HEADER HYDROLASE/HYDROLASE INHIBITOR 27-APR-12 4EWO TITLE DESIGN AND SYNTHESIS OF POTENT HYDROXYETHYLAMINE (HEA) BACE-1 TITLE 2 INHIBITORS COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-SECRETASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 61-446; COMPND 5 SYNONYM: ASPARTYL PROTEASE 2, ASP2, ASP 2, BETA-SITE AMYLOID COMPND 6 PRECURSOR PROTEIN CLEAVING ENZYME 1, BETA-SITE APP CLEAVING ENZYME 1, COMPND 7 MEMAPSIN-2, MEMBRANE-ASSOCIATED ASPARTIC PROTEASE 2; COMPND 8 EC: 3.4.23.46; COMPND 9 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: BACE1, BACE, KIAA1149; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS BACE, BETA-SECRETASE, STATINE, INHIBITOR, ASPARTYL PROTEASE, KEYWDS 2 GLYCOPROTEIN, MEMBRANE, PROTEASE, TRANSMEMBRANE, ZYMOGEN, HYDROLASE- KEYWDS 3 HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.BORKAKOTI,J.LINDBERG,D.DERBYSHIRE REVDAT 1 31-OCT-12 4EWO 0 JRNL AUTH C.SUND,O.BELDA,N.BORKAKOTI,J.LINDBERG,D.DERBYSHIRE,L.VRANG, JRNL AUTH 2 E.HAMELINK,C.HGREN,E.WOESTENENK,K.WIKSTROM,A.ENEROTH, JRNL AUTH 3 E.LINDSTROM,G.KALAYANOV JRNL TITL DESIGN AND SYNTHESIS OF POTENT HYDROXYETHYLAMINE (HEA) JRNL TITL 2 BACE-1 INHIBITORS CARRYING PRIME SIDE JRNL TITL 3 4,5,6,7-TETRAHYDROBENZAZOLE AND JRNL TITL 4 4,5,6,7-TETRAHYDROPYRIDINOAZOLE TEMPLATES. JRNL REF BIOORG.MED.CHEM.LETT. V. 22 6721 2012 JRNL REFN ISSN 0960-894X JRNL PMID 23010268 JRNL DOI 10.1016/J.BMCL.2012.08.097 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 36204 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1805 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2555 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.2920 REMARK 3 BIN FREE R VALUE SET COUNT : 114 REMARK 3 BIN FREE R VALUE : 0.3750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2959 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 328 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.02000 REMARK 3 B22 (A**2) : -0.49000 REMARK 3 B33 (A**2) : -1.53000 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): 0.137 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.134 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.091 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.955 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3330 ; 0.026 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4575 ; 2.188 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 431 ; 7.480 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;33.311 ;23.732 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 536 ;14.963 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;17.209 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 505 ; 0.181 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2601 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2049 ; 1.446 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3361 ; 2.435 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1281 ; 3.589 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1214 ; 5.700 ; 4.500 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 : 1.40 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4EWO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAY-12. REMARK 100 THE RCSB ID CODE IS RCSB072162. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JAN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.072 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 1 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : PHASER REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36204 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 61.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16%PEG1000, 0.1 M NAACETATE, 5 % REMARK 280 GLYCEROL, PH 5.0, VAPOR DIFFUSION, TEMPERATURE 299K 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 24.03600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.09350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.21450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.09350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.03600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.21450 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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 PHE A 207 REMARK 465 PRO A 208 REMARK 465 LEU A 209 REMARK 465 ASN A 210 REMARK 465 GLN A 211 REMARK 465 SER A 212 REMARK 465 GLU A 213 REMARK 465 VAL A 214 REMARK 465 LEU A 215 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 OG SER A 106 O HOH A 665 2454 2.14 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 TYR A 247 CE1 TYR A 247 CZ 0.080 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 144 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 144 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 253 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 253 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 VAL A 339 CG1 - CB - CG2 ANGL. DEV. = 10.7 DEGREES REMARK 500 ASP A 411 N - CA - CB ANGL. DEV. = -13.5 DEGREES REMARK 500 ASP A 411 N - CA - C ANGL. DEV. = -17.2 DEGREES REMARK 500 ASP A 429 CB - CG - OD2 ANGL. DEV. = 6.3 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 ALA A 90 20.50 -140.88 REMARK 500 TYR A 119 -153.57 -102.86 REMARK 500 PHE A 156 -64.67 -102.24 REMARK 500 ALA A 205 -76.50 -100.39 REMARK 500 TRP A 245 -84.06 -143.00 REMARK 500 ALA A 320 137.01 -38.79 REMARK 500 ASN A 341 17.19 58.23 REMARK 500 ASP A 359 114.87 -164.72 REMARK 500 CYS A 407 48.33 -101.27 REMARK 500 HIS A 410 142.39 -173.60 REMARK 500 ASP A 426 109.89 -39.61 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 VAL A 409 HIS A 410 -139.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 SER A 363 24.4 L L OUTSIDE RANGE REMARK 500 ASP A 411 53.2 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 894 DISTANCE = 5.06 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 996 A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4EXG RELATED DB: PDB DBREF 4EWO A 48 433 UNP P56817 BACE1_HUMAN 61 446 SEQRES 1 A 386 VAL GLU MET VAL ASP ASN LEU ARG GLY LYS SER GLY GLN SEQRES 2 A 386 GLY TYR TYR VAL GLU MET THR VAL GLY SER PRO PRO GLN SEQRES 3 A 386 THR LEU ASN ILE LEU VAL ASP THR GLY SER SER ASN PHE SEQRES 4 A 386 ALA VAL GLY ALA ALA PRO HIS PRO PHE LEU HIS ARG TYR SEQRES 5 A 386 TYR GLN ARG GLN LEU SER SER THR TYR ARG ASP LEU ARG SEQRES 6 A 386 LYS GLY VAL TYR VAL PRO TYR THR GLN GLY LYS TRP GLU SEQRES 7 A 386 GLY GLU LEU GLY THR ASP LEU VAL SER ILE PRO HIS GLY SEQRES 8 A 386 PRO ASN VAL THR VAL ARG ALA ASN ILE ALA ALA ILE THR SEQRES 9 A 386 GLU SER ASP LYS PHE PHE ILE ASN GLY SER ASN TRP GLU SEQRES 10 A 386 GLY ILE LEU GLY LEU ALA TYR ALA GLU ILE ALA ARG PRO SEQRES 11 A 386 ASP ASP SER LEU GLU PRO PHE PHE ASP SER LEU VAL LYS SEQRES 12 A 386 GLN THR HIS VAL PRO ASN LEU PHE SER LEU GLN LEU CYS SEQRES 13 A 386 GLY ALA GLY PHE PRO LEU ASN GLN SER GLU VAL LEU ALA SEQRES 14 A 386 SER VAL GLY GLY SER MET ILE ILE GLY GLY ILE ASP HIS SEQRES 15 A 386 SER LEU TYR THR GLY SER LEU TRP TYR THR PRO ILE ARG SEQRES 16 A 386 ARG GLU TRP TYR TYR GLU VAL ILE ILE VAL ARG VAL GLU SEQRES 17 A 386 ILE ASN GLY GLN ASP LEU LYS MET ASP CYS LYS GLU TYR SEQRES 18 A 386 ASN TYR ASP LYS SER ILE VAL ASP SER GLY THR THR ASN SEQRES 19 A 386 LEU ARG LEU PRO LYS LYS VAL PHE GLU ALA ALA VAL LYS SEQRES 20 A 386 SER ILE LYS ALA ALA SER SER THR GLU LYS PHE PRO ASP SEQRES 21 A 386 GLY PHE TRP LEU GLY GLU GLN LEU VAL CYS TRP GLN ALA SEQRES 22 A 386 GLY THR THR PRO TRP ASN ILE PHE PRO VAL ILE SER LEU SEQRES 23 A 386 TYR LEU MET GLY GLU VAL THR ASN GLN SER PHE ARG ILE SEQRES 24 A 386 THR ILE LEU PRO GLN GLN TYR LEU ARG PRO VAL GLU ASP SEQRES 25 A 386 VAL ALA THR SER GLN ASP ASP CYS TYR LYS PHE ALA ILE SEQRES 26 A 386 SER GLN SER SER THR GLY THR VAL MET GLY ALA VAL ILE SEQRES 27 A 386 MET GLU GLY PHE TYR VAL VAL PHE ASP ARG ALA ARG LYS SEQRES 28 A 386 ARG ILE GLY PHE ALA VAL SER ALA CYS HIS VAL HIS ASP SEQRES 29 A 386 GLU PHE ARG THR ALA ALA VAL GLU GLY PRO PHE VAL THR SEQRES 30 A 386 LEU ASP MET GLU ASP CYS GLY TYR ASN HET 996 A 501 32 HETNAM 996 N-[(2S,3R)-4-{[(4S)-2-(2,2-DIMETHYLPROPYL)-6,6- HETNAM 2 996 DIMETHYL-4,5,6,7-TETRAHYDRO-2H-INDAZOL-4-YL]AMINO}-3- HETNAM 3 996 HYDROXY-1-PHENYLBUTAN-2-YL]ACETAMIDE FORMUL 2 996 C26 H40 N4 O2 FORMUL 3 HOH *328(H2 O) HELIX 1 1 GLN A 101 SER A 105 5 5 HELIX 2 2 TYR A 171 ALA A 175 5 5 HELIX 3 3 PRO A 183 THR A 192 1 10 HELIX 4 4 ASP A 228 SER A 230 5 3 HELIX 5 5 ASP A 264 TYR A 270 5 7 HELIX 6 6 LYS A 286 SER A 300 1 15 HELIX 7 7 PRO A 306 LEU A 311 1 6 HELIX 8 8 PRO A 324 PHE A 328 5 5 HELIX 9 9 LEU A 349 TYR A 353 1 5 HELIX 10 10 ASP A 359 SER A 363 5 5 HELIX 11 11 GLY A 382 GLU A 387 1 6 HELIX 12 12 ARG A 395 ARG A 397 5 3 SHEET 1 A 9 ARG A 109 PRO A 118 0 SHEET 2 A 9 LYS A 123 SER A 134 -1 O LEU A 128 N LYS A 113 SHEET 3 A 9 TYR A 62 VAL A 68 -1 N THR A 67 O SER A 134 SHEET 4 A 9 LEU A 54 LYS A 57 -1 N ARG A 55 O TYR A 63 SHEET 5 A 9 SER A 217 ILE A 224 -1 O VAL A 218 N GLY A 56 SHEET 6 A 9 PHE A 198 LEU A 202 -1 N GLN A 201 O SER A 221 SHEET 7 A 9 PHE A 389 ASP A 394 -1 O PHE A 393 N PHE A 198 SHEET 8 A 9 ARG A 399 SER A 405 -1 O GLY A 401 N VAL A 392 SHEET 9 A 9 TYR A 232 PRO A 240 -1 N THR A 239 O ILE A 400 SHEET 1 B13 ARG A 109 PRO A 118 0 SHEET 2 B13 LYS A 123 SER A 134 -1 O LEU A 128 N LYS A 113 SHEET 3 B13 THR A 142 ASP A 154 -1 O ASP A 154 N LYS A 123 SHEET 4 B13 PHE A 86 GLY A 89 1 N VAL A 88 O ILE A 150 SHEET 5 B13 GLY A 165 GLY A 168 -1 O ILE A 166 N ALA A 87 SHEET 6 B13 GLN A 73 ASP A 80 1 N LEU A 78 O LEU A 167 SHEET 7 B13 TYR A 62 VAL A 68 -1 N VAL A 68 O GLN A 73 SHEET 8 B13 LEU A 54 LYS A 57 -1 N ARG A 55 O TYR A 63 SHEET 9 B13 SER A 217 ILE A 224 -1 O VAL A 218 N GLY A 56 SHEET 10 B13 PHE A 198 LEU A 202 -1 N GLN A 201 O SER A 221 SHEET 11 B13 PHE A 389 ASP A 394 -1 O PHE A 393 N PHE A 198 SHEET 12 B13 ARG A 399 SER A 405 -1 O GLY A 401 N VAL A 392 SHEET 13 B13 TYR A 232 PRO A 240 -1 N THR A 239 O ILE A 400 SHEET 1 C 5 GLU A 248 VAL A 249 0 SHEET 2 C 5 SER A 273 VAL A 275 -1 O SER A 273 N VAL A 249 SHEET 3 C 5 THR A 379 MET A 381 1 O MET A 381 N ILE A 274 SHEET 4 C 5 LEU A 282 PRO A 285 -1 N ARG A 283 O VAL A 380 SHEET 5 C 5 ILE A 372 SER A 375 1 O SER A 373 N LEU A 284 SHEET 1 D 5 GLN A 259 ASP A 260 0 SHEET 2 D 5 ILE A 251 ILE A 256 -1 N ILE A 256 O GLN A 259 SHEET 3 D 5 ILE A 331 MET A 336 -1 O TYR A 334 N ARG A 253 SHEET 4 D 5 GLN A 342 ILE A 348 -1 O ILE A 346 N LEU A 333 SHEET 5 D 5 ALA A 417 VAL A 423 -1 O GLU A 419 N ARG A 345 SHEET 1 E 3 VAL A 316 GLN A 319 0 SHEET 2 E 3 ASP A 365 PHE A 370 -1 O ASP A 366 N TRP A 318 SHEET 3 E 3 LEU A 354 PRO A 356 -1 N ARG A 355 O LYS A 369 SSBOND 1 CYS A 203 CYS A 407 1555 1555 2.09 SSBOND 2 CYS A 265 CYS A 430 1555 1555 2.07 SSBOND 3 CYS A 317 CYS A 367 1555 1555 2.10 CISPEP 1 SER A 70 PRO A 71 0 13.81 CISPEP 2 ARG A 176 PRO A 177 0 0.89 CISPEP 3 TYR A 270 ASP A 271 0 0.60 CISPEP 4 GLY A 420 PRO A 421 0 -3.58 SITE 1 AC1 16 LEU A 78 ASP A 80 GLY A 82 SER A 83 SITE 2 AC1 16 PRO A 118 TYR A 119 THR A 120 PHE A 156 SITE 3 AC1 16 ARG A 176 TYR A 246 ASP A 276 GLY A 278 SITE 4 AC1 16 ARG A 283 THR A 377 HOH A 652 HOH A 770 CRYST1 48.072 76.429 104.187 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 0.020802 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013084 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009598 0.00000