HEADER HYDROLASE 27-NOV-15 5F01 TITLE CRYSTAL STRUCTURE OF BACE-1 IN COMPLEX WITH (1SR,2SR)-2-((R)-2-AMINO- TITLE 2 5,5-DIFLUORO-4-METHYL-5,6-DIHYDRO-4H-1,3-OXAZIN-4-YL)-N-(3- TITLE 3 CHLOROQUINOLIN-8-YL)CYCLOPROPANECARBOXAMIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-SECRETASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ASPARTYL PROTEASE 2,ASP 2,BETA-SITE AMYLOID PRECURSOR COMPND 5 PROTEIN CLEAVING ENZYME 1,BETA-SITE APP CLEAVING ENZYME 1,MEMAPSIN-2, COMPND 6 MEMBRANE-ASSOCIATED ASPARTIC PROTEASE 2; COMPND 7 EC: 3.4.23.46; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: 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 PROTEASE INHIBITOR, HYDROLASE-HYDROLASE INHIBITOR COMPLEX, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR D.BANNER,J.BENZ,M.STIHLE,A.KUGLSTATTER REVDAT 4 01-MAY-24 5F01 1 LINK REVDAT 3 29-NOV-17 5F01 1 REMARK REVDAT 2 25-MAY-16 5F01 1 JRNL REVDAT 1 24-FEB-16 5F01 0 JRNL AUTH B.KUHN,W.GUBA,J.HERT,D.BANNER,C.BISSANTZ,S.CECCARELLI, JRNL AUTH 2 W.HAAP,M.KORNER,A.KUGLSTATTER,C.LERNER,P.MATTEI,W.NEIDHART, JRNL AUTH 3 E.PINARD,M.G.RUDOLPH,T.SCHULZ-GASCH,T.WOLTERING,M.STAHL JRNL TITL A REAL-WORLD PERSPECTIVE ON MOLECULAR DESIGN. JRNL REF J.MED.CHEM. V. 59 4087 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 26878596 JRNL DOI 10.1021/ACS.JMEDCHEM.5B01875 REMARK 2 REMARK 2 RESOLUTION. 1.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0077 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) : 1.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 75036 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 4011 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) : 1.52 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5096 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.63 REMARK 3 BIN R VALUE (WORKING SET) : 0.3270 REMARK 3 BIN FREE R VALUE SET COUNT : 279 REMARK 3 BIN FREE R VALUE : 0.3650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3009 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 409 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.81 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.07000 REMARK 3 B22 (A**2) : -0.07000 REMARK 3 B33 (A**2) : 0.11000 REMARK 3 B12 (A**2) : -0.04000 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): 0.071 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.070 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.050 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.401 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3287 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4500 ; 1.296 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 425 ; 6.353 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 151 ;34.394 ;23.444 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 532 ;12.480 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;14.024 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 492 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2549 ; 0.006 ; 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: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 5F01 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000215780. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75036 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.520 REMARK 200 RESOLUTION RANGE LOW (A) : 47.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.81 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.03930 REMARK 200 FOR THE DATA SET : 14.0100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.62 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 12.45 REMARK 200 R MERGE FOR SHELL (I) : 0.54830 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.830 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: IN-HOUSE STRUCTURE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.5M SODIUM FORMATE, 100MM HEPES, PH REMARK 280 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K 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 56.72067 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 113.44133 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 85.08100 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 141.80167 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 28.36033 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 56.72067 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 113.44133 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 141.80167 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 85.08100 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 28.36033 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL 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 604 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 694 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 976 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 LEU A 222 REMARK 465 ASN A 223 REMARK 465 GLN A 224 REMARK 465 SER A 225 REMARK 465 GLU A 226 REMARK 465 VAL A 227 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASP A 372 CG OD1 OD2 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 150 54.39 -97.41 REMARK 500 TRP A 258 -85.41 -139.53 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 NA A 502 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 202 O REMARK 620 2 THR A 205 O 85.1 REMARK 620 3 HOH A 675 O 100.5 98.7 REMARK 620 4 HOH A 799 O 163.2 80.8 90.5 REMARK 620 5 HOH A 869 O 91.9 80.1 167.4 76.9 REMARK 620 6 HOH A 938 O 90.7 165.7 95.5 100.8 86.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 501 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 242 O REMARK 620 2 TYR A 245 O 84.0 REMARK 620 3 HOH A 767 O 150.6 101.0 REMARK 620 4 HOH A 906 O 99.4 80.3 109.9 REMARK 620 5 HOH A 937 O 84.7 163.0 95.0 89.1 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5T7 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 507 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5EZX RELATED DB: PDB REMARK 900 RELATED ID: 5EZZ RELATED DB: PDB REMARK 900 RELATED ID: 5F00 RELATED DB: PDB DBREF 5F01 A 57 446 UNP P56817 BACE1_HUMAN 57 446 SEQADV 5F01 ALA A 307 UNP P56817 LYS 307 ENGINEERED MUTATION SEQRES 1 A 390 ARG GLY SER PHE VAL GLU MET VAL ASP ASN LEU ARG GLY SEQRES 2 A 390 LYS SER GLY GLN GLY TYR TYR VAL GLU MET THR VAL GLY SEQRES 3 A 390 SER PRO PRO GLN THR LEU ASN ILE LEU VAL ASP THR GLY SEQRES 4 A 390 SER SER ASN PHE ALA VAL GLY ALA ALA PRO HIS PRO PHE SEQRES 5 A 390 LEU HIS ARG TYR TYR GLN ARG GLN LEU SER SER THR TYR SEQRES 6 A 390 ARG ASP LEU ARG LYS GLY VAL TYR VAL PRO TYR THR GLN SEQRES 7 A 390 GLY LYS TRP GLU GLY GLU LEU GLY THR ASP LEU VAL SER SEQRES 8 A 390 ILE PRO HIS GLY PRO ASN VAL THR VAL ARG ALA ASN ILE SEQRES 9 A 390 ALA ALA ILE THR GLU SER ASP LYS PHE PHE ILE ASN GLY SEQRES 10 A 390 SER ASN TRP GLU GLY ILE LEU GLY LEU ALA TYR ALA GLU SEQRES 11 A 390 ILE ALA ARG PRO ASP ASP SER LEU GLU PRO PHE PHE ASP SEQRES 12 A 390 SER LEU VAL LYS GLN THR HIS VAL PRO ASN LEU PHE SER SEQRES 13 A 390 LEU GLN LEU CYS GLY ALA GLY PHE PRO LEU ASN GLN SER SEQRES 14 A 390 GLU VAL LEU ALA SER VAL GLY GLY SER MET ILE ILE GLY SEQRES 15 A 390 GLY ILE ASP HIS SER LEU TYR THR GLY SER LEU TRP TYR SEQRES 16 A 390 THR PRO ILE ARG ARG GLU TRP TYR TYR GLU VAL ILE ILE SEQRES 17 A 390 VAL ARG VAL GLU ILE ASN GLY GLN ASP LEU LYS MET ASP SEQRES 18 A 390 CYS LYS GLU TYR ASN TYR ASP LYS SER ILE VAL ASP SER SEQRES 19 A 390 GLY THR THR ASN LEU ARG LEU PRO LYS LYS VAL PHE GLU SEQRES 20 A 390 ALA ALA VAL ALA SER ILE LYS ALA ALA SER SER THR GLU SEQRES 21 A 390 LYS PHE PRO ASP GLY PHE TRP LEU GLY GLU GLN LEU VAL SEQRES 22 A 390 CYS TRP GLN ALA GLY THR THR PRO TRP ASN ILE PHE PRO SEQRES 23 A 390 VAL ILE SER LEU TYR LEU MET GLY GLU VAL THR ASN GLN SEQRES 24 A 390 SER PHE ARG ILE THR ILE LEU PRO GLN GLN TYR LEU ARG SEQRES 25 A 390 PRO VAL GLU ASP VAL ALA THR SER GLN ASP ASP CYS TYR SEQRES 26 A 390 LYS PHE ALA ILE SER GLN SER SER THR GLY THR VAL MET SEQRES 27 A 390 GLY ALA VAL ILE MET GLU GLY PHE TYR VAL VAL PHE ASP SEQRES 28 A 390 ARG ALA ARG LYS ARG ILE GLY PHE ALA VAL SER ALA CYS SEQRES 29 A 390 HIS VAL HIS ASP GLU PHE ARG THR ALA ALA VAL GLU GLY SEQRES 30 A 390 PRO PHE VAL THR LEU ASP MET GLU ASP CYS GLY TYR ASN HET NA A 501 1 HET NA A 502 1 HET DMS A 503 4 HET 5T7 A 504 27 HET DMS A 505 4 HET GOL A 506 6 HET ACT A 507 4 HETNAM NA SODIUM ION HETNAM DMS DIMETHYL SULFOXIDE HETNAM 5T7 (1~{R},2~{R})-2-[(4~{R})-2-AZANYL-5,5-BIS(FLUORANYL)-4- HETNAM 2 5T7 METHYL-6~{H}-1,3-OXAZIN-4-YL]-~{N}-(3- HETNAM 3 5T7 CHLORANYLQUINOLIN-8-YL)CYCLOPROPANE-1-CARBOXAMIDE HETNAM GOL GLYCEROL HETNAM ACT ACETATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NA 2(NA 1+) FORMUL 4 DMS 2(C2 H6 O S) FORMUL 5 5T7 C18 H17 CL F2 N4 O2 FORMUL 7 GOL C3 H8 O3 FORMUL 8 ACT C2 H3 O2 1- FORMUL 9 HOH *409(H2 O) HELIX 1 AA1 GLN A 114 SER A 118 5 5 HELIX 2 AA2 TYR A 184 ALA A 188 5 5 HELIX 3 AA3 PRO A 196 THR A 205 1 10 HELIX 4 AA4 ASP A 241 SER A 243 5 3 HELIX 5 AA5 ASP A 277 TYR A 283 5 7 HELIX 6 AA6 LYS A 299 SER A 313 1 15 HELIX 7 AA7 PRO A 319 LEU A 324 1 6 HELIX 8 AA8 PRO A 337 PHE A 341 5 5 HELIX 9 AA9 LEU A 362 TYR A 366 1 5 HELIX 10 AB1 GLY A 395 GLU A 400 1 6 HELIX 11 AB2 ARG A 408 ARG A 410 5 3 HELIX 12 AB3 ASP A 439 GLY A 444 5 6 SHEET 1 AA1 9 ARG A 122 PRO A 131 0 SHEET 2 AA1 9 LYS A 136 SER A 147 -1 O TRP A 137 N VAL A 130 SHEET 3 AA1 9 TYR A 75 VAL A 81 -1 N THR A 80 O SER A 147 SHEET 4 AA1 9 LEU A 67 GLY A 69 -1 N ARG A 68 O TYR A 76 SHEET 5 AA1 9 VAL A 231 ILE A 237 -1 O GLY A 233 N LEU A 67 SHEET 6 AA1 9 PHE A 211 CYS A 216 -1 N CYS A 216 O GLY A 232 SHEET 7 AA1 9 PHE A 402 ASP A 407 -1 O VAL A 404 N LEU A 213 SHEET 8 AA1 9 ARG A 412 SER A 418 -1 O ALA A 416 N TYR A 403 SHEET 9 AA1 9 TYR A 245 PRO A 253 -1 N THR A 252 O ILE A 413 SHEET 1 AA213 ARG A 122 PRO A 131 0 SHEET 2 AA213 LYS A 136 SER A 147 -1 O TRP A 137 N VAL A 130 SHEET 3 AA213 VAL A 156 ASP A 167 -1 O ALA A 162 N GLU A 140 SHEET 4 AA213 PHE A 99 GLY A 102 1 N VAL A 101 O ILE A 163 SHEET 5 AA213 GLY A 178 GLY A 181 -1 O ILE A 179 N ALA A 100 SHEET 6 AA213 GLN A 86 ASP A 93 1 N LEU A 91 O LEU A 180 SHEET 7 AA213 TYR A 75 VAL A 81 -1 N TYR A 75 O VAL A 92 SHEET 8 AA213 LEU A 67 GLY A 69 -1 N ARG A 68 O TYR A 76 SHEET 9 AA213 VAL A 231 ILE A 237 -1 O GLY A 233 N LEU A 67 SHEET 10 AA213 PHE A 211 CYS A 216 -1 N CYS A 216 O GLY A 232 SHEET 11 AA213 PHE A 402 ASP A 407 -1 O VAL A 404 N LEU A 213 SHEET 12 AA213 ARG A 412 SER A 418 -1 O ALA A 416 N TYR A 403 SHEET 13 AA213 TYR A 245 PRO A 253 -1 N THR A 252 O ILE A 413 SHEET 1 AA3 5 GLU A 261 VAL A 262 0 SHEET 2 AA3 5 SER A 286 VAL A 288 -1 O SER A 286 N VAL A 262 SHEET 3 AA3 5 THR A 392 MET A 394 1 O MET A 394 N ILE A 287 SHEET 4 AA3 5 LEU A 295 PRO A 298 -1 N ARG A 296 O VAL A 393 SHEET 5 AA3 5 ILE A 385 SER A 388 1 O SER A 386 N LEU A 297 SHEET 1 AA4 5 GLN A 272 ASP A 273 0 SHEET 2 AA4 5 ILE A 264 ILE A 269 -1 N ILE A 269 O GLN A 272 SHEET 3 AA4 5 ILE A 344 MET A 349 -1 O TYR A 347 N ARG A 266 SHEET 4 AA4 5 GLN A 355 ILE A 361 -1 O ILE A 359 N LEU A 346 SHEET 5 AA4 5 ALA A 430 VAL A 436 -1 O GLU A 432 N ARG A 358 SHEET 1 AA5 3 VAL A 329 TRP A 331 0 SHEET 2 AA5 3 ASP A 379 PHE A 383 -1 O TYR A 381 N VAL A 329 SHEET 3 AA5 3 LEU A 367 VAL A 370 -1 N ARG A 368 O LYS A 382 SSBOND 1 CYS A 216 CYS A 420 1555 1555 2.06 SSBOND 2 CYS A 278 CYS A 443 1555 1555 2.04 SSBOND 3 CYS A 330 CYS A 380 1555 1555 2.05 LINK O VAL A 202 NA NA A 502 1555 1555 2.32 LINK O THR A 205 NA NA A 502 1555 1555 2.41 LINK O HIS A 242 NA NA A 501 1555 1555 2.50 LINK O TYR A 245 NA NA A 501 1555 1555 2.32 LINK NA NA A 501 O HOH A 767 1555 1555 2.36 LINK NA NA A 501 O HOH A 906 1555 1555 2.41 LINK NA NA A 501 O HOH A 937 1555 1555 2.37 LINK NA NA A 502 O HOH A 675 1555 1555 2.38 LINK NA NA A 502 O HOH A 799 1555 1555 2.42 LINK NA NA A 502 O HOH A 869 1555 1555 2.46 LINK NA NA A 502 O HOH A 938 1555 1555 2.36 CISPEP 1 SER A 83 PRO A 84 0 0.09 CISPEP 2 ARG A 189 PRO A 190 0 7.88 CISPEP 3 PHE A 220 PRO A 221 0 -1.78 CISPEP 4 TYR A 283 ASP A 284 0 1.41 CISPEP 5 GLY A 433 PRO A 434 0 -6.35 SITE 1 AC1 5 HIS A 242 TYR A 245 HOH A 767 HOH A 906 SITE 2 AC1 5 HOH A 937 SITE 1 AC2 6 VAL A 202 THR A 205 HOH A 675 HOH A 799 SITE 2 AC2 6 HOH A 869 HOH A 938 SITE 1 AC3 4 ARG A 157 ASN A 159 GLU A 195 HOH A 814 SITE 1 AC4 14 GLY A 72 GLY A 74 LEU A 91 ASP A 93 SITE 2 AC4 14 TYR A 132 ILE A 171 ASP A 289 SER A 290 SITE 3 AC4 14 GLY A 291 THR A 292 THR A 293 ALA A 396 SITE 4 AC4 14 ACT A 507 HOH A 617 SITE 1 AC5 3 LYS A 279 GLU A 280 LYS A 300 SITE 1 AC6 10 HIS A 106 PHE A 108 SER A 166 ASP A 167 SITE 2 AC6 10 LYS A 168 ILE A 171 ASN A 172 HOH A 604 SITE 3 AC6 10 HOH A 605 HOH A 680 SITE 1 AC7 11 LYS A 70 SER A 71 GLY A 72 GLN A 73 SITE 2 AC7 11 GLY A 74 TYR A 75 VAL A 231 ARG A 368 SITE 3 AC7 11 5T7 A 504 HOH A 621 HOH A 686 CRYST1 102.413 102.413 170.162 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 0.009764 0.005637 0.000000 0.00000 SCALE2 0.000000 0.011275 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005877 0.00000