PDB Short entry for 2OHS HEADER HYDROLASE 10-JAN-07 2OHS TITLE X-RAY CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 6B CAVEAT 2OHS CHIRALITY ERRORS AT RESIDUE A 106 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-SECRETASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PROTEASE DOMAIN; 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; COMPND 8 EC: 3.4.23.46; COMPND 9 ENGINEERED: YES; COMPND 10 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; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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: PET KEYWDS ALTERNATIVE SPLICING, ALZHEIMER'S DISEASE, ASPARTIC PROTEASE, KEYWDS 2 ASPARTYL PROTEASE, BASE, BETA-SECRETASE, GLYCOPROTEIN, HYDROLASE, KEYWDS 3 MEMAPSIN 2, TRANSMEMBRANE, ZYMOGEN EXPDTA X-RAY DIFFRACTION AUTHOR S.PATEL REVDAT 6 30-AUG-23 2OHS 1 REMARK REVDAT 5 20-OCT-21 2OHS 1 REMARK SEQADV REVDAT 4 18-OCT-17 2OHS 1 REMARK REVDAT 3 24-FEB-09 2OHS 1 VERSN REVDAT 2 01-MAY-07 2OHS 1 JRNL REVDAT 1 13-MAR-07 2OHS 0 JRNL AUTH M.CONGREVE,D.AHARONY,J.ALBERT,O.CALLAGHAN,J.CAMPBELL, JRNL AUTH 2 R.A.CARR,G.CHESSARI,S.COWAN,P.D.EDWARDS,M.FREDERICKSON, JRNL AUTH 3 R.MCMENAMIN,C.W.MURRAY,S.PATEL,N.WALLIS JRNL TITL APPLICATION OF FRAGMENT SCREENING BY X-RAY CRYSTALLOGRAPHY JRNL TITL 2 TO THE DISCOVERY OF AMINOPYRIDINES AS INHIBITORS OF JRNL TITL 3 BETA-SECRETASE. JRNL REF J.MED.CHEM. V. 50 1124 2007 JRNL REFN ISSN 0022-2623 JRNL PMID 17315857 JRNL DOI 10.1021/JM061197U REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019G 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) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 18681 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 947 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) : 2.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1148 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2260 REMARK 3 BIN FREE R VALUE SET COUNT : 59 REMARK 3 BIN FREE R VALUE : 0.3610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2948 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 209 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.93000 REMARK 3 B22 (A**2) : -0.93000 REMARK 3 B33 (A**2) : 1.39000 REMARK 3 B12 (A**2) : -0.46000 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): 0.369 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.270 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.176 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.784 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.897 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3054 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2049 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4151 ; 1.478 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4959 ; 0.988 ; 2.991 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 372 ; 6.872 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;34.052 ;23.678 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 482 ;16.474 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;17.123 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 448 ; 0.154 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3421 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 656 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 599 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2172 ; 0.205 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1490 ; 0.191 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1631 ; 0.089 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 48 ; 0.185 ; 0.200 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): 20 ; 0.197 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 49 ; 0.254 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.118 ; 0.200 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): 1856 ; 0.062 ; 5.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 761 ; 0.022 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3003 ; 0.091 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1198 ; 0.100 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1148 ; 0.127 ; 7.500 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2OHS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000041152. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-FEB-04 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 : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93100 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18681 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 50.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.11800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> 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 <I/SIGMA(I)> 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: C-SEARCH (IN-HOUSE MR PROGRAM REMARK 200 STARTING MODEL: PDB ENTRY 1W50 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20-22.5% (W/V) PEG 5000 REMARK 280 MONOMETHYLETHER (MME), 200 MM SODIUM CITRATE (PH 6.6), 200 MM REMARK 280 AMMONIUM IODIDE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 56.78500 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 113.57000 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 85.17750 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 141.96250 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 28.39250 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 56.78500 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 113.57000 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 141.96250 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 85.17750 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 28.39250 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: THE BIOLOGICAL ASSEMBLY IS A MONOMER 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 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 554 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 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 LYS A -5 REMARK 465 LYS A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 GLY A 158 REMARK 465 PHE A 159 REMARK 465 PRO A 160 REMARK 465 LEU A 161 REMARK 465 ASN A 162 REMARK 465 GLN A 163 REMARK 465 SER A 164 REMARK 465 GLU A 165 REMARK 465 VAL A 166 REMARK 465 LEU A 167 REMARK 465 ALA A 168 REMARK 465 SER A 169 REMARK 465 VAL A 170 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 390 O HOH A 464 2.04 REMARK 500 NE2 HIS A 360 O HOH A 396 2.15 REMARK 500 OE1 GLU A 125 O HOH A 517 2.17 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 ASP A 106 CB - CA - C ANGL. DEV. = 12.8 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 LYS A 75 164.22 177.55 REMARK 500 HIS A 89 48.57 -109.11 REMARK 500 PHE A 108 -64.80 -103.82 REMARK 500 CYS A 155 -106.33 -108.13 REMARK 500 TRP A 197 -86.36 -142.61 REMARK 500 ARG A 205 144.75 -172.23 REMARK 500 GLU A 310 -141.38 -78.82 REMARK 500 ASP A 311 103.43 -51.42 REMARK 500 VAL A 312 -107.03 -86.89 REMARK 500 THR A 314 80.14 -152.67 REMARK 500 GLN A 316 25.40 -142.98 REMARK 500 ASP A 317 -150.45 -109.54 REMARK 500 LYS A 350 57.58 36.44 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 THERE IS AN EXTRA ATOM H21 IN MOLECULE 9IP. AUTHOR STATES REMARK 600 THAT THE MOLECULE 9IP IS PROTONATED (CHARGED) UNDER THE REMARK 600 PH CONDITIONS OF THE EXPERIMENT, AND THIS PROTONATION REMARK 600 STATE IS CRITICAL TO THE BINDING MODE OBSERVED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 386 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 387 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 388 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 9IP A 389 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2OF0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 5 REMARK 900 RELATED ID: 2OHK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH 1-AMINO- REMARK 900 ISOQUINOLINE REMARK 900 RELATED ID: 2OHL RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH 2-AMINOQUINOLINE REMARK 900 RELATED ID: 2OHM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH 2,3- REMARK 900 DIAMINOPYRIDINE REMARK 900 RELATED ID: 2OHN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 4 REMARK 900 RELATED ID: 2OHP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 3 REMARK 900 RELATED ID: 2OHQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 4 REMARK 900 RELATED ID: 2OHR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 6A REMARK 900 RELATED ID: 2OHT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 7 REMARK 900 RELATED ID: 2OHU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 8B DBREF 2OHS A -16 385 UNP P56817 BACE1_HUMAN 45 446 SEQADV 2OHS LYS A -5 UNP P56817 ARG 56 ENGINEERED MUTATION SEQADV 2OHS LYS A -4 UNP P56817 ARG 57 ENGINEERED MUTATION SEQRES 1 A 402 ARG GLU THR ASP GLU GLU PRO GLU GLU PRO GLY LYS LYS SEQRES 2 A 402 GLY SER PHE VAL GLU MET VAL ASP ASN LEU ARG GLY LYS SEQRES 3 A 402 SER GLY GLN GLY TYR TYR VAL GLU MET THR VAL GLY SER SEQRES 4 A 402 PRO PRO GLN THR LEU ASN ILE LEU VAL ASP THR GLY SER SEQRES 5 A 402 SER ASN PHE ALA VAL GLY ALA ALA PRO HIS PRO PHE LEU SEQRES 6 A 402 HIS ARG TYR TYR GLN ARG GLN LEU SER SER THR TYR ARG SEQRES 7 A 402 ASP LEU ARG LYS GLY VAL TYR VAL PRO TYR THR GLN GLY SEQRES 8 A 402 LYS TRP GLU GLY GLU LEU GLY THR ASP LEU VAL SER ILE SEQRES 9 A 402 PRO HIS GLY PRO ASN VAL THR VAL ARG ALA ASN ILE ALA SEQRES 10 A 402 ALA ILE THR GLU SER ASP LYS PHE PHE ILE ASN GLY SER SEQRES 11 A 402 ASN TRP GLU GLY ILE LEU GLY LEU ALA TYR ALA GLU ILE SEQRES 12 A 402 ALA ARG PRO ASP ASP SER LEU GLU PRO PHE PHE ASP SER SEQRES 13 A 402 LEU VAL LYS GLN THR HIS VAL PRO ASN LEU PHE SER LEU SEQRES 14 A 402 GLN LEU CYS GLY ALA GLY PHE PRO LEU ASN GLN SER GLU SEQRES 15 A 402 VAL LEU ALA SER VAL GLY GLY SER MET ILE ILE GLY GLY SEQRES 16 A 402 ILE ASP HIS SER LEU TYR THR GLY SER LEU TRP TYR THR SEQRES 17 A 402 PRO ILE ARG ARG GLU TRP TYR TYR GLU VAL ILE ILE VAL SEQRES 18 A 402 ARG VAL GLU ILE ASN GLY GLN ASP LEU LYS MET ASP CYS SEQRES 19 A 402 LYS GLU TYR ASN TYR ASP LYS SER ILE VAL ASP SER GLY SEQRES 20 A 402 THR THR ASN LEU ARG LEU PRO LYS LYS VAL PHE GLU ALA SEQRES 21 A 402 ALA VAL LYS SER ILE LYS ALA ALA SER SER THR GLU LYS SEQRES 22 A 402 PHE PRO ASP GLY PHE TRP LEU GLY GLU GLN LEU VAL CYS SEQRES 23 A 402 TRP GLN ALA GLY THR THR PRO TRP ASN ILE PHE PRO VAL SEQRES 24 A 402 ILE SER LEU TYR LEU MET GLY GLU VAL THR ASN GLN SER SEQRES 25 A 402 PHE ARG ILE THR ILE LEU PRO GLN GLN TYR LEU ARG PRO SEQRES 26 A 402 VAL GLU ASP VAL ALA THR SER GLN ASP ASP CYS TYR LYS SEQRES 27 A 402 PHE ALA ILE SER GLN SER SER THR GLY THR VAL MET GLY SEQRES 28 A 402 ALA VAL ILE MET GLU GLY PHE TYR VAL VAL PHE ASP ARG SEQRES 29 A 402 ALA ARG LYS ARG ILE GLY PHE ALA VAL SER ALA CYS HIS SEQRES 30 A 402 VAL HIS ASP GLU PHE ARG THR ALA ALA VAL GLU GLY PRO SEQRES 31 A 402 PHE VAL THR LEU ASP MET GLU ASP CYS GLY TYR ASN HET IOD A 386 1 HET IOD A 387 1 HET DMS A 388 4 HET 9IP A 389 42 HETNAM IOD IODIDE ION HETNAM DMS DIMETHYL SULFOXIDE HETNAM 9IP N~3~-[3-(5-METHOXYPYRIDIN-3-YL)BENZYL]PYRIDINE-2,3- HETNAM 2 9IP DIAMINE FORMUL 2 IOD 2(I 1-) FORMUL 4 DMS C2 H6 O S FORMUL 5 9IP C18 H18 N4 O FORMUL 6 HOH *209(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 ASP A 180 SER A 182 5 3 HELIX 5 5 ASP A 216 TYR A 222 5 7 HELIX 6 6 LYS A 238 SER A 252 1 15 HELIX 7 7 PRO A 258 LEU A 263 1 6 HELIX 8 8 PRO A 276 PHE A 280 5 5 HELIX 9 9 LEU A 301 TYR A 305 1 5 HELIX 10 10 GLY A 334 GLU A 339 1 6 HELIX 11 11 MET A 379 GLY A 383 5 5 SHEET 1 A 8 LEU A 6 LYS A 9 0 SHEET 2 A 8 GLY A 13 VAL A 20 -1 O TYR A 15 N ARG A 7 SHEET 3 A 8 GLN A 25 ASP A 32 -1 O VAL A 31 N TYR A 14 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 VAL A 95 ASP A 106 1 O ILE A 102 N VAL A 40 SHEET 7 A 8 LYS A 75 SER A 86 -1 N LYS A 75 O ASP A 106 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 TYR A 15 N ARG A 7 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 GLU A 200 VAL A 201 0 SHEET 2 D 5 SER A 225 VAL A 227 -1 O SER A 225 N VAL A 201 SHEET 3 D 5 VAL A 332 MET A 333 1 O MET A 333 N ILE A 226 SHEET 4 D 5 LEU A 234 PRO A 237 -1 N ARG A 235 O VAL A 332 SHEET 5 D 5 ILE A 324 SER A 327 1 O SER A 327 N LEU A 236 SHEET 1 E 5 GLN A 211 ASP A 212 0 SHEET 2 E 5 ILE A 203 ILE A 208 -1 N ILE A 208 O GLN A 211 SHEET 3 E 5 ILE A 283 MET A 288 -1 O TYR A 286 N ARG A 205 SHEET 4 E 5 GLN A 294 ILE A 300 -1 O ILE A 300 N ILE A 283 SHEET 5 E 5 ALA A 369 VAL A 375 -1 O GLU A 371 N ARG A 297 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 SSBOND 1 CYS A 155 CYS A 359 1555 1555 2.00 SSBOND 2 CYS A 217 CYS A 382 1555 1555 2.04 SSBOND 3 CYS A 269 CYS A 319 1555 1555 2.02 CISPEP 1 SER A 22 PRO A 23 0 2.41 CISPEP 2 ARG A 128 PRO A 129 0 4.97 CISPEP 3 TYR A 222 ASP A 223 0 3.38 CISPEP 4 GLY A 372 PRO A 373 0 -0.21 SITE 1 AC1 2 SER A 105 HOH A 531 SITE 1 AC2 2 HIS A 45 LYS A 107 SITE 1 AC3 2 ARG A 96 ASN A 98 SITE 1 AC4 14 SER A 10 GLY A 11 GLY A 13 ASP A 32 SITE 2 AC4 14 GLY A 34 GLN A 73 LYS A 107 PHE A 108 SITE 3 AC4 14 ILE A 118 ASP A 228 SER A 229 GLY A 230 SITE 4 AC4 14 THR A 231 HOH A 530 CRYST1 101.303 101.303 170.355 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 0.009871 0.005699 0.000000 0.00000 SCALE2 0.000000 0.011398 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005870 0.00000