HEADER HYDROLASE 31-OCT-07 3B7R TITLE LEUKOTRIENE A4 HYDROLASE COMPLEXED WITH INHIBITOR RB3040 COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEUKOTRIENE A-4 HYDROLASE; COMPND 3 CHAIN: L; COMPND 4 SYNONYM: LTA-4 HYDROLASE, LEUKOTRIENE A4, HYDROLASE; COMPND 5 EC: 3.3.2.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: LTA4H, LTA4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM101; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PT7T3 KEYWDS TRANSITION STATE, ANALOGUE PEPTIDE, HYDROLYSIS, ALTERNATIVE SPLICING, KEYWDS 2 CYTOPLASM, HYDROLASE, LEUKOTRIENE BIOSYNTHESIS, METAL-BINDING, KEYWDS 3 METALLOPROTEASE, MULTIFUNCTIONAL ENZYME, PROTEASE, ZINC EXPDTA X-RAY DIFFRACTION AUTHOR F.THOLANDER,J.HAEGGSTROM,M.THUNNISSEN,A.MUROYA,B.-P.ROQUES,M.- AUTHOR 2 C.FOURNIE-ZALUSKI REVDAT 6 30-AUG-23 3B7R 1 REMARK LINK REVDAT 5 20-NOV-19 3B7R 1 SEQADV LINK REVDAT 4 07-MAR-18 3B7R 1 REMARK REVDAT 3 24-FEB-09 3B7R 1 VERSN REVDAT 2 07-OCT-08 3B7R 1 JRNL REVDAT 1 16-SEP-08 3B7R 0 JRNL AUTH F.THOLANDER,A.MUROYA,B.P.ROQUES,M.C.FOURNIE-ZALUSKI, JRNL AUTH 2 M.M.THUNNISSEN,J.Z.HAEGGSTROM JRNL TITL STRUCTURE-BASED DISSECTION OF THE ACTIVE SITE CHEMISTRY OF JRNL TITL 2 LEUKOTRIENE A4 HYDROLASE: IMPLICATIONS FOR M1 JRNL TITL 3 AMINOPEPTIDASES AND INHIBITOR DESIGN. JRNL REF CHEM.BIOL. V. 15 920 2008 JRNL REFN ISSN 1074-5521 JRNL PMID 18804029 JRNL DOI 10.1016/J.CHEMBIOL.2008.07.018 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH F.THOLANDER,J.Z.HAEGGSTROM REMARK 1 TITL ASSAY FOR RAPID ANALYSIS OF THE TRI-PEPTIDASE ACTIVITY OF REMARK 1 TITL 2 LTA4 HYDROLASE. REMARK 1 REF PROTEINS V. 67 1113 2007 REMARK 1 REFN ISSN 0887-3585 REMARK 1 PMID 17357161 REMARK 1 DOI 10.1002/PROT.21329 REMARK 1 REFERENCE 2 REMARK 1 AUTH P.C.RUDBERG,F.THOLANDER,M.ANDBERG,M.M.THUNNISSEN, REMARK 1 AUTH 2 J.Z.HAEGGSTROM REMARK 1 TITL LEUKOTRIENE A4 HYDROLASE: IDENTIFICATION OF A COMMON REMARK 1 TITL 2 CARBOXYLATE RECOGNITION SITE FOR THE EPOXIDE HYDROLASE AND REMARK 1 TITL 3 AMINOPEPTIDASE SUBSTRATES. REMARK 1 REF J.BIOL.CHEM. V. 279 27376 2004 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 15078870 REMARK 1 DOI 10.1074/JBC.M401031200 REMARK 1 REFERENCE 3 REMARK 1 AUTH P.C.RUDBERG,F.THOLANDER,M.M.THUNNISSEN,J.Z.HAEGGSTROM REMARK 1 TITL LEUKOTRIENE A4 HYDROLASE/AMINOPEPTIDASE. GLUTAMATE 271 IS A REMARK 1 TITL 2 CATALYTIC RESIDUE WITH SPECIFIC ROLES IN TWO DISTINCT ENZYME REMARK 1 TITL 3 MECHANISMS. REMARK 1 REF J.BIOL.CHEM. V. 277 1398 2002 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 11675384 REMARK 1 DOI 10.1074/JBC.M106577200 REMARK 1 REFERENCE 4 REMARK 1 AUTH P.C.RUDBERG,F.THOLANDER,M.M.THUNNISSEN,B.SAMUELSSON, REMARK 1 AUTH 2 J.Z.HAEGGSTROM REMARK 1 TITL LEUKOTRIENE A4 HYDROLASE: SELECTIVE ABROGATION OF REMARK 1 TITL 2 LEUKOTRIENE B4 FORMATION BY MUTATION OF ASPARTIC ACID 375. REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 99 4215 2002 REMARK 1 REFN ISSN 0027-8424 REMARK 1 PMID 11917124 REMARK 1 DOI 10.1073/PNAS.072090099 REMARK 1 REFERENCE 5 REMARK 1 AUTH M.M.THUNNISSEN,P.NORDLUND,J.Z.HAEGGSTROM REMARK 1 TITL CRYSTAL STRUCTURE OF HUMAN LEUKOTRIENE A(4) HYDROLASE, A REMARK 1 TITL 2 BIFUNCTIONAL ENZYME IN INFLAMMATION. REMARK 1 REF NAT.STRUCT.BIOL. V. 8 131 2001 REMARK 1 REFN ISSN 1072-8368 REMARK 1 PMID 11175901 REMARK 1 DOI 10.1038/84117 REMARK 2 REMARK 2 RESOLUTION. 1.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.53 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 59767 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.300 REMARK 3 FREE R VALUE TEST SET COUNT : 2050 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.81 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.86 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4139 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1720 REMARK 3 BIN FREE R VALUE SET COUNT : 136 REMARK 3 BIN FREE R VALUE : 0.1950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4877 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 668 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.07000 REMARK 3 B22 (A**2) : -0.61000 REMARK 3 B33 (A**2) : 0.54000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.105 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.104 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.978 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5037 ; 0.017 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 4530 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6846 ; 1.574 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10600 ; 1.059 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 609 ; 6.149 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 765 ; 0.110 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5519 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 989 ; 0.013 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1044 ; 0.211 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 5320 ; 0.250 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2775 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 484 ; 0.159 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 5 ; 0.050 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 7 ; 0.320 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 38 ; 0.281 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 28 ; 0.413 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3055 ; 0.888 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4963 ; 1.604 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1982 ; 2.733 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1883 ; 4.369 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3B7R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000045184. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAY-03 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 : I711 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61881 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.811 REMARK 200 RESOLUTION RANGE LOW (A) : 15.534 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : 0.06000 REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.81 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.91 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.25500 REMARK 200 R SYM FOR SHELL (I) : 0.25500 REMARK 200 FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1H19 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CO-CRYSTALLIZED WITH LTA4H BY LIQUID REMARK 280 -LIQUID DIFFUSION IN MELTING-POINT CAPILLARIES. A TRIS-BUFFERED REMARK 280 (10 MM, PH 7.5) SOLUTION OF PROTEIN AND INHIBITOR IN REMARK 280 APPROXIMATELY EQUIMOLAR CONCENTRATIONS (~70 MICROM) WAS LAYERED REMARK 280 ON THE PRECIPITATE SOLUTION CONTAINING 28% (WEIGHT/VOLUME) REMARK 280 POLYETHYLENE GLYCOL (MW 8000), 50 MM NA ACETATE, 100 MM REMARK 280 IMIDAZOLE, PH 6.8, AND 5 MM YBCL3, LIQUID-LIQUID DIFFUSION, REMARK 280 TEMPERATURE 298K 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 39.16500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.55450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.46850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.55450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.16500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.46850 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: L 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 HIS L -5 REMARK 465 HIS L -4 REMARK 465 HIS L -3 REMARK 465 HIS L -2 REMARK 465 HIS L -1 REMARK 465 HIS L 0 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 L 1443 O HOH L 1644 1.86 REMARK 500 NE ARG L 212 O HOH L 1620 1.89 REMARK 500 NH1 ARG L 212 O HOH L 1620 2.05 REMARK 500 OD1 ASP L 175 O HOH L 1608 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 L 1608 O HOH L 1654 4545 0.97 REMARK 500 O HOH L 1609 O HOH L 1657 1565 1.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG L 212 NE ARG L 212 CZ -0.087 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG L 32 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG L 32 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG L 174 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG L 212 NE - CZ - NH1 ANGL. DEV. = -5.3 DEGREES REMARK 500 ASP L 437 CB - CG - OD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 ASP L 461 CB - CG - OD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP L 482 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP L 578 CB - CG - OD2 ANGL. DEV. = 7.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 GLN L 79 66.99 -115.77 REMARK 500 SER L 80 -131.62 53.22 REMARK 500 ASN L 97 -1.54 73.82 REMARK 500 SER L 112 122.71 -38.63 REMARK 500 ASP L 183 95.24 -165.42 REMARK 500 PRO L 184 -8.58 -59.49 REMARK 500 GLU L 271 40.23 -82.91 REMARK 500 CYS L 274 -13.24 78.48 REMARK 500 LEU L 275 77.48 -158.68 REMARK 500 PHE L 432 36.06 -98.64 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 YB L 801 YB REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP L 47 OD1 REMARK 620 2 ASP L 47 OD2 54.8 REMARK 620 3 ASP L 481 OD1 38.0 26.8 REMARK 620 4 ASP L 481 OD2 38.4 26.7 0.4 REMARK 620 5 HOH L1444 O 37.5 25.8 1.5 1.8 REMARK 620 6 HOH L1447 O 38.8 24.9 1.9 1.9 1.4 REMARK 620 7 HOH L1543 O 37.0 24.9 3.0 3.2 1.5 2.1 REMARK 620 8 HOH L1609 O 36.4 27.6 1.7 2.0 1.8 3.0 2.8 REMARK 620 9 HOH L1657 O 35.8 27.0 2.5 2.8 1.7 3.1 2.1 1.2 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN L 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS L 295 NE2 REMARK 620 2 HIS L 299 NE2 98.8 REMARK 620 3 GLU L 318 OE1 108.2 105.4 REMARK 620 4 BIR L1001 O5 111.5 135.3 95.7 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN L 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE YB L 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD L 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BIR L 1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2R59 RELATED DB: PDB REMARK 900 SAME ENZYME COMPLEXED WITH INHIBITOR RB3041 REMARK 900 RELATED ID: 3B7S RELATED DB: PDB REMARK 900 RELATED ID: 3B7T RELATED DB: PDB REMARK 900 RELATED ID: 3B7U RELATED DB: PDB DBREF 3B7R L 1 610 UNP P09960 LKHA4_HUMAN 2 611 SEQADV 3B7R HIS L -5 UNP P09960 EXPRESSION TAG SEQADV 3B7R HIS L -4 UNP P09960 EXPRESSION TAG SEQADV 3B7R HIS L -3 UNP P09960 EXPRESSION TAG SEQADV 3B7R HIS L -2 UNP P09960 EXPRESSION TAG SEQADV 3B7R HIS L -1 UNP P09960 EXPRESSION TAG SEQADV 3B7R HIS L 0 UNP P09960 EXPRESSION TAG SEQRES 1 L 616 HIS HIS HIS HIS HIS HIS PRO GLU ILE VAL ASP THR CYS SEQRES 2 L 616 SER LEU ALA SER PRO ALA SER VAL CYS ARG THR LYS HIS SEQRES 3 L 616 LEU HIS LEU ARG CYS SER VAL ASP PHE THR ARG ARG THR SEQRES 4 L 616 LEU THR GLY THR ALA ALA LEU THR VAL GLN SER GLN GLU SEQRES 5 L 616 ASP ASN LEU ARG SER LEU VAL LEU ASP THR LYS ASP LEU SEQRES 6 L 616 THR ILE GLU LYS VAL VAL ILE ASN GLY GLN GLU VAL LYS SEQRES 7 L 616 TYR ALA LEU GLY GLU ARG GLN SER TYR LYS GLY SER PRO SEQRES 8 L 616 MET GLU ILE SER LEU PRO ILE ALA LEU SER LYS ASN GLN SEQRES 9 L 616 GLU ILE VAL ILE GLU ILE SER PHE GLU THR SER PRO LYS SEQRES 10 L 616 SER SER ALA LEU GLN TRP LEU THR PRO GLU GLN THR SER SEQRES 11 L 616 GLY LYS GLU HIS PRO TYR LEU PHE SER GLN CYS GLN ALA SEQRES 12 L 616 ILE HIS CYS ARG ALA ILE LEU PRO CYS GLN ASP THR PRO SEQRES 13 L 616 SER VAL LYS LEU THR TYR THR ALA GLU VAL SER VAL PRO SEQRES 14 L 616 LYS GLU LEU VAL ALA LEU MET SER ALA ILE ARG ASP GLY SEQRES 15 L 616 GLU THR PRO ASP PRO GLU ASP PRO SER ARG LYS ILE TYR SEQRES 16 L 616 LYS PHE ILE GLN LYS VAL PRO ILE PRO CYS TYR LEU ILE SEQRES 17 L 616 ALA LEU VAL VAL GLY ALA LEU GLU SER ARG GLN ILE GLY SEQRES 18 L 616 PRO ARG THR LEU VAL TRP SER GLU LYS GLU GLN VAL GLU SEQRES 19 L 616 LYS SER ALA TYR GLU PHE SER GLU THR GLU SER MET LEU SEQRES 20 L 616 LYS ILE ALA GLU ASP LEU GLY GLY PRO TYR VAL TRP GLY SEQRES 21 L 616 GLN TYR ASP LEU LEU VAL LEU PRO PRO SER PHE PRO TYR SEQRES 22 L 616 GLY GLY MET GLU ASN PRO CYS LEU THR PHE VAL THR PRO SEQRES 23 L 616 THR LEU LEU ALA GLY ASP LYS SER LEU SER ASN VAL ILE SEQRES 24 L 616 ALA HIS GLU ILE SER HIS SER TRP THR GLY ASN LEU VAL SEQRES 25 L 616 THR ASN LYS THR TRP ASP HIS PHE TRP LEU ASN GLU GLY SEQRES 26 L 616 HIS THR VAL TYR LEU GLU ARG HIS ILE CYS GLY ARG LEU SEQRES 27 L 616 PHE GLY GLU LYS PHE ARG HIS PHE ASN ALA LEU GLY GLY SEQRES 28 L 616 TRP GLY GLU LEU GLN ASN SER VAL LYS THR PHE GLY GLU SEQRES 29 L 616 THR HIS PRO PHE THR LYS LEU VAL VAL ASP LEU THR ASP SEQRES 30 L 616 ILE ASP PRO ASP VAL ALA TYR SER SER VAL PRO TYR GLU SEQRES 31 L 616 LYS GLY PHE ALA LEU LEU PHE TYR LEU GLU GLN LEU LEU SEQRES 32 L 616 GLY GLY PRO GLU ILE PHE LEU GLY PHE LEU LYS ALA TYR SEQRES 33 L 616 VAL GLU LYS PHE SER TYR LYS SER ILE THR THR ASP ASP SEQRES 34 L 616 TRP LYS ASP PHE LEU TYR SER TYR PHE LYS ASP LYS VAL SEQRES 35 L 616 ASP VAL LEU ASN GLN VAL ASP TRP ASN ALA TRP LEU TYR SEQRES 36 L 616 SER PRO GLY LEU PRO PRO ILE LYS PRO ASN TYR ASP MET SEQRES 37 L 616 THR LEU THR ASN ALA CYS ILE ALA LEU SER GLN ARG TRP SEQRES 38 L 616 ILE THR ALA LYS GLU ASP ASP LEU ASN SER PHE ASN ALA SEQRES 39 L 616 THR ASP LEU LYS ASP LEU SER SER HIS GLN LEU ASN GLU SEQRES 40 L 616 PHE LEU ALA GLN THR LEU GLN ARG ALA PRO LEU PRO LEU SEQRES 41 L 616 GLY HIS ILE LYS ARG MET GLN GLU VAL TYR ASN PHE ASN SEQRES 42 L 616 ALA ILE ASN ASN SER GLU ILE ARG PHE ARG TRP LEU ARG SEQRES 43 L 616 LEU CYS ILE GLN SER LYS TRP GLU ASP ALA ILE PRO LEU SEQRES 44 L 616 ALA LEU LYS MET ALA THR GLU GLN GLY ARG MET LYS PHE SEQRES 45 L 616 THR ARG PRO LEU PHE LYS ASP LEU ALA ALA PHE ASP LYS SEQRES 46 L 616 SER HIS ASP GLN ALA VAL ARG THR TYR GLN GLU HIS LYS SEQRES 47 L 616 ALA SER MET HIS PRO VAL THR ALA MET LEU VAL GLY LYS SEQRES 48 L 616 ASP LEU LYS VAL ASP HET ZN L 701 1 HET YB L 801 1 HET IMD L 802 5 HET BIR L1001 29 HETNAM ZN ZINC ION HETNAM YB YTTERBIUM (III) ION HETNAM IMD IMIDAZOLE HETNAM BIR N-[3-[(1-AMINOETHYL)(HYDROXY)PHOSPHORYL]-2-(1,1'- HETNAM 2 BIR BIPHENYL-4-YLMETHYL)PROPANOYL]ALANINE FORMUL 2 ZN ZN 2+ FORMUL 3 YB YB 3+ FORMUL 4 IMD C3 H5 N2 1+ FORMUL 5 BIR C21 H27 N2 O5 P FORMUL 6 HOH *668(H2 O) HELIX 1 1 GLN L 79 GLY L 83 5 5 HELIX 2 2 THR L 119 THR L 123 5 5 HELIX 3 3 HIS L 139 ILE L 143 5 5 HELIX 4 4 PRO L 198 ILE L 202 5 5 HELIX 5 5 GLU L 223 GLU L 225 5 3 HELIX 6 6 GLN L 226 PHE L 234 1 9 HELIX 7 7 GLU L 236 GLY L 249 1 14 HELIX 8 8 PRO L 280 LEU L 283 5 4 HELIX 9 9 SER L 290 HIS L 299 1 10 HELIX 10 10 THR L 310 ASP L 312 5 3 HELIX 11 11 HIS L 313 GLY L 334 1 22 HELIX 12 12 GLY L 334 GLY L 357 1 24 HELIX 13 13 HIS L 360 LYS L 364 5 5 HELIX 14 14 ASP L 373 TYR L 378 1 6 HELIX 15 15 SER L 380 LEU L 397 1 18 HELIX 16 16 GLY L 399 SER L 415 1 17 HELIX 17 17 THR L 420 PHE L 432 1 13 HELIX 18 18 LYS L 435 GLN L 441 1 7 HELIX 19 19 ASP L 443 SER L 450 1 8 HELIX 20 20 THR L 465 ALA L 478 1 14 HELIX 21 21 LYS L 479 PHE L 486 5 8 HELIX 22 22 ASN L 487 LYS L 492 5 6 HELIX 23 23 SER L 495 GLN L 508 1 14 HELIX 24 24 PRO L 513 ASN L 525 1 13 HELIX 25 25 PHE L 526 ILE L 529 5 4 HELIX 26 26 ASN L 531 SER L 545 1 15 HELIX 27 27 TRP L 547 ASP L 549 5 3 HELIX 28 28 ALA L 550 GLN L 561 1 12 HELIX 29 29 ARG L 563 PHE L 577 1 15 HELIX 30 30 PHE L 577 LYS L 592 1 16 HELIX 31 31 ALA L 593 MET L 595 5 3 HELIX 32 32 HIS L 596 LYS L 608 1 13 SHEET 1 A 8 GLN L 69 GLU L 70 0 SHEET 2 A 8 LEU L 59 ILE L 66 -1 N ILE L 66 O GLN L 69 SHEET 3 A 8 GLU L 99 THR L 108 -1 O SER L 105 N GLU L 62 SHEET 4 A 8 THR L 33 SER L 44 -1 N LEU L 40 O ILE L 102 SHEET 5 A 8 CYS L 16 ASP L 28 -1 N LYS L 19 O THR L 41 SHEET 6 A 8 LEU L 154 PRO L 163 1 O SER L 161 N CYS L 25 SHEET 7 A 8 ARG L 186 ILE L 197 -1 O GLN L 193 N TYR L 156 SHEET 8 A 8 ILE L 173 PRO L 179 -1 N THR L 178 O ILE L 188 SHEET 1 B 3 LEU L 49 THR L 56 0 SHEET 2 B 3 SER L 84 LEU L 94 -1 O ILE L 88 N LEU L 52 SHEET 3 B 3 TYR L 73 LEU L 75 -1 N ALA L 74 O GLU L 87 SHEET 1 C 4 LEU L 115 LEU L 118 0 SHEET 2 C 4 TYR L 130 SER L 133 -1 O TYR L 130 N LEU L 118 SHEET 3 C 4 LEU L 204 GLY L 207 -1 O VAL L 206 N LEU L 131 SHEET 4 C 4 VAL L 167 MET L 170 -1 N VAL L 167 O GLY L 207 SHEET 1 D 5 GLU L 210 GLY L 215 0 SHEET 2 D 5 THR L 218 SER L 222 -1 O SER L 222 N GLU L 210 SHEET 3 D 5 ASP L 257 VAL L 260 1 O VAL L 260 N TRP L 221 SHEET 4 D 5 LEU L 275 VAL L 278 1 O VAL L 278 N LEU L 259 SHEET 5 D 5 GLY L 269 MET L 270 -1 N MET L 270 O PHE L 277 SHEET 1 E 2 VAL L 306 ASN L 308 0 SHEET 2 E 2 LYS L 417 ILE L 419 1 O ILE L 419 N THR L 307 LINK OD1 ASP L 47 YB YB L 801 1555 1545 2.39 LINK OD2 ASP L 47 YB YB L 801 1555 1545 2.40 LINK NE2 HIS L 295 ZN ZN L 701 1555 1555 2.03 LINK NE2 HIS L 299 ZN ZN L 701 1555 1555 1.97 LINK OE1 GLU L 318 ZN ZN L 701 1555 1555 1.98 LINK OD1 ASP L 481 YB YB L 801 1555 1555 2.39 LINK OD2 ASP L 481 YB YB L 801 1555 1555 2.51 LINK ZN ZN L 701 O5 BIR L1001 1555 1555 2.00 LINK YB YB L 801 O HOH L1444 1555 1555 2.38 LINK YB YB L 801 O HOH L1447 1555 1555 2.38 LINK YB YB L 801 O HOH L1543 1555 1555 2.60 LINK YB YB L 801 O HOH L1609 1555 1555 2.25 LINK YB YB L 801 O HOH L1657 1555 1565 2.52 CISPEP 1 GLN L 136 ALA L 137 0 0.40 CISPEP 2 ALA L 510 PRO L 511 0 1.90 SITE 1 AC1 3 HIS L 295 HIS L 299 GLU L 318 SITE 1 AC2 7 ASP L 47 ASP L 481 HOH L1444 HOH L1447 SITE 2 AC2 7 HOH L1543 HOH L1609 HOH L1657 SITE 1 AC3 7 GLY L 344 GLY L 347 GLU L 348 ASN L 351 SITE 2 AC3 7 GLU L 501 ALA L 504 GLN L 508 SITE 1 AC4 17 GLN L 136 TYR L 267 GLY L 268 GLY L 269 SITE 2 AC4 17 GLU L 271 ASN L 291 HIS L 295 GLU L 296 SITE 3 AC4 17 HIS L 299 GLU L 318 TYR L 378 TYR L 383 SITE 4 AC4 17 ARG L 563 LYS L 565 HOH L1005 HOH L1064 SITE 5 AC4 17 HOH L1391 CRYST1 78.330 86.937 99.109 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 0.012767 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011503 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010090 0.00000