HEADER HYDROLASE 31-AUG-10 2XPY TITLE STRUCTURE OF NATIVE LEUKOTRIENE A4 HYDROLASE FROM SACCHAROMYCES TITLE 2 CEREVISIAE CAVEAT 2XPY LIGAND GSH HAS INCORRECT CHIRALITY COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEUKOTRIENE A-4 HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 40-671; COMPND 5 SYNONYM: LTA-4 HYDROLASE; COMPND 6 EC: 3.3.2.6; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: GLUTATHIONE ATTACHED AT CYS147 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: RIL; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PETM-11, PETM-30 KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.HELGSTRAND,M.HASAN,H.USYAL,J.Z.HAEGGSTROM,M.M.G.M.THUNNISSEN REVDAT 6 20-DEC-23 2XPY 1 REMARK LINK REVDAT 5 08-MAY-19 2XPY 1 REMARK REVDAT 4 17-JAN-18 2XPY 1 REMARK REVDAT 3 22-FEB-12 2XPY 1 CAVEAT SOURCE REMARK HET REVDAT 3 2 1 HETNAM HETSYN FORMUL LINK REVDAT 3 3 1 HETATM CONECT REVDAT 2 16-FEB-11 2XPY 1 JRNL REVDAT 1 29-DEC-10 2XPY 0 JRNL AUTH C.HELGSTRAND,M.HASAN,H.UYSAL,J.Z.HAEGGSTR,M.M.G.M.THUNNISSEN JRNL TITL A LEUKOTRIENE A(4) HYDROLASE-RELATED AMINOPEPTIDASE FROM JRNL TITL 2 YEAST UNDERGOES INDUCED FIT UPON INHIBITOR BINDING. JRNL REF J.MOL.BIOL. V. 406 120 2011 JRNL REFN ISSN 0022-2836 JRNL PMID 21146536 JRNL DOI 10.1016/J.JMB.2010.11.059 REMARK 2 REMARK 2 RESOLUTION. 2.73 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 2.73 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.010 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 3 NUMBER OF REFLECTIONS : 28409 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1432 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 26.0060 - 5.8533 0.99 2953 146 0.1559 0.2099 REMARK 3 2 5.8533 - 4.6546 0.99 2902 150 0.1229 0.1935 REMARK 3 3 4.6546 - 4.0688 0.99 2834 153 0.1158 0.1529 REMARK 3 4 4.0688 - 3.6979 0.99 2821 155 0.1372 0.1967 REMARK 3 5 3.6979 - 3.4335 1.00 2869 153 0.1693 0.2910 REMARK 3 6 3.4335 - 3.2315 0.98 2798 145 0.1896 0.2516 REMARK 3 7 3.2315 - 3.0699 0.93 2654 120 0.2041 0.2554 REMARK 3 8 3.0699 - 2.9364 0.90 2549 145 0.2176 0.3213 REMARK 3 9 2.9364 - 2.8235 0.85 2430 147 0.2239 0.3035 REMARK 3 10 2.8235 - 2.7262 0.77 2167 118 0.2425 0.3404 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 : 0.34 REMARK 3 B_SOL : 23.82 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.420 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.510 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 43.62 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.94900 REMARK 3 B22 (A**2) : 4.94900 REMARK 3 B33 (A**2) : -9.89800 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.008 5287 REMARK 3 ANGLE : 1.148 7164 REMARK 3 CHIRALITY : 0.080 770 REMARK 3 PLANARITY : 0.004 924 REMARK 3 DIHEDRAL : 16.675 1912 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 40:221) REMARK 3 ORIGIN FOR THE GROUP (A): -13.8527 73.9873 -12.5557 REMARK 3 T TENSOR REMARK 3 T11: -0.0584 T22: 0.1309 REMARK 3 T33: 0.0371 T12: 0.0005 REMARK 3 T13: -0.0369 T23: -0.1046 REMARK 3 L TENSOR REMARK 3 L11: 0.4065 L22: 0.7026 REMARK 3 L33: 0.9371 L12: -0.4633 REMARK 3 L13: -0.4400 L23: 0.5846 REMARK 3 S TENSOR REMARK 3 S11: 0.2439 S12: 0.2675 S13: -0.1036 REMARK 3 S21: -0.0410 S22: -0.1109 S23: 0.1508 REMARK 3 S31: -0.0638 S32: -0.2876 S33: -0.0139 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 222:238) REMARK 3 ORIGIN FOR THE GROUP (A): -17.7635 53.4965 -9.5815 REMARK 3 T TENSOR REMARK 3 T11: 0.2545 T22: 0.3023 REMARK 3 T33: 0.5750 T12: -0.0958 REMARK 3 T13: 0.0090 T23: -0.0787 REMARK 3 L TENSOR REMARK 3 L11: 1.0706 L22: 0.3591 REMARK 3 L33: 0.9031 L12: -0.5749 REMARK 3 L13: -0.7586 L23: 0.5428 REMARK 3 S TENSOR REMARK 3 S11: -0.3308 S12: 0.2121 S13: -0.7478 REMARK 3 S21: -0.0239 S22: -0.2154 S23: 0.4188 REMARK 3 S31: 0.0064 S32: -0.0650 S33: 0.5443 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 239:503) REMARK 3 ORIGIN FOR THE GROUP (A): 7.3595 66.2696 -2.8138 REMARK 3 T TENSOR REMARK 3 T11: 0.0195 T22: 0.0807 REMARK 3 T33: 0.0497 T12: 0.0138 REMARK 3 T13: -0.0015 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.5514 L22: 0.3765 REMARK 3 L33: 0.7159 L12: -0.3571 REMARK 3 L13: -0.5513 L23: 0.1879 REMARK 3 S TENSOR REMARK 3 S11: 0.0014 S12: -0.1480 S13: -0.0005 REMARK 3 S21: 0.0315 S22: -0.0088 S23: 0.1192 REMARK 3 S31: 0.0917 S32: 0.2328 S33: 0.0105 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 504:562) REMARK 3 ORIGIN FOR THE GROUP (A): 34.5559 54.6405 -13.1015 REMARK 3 T TENSOR REMARK 3 T11: 0.1449 T22: 0.2239 REMARK 3 T33: 0.0471 T12: 0.1717 REMARK 3 T13: 0.0035 T23: 0.0020 REMARK 3 L TENSOR REMARK 3 L11: 0.0743 L22: 0.0527 REMARK 3 L33: 0.4563 L12: -0.0344 REMARK 3 L13: 0.1661 L23: -0.1298 REMARK 3 S TENSOR REMARK 3 S11: 0.0208 S12: -0.0062 S13: 0.0065 REMARK 3 S21: -0.0676 S22: -0.0614 S23: 0.0029 REMARK 3 S31: 0.1759 S32: 0.2614 S33: 0.0413 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 563:569) REMARK 3 ORIGIN FOR THE GROUP (A): 41.2081 67.5331 -19.1200 REMARK 3 T TENSOR REMARK 3 T11: 1.2080 T22: 0.8279 REMARK 3 T33: 0.5812 T12: -0.2110 REMARK 3 T13: 0.1319 T23: -0.0113 REMARK 3 L TENSOR REMARK 3 L11: 0.9321 L22: 0.0013 REMARK 3 L33: 0.0085 L12: 0.0349 REMARK 3 L13: -0.0894 L23: -0.0033 REMARK 3 S TENSOR REMARK 3 S11: 0.1196 S12: 0.2984 S13: 0.1395 REMARK 3 S21: -0.1403 S22: -0.1683 S23: -0.0358 REMARK 3 S31: 0.8028 S32: 0.0272 S33: 0.0500 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 570:671) REMARK 3 ORIGIN FOR THE GROUP (A): 20.2775 55.8700 -28.6895 REMARK 3 T TENSOR REMARK 3 T11: 0.1352 T22: 0.1850 REMARK 3 T33: 0.0138 T12: 0.2437 REMARK 3 T13: -0.0513 T23: -0.0664 REMARK 3 L TENSOR REMARK 3 L11: 0.3802 L22: 0.3208 REMARK 3 L33: 0.0749 L12: -0.3099 REMARK 3 L13: 0.1667 L23: -0.1416 REMARK 3 S TENSOR REMARK 3 S11: 0.2172 S12: 0.2870 S13: -0.0545 REMARK 3 S21: -0.2163 S22: -0.2618 S23: 0.0422 REMARK 3 S31: 0.1184 S32: 0.1466 S33: 0.0171 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 2XPY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-AUG-10. REMARK 100 THE DEPOSITION ID IS D_1290045225. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.04 REMARK 200 MONOCHROMATOR : BENT SI (111) CRYSTAL, REMARK 200 HORIZONTALLY FOCUSING REMARK 200 OPTICS : MULTILAYER MIRROR, CURVED TO REMARK 200 FOCUS IN THE VERTICAL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30000 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 26.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 68.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.47000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 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: PDB ENTRY 1HS6 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TO OBTAIN DIFFRACTION QUALITY REMARK 280 CRYSTALS, HANGING DROPS OF 2 UL OF PROTEIN (6 MG/ML) AND 1 UL OF REMARK 280 MOTHER LIQUOR (0.1 M MMT BUFFER, PH 8, 12-14% PEG 6000) WERE REMARK 280 ALLOWED TO EQUILIBRATE AGAINST THE MOTHER LIQUOR FOR 18-24 HOURS REMARK 280 BEFORE THE DROPS WERE STREAK SEEDED FROM EARLIER CRYSTALS., REMARK 280 VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 51.22133 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 25.61067 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 25.61067 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 51.22133 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 NE2 GLN A 612 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2038 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2084 LIES ON A SPECIAL POSITION. 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 ASP A 225 REMARK 465 THR A 226 REMARK 465 SER A 227 REMARK 465 LYS A 228 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 OE1 GLU A 531 O HOH A 2087 0.74 REMARK 500 CD GLU A 531 O HOH A 2087 0.75 REMARK 500 OE2 GLU A 531 O HOH A 2087 1.47 REMARK 500 NE2 HIS A 97 O11 GSH A 1674 2.10 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 CD GLN A 612 NE2 GLN A 612 4554 1.33 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 ILE A 293 -103.73 -95.28 REMARK 500 ASN A 319 -5.14 65.06 REMARK 500 MET A 320 87.92 -152.93 REMARK 500 TRP A 346 -60.34 -97.35 REMARK 500 ASN A 362 -77.32 -90.43 REMARK 500 ASP A 403 61.88 62.75 REMARK 500 ASN A 415 -167.89 52.44 REMARK 500 TYR A 478 71.26 -118.19 REMARK 500 ILE A 590 -61.23 -100.49 REMARK 500 ASP A 642 78.43 -159.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 GLN A 612 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 GLUTATHIONE (GSH): ATTACHED TO CYS147 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 A1673 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 340 NE2 REMARK 620 2 HIS A 344 NE2 98.9 REMARK 620 3 GLU A 363 OE1 93.1 101.0 REMARK 620 4 GLU A 363 OE2 150.8 87.9 57.7 REMARK 620 5 HOH A2113 O 96.0 94.5 160.6 111.9 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1672 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1673 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GSH A 1674 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XQ0 RELATED DB: PDB REMARK 900 STRUCTURE OF YEAST LTA4 HYDROLASE IN COMPLEX WITH BESTATIN REMARK 900 RELATED ID: 2XPZ RELATED DB: PDB REMARK 900 STRUCTURE OF NATIVE YEAST LTA4 HYDROLASE DBREF 2XPY A 40 671 UNP Q10740 LKHA4_YEAST 40 671 SEQRES 1 A 632 MET LEU PRO LEU SER ILE GLU GLN ARG ARG PRO SER ARG SEQRES 2 A 632 SER PRO GLU TYR ASP GLN SER THR LEU SER ASN TYR LYS SEQRES 3 A 632 ASP PHE ALA VAL LEU HIS THR ASP LEU ASN LEU SER VAL SEQRES 4 A 632 SER PHE GLU LYS SER ALA ILE SER GLY SER VAL THR PHE SEQRES 5 A 632 GLN LEU LYS LYS LEU HIS GLU GLY LYS ASN LYS SER ASP SEQRES 6 A 632 GLU LEU HIS LEU ASP THR SER TYR LEU ASP VAL GLN GLU SEQRES 7 A 632 VAL HIS ILE ASP GLY SER LYS ALA ASP PHE GLN ILE GLU SEQRES 8 A 632 GLN ARG LYS GLU PRO LEU GLY SER ARG LEU VAL ILE ASN SEQRES 9 A 632 ASN ALA SER CYS ASN ASP ASN PHE THR LEU ASN ILE GLN SEQRES 10 A 632 PHE ARG THR THR ASP LYS CYS THR ALA LEU GLN TRP LEU SEQRES 11 A 632 ASN SER LYS GLN THR LYS GLY GLY LYS PRO TYR VAL PHE SEQRES 12 A 632 SER GLN LEU GLU ALA ILE HIS ALA ARG SER LEU PHE PRO SEQRES 13 A 632 CYS PHE ASP THR PRO SER VAL LYS SER THR PHE THR ALA SEQRES 14 A 632 SER ILE GLU SER PRO LEU PRO VAL VAL PHE SER GLY ILE SEQRES 15 A 632 ARG ILE GLU ASP THR SER LYS ASP THR ASN ILE TYR ARG SEQRES 16 A 632 PHE GLU GLN LYS VAL PRO ILE PRO ALA TYR LEU ILE GLY SEQRES 17 A 632 ILE ALA SER GLY ASP LEU SER SER ALA PRO ILE GLY PRO SEQRES 18 A 632 ARG SER THR VAL TYR THR GLU PRO PHE ARG LEU LYS ASP SEQRES 19 A 632 CYS GLN TRP GLU PHE GLU ASN ASP VAL GLU LYS PHE ILE SEQRES 20 A 632 GLN THR ALA GLU LYS ILE ILE PHE GLU TYR GLU TRP GLY SEQRES 21 A 632 THR TYR ASP ILE LEU VAL ASN VAL ASP SER TYR PRO TYR SEQRES 22 A 632 GLY GLY MET GLU SER PRO ASN MET THR PHE ALA THR PRO SEQRES 23 A 632 THR LEU ILE ALA HIS ASP ARG SER ASN ILE ASP VAL ILE SEQRES 24 A 632 ALA HIS GLU LEU ALA HIS SER TRP SER GLY ASN LEU VAL SEQRES 25 A 632 THR ASN CYS SER TRP ASN HIS PHE TRP LEU ASN GLU GLY SEQRES 26 A 632 TRP THR VAL TYR LEU GLU ARG ARG ILE ILE GLY ALA ILE SEQRES 27 A 632 HIS GLY GLU PRO THR ARG HIS PHE SER ALA LEU ILE GLY SEQRES 28 A 632 TRP SER ASP LEU GLN ASN SER ILE ASP SER MET LYS ASP SEQRES 29 A 632 PRO GLU ARG PHE SER THR LEU VAL GLN ASN LEU ASN ASP SEQRES 30 A 632 ASN THR ASP PRO ASP ASP ALA PHE SER THR VAL PRO TYR SEQRES 31 A 632 GLU LYS GLY PHE ASN LEU LEU PHE HIS LEU GLU THR ILE SEQRES 32 A 632 LEU GLY GLY LYS ALA GLU PHE ASP PRO PHE ILE ARG HIS SEQRES 33 A 632 TYR PHE LYS LYS PHE ALA LYS LYS SER LEU ASP THR PHE SEQRES 34 A 632 GLN PHE LEU ASP THR LEU TYR GLU PHE TYR PRO GLU LYS SEQRES 35 A 632 LYS GLU ILE LEU ASP SER VAL ASP TRP GLU THR TRP LEU SEQRES 36 A 632 TYR LYS PRO GLY MET PRO PRO ARG PRO HIS PHE ILE THR SEQRES 37 A 632 ALA LEU ALA ASP ASN VAL TYR GLN LEU ALA ASP LYS TRP SEQRES 38 A 632 VAL GLU MET ALA GLN HIS LEU LYS THR THR GLU ASP PHE SEQRES 39 A 632 ARG SER GLU PHE ASN ALA ILE ASP ILE LYS ASP PHE ASN SEQRES 40 A 632 SER ASN GLN LEU VAL LEU PHE LEU GLU THR LEU THR GLN SEQRES 41 A 632 ASN GLY HIS SER ASN LYS LYS PRO LYS ASP PHE ASP TRP SEQRES 42 A 632 ALA LYS PHE PRO VAL ALA SER ARG ALA LEU LEU ASP ILE SEQRES 43 A 632 TYR GLN ASP ASN ILE VAL LYS SER GLN ASN ALA GLU VAL SEQRES 44 A 632 VAL PHE LYS MET PHE LYS PHE GLN ILE PHE ALA LYS LEU SEQRES 45 A 632 GLN GLU GLU TYR LYS HIS LEU ALA ASP TRP LEU GLY THR SEQRES 46 A 632 VAL GLY ARG MET LYS PHE VAL ARG PRO GLY TYR ARG LEU SEQRES 47 A 632 LEU ASN SER VAL ASP ARG ARG LEU ALA LEU ALA THR PHE SEQRES 48 A 632 ASP LYS PHE LYS ASP THR TYR HIS PRO ILE CYS LYS ALA SEQRES 49 A 632 LEU VAL LYS GLN ASP LEU GLY LEU HET GOL A1672 6 HET ZN A1673 1 HET GSH A1674 20 HETNAM GOL GLYCEROL HETNAM ZN ZINC ION HETNAM GSH GLUTATHIONE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL C3 H8 O3 FORMUL 3 ZN ZN 2+ FORMUL 4 GSH C10 H17 N3 O6 S FORMUL 5 HOH *114(H2 O) HELIX 1 1 PRO A 42 GLN A 47 1 6 HELIX 2 2 ASN A 63 LYS A 65 5 3 HELIX 3 3 ASN A 170 THR A 174 5 5 HELIX 4 4 HIS A 189 LEU A 193 5 5 HELIX 5 5 PRO A 242 ILE A 246 5 5 HELIX 6 6 GLU A 267 ASN A 280 1 14 HELIX 7 7 ASP A 281 ILE A 293 1 13 HELIX 8 8 PRO A 325 ILE A 328 5 4 HELIX 9 9 VAL A 337 SER A 345 1 9 HELIX 10 10 SER A 355 HIS A 358 5 4 HELIX 11 11 PHE A 359 GLY A 379 1 21 HELIX 12 12 GLY A 379 SER A 400 1 22 HELIX 13 13 ASP A 403 SER A 408 1 6 HELIX 14 14 LEU A 414 THR A 418 5 5 HELIX 15 15 ASP A 419 PHE A 424 5 6 HELIX 16 16 THR A 426 LEU A 443 1 18 HELIX 17 17 GLY A 445 PHE A 460 1 16 HELIX 18 18 ASP A 466 TYR A 478 1 13 HELIX 19 19 LYS A 481 SER A 487 1 7 HELIX 20 20 ASP A 489 LYS A 496 1 8 HELIX 21 21 THR A 507 GLN A 525 1 19 HELIX 22 22 THR A 529 PHE A 537 1 9 HELIX 23 23 ASN A 538 ILE A 542 5 5 HELIX 24 24 ASN A 546 GLN A 559 1 14 HELIX 25 25 ASP A 571 LYS A 574 5 4 HELIX 26 26 PHE A 575 TYR A 586 1 12 HELIX 27 27 GLN A 587 LYS A 592 1 6 HELIX 28 28 ASN A 595 ALA A 609 1 15 HELIX 29 29 LEU A 611 GLU A 613 5 3 HELIX 30 30 GLU A 614 LEU A 622 1 9 HELIX 31 31 ARG A 627 SER A 640 1 14 HELIX 32 32 ASP A 642 LYS A 654 1 13 HELIX 33 33 ASP A 655 TYR A 657 5 3 HELIX 34 34 HIS A 658 LEU A 669 1 12 SHEET 1 AA 8 SER A 123 LYS A 124 0 SHEET 2 AA 8 LEU A 113 ILE A 120 -1 O ILE A 120 N SER A 123 SHEET 3 AA 8 ASN A 150 THR A 159 -1 O ASN A 154 N HIS A 119 SHEET 4 AA 8 ALA A 84 LYS A 95 -1 O ILE A 85 N THR A 159 SHEET 5 AA 8 PHE A 67 SER A 79 -1 O ALA A 68 N LYS A 94 SHEET 6 AA 8 SER A 204 GLU A 211 1 O THR A 205 N THR A 72 SHEET 7 AA 8 ILE A 232 ILE A 241 -1 O TYR A 233 N ILE A 210 SHEET 8 AA 8 ILE A 221 ARG A 222 -1 O ILE A 221 N GLU A 236 SHEET 1 AB 3 HIS A 107 LEU A 108 0 SHEET 2 AB 3 LEU A 140 ILE A 142 -1 O LEU A 140 N LEU A 108 SHEET 3 AB 3 PHE A 127 ILE A 129 -1 O GLN A 128 N VAL A 141 SHEET 1 AC 4 LEU A 166 LEU A 169 0 SHEET 2 AC 4 TYR A 180 SER A 183 -1 O TYR A 180 N LEU A 169 SHEET 3 AC 4 ILE A 248 GLY A 251 -1 O ILE A 248 N SER A 183 SHEET 4 AC 4 VAL A 216 PHE A 218 -1 O VAL A 217 N ALA A 249 SHEET 1 AD 5 SER A 254 GLY A 259 0 SHEET 2 AD 5 SER A 262 THR A 266 -1 O SER A 262 N ILE A 258 SHEET 3 AD 5 ILE A 303 VAL A 305 1 O ILE A 303 N TYR A 265 SHEET 4 AD 5 THR A 321 ALA A 323 1 O THR A 321 N LEU A 304 SHEET 5 AD 5 GLY A 314 MET A 315 -1 O MET A 315 N PHE A 322 SHEET 1 AE 2 VAL A 351 ASN A 353 0 SHEET 2 AE 2 LYS A 463 LEU A 465 1 O LYS A 463 N THR A 352 LINK NE2 HIS A 340 ZN ZN A1673 1555 1555 2.13 LINK NE2 HIS A 344 ZN ZN A1673 1555 1555 2.08 LINK OE1 GLU A 363 ZN ZN A1673 1555 1555 2.15 LINK OE2 GLU A 363 ZN ZN A1673 1555 1555 2.41 LINK ZN ZN A1673 O HOH A2113 1555 1555 2.52 CISPEP 1 SER A 53 PRO A 54 0 1.14 CISPEP 2 GLU A 134 PRO A 135 0 -0.86 CISPEP 3 GLU A 186 ALA A 187 0 3.95 SITE 1 AC1 2 ASP A 273 HIS A 330 SITE 1 AC2 5 HIS A 340 HIS A 344 GLU A 363 HOH A2112 SITE 2 AC2 5 HOH A2113 SITE 1 AC3 11 LYS A 95 HIS A 97 ASP A 104 CYS A 147 SITE 2 AC3 11 ASP A 149 PHE A 600 LYS A 601 LYS A 604 SITE 3 AC3 11 PRO A 633 ARG A 636 LEU A 637 CRYST1 159.556 159.556 76.832 90.00 90.00 120.00 P 32 2 1 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 0.006267 0.003618 0.000000 0.00000 SCALE2 0.000000 0.007237 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013015 0.00000