMARK 3 S21: 0.3719 S22: -0.0414 S23: -0.0055 REMARK 3 S31: 0.3296 S32: -0.1119 S33: 0.0349 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 171 THROUGH 249 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.8047 4.0206 10.0194 REMARK 3 T TENSOR REMARK 3 T11: 0.0911 T22: 0.1132 REMARK 3 T33: 0.0647 T12: 0.0028 REMARK 3 T13: -0.0030 T23: 0.0025 REMARK 3 L TENSOR REMARK 3 L11: 0.9702 L22: 1.7060 REMARK 3 L33: 2.0554 L12: 0.1282 REMARK 3 L13: -0.0381 L23: 0.7698 REMARK 3 S TENSOR REMARK 3 S11: 0.0389 S12: -0.1181 S13: 0.0543 REMARK 3 S21: 0.1119 S22: -0.1001 S23: 0.1318 REMARK 3 S31: -0.0688 S32: -0.0840 S33: 0.0631 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 250 THROUGH 284 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.6595 -6.6728 0.2623 REMARK 3 T TENSOR REMARK 3 T11: 0.0668 T22: 0.0749 REMARK 3 T33: 0.0722 T12: 0.0202 REMARK 3 T13: -0.0180 T23: 0.0310 REMARK 3 L TENSOR REMARK 3 L11: 2.4733 L22: 2.4018 REMARK 3 L33: 1.8432 L12: 0.4925 REMARK 3 L13: 0.0700 L23: 1.4235 REMARK 3 S TENSOR REMARK 3 S11: 0.0363 S12: -0.0034 S13: -0.0253 REMARK 3 S21: 0.0375 S22: -0.0004 S23: -0.1099 REMARK 3 S31: 0.0699 S32: 0.0455 S33: -0.0308 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 285 THROUGH 299 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.4822 -18.1816 -11.0168 REMARK 3 T TENSOR REMARK 3 T11: 0.1081 T22: 0.1122 REMARK 3 T33: 0.0826 T12: -0.0062 REMARK 3 T13: -0.0127 T23: 0.0030 REMARK 3 L TENSOR REMARK 3 L11: 7.0761 L22: 3.2903 REMARK 3 L33: 4.2138 L12: 3.6634 REMARK 3 L13: 1.5447 L23: -0.2976 REMARK 3 S TENSOR REMARK 3 S11: -0.0407 S12: -0.0253 S13: -0.0484 REMARK 3 S21: -0.0732 S22: 0.1401 S23: -0.2782 REMARK 3 S31: 0.2348 S32: -0.1102 S33: -0.0764 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 6DUI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1000235251. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37740 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 42.585 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 3.952 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.99 REMARK 200 R MERGE FOR SHELL (I) : 0.50700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.690 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 5UPG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM HEPES HCL, PH 7.5, 50MM CACL2, REMARK 280 4% (W/V) PROPANOL, 25% (W/V) PEG 3350, REMARK 280 PSAEA.00166.A.DG15.PD00442 AT 5MG/ML + 1MM ZNCL2 + 1MM BSI REMARK 280 108451, CRYO = 20%EG: TRAY 298107E10, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 ALA A 300 REMARK 465 ALA A 301 REMARK 465 ALA A 302 REMARK 465 VAL A 303 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 LYS A 183 CG CD 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 OD1 ASP A 161 O HOH A 501 2.01 REMARK 500 OH TYR A 230 O HOH A 502 2.02 REMARK 500 OD1 ASN A 220 O HOH A 503 2.12 REMARK 500 O HOH A 832 O HOH A 841 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 558 O HOH A 833 1554 2.17 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 THR A 60 33.72 -140.60 REMARK 500 THR A 61 -74.43 -63.53 REMARK 500 SER A 63 171.33 173.99 REMARK 500 MET A 103 -129.15 59.69 REMARK 500 ASP A 159 81.15 -153.92 REMARK 500 SER A 178 -150.41 -109.92 REMARK 500 SER A 178 -151.24 -108.88 REMARK 500 THR A 179 52.42 -104.54 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 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 78 NE2 REMARK 620 2 HIS A 237 NE2 92.9 REMARK 620 3 ASP A 241 OD1 146.8 91.5 REMARK 620 4 ASP A 241 OD2 93.9 101.2 53.0 REMARK 620 5 HAY A 401 O29 95.6 166.5 87.1 88.7 REMARK 620 6 HAY A 401 O27 131.8 89.2 81.1 132.8 77.3 REMARK 620 7 J1M A 402 O29 96.6 159.7 90.3 96.0 7.5 71.1 REMARK 620 8 J1M A 402 O27 117.5 88.1 95.5 146.9 78.7 14.4 71.6 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HAY A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue J1M A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 406 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6CAX RELATED DB: PDB REMARK 900 RELATED ID: 6C9C RELATED DB: PDB REMARK 900 RELATED ID: 5UPG RELATED DB: PDB REMARK 900 RELATED ID: 5VWM RELATED DB: PDB DBREF 6DUI A 1 303 UNP B7UZI4 LPXC_PSEA8 1 303 SEQADV 6DUI SER A 0 UNP B7UZI4 EXPRESSION TAG SEQRES 1 A 304 SER MET ILE LYS GLN ARG THR LEU LYS ASN ILE ILE ARG SEQRES 2 A 304 ALA THR GLY VAL GLY LEU HIS SER GLY GLU LYS VAL TYR SEQRES 3 A 304 LEU THR LEU LYS PRO ALA PRO VAL ASP THR GLY ILE VAL SEQRES 4 A 304 PHE CYS ARG THR ASP LEU ASP PRO VAL VAL GLU ILE PRO SEQRES 5 A 304 ALA ARG ALA GLU ASN VAL GLY GLU THR THR MET SER THR SEQRES 6 A 304 THR LEU VAL LYS GLY ASP VAL LYS VAL ASP THR VAL GLU SEQRES 7 A 304 HIS LEU LEU SER ALA MET ALA GLY LEU GLY ILE ASP ASN SEQRES 8 A 304 ALA TYR VAL GLU LEU SER ALA SER GLU VAL PRO ILE MET SEQRES 9 A 304 ASP GLY SER ALA GLY PRO PHE VAL PHE LEU ILE GLN SER SEQRES 10 A 304 ALA GLY LEU GLN GLU GLN GLU ALA ALA LYS LYS PHE ILE SEQRES 11 A 304 ARG ILE LYS ARG GLU VAL SER VAL GLU GLU GLY ASP LYS SEQRES 12 A 304 ARG ALA VAL PHE VAL PRO PHE ASP GLY PHE LYS VAL SER SEQRES 13 A 304 PHE GLU ILE ASP PHE ASP HIS PRO VAL PHE ARG GLY ARG SEQRES 14 A 304 THR GLN GLN ALA SER VAL ASP PHE SER SER THR SER PHE SEQRES 15 A 304 VAL LYS GLU VAL SER ARG ALA ARG THR PHE GLY PHE MET SEQRES 16 A 304 ARG ASP ILE GLU TYR LEU ARG SER GLN ASN LEU ALA LEU SEQRES 17 A 304 GLY GLY SER VAL GLU ASN ALA ILE VAL VAL ASP GLU ASN SEQRES 18 A 304 ARG VAL LEU ASN GLU ASP GLY LEU ARG TYR GLU ASP GLU SEQRES 19 A 304 PHE VAL LYS HIS LYS ILE LEU ASP ALA ILE GLY ASP LEU SEQRES 20 A 304 TYR LEU LEU GLY ASN SER LEU ILE GLY GLU PHE ARG GLY SEQRES 21 A 304 PHE LYS SER GLY HIS ALA LEU ASN ASN GLN LEU LEU ARG SEQRES 22 A 304 THR LEU ILE ALA ASP LYS ASP ALA TRP GLU VAL VAL THR SEQRES 23 A 304 PHE GLU ASP ALA ARG THR ALA PRO ILE SER TYR MET ARG SEQRES 24 A 304 PRO ALA ALA ALA VAL HET HAY A 401 33 HET J1M A 402 33 HET ZN A 403 1 HET CL A 404 1 HET EDO A 405 4 HET EDO A 406 4 HETNAM HAY (2R)-4-{4-[4-(BENZYLOXY)PHENYL]-2-OXOPYRIDIN-1(2H)-YL}- HETNAM 2 HAY N-HYDROXY-2-METHYL-2-(METHYLSULFONYL)BUTANAMIDE HETNAM J1M (2S)-4-{4-[4-(BENZYLOXY)PHENYL]-2-OXOPYRIDIN-1(2H)-YL}- HETNAM 2 J1M N-HYDROXY-2-METHYL-2-(METHYLSULFONYL)BUTANAMIDE HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 HAY C24 H26 N2 O6 S FORMUL 3 J1M C24 H26 N2 O6 S FORMUL 4 ZN ZN 2+ FORMUL 5 CL CL 1- FORMUL 6 EDO 2(C2 H6 O2) FORMUL 8 HOH *411(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 SER A 180 VAL A 185 1 6 HELIX 5 AA5 ASP A 196 GLN A 203 1 8 HELIX 6 AA6 ASP A 232 TYR A 247 1 16 HELIX 7 AA7 LEU A 248 GLY A 250 5 3 HELIX 8 AA8 GLY A 263 ASP A 277 1 15 HELIX 9 AA9 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 122 N GLN A 4 SHEET 1 AA2 5 ILE A 11 VAL A 16 0 SHEET 2 AA2 5 LYS A 23 LYS A 29 -1 O LEU A 26 N ALA A 13 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 VAL A 217 N GLY A 192 LINK NE2 HIS A 78 ZN ZN A 403 1555 1555 2.09 LINK NE2 HIS A 237 ZN ZN A 403 1555 1555 2.06 LINK OD1 ASP A 241 ZN ZN A 403 1555 1555 2.70 LINK OD2 ASP A 241 ZN ZN A 403 1555 1555 2.08 LINK O29AHAY A 401 ZN ZN A 403 1555 1555 2.11 LINK O27AHAY A 401 ZN ZN A 403 1555 1555 2.08 LINK O29BJ1M A 402 ZN ZN A 403 1555 1555 2.28 LINK O27BJ1M A 402 ZN ZN A 403 1555 1555 2.22 CISPEP 1 ASP A 45 PRO A 46 0 -1.66 SITE 1 AC1 20 LEU A 18 HIS A 19 MET A 62 GLU A 77 SITE 2 AC1 20 HIS A 78 THR A 190 PHE A 191 GLY A 192 SITE 3 AC1 20 PHE A 193 MET A 194 VAL A 216 HIS A 237 SITE 4 AC1 20 LYS A 238 ASP A 241 HIS A 264 J1M A 402 SITE 5 AC1 20 ZN A 403 HOH A 570 HOH A 628 HOH A 675 SITE 1 AC2 17 MET A 62 SER A 63 GLU A 77 HIS A 78 SITE 2 AC2 17 THR A 190 PHE A 191 GLY A 192 MET A 194 SITE 3 AC2 17 ARG A 201 GLY A 209 HIS A 237 ASP A 241 SITE 4 AC2 17 HIS A 264 HAY A 401 ZN A 403 HOH A 504 SITE 5 AC2 17 HOH A 570 SITE 1 AC3 5 HIS A 78 HIS A 237 ASP A 241 HAY A 401 SITE 2 AC3 5 J1M A 402 SITE 1 AC4 2 GLY A 263 LEU A 266 SITE 1 AC5 4 TYR A 230 GLU A 231 ASP A 232 LYS A 236 SITE 1 AC6 6 MET A 1 GLU A 225 THR A 285 GLU A 287 SITE 2 AC6 6 HOH A 554 HOH A 556 CRYST1 35.710 48.000 48.130 111.32 108.56 98.83 P 1 1 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 0.028003 0.004351 0.012609 0.00000 SCALE2 0.000000 0.021083 0.010340 0.00000 SCALE3 0.000000 0.000000 0.024411 0.00000