HEADER HYDROLASE/HYDROLASE INHIBITOR 27-AUG-14 4R7L TITLE STRUCTURE OF HUMAN LEUKOTRIENE A4 HYDROLASE IN COMPLEX WITH INHIBITOR TITLE 2 H1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEUKOTRIENE A-4 HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LTA-4 HYDROLASE, LEUKOTRIENE A(4) 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: ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS LEUKOTRIENE A4, METALLOPROTEIN, PROTEASE, ZINC BINDING, KEYWDS 2 AMINOPEPTIDASE ACTIVITY, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.OUYANG,K.CUI,W.LU,J.HUANG REVDAT 2 20-MAR-24 4R7L 1 REMARK SEQADV LINK REVDAT 1 25-NOV-15 4R7L 0 JRNL AUTH P.OUYANG,K.CUI,W.LU,J.HUANG JRNL TITL HUMAN LEUKOTRIENE A4 HYDROLASE IN COMPLEX WITH SAHA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.66 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 76051 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) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4036 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) : 1.66 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.70 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5487 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.1910 REMARK 3 BIN FREE R VALUE SET COUNT : 278 REMARK 3 BIN FREE R VALUE : 0.2390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4852 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 426 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.00000 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): 0.080 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.083 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.047 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.338 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5016 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4765 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6803 ; 2.086 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10998 ; 0.964 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 604 ; 6.269 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 221 ;33.970 ;24.389 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 856 ;11.764 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;16.606 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 756 ; 0.140 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5583 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1137 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2427 ; 1.445 ; 1.555 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2424 ; 1.438 ; 1.554 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3028 ; 1.934 ; 2.331 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3029 ; 1.935 ; 2.332 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2589 ; 2.984 ; 1.861 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2589 ; 2.984 ; 1.861 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3776 ; 4.341 ; 2.671 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6069 ; 5.092 ;13.643 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6069 ; 5.092 ;13.643 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 4R7L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-SEP-14. REMARK 100 THE DEPOSITION ID IS D_1000086999. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-APR-14 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76480 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.660 REMARK 200 RESOLUTION RANGE LOW (A) : 30.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.66 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 30.19 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 <I/SIGMA(I)> 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: PHASES REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 8000, 0.1MM NA-ACETATE, 0.1MM REMARK 280 IMIDAZOLE, 5MM YBCL3, PH 6.8, VAPOR DIFFUSION, TEMPERATURE 277K 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 38.95800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.64250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.56700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.64250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.95800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.56700 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -20 REMARK 465 GLY A -19 REMARK 465 SER A -18 REMARK 465 SER A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 SER A -10 REMARK 465 SER A -9 REMARK 465 GLY A -8 REMARK 465 LEU A -7 REMARK 465 VAL A -6 REMARK 465 PRO A -5 REMARK 465 ARG A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 PRO A 1 REMARK 465 GLU A 2 REMARK 465 ASP A 610 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 174 CA CB CG CD NE CZ NH1 REMARK 480 ARG A 174 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU A 245 O HOH A 1212 1.78 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 OD2 ASP A 481 YB YB A 702 1545 2.16 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 GLU A 165 CD GLU A 165 OE1 0.071 REMARK 500 GLU A 228 CD GLU A 228 OE2 -0.075 REMARK 500 GLU A 401 CD GLU A 401 OE1 0.073 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 A 31 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 32 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 50 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 174 CD - NE - CZ ANGL. DEV. = 9.0 DEGREES REMARK 500 ARG A 174 NE - CZ - NH1 ANGL. DEV. = -5.3 DEGREES REMARK 500 ARG A 174 NE - CZ - NH2 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG A 186 NE - CZ - NH1 ANGL. DEV. = 5.1 DEGREES REMARK 500 ARG A 186 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 217 NE - CZ - NH1 ANGL. DEV. = -4.3 DEGREES REMARK 500 ASP A 312 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ARG A 338 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 338 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ASP A 368 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 MET A 520 CG - SD - CE ANGL. DEV. = 11.7 DEGREES REMARK 500 ARG A 563 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 563 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ASP A 578 CB - CG - OD1 ANGL. DEV. = 5.8 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 A 79 73.41 -109.55 REMARK 500 SER A 80 -132.80 43.46 REMARK 500 ASP A 183 95.44 -163.54 REMARK 500 PRO A 184 -8.43 -57.94 REMARK 500 GLU A 271 40.89 -80.97 REMARK 500 CYS A 274 -15.17 73.98 REMARK 500 LEU A 275 78.30 -154.35 REMARK 500 PRO A 458 170.25 -57.00 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 A 702 YB REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 47 OD1 REMARK 620 2 ASP A 47 OD2 54.4 REMARK 620 3 ACT A 707 OXT 127.9 80.2 REMARK 620 4 ACT A 707 O 119.7 71.1 53.2 REMARK 620 5 HOH A 852 O 71.8 126.1 146.1 148.0 REMARK 620 6 HOH A1063 O 143.1 145.0 88.6 75.7 79.5 REMARK 620 7 HOH A1064 O 75.4 84.6 129.0 75.8 79.2 77.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 299 NE2 REMARK 620 2 GLU A 318 OE1 99.1 REMARK 620 3 SHH A 709 O2 151.9 90.3 REMARK 620 4 SHH A 709 O1 87.8 166.5 78.4 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 A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE YB A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 705 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 706 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 707 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 708 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SHH A 709 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3B7S RELATED DB: PDB REMARK 900 RELATED ID: 3B7T RELATED DB: PDB DBREF 4R7L A 0 610 UNP P09960 LKHA4_HUMAN 1 611 SEQADV 4R7L MET A -20 UNP P09960 EXPRESSION TAG SEQADV 4R7L GLY A -19 UNP P09960 EXPRESSION TAG SEQADV 4R7L SER A -18 UNP P09960 EXPRESSION TAG SEQADV 4R7L SER A -17 UNP P09960 EXPRESSION TAG SEQADV 4R7L HIS A -16 UNP P09960 EXPRESSION TAG SEQADV 4R7L HIS A -15 UNP P09960 EXPRESSION TAG SEQADV 4R7L HIS A -14 UNP P09960 EXPRESSION TAG SEQADV 4R7L HIS A -13 UNP P09960 EXPRESSION TAG SEQADV 4R7L HIS A -12 UNP P09960 EXPRESSION TAG SEQADV 4R7L HIS A -11 UNP P09960 EXPRESSION TAG SEQADV 4R7L SER A -10 UNP P09960 EXPRESSION TAG SEQADV 4R7L SER A -9 UNP P09960 EXPRESSION TAG SEQADV 4R7L GLY A -8 UNP P09960 EXPRESSION TAG SEQADV 4R7L LEU A -7 UNP P09960 EXPRESSION TAG SEQADV 4R7L VAL A -6 UNP P09960 EXPRESSION TAG SEQADV 4R7L PRO A -5 UNP P09960 EXPRESSION TAG SEQADV 4R7L ARG A -4 UNP P09960 EXPRESSION TAG SEQADV 4R7L GLY A -3 UNP P09960 EXPRESSION TAG SEQADV 4R7L SER A -2 UNP P09960 EXPRESSION TAG SEQADV 4R7L HIS A -1 UNP P09960 EXPRESSION TAG SEQRES 1 A 631 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 631 LEU VAL PRO ARG GLY SER HIS MET PRO GLU ILE VAL ASP SEQRES 3 A 631 THR CYS SER LEU ALA SER PRO ALA SER VAL CYS ARG THR SEQRES 4 A 631 LYS HIS LEU HIS LEU ARG CYS SER VAL ASP PHE THR ARG SEQRES 5 A 631 ARG THR LEU THR GLY THR ALA ALA LEU THR VAL GLN SER SEQRES 6 A 631 GLN GLU ASP ASN LEU ARG SER LEU VAL LEU ASP THR LYS SEQRES 7 A 631 ASP LEU THR ILE GLU LYS VAL VAL ILE ASN GLY GLN GLU SEQRES 8 A 631 VAL LYS TYR ALA LEU GLY GLU ARG GLN SER TYR LYS GLY SEQRES 9 A 631 SER PRO MET GLU ILE SER LEU PRO ILE ALA LEU SER LYS SEQRES 10 A 631 ASN GLN GLU ILE VAL ILE GLU ILE SER PHE GLU THR SER SEQRES 11 A 631 PRO LYS SER SER ALA LEU GLN TRP LEU THR PRO GLU GLN SEQRES 12 A 631 THR SER GLY LYS GLU HIS PRO TYR LEU PHE SER GLN CYS SEQRES 13 A 631 GLN ALA ILE HIS CYS ARG ALA ILE LEU PRO CYS GLN ASP SEQRES 14 A 631 THR PRO SER VAL LYS LEU THR TYR THR ALA GLU VAL SER SEQRES 15 A 631 VAL PRO LYS GLU LEU VAL ALA LEU MET SER ALA ILE ARG SEQRES 16 A 631 ASP GLY GLU THR PRO ASP PRO GLU ASP PRO SER ARG LYS SEQRES 17 A 631 ILE TYR LYS PHE ILE GLN LYS VAL PRO ILE PRO CYS TYR SEQRES 18 A 631 LEU ILE ALA LEU VAL VAL GLY ALA LEU GLU SER ARG GLN SEQRES 19 A 631 ILE GLY PRO ARG THR LEU VAL TRP SER GLU LYS GLU GLN SEQRES 20 A 631 VAL GLU LYS SER ALA TYR GLU PHE SER GLU THR GLU SER SEQRES 21 A 631 MET LEU LYS ILE ALA GLU ASP LEU GLY GLY PRO TYR VAL SEQRES 22 A 631 TRP GLY GLN TYR ASP LEU LEU VAL LEU PRO PRO SER PHE SEQRES 23 A 631 PRO TYR GLY GLY MET GLU ASN PRO CYS LEU THR PHE VAL SEQRES 24 A 631 THR PRO THR LEU LEU ALA GLY ASP LYS SER LEU SER ASN SEQRES 25 A 631 VAL ILE ALA HIS GLU ILE SER HIS SER TRP THR GLY ASN SEQRES 26 A 631 LEU VAL THR ASN LYS THR TRP ASP HIS PHE TRP LEU ASN SEQRES 27 A 631 GLU GLY HIS THR VAL TYR LEU GLU ARG HIS ILE CYS GLY SEQRES 28 A 631 ARG LEU PHE GLY GLU LYS PHE ARG HIS PHE ASN ALA LEU SEQRES 29 A 631 GLY GLY TRP GLY GLU LEU GLN ASN SER VAL LYS THR PHE SEQRES 30 A 631 GLY GLU THR HIS PRO PHE THR LYS LEU VAL VAL ASP LEU SEQRES 31 A 631 THR ASP ILE ASP PRO ASP VAL ALA TYR SER SER VAL PRO SEQRES 32 A 631 TYR GLU LYS GLY PHE ALA LEU LEU PHE TYR LEU GLU GLN SEQRES 33 A 631 LEU LEU GLY GLY PRO GLU ILE PHE LEU GLY PHE LEU LYS SEQRES 34 A 631 ALA TYR VAL GLU LYS PHE SER TYR LYS SER ILE THR THR SEQRES 35 A 631 ASP ASP TRP LYS ASP PHE LEU TYR SER TYR PHE LYS ASP SEQRES 36 A 631 LYS VAL ASP VAL LEU ASN GLN VAL ASP TRP ASN ALA TRP SEQRES 37 A 631 LEU TYR SER PRO GLY LEU PRO PRO ILE LYS PRO ASN TYR SEQRES 38 A 631 ASP MET THR LEU THR ASN ALA CYS ILE ALA LEU SER GLN SEQRES 39 A 631 ARG TRP ILE THR ALA LYS GLU ASP ASP LEU ASN SER PHE SEQRES 40 A 631 ASN ALA THR ASP LEU LYS ASP LEU SER SER HIS GLN LEU SEQRES 41 A 631 ASN GLU PHE LEU ALA GLN THR LEU GLN ARG ALA PRO LEU SEQRES 42 A 631 PRO LEU GLY HIS ILE LYS ARG MET GLN GLU VAL TYR ASN SEQRES 43 A 631 PHE ASN ALA ILE ASN ASN SER GLU ILE ARG PHE ARG TRP SEQRES 44 A 631 LEU ARG LEU CYS ILE GLN SER LYS TRP GLU ASP ALA ILE SEQRES 45 A 631 PRO LEU ALA LEU LYS MET ALA THR GLU GLN GLY ARG MET SEQRES 46 A 631 LYS PHE THR ARG PRO LEU PHE LYS ASP LEU ALA ALA PHE SEQRES 47 A 631 ASP LYS SER HIS ASP GLN ALA VAL ARG THR TYR GLN GLU SEQRES 48 A 631 HIS LYS ALA SER MET HIS PRO VAL THR ALA MET LEU VAL SEQRES 49 A 631 GLY LYS ASP LEU LYS VAL ASP HET ZN A 701 1 HET YB A 702 1 HET GOL A 703 6 HET GOL A 704 6 HET GOL A 705 6 HET ACT A 706 4 HET ACT A 707 4 HET IMD A 708 5 HET SHH A 709 19 HETNAM ZN ZINC ION HETNAM YB YTTERBIUM (III) ION HETNAM GOL GLYCEROL HETNAM ACT ACETATE ION HETNAM IMD IMIDAZOLE HETNAM SHH OCTANEDIOIC ACID HYDROXYAMIDE PHENYLAMIDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN SHH SAHA FORMUL 2 ZN ZN 2+ FORMUL 3 YB YB 3+ FORMUL 4 GOL 3(C3 H8 O3) FORMUL 7 ACT 2(C2 H3 O2 1-) FORMUL 9 IMD C3 H5 N2 1+ FORMUL 10 SHH C14 H20 N2 O3 FORMUL 11 HOH *426(H2 O) HELIX 1 1 GLN A 79 GLY A 83 5 5 HELIX 2 2 THR A 119 THR A 123 5 5 HELIX 3 3 HIS A 139 ILE A 143 5 5 HELIX 4 4 TYR A 200 ILE A 202 5 3 HELIX 5 5 GLU A 223 GLU A 225 5 3 HELIX 6 6 GLN A 226 PHE A 234 1 9 HELIX 7 7 GLU A 236 GLY A 249 1 14 HELIX 8 8 PRO A 280 LEU A 283 5 4 HELIX 9 9 SER A 290 HIS A 299 1 10 HELIX 10 10 THR A 310 ASP A 312 5 3 HELIX 11 11 HIS A 313 GLY A 334 1 22 HELIX 12 12 GLY A 334 GLY A 357 1 24 HELIX 13 13 HIS A 360 LYS A 364 5 5 HELIX 14 14 ASP A 373 TYR A 378 1 6 HELIX 15 15 SER A 380 LEU A 397 1 18 HELIX 16 16 GLY A 399 SER A 415 1 17 HELIX 17 17 THR A 420 PHE A 432 1 13 HELIX 18 18 LYS A 435 ASN A 440 1 6 HELIX 19 19 ASP A 443 SER A 450 1 8 HELIX 20 20 THR A 465 ALA A 478 1 14 HELIX 21 21 LYS A 479 PHE A 486 5 8 HELIX 22 22 ASN A 487 LYS A 492 5 6 HELIX 23 23 SER A 495 GLN A 508 1 14 HELIX 24 24 PRO A 513 ASN A 525 1 13 HELIX 25 25 PHE A 526 ILE A 529 5 4 HELIX 26 26 ASN A 531 SER A 545 1 15 HELIX 27 27 TRP A 547 ASP A 549 5 3 HELIX 28 28 ALA A 550 GLN A 561 1 12 HELIX 29 29 ARG A 563 PHE A 577 1 15 HELIX 30 30 PHE A 577 LYS A 592 1 16 HELIX 31 31 ALA A 593 MET A 595 5 3 HELIX 32 32 HIS A 596 LEU A 607 1 12 SHEET 1 A 8 GLN A 69 GLU A 70 0 SHEET 2 A 8 LEU A 59 ILE A 66 -1 N ILE A 66 O GLN A 69 SHEET 3 A 8 GLU A 99 THR A 108 -1 O SER A 105 N GLU A 62 SHEET 4 A 8 THR A 33 SER A 44 -1 N LEU A 40 O ILE A 102 SHEET 5 A 8 CYS A 16 ASP A 28 -1 N LYS A 19 O THR A 41 SHEET 6 A 8 LYS A 153 PRO A 163 1 O SER A 161 N CYS A 25 SHEET 7 A 8 ARG A 186 PRO A 198 -1 O GLN A 193 N TYR A 156 SHEET 8 A 8 ILE A 173 PRO A 179 -1 N THR A 178 O ILE A 188 SHEET 1 B 3 LEU A 49 THR A 56 0 SHEET 2 B 3 SER A 84 LEU A 94 -1 O ILE A 88 N LEU A 52 SHEET 3 B 3 TYR A 73 LEU A 75 -1 N ALA A 74 O GLU A 87 SHEET 1 C 4 LEU A 115 LEU A 118 0 SHEET 2 C 4 TYR A 130 SER A 133 -1 O TYR A 130 N LEU A 118 SHEET 3 C 4 LEU A 204 GLY A 207 -1 O VAL A 206 N LEU A 131 SHEET 4 C 4 VAL A 167 MET A 170 -1 N VAL A 167 O GLY A 207 SHEET 1 D 5 GLU A 210 GLY A 215 0 SHEET 2 D 5 THR A 218 SER A 222 -1 O VAL A 220 N ARG A 212 SHEET 3 D 5 ASP A 257 VAL A 260 1 O VAL A 260 N TRP A 221 SHEET 4 D 5 LEU A 275 VAL A 278 1 O VAL A 278 N LEU A 259 SHEET 5 D 5 GLY A 269 MET A 270 -1 N MET A 270 O PHE A 277 SHEET 1 E 2 VAL A 306 ASN A 308 0 SHEET 2 E 2 LYS A 417 ILE A 419 1 O ILE A 419 N THR A 307 LINK OD1 ASP A 47 YB YB A 702 1555 1555 2.38 LINK OD2 ASP A 47 YB YB A 702 1555 1555 2.49 LINK NE2 HIS A 299 ZN ZN A 701 1555 1555 2.07 LINK OE1 GLU A 318 ZN ZN A 701 1555 1555 2.07 LINK ZN ZN A 701 O2 SHH A 709 1555 1555 2.01 LINK ZN ZN A 701 O1 SHH A 709 1555 1555 2.16 LINK YB YB A 702 OXT ACT A 707 1555 1555 2.37 LINK YB YB A 702 O ACT A 707 1555 1555 2.59 LINK YB YB A 702 O HOH A 852 1555 1555 2.61 LINK YB YB A 702 O HOH A1063 1555 1555 2.39 LINK YB YB A 702 O HOH A1064 1555 1555 2.42 CISPEP 1 GLN A 136 ALA A 137 0 -1.19 CISPEP 2 ALA A 510 PRO A 511 0 10.39 SITE 1 AC1 4 HIS A 295 HIS A 299 GLU A 318 SHH A 709 SITE 1 AC2 6 ASP A 47 ASP A 481 ACT A 707 HOH A 852 SITE 2 AC2 6 HOH A1063 HOH A1064 SITE 1 AC3 4 PHE A 29 ARG A 32 TRP A 117 LEU A 118 SITE 1 AC4 9 GLY A 269 HIS A 295 GLU A 296 GOL A 705 SITE 2 AC4 9 ACT A 706 SHH A 709 HOH A 806 HOH A1222 SITE 3 AC4 9 HOH A1223 SITE 1 AC5 5 TYR A 378 SER A 380 TYR A 383 LYS A 565 SITE 2 AC5 5 GOL A 704 SITE 1 AC6 5 GLY A 268 TYR A 378 ARG A 563 GOL A 704 SITE 2 AC6 5 HOH A 816 SITE 1 AC7 9 ASP A 47 ASN A 48 ARG A 174 LYS A 479 SITE 2 AC7 9 ASP A 481 YB A 702 HOH A 854 HOH A1063 SITE 3 AC7 9 HOH A1064 SITE 1 AC8 6 GLY A 344 GLY A 347 GLU A 348 GLU A 501 SITE 2 AC8 6 ALA A 504 GLN A 508 SITE 1 AC9 15 GLN A 136 ALA A 137 TYR A 267 GLY A 269 SITE 2 AC9 15 GLU A 271 HIS A 295 GLU A 296 HIS A 299 SITE 3 AC9 15 PHE A 314 GLU A 318 PRO A 374 TYR A 378 SITE 4 AC9 15 TYR A 383 ZN A 701 GOL A 704 CRYST1 77.916 87.134 99.285 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 0.012834 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011477 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010072 0.00000