PDB Short entry for 4JPE HEADER HYDROLASE/HYDROLASE INHIBITOR 19-MAR-13 4JPE TITLE SPIROCYCLIC BETA-SITE AMYLOID PRECURSOR PROTEIN CLEAVING ENZYME 1 TITLE 2 (BACE1) INHIBITORS COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-SECRETASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BACE1 57-453; 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: BACE1, BACE, KIAA1149; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ASPARTYL PROTEASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR G.P.A.VIGERS,D.SMITH REVDAT 3 20-SEP-23 4JPE 1 REMARK SEQADV REVDAT 2 23-OCT-13 4JPE 1 JRNL REVDAT 1 10-APR-13 4JPE 0 JRNL AUTH K.W.HUNT,A.W.COOK,R.J.WATTS,C.T.CLARK,G.VIGERS,D.SMITH, JRNL AUTH 2 A.T.METCALF,I.W.GUNAWARDANA,M.BURKARD,A.A.COX,M.K.GECK DO, JRNL AUTH 3 D.DUTCHER,A.A.THOMAS,S.RANA,N.C.KALLAN,R.K.DELISLE, JRNL AUTH 4 J.P.RIZZI,K.REGAL,D.SAMMOND,R.GRONEBERG,M.SIU,H.PURKEY, JRNL AUTH 5 J.P.LYSSIKATOS,A.MARLOW,X.LIU,T.P.TANG JRNL TITL SPIROCYCLIC BETA-SITE AMYLOID PRECURSOR PROTEIN CLEAVING JRNL TITL 2 ENZYME 1 (BACE1) INHIBITORS: FROM HIT TO LOWERING OF JRNL TITL 3 CEREBROSPINAL FLUID (CSF) AMYLOID BETA IN A HIGHER SPECIES. JRNL REF J.MED.CHEM. V. 56 3379 2013 JRNL REFN ISSN 0022-2623 JRNL PMID 23537249 JRNL DOI 10.1021/JM4002154 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 90.9 REMARK 3 NUMBER OF REFLECTIONS : 31786 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1694 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) : 1359 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 53.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 65 REMARK 3 BIN FREE R VALUE : 0.3190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3163 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 302 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.08000 REMARK 3 B22 (A**2) : -1.40000 REMARK 3 B33 (A**2) : 1.48000 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): 0.162 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.138 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.083 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 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): 3277 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4464 ; 1.113 ; 1.951 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 401 ; 6.079 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 152 ;30.937 ;23.882 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 514 ;13.044 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;16.982 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 479 ; 0.073 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2534 ; 0.004 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4JPE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-MAR-13. REMARK 100 THE DEPOSITION ID IS D_1000078336. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : OSMIC MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33507 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.4 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : 0.05900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 60.1 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : 0.15800 REMARK 200 R SYM FOR SHELL (I) : 0.15800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2OAH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG3K, 0.1M NAACETATE, 5% DMSO , REMARK 280 PH 4.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.28000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.28000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 37.58000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 51.97000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 37.58000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 51.97000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 50.28000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 37.58000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 51.97000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 50.28000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 37.58000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 51.97000 REMARK 290 SMTRY3 8 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 871 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 43 REMARK 465 ARG A 44 REMARK 465 HIS A 447 REMARK 465 HIS A 448 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 HIS A 137 45.64 -101.63 REMARK 500 PHE A 156 -61.01 -108.43 REMARK 500 TRP A 245 -83.92 -142.34 REMARK 500 ALA A 320 127.25 -34.08 REMARK 500 THR A 362 59.73 -117.20 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 NI A 501 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 444 ND1 REMARK 620 2 HIS A 446 NE2 117.4 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1M7 A 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JOO RELATED DB: PDB REMARK 900 BACE1 INHIBITOR 1A REMARK 900 RELATED ID: 4JP9 RELATED DB: PDB REMARK 900 BACE1 INHIBITOR 12 REMARK 900 RELATED ID: 4JPC RELATED DB: PDB REMARK 900 BACE1 INHIBITOR 13 DBREF 4JPE A 44 440 UNP P56817 BACE1_HUMAN 57 453 SEQADV 4JPE MET A 43 UNP P56817 EXPRESSION TAG SEQADV 4JPE ARG A 441 UNP P56817 EXPRESSION TAG SEQADV 4JPE SER A 442 UNP P56817 EXPRESSION TAG SEQADV 4JPE HIS A 443 UNP P56817 EXPRESSION TAG SEQADV 4JPE HIS A 444 UNP P56817 EXPRESSION TAG SEQADV 4JPE HIS A 445 UNP P56817 EXPRESSION TAG SEQADV 4JPE HIS A 446 UNP P56817 EXPRESSION TAG SEQADV 4JPE HIS A 447 UNP P56817 EXPRESSION TAG SEQADV 4JPE HIS A 448 UNP P56817 EXPRESSION TAG SEQRES 1 A 406 MET ARG GLY SER PHE VAL GLU MET VAL ASP ASN LEU ARG SEQRES 2 A 406 GLY LYS SER GLY GLN GLY TYR TYR VAL GLU MET THR VAL SEQRES 3 A 406 GLY SER PRO PRO GLN THR LEU ASN ILE LEU VAL ASP THR SEQRES 4 A 406 GLY SER SER ASN PHE ALA VAL GLY ALA ALA PRO HIS PRO SEQRES 5 A 406 PHE LEU HIS ARG TYR TYR GLN ARG GLN LEU SER SER THR SEQRES 6 A 406 TYR ARG ASP LEU ARG LYS GLY VAL TYR VAL PRO TYR THR SEQRES 7 A 406 GLN GLY LYS TRP GLU GLY GLU LEU GLY THR ASP LEU VAL SEQRES 8 A 406 SER ILE PRO HIS GLY PRO ASN VAL THR VAL ARG ALA ASN SEQRES 9 A 406 ILE ALA ALA ILE THR GLU SER ASP LYS PHE PHE ILE ASN SEQRES 10 A 406 GLY SER ASN TRP GLU GLY ILE LEU GLY LEU ALA TYR ALA SEQRES 11 A 406 GLU ILE ALA ARG PRO ASP ASP SER LEU GLU PRO PHE PHE SEQRES 12 A 406 ASP SER LEU VAL LYS GLN THR HIS VAL PRO ASN LEU PHE SEQRES 13 A 406 SER LEU GLN LEU CYS GLY ALA GLY PHE PRO LEU ASN GLN SEQRES 14 A 406 SER GLU VAL LEU ALA SER VAL GLY GLY SER MET ILE ILE SEQRES 15 A 406 GLY GLY ILE ASP HIS SER LEU TYR THR GLY SER LEU TRP SEQRES 16 A 406 TYR THR PRO ILE ARG ARG GLU TRP TYR TYR GLU VAL ILE SEQRES 17 A 406 ILE VAL ARG VAL GLU ILE ASN GLY GLN ASP LEU LYS MET SEQRES 18 A 406 ASP CYS LYS GLU TYR ASN TYR ASP LYS SER ILE VAL ASP SEQRES 19 A 406 SER GLY THR THR ASN LEU ARG LEU PRO LYS LYS VAL PHE SEQRES 20 A 406 GLU ALA ALA VAL LYS SER ILE LYS ALA ALA SER SER THR SEQRES 21 A 406 GLU LYS PHE PRO ASP GLY PHE TRP LEU GLY GLU GLN LEU SEQRES 22 A 406 VAL CYS TRP GLN ALA GLY THR THR PRO TRP ASN ILE PHE SEQRES 23 A 406 PRO VAL ILE SER LEU TYR LEU MET GLY GLU VAL THR ASN SEQRES 24 A 406 GLN SER PHE ARG ILE THR ILE LEU PRO GLN GLN TYR LEU SEQRES 25 A 406 ARG PRO VAL GLU ASP VAL ALA THR SER GLN ASP ASP CYS SEQRES 26 A 406 TYR LYS PHE ALA ILE SER GLN SER SER THR GLY THR VAL SEQRES 27 A 406 MET GLY ALA VAL ILE MET GLU GLY PHE TYR VAL VAL PHE SEQRES 28 A 406 ASP ARG ALA ARG LYS ARG ILE GLY PHE ALA VAL SER ALA SEQRES 29 A 406 CYS HIS VAL HIS ASP GLU PHE ARG THR ALA ALA VAL GLU SEQRES 30 A 406 GLY PRO PHE VAL THR LEU ASP MET GLU ASP CYS GLY TYR SEQRES 31 A 406 ASN ILE PRO GLN THR ASP GLU SER ARG SER HIS HIS HIS SEQRES 32 A 406 HIS HIS HIS HET NI A 501 1 HET 1M7 A 502 25 HETNAM NI NICKEL (II) ION HETNAM 1M7 (4R)-2-AMINO-1,3',3'-TRIMETHYL-7'-(PYRIMIDIN-5-YL)-3', HETNAM 2 1M7 4'-DIHYDRO-2'H-SPIRO[IMIDAZOLE-4,1'-NAPHTHALEN]-5(1H)- HETNAM 3 1M7 ONE FORMUL 2 NI NI 2+ FORMUL 3 1M7 C19 H21 N5 O FORMUL 4 HOH *302(H2 O) HELIX 1 1 PHE A 47 VAL A 51 5 5 HELIX 2 2 GLN A 101 SER A 105 5 5 HELIX 3 3 TYR A 171 ALA A 175 5 5 HELIX 4 4 PRO A 183 THR A 192 1 10 HELIX 5 5 ASP A 228 SER A 230 5 3 HELIX 6 6 ASP A 264 TYR A 270 5 7 HELIX 7 7 LYS A 286 SER A 300 1 15 HELIX 8 8 PRO A 306 LEU A 311 1 6 HELIX 9 9 PRO A 324 PHE A 328 5 5 HELIX 10 10 LEU A 349 TYR A 353 1 5 HELIX 11 11 GLY A 382 GLU A 387 1 6 HELIX 12 12 THR A 437 HIS A 443 1 7 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 GLY A 220 N LEU A 54 SHEET 6 A 9 PHE A 198 CYS A 203 -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 ALA A 403 N TYR A 390 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 VAL A 143 ASP A 154 -1 O VAL A 143 N VAL A 133 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 TYR A 62 O VAL A 79 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 GLY A 220 N LEU A 54 SHEET 10 B13 PHE A 198 CYS A 203 -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 ALA A 403 N TYR A 390 SHEET 13 B13 TYR A 232 PRO A 240 -1 N THR A 239 O ILE A 400 SHEET 1 C 5 GLN A 259 ASP A 260 0 SHEET 2 C 5 ILE A 251 ILE A 256 -1 N ILE A 256 O GLN A 259 SHEET 3 C 5 ILE A 331 MET A 336 -1 O TYR A 334 N ARG A 253 SHEET 4 C 5 GLN A 342 ILE A 348 -1 O PHE A 344 N LEU A 335 SHEET 5 C 5 ALA A 417 VAL A 423 -1 O GLU A 419 N ARG A 345 SHEET 1 D 4 SER A 273 VAL A 275 0 SHEET 2 D 4 THR A 379 MET A 381 1 O MET A 381 N ILE A 274 SHEET 3 D 4 LEU A 282 PRO A 285 -1 N ARG A 283 O VAL A 380 SHEET 4 D 4 ILE A 372 SER A 375 1 O SER A 375 N LEU A 284 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 2.04 SSBOND 2 CYS A 265 CYS A 430 1555 1555 2.04 SSBOND 3 CYS A 317 CYS A 367 1555 1555 2.03 LINK ND1 HIS A 444 NI NI A 501 1555 1555 2.13 LINK NE2 HIS A 446 NI NI A 501 1555 1555 2.33 CISPEP 1 SER A 70 PRO A 71 0 -3.35 CISPEP 2 ARG A 176 PRO A 177 0 0.61 CISPEP 3 PHE A 207 PRO A 208 0 2.31 CISPEP 4 TYR A 270 ASP A 271 0 2.76 CISPEP 5 GLY A 420 PRO A 421 0 -0.34 SITE 1 AC1 4 GLU A 303 ASP A 438 HIS A 444 HIS A 446 SITE 1 AC2 12 GLY A 59 GLN A 60 GLY A 61 ASP A 80 SITE 2 AC2 12 TYR A 119 ILE A 158 ILE A 166 ASP A 276 SITE 3 AC2 12 GLY A 278 THR A 279 HOH A 737 HOH A 765 CRYST1 75.160 103.940 100.560 90.00 90.00 90.00 C 2 2 21 8 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 0.013305 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009621 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009944 0.00000