HEADER HYDROLASE/HYDROLASE INHIBITOR 10-JAN-12 4D85 TITLE CRYSTAL STRUCTURE OF HUMAN BETA SECRETASE IN COMPLEX WITH NVP-BVI151 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-SECRETASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN (UNP RESIDUES 48-453); 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: BACE, BACE1, 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: PET24 KEYWDS BETA-SECRETASE, MEMAPSIN2, BACE1, ASPARTIC PROTEINASE, ALZHEIMER'S KEYWDS 2 DISEASE, ENZYME INHIBITOR COMPLEX, STRUCTURE-BASED DRUG DESIGN, KEYWDS 3 HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.M.RONDEAU,E.BOURGIER REVDAT 2 16-OCT-24 4D85 1 REMARK SEQADV REVDAT 1 21-NOV-12 4D85 0 JRNL AUTH H.RUEEGER,R.LUEOEND,O.ROGEL,J.M.RONDEAU,H.MOBITZ,R.MACHAUER, JRNL AUTH 2 L.JACOBSON,M.STAUFENBIEL,S.DESRAYAUD,U.NEUMANN JRNL TITL DISCOVERY OF CYCLIC SULFONE HYDROXYETHYLAMINES AS POTENT AND JRNL TITL 2 SELECTIVE BETA-SITE APP-CLEAVING ENZYME 1 (BACE1) JRNL TITL 3 INHIBITORS: STRUCTURE BASED DESIGN AND IN VIVO REDUCTION OF JRNL TITL 4 AMYLOID BETA-PEPTIDES JRNL REF J.MED.CHEM. V. 55 3364 2012 JRNL REFN ISSN 0022-2623 JRNL PMID 22380629 JRNL DOI 10.1021/JM300069Y REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.RUEEGER,J.M.RONDEAU,C.MCCARTHY,H.MOEBITZ, REMARK 1 AUTH 2 M.TINTELNOT-BLOMLEY,U.NEUMANN,S.DESRAYAUD REMARK 1 TITL STRUCTURE-BASED DESIGN, SYNTHESIS AND SAR OF CYCLIC REMARK 1 TITL 2 HYDROXYETHYLAMINE (HEA) BACE-1 INHIBITORS REMARK 1 REF BIOORG.MED.CHEM.LETT. V. 21 1942 2011 REMARK 1 REFN ISSN 0960-894X REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 36578136.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 15939 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) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 779 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 15939 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.82 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2457 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE : 0.3730 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.50 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 115 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.035 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2941 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 96 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -8.10000 REMARK 3 B22 (A**2) : -8.10000 REMARK 3 B33 (A**2) : 16.20000 REMARK 3 B12 (A**2) : 4.43000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM SIGMAA (A) : 0.34 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.43 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 0.900 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 28.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.680 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.360 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.330 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.980 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.080 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 47.08 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NVP-BVI151.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : NVP-BVI151.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4D85 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000070002. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00146 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15949 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.09900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.47000 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNX 2002 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M SODIUM CITRATE PH 6.5, 0.2M REMARK 280 SODIUM IODIDE, 25% PEG MME 5,000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 56.96733 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 113.93467 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 85.45100 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 142.41833 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 28.48367 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 56.96733 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 113.93467 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 142.41833 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 85.45100 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 28.48367 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 GLY A -13 REMARK 465 PRO A -12 REMARK 465 ASP A -11 REMARK 465 GLU A -10 REMARK 465 GLU A -9 REMARK 465 PRO A -8 REMARK 465 GLU A -7 REMARK 465 GLU A -6 REMARK 465 PRO A -5 REMARK 465 GLY A -4 REMARK 465 ARG A -3 REMARK 465 ARG A -2 REMARK 465 GLY A 159A REMARK 465 PHE A 159B REMARK 465 PRO A 159C REMARK 465 LEU A 159D REMARK 465 ASN A 159E REMARK 465 GLN A 159F REMARK 465 SER A 159G REMARK 465 GLU A 159H REMARK 465 VAL A 159I REMARK 465 LEU A 159J REMARK 465 VAL A 303A REMARK 465 ALA A 303B REMARK 465 THR A 303C REMARK 465 SER A 303D REMARK 465 GLN A 303E REMARK 465 ILE A 373 REMARK 465 PRO A 374 REMARK 465 GLN A 375 REMARK 465 THR A 376 REMARK 465 ASP A 377 REMARK 465 GLU A 378 REMARK 465 SER A 379 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 ASP A 6 34.19 71.24 REMARK 500 HIS A 91 46.62 -85.35 REMARK 500 LEU A 151 135.89 -171.51 REMARK 500 TRP A 189 -81.49 -131.76 REMARK 500 ARG A 197 145.21 -171.03 REMARK 500 ASN A 201 18.47 47.59 REMARK 500 THR A 316 -152.48 -82.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0GU A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VEU RELATED DB: PDB REMARK 900 COMPOUND 3 OF PRIMARY CITATION REMARK 900 RELATED ID: 3VF3 RELATED DB: PDB REMARK 900 ANALOGUE OF COMPOUND 14B OF PRIMARY CITATION REMARK 900 RELATED ID: 3VG1 RELATED DB: PDB REMARK 900 COMPOUND 32A OF PRIMARY CITATION (SOAK, P212121) REMARK 900 RELATED ID: 4D83 RELATED DB: PDB REMARK 900 COMPOUND 32A OF PRIMARY CITATION (CO-CRYSTALLIZATION, P21) REMARK 900 RELATED ID: 4D88 RELATED DB: PDB REMARK 900 RELATED ID: 4D89 RELATED DB: PDB REMARK 900 RELATED ID: 4D8C RELATED DB: PDB DBREF 4D85 A -11 379 UNP P56817 BACE1_HUMAN 48 453 SEQADV 4D85 GLY A -13 UNP P56817 EXPRESSION TAG SEQADV 4D85 PRO A -12 UNP P56817 EXPRESSION TAG SEQRES 1 A 408 GLY PRO ASP GLU GLU PRO GLU GLU PRO GLY ARG ARG GLY SEQRES 2 A 408 SER PHE VAL GLU MET VAL ASP ASN LEU ARG GLY LYS SER SEQRES 3 A 408 GLY GLN GLY TYR TYR VAL GLU MET THR VAL GLY SER PRO SEQRES 4 A 408 PRO GLN THR LEU ASN ILE LEU VAL ASP THR GLY SER SER SEQRES 5 A 408 ASN PHE ALA VAL GLY ALA ALA PRO HIS PRO PHE LEU HIS SEQRES 6 A 408 ARG TYR TYR GLN ARG GLN LEU SER SER THR TYR ARG ASP SEQRES 7 A 408 LEU ARG LYS GLY VAL TYR VAL PRO TYR THR GLN GLY LYS SEQRES 8 A 408 TRP GLU GLY GLU LEU GLY THR ASP LEU VAL SER ILE PRO SEQRES 9 A 408 HIS GLY PRO ASN VAL THR VAL ARG ALA ASN ILE ALA ALA SEQRES 10 A 408 ILE THR GLU SER ASP LYS PHE PHE ILE ASN GLY SER ASN SEQRES 11 A 408 TRP GLU GLY ILE LEU GLY LEU ALA TYR ALA GLU ILE ALA SEQRES 12 A 408 ARG PRO ASP ASP SER LEU GLU PRO PHE PHE ASP SER LEU SEQRES 13 A 408 VAL LYS GLN THR HIS VAL PRO ASN LEU PHE SER LEU GLN SEQRES 14 A 408 LEU CYS GLY ALA GLY PHE PRO LEU ASN GLN SER GLU VAL SEQRES 15 A 408 LEU ALA SER VAL GLY GLY SER MET ILE ILE GLY GLY ILE SEQRES 16 A 408 ASP HIS SER LEU TYR THR GLY SER LEU TRP TYR THR PRO SEQRES 17 A 408 ILE ARG ARG GLU TRP TYR TYR GLU VAL ILE ILE VAL ARG SEQRES 18 A 408 VAL GLU ILE ASN GLY GLN ASP LEU LYS MET ASP CYS LYS SEQRES 19 A 408 GLU TYR ASN TYR ASP LYS SER ILE VAL ASP SER GLY THR SEQRES 20 A 408 THR ASN LEU ARG LEU PRO LYS LYS VAL PHE GLU ALA ALA SEQRES 21 A 408 VAL LYS SER ILE LYS ALA ALA SER SER THR GLU LYS PHE SEQRES 22 A 408 PRO ASP GLY PHE TRP LEU GLY GLU GLN LEU VAL CYS TRP SEQRES 23 A 408 GLN ALA GLY THR THR PRO TRP ASN ILE PHE PRO VAL ILE SEQRES 24 A 408 SER LEU TYR LEU MET GLY GLU VAL THR ASN GLN SER PHE SEQRES 25 A 408 ARG ILE THR ILE LEU PRO GLN GLN TYR LEU ARG PRO VAL SEQRES 26 A 408 GLU ASP VAL ALA THR SER GLN ASP ASP CYS TYR LYS PHE SEQRES 27 A 408 ALA ILE SER GLN SER SER THR GLY THR VAL MET GLY ALA SEQRES 28 A 408 VAL ILE MET GLU GLY PHE TYR VAL VAL PHE ASP ARG ALA SEQRES 29 A 408 ARG LYS ARG ILE GLY PHE ALA VAL SER ALA CYS HIS VAL SEQRES 30 A 408 HIS ASP GLU PHE ARG THR ALA ALA VAL GLU GLY PRO PHE SEQRES 31 A 408 VAL THR LEU ASP MET GLU ASP CYS GLY TYR ASN ILE PRO SEQRES 32 A 408 GLN THR ASP GLU SER HET 0GU A 401 39 HET IOD A 402 1 HETNAM 0GU (3R,4S,5S)-3-[(3-TERT-BUTYLBENZYL)AMINO]-5-[(4,4,7'- HETNAM 2 0GU TRIFLUORO-1',2'-DIHYDROSPIRO[CYCLOHEXANE-1,3'-INDOL]- HETNAM 3 0GU 5'-YL)METHYL]TETRAHYDRO-2H-THIOPYRAN-4-OL 1,1-DIOXIDE HETNAM IOD IODIDE ION FORMUL 2 0GU C30 H39 F3 N2 O3 S FORMUL 3 IOD I 1- FORMUL 4 HOH *96(H2 O) HELIX 1 1 GLN A 55 SER A 59 5 5 HELIX 2 2 TYR A 125 ALA A 129 5 5 HELIX 3 3 PRO A 137 THR A 146 1 10 HELIX 4 4 ASP A 172 SER A 174 5 3 HELIX 5 5 ASP A 208 ASN A 213 5 6 HELIX 6 6 LYS A 230 SER A 244 1 15 HELIX 7 7 PRO A 250 LEU A 255 1 6 HELIX 8 8 PRO A 268 PHE A 272 5 5 HELIX 9 9 LEU A 293 TYR A 297 1 5 HELIX 10 10 GLY A 321 GLU A 326 1 6 HELIX 11 11 ASP A 365 GLY A 370 5 6 SHEET 1 A 9 ARG A 63 PRO A 72 0 SHEET 2 A 9 LYS A 77 SER A 88 -1 O THR A 84 N ARG A 63 SHEET 3 A 9 TYR A 17 VAL A 22 -1 N THR A 21 O SER A 88 SHEET 4 A 9 LEU A 8 LYS A 11 -1 N ARG A 9 O TYR A 17 SHEET 5 A 9 SER A 161 ILE A 168 -1 O VAL A 162 N GLY A 10 SHEET 6 A 9 PHE A 152 CYS A 157 -1 N GLN A 155 O SER A 165 SHEET 7 A 9 PHE A 328 ASP A 333 -1 O PHE A 332 N PHE A 152 SHEET 8 A 9 ARG A 338 SER A 344 -1 O ALA A 342 N TYR A 329 SHEET 9 A 9 TYR A 176 PRO A 184 -1 N THR A 183 O ILE A 339 SHEET 1 B13 ARG A 63 PRO A 72 0 SHEET 2 B13 LYS A 77 SER A 88 -1 O THR A 84 N ARG A 63 SHEET 3 B13 VAL A 97 ASP A 108 -1 O ALA A 103 N GLU A 81 SHEET 4 B13 PHE A 40 GLY A 43 1 N VAL A 42 O ILE A 104 SHEET 5 B13 GLY A 119 GLY A 122 -1 O ILE A 120 N ALA A 41 SHEET 6 B13 GLN A 27 ASP A 34 1 N LEU A 32 O LEU A 121 SHEET 7 B13 TYR A 17 VAL A 22 -1 N VAL A 22 O GLN A 27 SHEET 8 B13 LEU A 8 LYS A 11 -1 N ARG A 9 O TYR A 17 SHEET 9 B13 SER A 161 ILE A 168 -1 O VAL A 162 N GLY A 10 SHEET 10 B13 PHE A 152 CYS A 157 -1 N GLN A 155 O SER A 165 SHEET 11 B13 PHE A 328 ASP A 333 -1 O PHE A 332 N PHE A 152 SHEET 12 B13 ARG A 338 SER A 344 -1 O ALA A 342 N TYR A 329 SHEET 13 B13 TYR A 176 PRO A 184 -1 N THR A 183 O ILE A 339 SHEET 1 C 5 GLU A 192 VAL A 193 0 SHEET 2 C 5 SER A 217 VAL A 219 -1 O SER A 217 N VAL A 193 SHEET 3 C 5 VAL A 319 MET A 320 1 O MET A 320 N ILE A 218 SHEET 4 C 5 LEU A 226 PRO A 229 -1 N ARG A 227 O VAL A 319 SHEET 5 C 5 ILE A 311 SER A 314 1 O SER A 312 N LEU A 226 SHEET 1 D 5 GLN A 203 ASP A 204 0 SHEET 2 D 5 ILE A 195 ILE A 200 -1 N ILE A 200 O GLN A 203 SHEET 3 D 5 ILE A 275 MET A 280 -1 O TYR A 278 N ARG A 197 SHEET 4 D 5 GLN A 286 ILE A 292 -1 O ILE A 290 N LEU A 277 SHEET 5 D 5 ALA A 356 VAL A 362 -1 O GLU A 358 N ARG A 289 SHEET 1 E 3 VAL A 260 TRP A 262 0 SHEET 2 E 3 ASP A 305 PHE A 309 -1 O ASP A 305 N TRP A 262 SHEET 3 E 3 LEU A 298 PRO A 300 -1 N ARG A 299 O LYS A 308 SSBOND 1 CYS A 157 CYS A 346 1555 1555 2.04 SSBOND 2 CYS A 209 CYS A 369 1555 1555 2.04 SSBOND 3 CYS A 261 CYS A 306 1555 1555 2.04 CISPEP 1 SER A 24 PRO A 25 0 -0.62 CISPEP 2 ARG A 130 PRO A 131 0 0.49 CISPEP 3 TYR A 214 ASP A 215 0 0.34 CISPEP 4 GLY A 359 PRO A 360 0 -0.45 SITE 1 AC1 20 GLY A 13 ASP A 34 GLY A 36 SER A 37 SITE 2 AC1 20 PRO A 72 TYR A 73 THR A 74 GLN A 75 SITE 3 AC1 20 GLY A 76 PHE A 110 ILE A 112 ARG A 130 SITE 4 AC1 20 TYR A 190 ASP A 220 GLY A 222 THR A 223 SITE 5 AC1 20 THR A 224 ARG A 227 HOH A 524 HOH A 593 SITE 1 AC2 1 THR A 105 CRYST1 102.656 102.656 170.902 90.00 90.00 120.00 P 61 2 2 12 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 0.009741 0.005624 0.000000 0.00000 SCALE2 0.000000 0.011248 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005851 0.00000