HEADER HYDROLASE/HYDROLASE INHIBITOR 08-FEB-08 2ZHR TITLE CRYSTAL STRUCTURE OF BACE1 IN COMPLEX WITH OM99-2 AT PH 5.0 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-SECRETASE 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, UNP RESIDUES 45-454; COMPND 5 SYNONYM: BETA-SITE APP CLEAVING ENZYME 1, BETA-SITE AMYLOID PRECURSOR COMPND 6 PROTEIN CLEAVING ENZYME 1, MEMBRANE-ASSOCIATED ASPARTIC PROTEASE 2, COMPND 7 MEMAPSIN-2, ASPARTYL PROTEASE 2, ASP 2, ASP2, BACE1; COMPND 8 EC: 3.4.23.46; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: INHIBITOR OM99-2; COMPND 12 CHAIN: C, D; COMPND 13 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; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET11A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS OM99-2 COMPLEX, PH 5.0, ASPARTYL PROTEASE, GLYCOPROTEIN, MEMBRANE, KEYWDS 2 PROTEASE, TRANSMEMBRANE, ZYMOGEN, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.SHIMIZU,N.NUKINA REVDAT 7 15-NOV-23 2ZHR 1 ATOM REVDAT 6 01-NOV-23 2ZHR 1 SEQADV LINK REVDAT 5 13-JUL-11 2ZHR 1 VERSN REVDAT 4 24-FEB-09 2ZHR 1 VERSN REVDAT 3 27-MAY-08 2ZHR 1 JRNL REVDAT 2 06-MAY-08 2ZHR 1 LINK REVDAT 1 22-APR-08 2ZHR 0 JRNL AUTH H.SHIMIZU,A.TOSAKI,K.KANEKO,T.HISANO,T.SAKURAI,N.NUKINA JRNL TITL CRYSTAL STRUCTURE OF AN ACTIVE FORM OF BACE1, AN ENZYME JRNL TITL 2 RESPONSIBLE FOR AMYLOID BETA PROTEIN PRODUCTION JRNL REF MOL.CELL.BIOL. V. 28 3663 2008 JRNL REFN ISSN 0270-7306 JRNL PMID 18378702 JRNL DOI 10.1128/MCB.02185-07 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2515450.370 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 35837 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 SET) : 0.185 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1781 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5576 REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6219 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 622 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 44.59 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2ZHR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000027987. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B2 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 : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35899 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 11.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09600 REMARK 200 FOR THE DATA SET : 18.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 10.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.28200 REMARK 200 FOR SHELL : 5.200 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: PDB ENTRY 2ZHV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22% PEG 5000 MME, 0.2M SODIUM ACETATE REMARK 280 PH 6.5, 0.2M AMMONIUM IODIDE, PH 6.6, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K 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 43.16650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.39700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.95600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.39700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.16650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.95600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE BETA-SECRETASE INHIBITOR OM99-2 IS PEPTIDE-LIKE, A MEMBER OF REMARK 400 INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: BETA-SECRETASE INHIBITOR OM99-2 REMARK 400 CHAIN: C, D REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 -17 REMARK 465 ARG A -16 REMARK 465 GLU A -15 REMARK 465 THR A -14 REMARK 465 ASP A -13 REMARK 465 GLU A -12 REMARK 465 GLU A -11 REMARK 465 PRO A -10 REMARK 465 GLU A -9 REMARK 465 GLU A -8 REMARK 465 PRO A -7 REMARK 465 GLY A -6 REMARK 465 ARG A -5 REMARK 465 ILE A 386 REMARK 465 PRO A 387 REMARK 465 GLN A 388 REMARK 465 THR A 389 REMARK 465 ASP A 390 REMARK 465 GLU A 391 REMARK 465 SER A 392 REMARK 465 THR A 393 REMARK 465 MET B -17 REMARK 465 ARG B -16 REMARK 465 GLU B -15 REMARK 465 THR B -14 REMARK 465 ASP B -13 REMARK 465 GLU B -12 REMARK 465 GLU B -11 REMARK 465 PRO B -10 REMARK 465 GLU B -9 REMARK 465 GLU B -8 REMARK 465 PRO B -7 REMARK 465 GLY B -6 REMARK 465 ARG B -5 REMARK 465 ARG B -4 REMARK 465 GLY B -3 REMARK 465 SER B -2 REMARK 465 ALA B 313 REMARK 465 THR B 314 REMARK 465 ILE B 386 REMARK 465 PRO B 387 REMARK 465 GLN B 388 REMARK 465 THR B 389 REMARK 465 ASP B 390 REMARK 465 GLU B 391 REMARK 465 SER B 392 REMARK 465 THR B 393 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 1OL C 4 CA - C - N ANGL. DEV. = 19.2 DEGREES REMARK 500 1OL D 4 CA - C - N ANGL. DEV. = 20.2 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 55 2.07 -67.36 REMARK 500 PHE A 108 -62.20 -99.34 REMARK 500 ASP A 131 0.67 -68.34 REMARK 500 TRP A 197 -81.38 -151.12 REMARK 500 LYS A 238 -61.16 -25.25 REMARK 500 ALA A 272 126.40 -39.94 REMARK 500 THR A 314 44.26 36.03 REMARK 500 ALA A 323 36.88 -92.49 REMARK 500 ARG B 64 42.08 37.24 REMARK 500 HIS B 89 60.47 -109.94 REMARK 500 PHE B 108 -65.29 -94.58 REMARK 500 ALA B 122 -165.70 -79.80 REMARK 500 LEU B 149 157.68 176.94 REMARK 500 TRP B 197 -72.49 -146.27 REMARK 500 LYS B 238 -57.58 -29.75 REMARK 500 SER B 253 -17.76 -49.52 REMARK 500 ASN B 293 19.36 59.34 REMARK 500 ALA B 323 33.06 -91.60 REMARK 500 HIS B 362 -168.10 -161.67 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 1OL C 4 ALA C 5 -101.47 REMARK 500 1OL D 4 ALA D 5 -100.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 1OL C 4 36.34 REMARK 500 1OL D 4 37.24 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 CHAIN C OF INHIBITOR OM99-2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN D OF INHIBITOR OM99-2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ZHS RELATED DB: PDB REMARK 900 BACE1 AT PH 4.0 REMARK 900 RELATED ID: 2ZHT RELATED DB: PDB REMARK 900 BACE1 AT PH 4.5 REMARK 900 RELATED ID: 2ZHU RELATED DB: PDB REMARK 900 BACE1 AT PH 5.0 REMARK 900 RELATED ID: 2ZHV RELATED DB: PDB REMARK 900 BACE1 AT PH 7.0 DBREF 2ZHR A -16 393 UNP P56817 BACE1_HUMAN 45 454 DBREF 2ZHR B -16 393 UNP P56817 BACE1_HUMAN 45 454 DBREF 2ZHR C 1 7 PDB 2ZHR 2ZHR 1 7 DBREF 2ZHR D 1 7 PDB 2ZHR 2ZHR 1 7 SEQADV 2ZHR MET A -17 UNP P56817 INITIATING METHIONINE SEQADV 2ZHR MET B -17 UNP P56817 INITIATING METHIONINE SEQRES 1 A 411 MET ARG GLU THR ASP GLU GLU PRO GLU GLU PRO GLY ARG SEQRES 2 A 411 ARG GLY SER PHE VAL GLU MET VAL ASP ASN LEU ARG GLY SEQRES 3 A 411 LYS SER GLY GLN GLY TYR TYR VAL GLU MET THR VAL GLY SEQRES 4 A 411 SER PRO PRO GLN THR LEU ASN ILE LEU VAL ASP THR GLY SEQRES 5 A 411 SER SER ASN PHE ALA VAL GLY ALA ALA PRO HIS PRO PHE SEQRES 6 A 411 LEU HIS ARG TYR TYR GLN ARG GLN LEU SER SER THR TYR SEQRES 7 A 411 ARG ASP LEU ARG LYS GLY VAL TYR VAL PRO TYR THR GLN SEQRES 8 A 411 GLY LYS TRP GLU GLY GLU LEU GLY THR ASP LEU VAL SER SEQRES 9 A 411 ILE PRO HIS GLY PRO ASN VAL THR VAL ARG ALA ASN ILE SEQRES 10 A 411 ALA ALA ILE THR GLU SER ASP LYS PHE PHE ILE ASN GLY SEQRES 11 A 411 SER ASN TRP GLU GLY ILE LEU GLY LEU ALA TYR ALA GLU SEQRES 12 A 411 ILE ALA ARG PRO ASP ASP SER LEU GLU PRO PHE PHE ASP SEQRES 13 A 411 SER LEU VAL LYS GLN THR HIS VAL PRO ASN LEU PHE SER SEQRES 14 A 411 LEU GLN LEU CYS GLY ALA GLY PHE PRO LEU ASN GLN SER SEQRES 15 A 411 GLU VAL LEU ALA SER VAL GLY GLY SER MET ILE ILE GLY SEQRES 16 A 411 GLY ILE ASP HIS SER LEU TYR THR GLY SER LEU TRP TYR SEQRES 17 A 411 THR PRO ILE ARG ARG GLU TRP TYR TYR GLU VAL ILE ILE SEQRES 18 A 411 VAL ARG VAL GLU ILE ASN GLY GLN ASP LEU LYS MET ASP SEQRES 19 A 411 CYS LYS GLU TYR ASN TYR ASP LYS SER ILE VAL ASP SER SEQRES 20 A 411 GLY THR THR ASN LEU ARG LEU PRO LYS LYS VAL PHE GLU SEQRES 21 A 411 ALA ALA VAL LYS SER ILE LYS ALA ALA SER SER THR GLU SEQRES 22 A 411 LYS PHE PRO ASP GLY PHE TRP LEU GLY GLU GLN LEU VAL SEQRES 23 A 411 CYS TRP GLN ALA GLY THR THR PRO TRP ASN ILE PHE PRO SEQRES 24 A 411 VAL ILE SER LEU TYR LEU MET GLY GLU VAL THR ASN GLN SEQRES 25 A 411 SER PHE ARG ILE THR ILE LEU PRO GLN GLN TYR LEU ARG SEQRES 26 A 411 PRO VAL GLU ASP VAL ALA THR SER GLN ASP ASP CYS TYR SEQRES 27 A 411 LYS PHE ALA ILE SER GLN SER SER THR GLY THR VAL MET SEQRES 28 A 411 GLY ALA VAL ILE MET GLU GLY PHE TYR VAL VAL PHE ASP SEQRES 29 A 411 ARG ALA ARG LYS ARG ILE GLY PHE ALA VAL SER ALA CYS SEQRES 30 A 411 HIS VAL HIS ASP GLU PHE ARG THR ALA ALA VAL GLU GLY SEQRES 31 A 411 PRO PHE VAL THR LEU ASP MET GLU ASP CYS GLY TYR ASN SEQRES 32 A 411 ILE PRO GLN THR ASP GLU SER THR SEQRES 1 B 411 MET ARG GLU THR ASP GLU GLU PRO GLU GLU PRO GLY ARG SEQRES 2 B 411 ARG GLY SER PHE VAL GLU MET VAL ASP ASN LEU ARG GLY SEQRES 3 B 411 LYS SER GLY GLN GLY TYR TYR VAL GLU MET THR VAL GLY SEQRES 4 B 411 SER PRO PRO GLN THR LEU ASN ILE LEU VAL ASP THR GLY SEQRES 5 B 411 SER SER ASN PHE ALA VAL GLY ALA ALA PRO HIS PRO PHE SEQRES 6 B 411 LEU HIS ARG TYR TYR GLN ARG GLN LEU SER SER THR TYR SEQRES 7 B 411 ARG ASP LEU ARG LYS GLY VAL TYR VAL PRO TYR THR GLN SEQRES 8 B 411 GLY LYS TRP GLU GLY GLU LEU GLY THR ASP LEU VAL SER SEQRES 9 B 411 ILE PRO HIS GLY PRO ASN VAL THR VAL ARG ALA ASN ILE SEQRES 10 B 411 ALA ALA ILE THR GLU SER ASP LYS PHE PHE ILE ASN GLY SEQRES 11 B 411 SER ASN TRP GLU GLY ILE LEU GLY LEU ALA TYR ALA GLU SEQRES 12 B 411 ILE ALA ARG PRO ASP ASP SER LEU GLU PRO PHE PHE ASP SEQRES 13 B 411 SER LEU VAL LYS GLN THR HIS VAL PRO ASN LEU PHE SER SEQRES 14 B 411 LEU GLN LEU CYS GLY ALA GLY PHE PRO LEU ASN GLN SER SEQRES 15 B 411 GLU VAL LEU ALA SER VAL GLY GLY SER MET ILE ILE GLY SEQRES 16 B 411 GLY ILE ASP HIS SER LEU TYR THR GLY SER LEU TRP TYR SEQRES 17 B 411 THR PRO ILE ARG ARG GLU TRP TYR TYR GLU VAL ILE ILE SEQRES 18 B 411 VAL ARG VAL GLU ILE ASN GLY GLN ASP LEU LYS MET ASP SEQRES 19 B 411 CYS LYS GLU TYR ASN TYR ASP LYS SER ILE VAL ASP SER SEQRES 20 B 411 GLY THR THR ASN LEU ARG LEU PRO LYS LYS VAL PHE GLU SEQRES 21 B 411 ALA ALA VAL LYS SER ILE LYS ALA ALA SER SER THR GLU SEQRES 22 B 411 LYS PHE PRO ASP GLY PHE TRP LEU GLY GLU GLN LEU VAL SEQRES 23 B 411 CYS TRP GLN ALA GLY THR THR PRO TRP ASN ILE PHE PRO SEQRES 24 B 411 VAL ILE SER LEU TYR LEU MET GLY GLU VAL THR ASN GLN SEQRES 25 B 411 SER PHE ARG ILE THR ILE LEU PRO GLN GLN TYR LEU ARG SEQRES 26 B 411 PRO VAL GLU ASP VAL ALA THR SER GLN ASP ASP CYS TYR SEQRES 27 B 411 LYS PHE ALA ILE SER GLN SER SER THR GLY THR VAL MET SEQRES 28 B 411 GLY ALA VAL ILE MET GLU GLY PHE TYR VAL VAL PHE ASP SEQRES 29 B 411 ARG ALA ARG LYS ARG ILE GLY PHE ALA VAL SER ALA CYS SEQRES 30 B 411 HIS VAL HIS ASP GLU PHE ARG THR ALA ALA VAL GLU GLY SEQRES 31 B 411 PRO PHE VAL THR LEU ASP MET GLU ASP CYS GLY TYR ASN SEQRES 32 B 411 ILE PRO GLN THR ASP GLU SER THR SEQRES 1 C 7 GLU VAL ASN 1OL ALA GLU PHE SEQRES 1 D 7 GLU VAL ASN 1OL ALA GLU PHE HET 1OL C 4 13 HET 1OL D 4 13 HETNAM 1OL (2R,4S,5S)-5-AMINO-4-HYDROXY-2,7-DIMETHYLOCTANOIC ACID HETSYN 1OL LEU*ALA FORMUL 3 1OL 2(C10 H21 N O3) FORMUL 5 HOH *622(H2 O) HELIX 1 1 GLN A 53 SER A 57 5 5 HELIX 2 2 TYR A 123 ALA A 127 5 5 HELIX 3 3 PRO A 135 THR A 144 1 10 HELIX 4 4 ASN A 162 SER A 169 1 8 HELIX 5 5 ASP A 180 SER A 182 5 3 HELIX 6 6 LYS A 218 TYR A 222 5 5 HELIX 7 7 LYS A 238 SER A 252 1 15 HELIX 8 8 PRO A 258 LEU A 263 1 6 HELIX 9 9 PRO A 276 PHE A 280 5 5 HELIX 10 10 LEU A 301 TYR A 305 1 5 HELIX 11 11 GLY A 334 GLU A 339 1 6 HELIX 12 12 MET A 379 GLY A 383 5 5 HELIX 13 13 PHE B -1 VAL B 3 5 5 HELIX 14 14 GLN B 53 SER B 57 5 5 HELIX 15 15 TYR B 123 ALA B 127 5 5 HELIX 16 16 PRO B 135 THR B 144 1 10 HELIX 17 17 ASN B 162 SER B 169 1 8 HELIX 18 18 ASP B 180 SER B 182 5 3 HELIX 19 19 LYS B 218 TYR B 222 5 5 HELIX 20 20 LYS B 238 SER B 252 1 15 HELIX 21 21 PRO B 258 LEU B 263 1 6 HELIX 22 22 PRO B 276 PHE B 280 5 5 HELIX 23 23 LEU B 301 TYR B 305 1 5 HELIX 24 24 GLY B 334 GLU B 339 1 6 HELIX 25 25 ASP B 378 GLY B 383 5 6 SHEET 1 A 8 LEU A 6 LYS A 9 0 SHEET 2 A 8 GLY A 13 VAL A 20 -1 O GLY A 13 N LYS A 9 SHEET 3 A 8 GLN A 25 ASP A 32 -1 O ILE A 29 N VAL A 16 SHEET 4 A 8 GLY A 117 GLY A 120 1 O LEU A 119 N LEU A 30 SHEET 5 A 8 PHE A 38 GLY A 41 -1 N ALA A 39 O ILE A 118 SHEET 6 A 8 THR A 94 ASP A 106 1 O ILE A 102 N VAL A 40 SHEET 7 A 8 LYS A 75 SER A 86 -1 N GLY A 81 O ILE A 99 SHEET 8 A 8 ARG A 61 PRO A 70 -1 N LYS A 65 O LEU A 80 SHEET 1 B 4 LEU A 6 LYS A 9 0 SHEET 2 B 4 GLY A 13 VAL A 20 -1 O GLY A 13 N LYS A 9 SHEET 3 B 4 LYS A 75 SER A 86 -1 O SER A 86 N THR A 19 SHEET 4 B 4 ARG A 61 PRO A 70 -1 N LYS A 65 O LEU A 80 SHEET 1 C 5 GLY A 172 ILE A 176 0 SHEET 2 C 5 PHE A 150 LEU A 154 -1 N GLN A 153 O SER A 173 SHEET 3 C 5 PHE A 341 ASP A 346 -1 O PHE A 345 N PHE A 150 SHEET 4 C 5 ARG A 351 SER A 357 -1 O ALA A 355 N TYR A 342 SHEET 5 C 5 TYR A 184 PRO A 192 -1 N THR A 191 O ILE A 352 SHEET 1 D 5 GLN A 211 ASP A 212 0 SHEET 2 D 5 ILE A 203 ILE A 208 -1 N ILE A 208 O GLN A 211 SHEET 3 D 5 ILE A 283 MET A 288 -1 O TYR A 286 N ARG A 205 SHEET 4 D 5 GLN A 294 ILE A 300 -1 O ILE A 300 N ILE A 283 SHEET 5 D 5 ALA A 369 VAL A 375 -1 O GLU A 371 N ARG A 297 SHEET 1 E 4 SER A 225 VAL A 227 0 SHEET 2 E 4 THR A 331 MET A 333 1 O MET A 333 N ILE A 226 SHEET 3 E 4 LEU A 234 PRO A 237 -1 N ARG A 235 O VAL A 332 SHEET 4 E 4 ILE A 324 SER A 327 1 O SER A 325 N LEU A 236 SHEET 1 F 3 VAL A 268 TRP A 270 0 SHEET 2 F 3 ASP A 318 PHE A 322 -1 O ASP A 318 N TRP A 270 SHEET 3 F 3 LEU A 306 PRO A 308 -1 N ARG A 307 O LYS A 321 SHEET 1 G 8 LEU B 6 LYS B 9 0 SHEET 2 G 8 GLY B 13 VAL B 20 -1 O GLY B 13 N LYS B 9 SHEET 3 G 8 GLN B 25 ASP B 32 -1 O ILE B 29 N VAL B 16 SHEET 4 G 8 GLY B 117 GLY B 120 1 O LEU B 119 N LEU B 30 SHEET 5 G 8 PHE B 38 GLY B 41 -1 N ALA B 39 O ILE B 118 SHEET 6 G 8 THR B 94 ASP B 106 1 O ILE B 102 N VAL B 40 SHEET 7 G 8 LYS B 75 SER B 86 -1 N GLY B 81 O ILE B 99 SHEET 8 G 8 ARG B 61 PRO B 70 -1 N LYS B 65 O LEU B 80 SHEET 1 H 4 LEU B 6 LYS B 9 0 SHEET 2 H 4 GLY B 13 VAL B 20 -1 O GLY B 13 N LYS B 9 SHEET 3 H 4 LYS B 75 SER B 86 -1 O SER B 86 N THR B 19 SHEET 4 H 4 ARG B 61 PRO B 70 -1 N LYS B 65 O LEU B 80 SHEET 1 I 5 GLY B 172 ILE B 176 0 SHEET 2 I 5 PHE B 150 LEU B 154 -1 N GLN B 153 O SER B 173 SHEET 3 I 5 PHE B 341 ASP B 346 -1 O VAL B 343 N LEU B 152 SHEET 4 I 5 ARG B 351 SER B 357 -1 O ALA B 355 N TYR B 342 SHEET 5 I 5 TYR B 184 PRO B 192 -1 N THR B 191 O ILE B 352 SHEET 1 J 5 GLN B 211 ASP B 212 0 SHEET 2 J 5 ILE B 203 ILE B 208 -1 N ILE B 208 O GLN B 211 SHEET 3 J 5 ILE B 283 MET B 288 -1 O TYR B 286 N ARG B 205 SHEET 4 J 5 GLN B 294 ILE B 300 -1 O PHE B 296 N LEU B 287 SHEET 5 J 5 ALA B 369 VAL B 375 -1 O GLU B 371 N ARG B 297 SHEET 1 K 4 SER B 225 VAL B 227 0 SHEET 2 K 4 THR B 331 MET B 333 1 O MET B 333 N ILE B 226 SHEET 3 K 4 LEU B 234 PRO B 237 -1 N ARG B 235 O VAL B 332 SHEET 4 K 4 ILE B 324 SER B 327 1 O SER B 325 N LEU B 236 SHEET 1 L 3 VAL B 268 TRP B 270 0 SHEET 2 L 3 ASP B 318 PHE B 322 -1 O TYR B 320 N VAL B 268 SHEET 3 L 3 LEU B 306 PRO B 308 -1 N ARG B 307 O LYS B 321 SSBOND 1 CYS A 155 CYS A 359 1555 1555 2.05 SSBOND 2 CYS A 217 CYS A 382 1555 1555 2.03 SSBOND 3 CYS A 269 CYS A 319 1555 1555 2.04 SSBOND 4 CYS B 155 CYS B 359 1555 1555 2.04 SSBOND 5 CYS B 217 CYS B 382 1555 1555 2.03 SSBOND 6 CYS B 269 CYS B 319 1555 1555 2.04 LINK C ASN C 3 N 1OL C 4 1555 1555 1.33 LINK C 1OL C 4 N ALA C 5 1555 1555 1.33 LINK C ASN D 3 N 1OL D 4 1555 1555 1.33 LINK C 1OL D 4 N ALA D 5 1555 1555 1.33 CISPEP 1 SER A 22 PRO A 23 0 -0.21 CISPEP 2 ARG A 128 PRO A 129 0 -0.01 CISPEP 3 TYR A 222 ASP A 223 0 15.61 CISPEP 4 GLY A 372 PRO A 373 0 -0.08 CISPEP 5 SER B 22 PRO B 23 0 -0.18 CISPEP 6 ARG B 128 PRO B 129 0 0.09 CISPEP 7 TYR B 222 ASP B 223 0 12.72 CISPEP 8 GLY B 372 PRO B 373 0 0.13 SITE 1 AC1 27 GLY A 11 GLN A 12 LEU A 30 ASP A 32 SITE 2 AC1 27 GLY A 34 PRO A 70 TYR A 71 THR A 72 SITE 3 AC1 27 GLN A 73 GLU A 125 ARG A 128 TRP A 197 SITE 4 AC1 27 TYR A 198 ASP A 228 GLY A 230 THR A 231 SITE 5 AC1 27 THR A 232 ARG A 235 HOH A 402 HOH A 418 SITE 6 AC1 27 HOH A 634 HOH C 9 HOH C 10 HOH C 11 SITE 7 AC1 27 HOH C 12 HOH C 14 HOH C 15 SITE 1 AC2 29 GLY B 11 GLN B 12 LEU B 30 ASP B 32 SITE 2 AC2 29 GLY B 34 PRO B 70 TYR B 71 THR B 72 SITE 3 AC2 29 GLN B 73 ILE B 110 GLU B 125 ARG B 128 SITE 4 AC2 29 TYR B 198 ASP B 228 GLY B 230 THR B 231 SITE 5 AC2 29 THR B 232 ASN B 233 ARG B 235 HOH B 407 SITE 6 AC2 29 HOH D 9 HOH D 10 HOH D 11 HOH D 12 SITE 7 AC2 29 HOH D 13 HOH D 16 HOH D 17 HOH D 19 SITE 8 AC2 29 HOH D 683 CRYST1 86.333 89.912 130.794 90.00 90.00 90.00 P 21 21 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 0.011583 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011122 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007646 0.00000