PDB Short entry for 3WB4 HEADER HYDROLASE 13-MAY-13 3WB4 TITLE CRYSTAL STRUCTURE OF BETA SECETASE IN COMPLEX WITH 2-AMINO-3,6- TITLE 2 DIMETHYL-6-(2-PHENYLETHYL)-3,4,5,6-TETRAHYDROPYRIMIDIN-4-ONE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-SECRETASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ACTIVE PROTEASE DOMAIN, UNP RESIDUES 43-454; 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; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS PROTEASE 2, ASP2, MEMBRANE-ASSOCIATED ASPARTIC PROTEASE 2, MEMAPSIN- KEYWDS 2 2, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.YONEZAWA,K.FUJIWARA,T.YAMAMOTO,K.HATTORI,H.YAMAKAWA,C.MUTO, AUTHOR 2 M.HOSONO,Y.TANAKA,T.NAKANO,H.TAKEMOTO,M.ARISAWA,S.SHUTO REVDAT 3 22-NOV-17 3WB4 1 REMARK REVDAT 2 23-OCT-13 3WB4 1 JRNL REVDAT 1 02-OCT-13 3WB4 0 JRNL AUTH S.YONEZAWA,K.FUJIWARA,T.YAMAMOTO,K.HATTORI,H.YAMAKAWA, JRNL AUTH 2 C.MUTO,M.HOSONO,Y.TANAKA,T.NAKANO,H.TAKEMOTO,M.ARISAWA, JRNL AUTH 3 S.SHUTO JRNL TITL CONFORMATIONAL RESTRICTION APPROACH TO BETA-SECRETASE JRNL TITL 2 (BACE1) INHIBITORS III: EFFECTIVE INVESTIGATION OF THE JRNL TITL 3 BINDING MODE BY COMBINATIONAL USE OF X-RAY ANALYSIS, JRNL TITL 4 ISOTHERMAL TITRATION CALORIMETRY AND THEORETICAL JRNL TITL 5 CALCULATIONS JRNL REF BIOORG.MED.CHEM. V. 21 6506 2013 JRNL REFN ISSN 0968-0896 JRNL PMID 24051074 JRNL DOI 10.1016/J.BMC.2013.08.036 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.1_1168 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.46 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 3 NUMBER OF REFLECTIONS : 24359 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.140 REMARK 3 FREE R VALUE TEST SET COUNT : 1253 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 33.4591 - 4.6765 0.94 2760 127 0.2154 0.2462 REMARK 3 2 4.6765 - 3.7134 0.95 2623 146 0.1731 0.2122 REMARK 3 3 3.7134 - 3.2445 0.96 2583 154 0.1925 0.2399 REMARK 3 4 3.2445 - 2.9480 0.96 2536 176 0.2189 0.2379 REMARK 3 5 2.9480 - 2.7368 0.96 2554 133 0.2398 0.3475 REMARK 3 6 2.7368 - 2.5755 0.95 2537 123 0.2432 0.3053 REMARK 3 7 2.5755 - 2.4466 0.95 2522 133 0.2407 0.2761 REMARK 3 8 2.4466 - 2.3401 0.95 2503 140 0.2437 0.2770 REMARK 3 9 2.3401 - 2.2500 0.95 2488 121 0.2283 0.3176 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.090 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.99 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 2814 REMARK 3 ANGLE : 1.352 3820 REMARK 3 CHIRALITY : 0.094 425 REMARK 3 PLANARITY : 0.005 490 REMARK 3 DIHEDRAL : 15.056 971 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -1 THROUGH 168 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.8321 28.0896 -4.3430 REMARK 3 T TENSOR REMARK 3 T11: 0.2193 T22: 0.1725 REMARK 3 T33: 0.1980 T12: -0.0454 REMARK 3 T13: 0.0541 T23: -0.0913 REMARK 3 L TENSOR REMARK 3 L11: 5.0969 L22: 2.3180 REMARK 3 L33: 3.4130 L12: -1.4608 REMARK 3 L13: -3.1568 L23: 1.1558 REMARK 3 S TENSOR REMARK 3 S11: -0.3267 S12: 0.3553 S13: -0.5742 REMARK 3 S21: 0.1276 S22: -0.0574 S23: 0.1613 REMARK 3 S31: 0.3820 S32: -0.1560 S33: 0.1745 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 169 THROUGH 282 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.7367 51.1151 1.6380 REMARK 3 T TENSOR REMARK 3 T11: 0.3632 T22: 0.3209 REMARK 3 T33: 0.5010 T12: 0.0795 REMARK 3 T13: 0.2291 T23: 0.1768 REMARK 3 L TENSOR REMARK 3 L11: 4.1201 L22: 1.7885 REMARK 3 L33: 3.0507 L12: -2.3184 REMARK 3 L13: -2.5136 L23: 1.3638 REMARK 3 S TENSOR REMARK 3 S11: 0.7233 S12: 0.6394 S13: 1.2114 REMARK 3 S21: -0.4403 S22: -0.2008 S23: -0.7528 REMARK 3 S31: -0.6608 S32: -0.2687 S33: -0.1856 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 283 THROUGH 385 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.5301 48.7711 6.6741 REMARK 3 T TENSOR REMARK 3 T11: 0.1793 T22: 0.2432 REMARK 3 T33: 0.4069 T12: -0.0187 REMARK 3 T13: 0.0867 T23: -0.0129 REMARK 3 L TENSOR REMARK 3 L11: 4.9343 L22: 3.5165 REMARK 3 L33: 2.6923 L12: -3.7002 REMARK 3 L13: -2.0981 L23: 1.0649 REMARK 3 S TENSOR REMARK 3 S11: 0.2947 S12: 0.0309 S13: 1.2109 REMARK 3 S21: -0.1938 S22: -0.0680 S23: -1.1470 REMARK 3 S31: -0.1128 S32: 0.0352 S33: -0.0056 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3WB4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000096113. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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 MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24378 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 200 DATA REDUNDANCY : 8.000 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.29 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 8.40 REMARK 200 R MERGE FOR SHELL (I) : 0.50100 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.164M NA3-CITRATE, 0.15M AMMONIUM REMARK 280 IODIDE, 22.8%(W/V) PEG5000MME, PH 6.5, VAPOR DIFFUSION, SITTING REMARK 280 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 56.66133 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 113.32267 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 84.99200 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 141.65333 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 28.33067 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 56.66133 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 113.32267 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 141.65333 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 84.99200 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 28.33067 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -22 REMARK 465 SER A -21 REMARK 465 HIS A -20 REMARK 465 MET A -19 REMARK 465 LEU A -18 REMARK 465 PRO 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 ARG 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 SER A 252 REMARK 465 SER A 253 REMARK 465 THR A 254 REMARK 465 GLY A 273 REMARK 465 THR A 274 REMARK 465 THR A 275 REMARK 465 PRO A 276 REMARK 465 TRP A 277 REMARK 465 GLU A 310 REMARK 465 ASP A 311 REMARK 465 VAL A 312 REMARK 465 ALA A 313 REMARK 465 THR A 314 REMARK 465 SER A 315 REMARK 465 GLN A 316 REMARK 465 ASP A 317 REMARK 465 ASP A 318 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 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 VAL A 0 CG1 CG2 REMARK 470 ARG A 7 NH1 NH2 REMARK 470 LYS A 9 CE NZ REMARK 470 ARG A 64 CD NE CZ NH1 NH2 REMARK 470 LYS A 65 CD CE NZ REMARK 470 GLN A 73 CD OE1 NE2 REMARK 470 GLU A 77 CD OE1 OE2 REMARK 470 GLU A 104 CD OE1 OE2 REMARK 470 LYS A 142 CE NZ REMARK 470 ASN A 209 CG OD1 ND2 REMARK 470 GLN A 211 CD OE1 NE2 REMARK 470 LYS A 214 CG CD CE NZ REMARK 470 LYS A 224 CE NZ REMARK 470 LYS A 238 CG CD CE NZ REMARK 470 LYS A 239 CE NZ REMARK 470 VAL A 245 CG1 CG2 REMARK 470 LYS A 246 CG CD CE NZ REMARK 470 LYS A 249 CG CD CE NZ REMARK 470 LYS A 256 CG CD CE NZ REMARK 470 PHE A 257 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASP A 259 CG OD1 OD2 REMARK 470 GLN A 266 CG CD OE1 NE2 REMARK 470 VAL A 268 CG1 CG2 REMARK 470 TRP A 270 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 270 CZ3 CH2 REMARK 470 GLN A 271 CG CD OE1 NE2 REMARK 470 ILE A 279 CG1 CG2 CD1 REMARK 470 PHE A 280 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 307 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 309 CG1 CG2 REMARK 470 GLN A 326 CG CD OE1 NE2 REMARK 470 GLU A 364 CG CD OE1 OE2 REMARK 470 PHE A 365 CB CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 380 CG CD OE1 OE2 REMARK 470 TYR A 384 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASN A 385 CG OD1 ND2 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 TYR A 71 -169.75 -126.61 REMARK 500 GLN A 73 -81.43 -97.56 REMARK 500 HIS A 89 44.28 -97.98 REMARK 500 ASN A 92 69.17 -100.05 REMARK 500 TRP A 197 -85.28 -138.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0B3 A 507 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WB5 RELATED DB: PDB DBREF 3WB4 A -18 393 UNP P56817 BACE1_HUMAN 43 454 SEQADV 3WB4 GLY A -22 UNP P56817 EXPRESSION TAG SEQADV 3WB4 SER A -21 UNP P56817 EXPRESSION TAG SEQADV 3WB4 HIS A -20 UNP P56817 EXPRESSION TAG SEQADV 3WB4 MET A -19 UNP P56817 EXPRESSION TAG SEQRES 1 A 416 GLY SER HIS MET LEU PRO ARG GLU THR ASP GLU GLU PRO SEQRES 2 A 416 GLU GLU PRO GLY ARG ARG GLY SER PHE VAL GLU MET VAL SEQRES 3 A 416 ASP ASN LEU ARG GLY LYS SER GLY GLN GLY TYR TYR VAL SEQRES 4 A 416 GLU MET THR VAL GLY SER PRO PRO GLN THR LEU ASN ILE SEQRES 5 A 416 LEU VAL ASP THR GLY SER SER ASN PHE ALA VAL GLY ALA SEQRES 6 A 416 ALA PRO HIS PRO PHE LEU HIS ARG TYR TYR GLN ARG GLN SEQRES 7 A 416 LEU SER SER THR TYR ARG ASP LEU ARG LYS GLY VAL TYR SEQRES 8 A 416 VAL PRO TYR THR GLN GLY LYS TRP GLU GLY GLU LEU GLY SEQRES 9 A 416 THR ASP LEU VAL SER ILE PRO HIS GLY PRO ASN VAL THR SEQRES 10 A 416 VAL ARG ALA ASN ILE ALA ALA ILE THR GLU SER ASP LYS SEQRES 11 A 416 PHE PHE ILE ASN GLY SER ASN TRP GLU GLY ILE LEU GLY SEQRES 12 A 416 LEU ALA TYR ALA GLU ILE ALA ARG PRO ASP ASP SER LEU SEQRES 13 A 416 GLU PRO PHE PHE ASP SER LEU VAL LYS GLN THR HIS VAL SEQRES 14 A 416 PRO ASN LEU PHE SER LEU GLN LEU CYS GLY ALA GLY PHE SEQRES 15 A 416 PRO LEU ASN GLN SER GLU VAL LEU ALA SER VAL GLY GLY SEQRES 16 A 416 SER MET ILE ILE GLY GLY ILE ASP HIS SER LEU TYR THR SEQRES 17 A 416 GLY SER LEU TRP TYR THR PRO ILE ARG ARG GLU TRP TYR SEQRES 18 A 416 TYR GLU VAL ILE ILE VAL ARG VAL GLU ILE ASN GLY GLN SEQRES 19 A 416 ASP LEU LYS MET ASP CYS LYS GLU TYR ASN TYR ASP LYS SEQRES 20 A 416 SER ILE VAL ASP SER GLY THR THR ASN LEU ARG LEU PRO SEQRES 21 A 416 LYS LYS VAL PHE GLU ALA ALA VAL LYS SER ILE LYS ALA SEQRES 22 A 416 ALA SER SER THR GLU LYS PHE PRO ASP GLY PHE TRP LEU SEQRES 23 A 416 GLY GLU GLN LEU VAL CYS TRP GLN ALA GLY THR THR PRO SEQRES 24 A 416 TRP ASN ILE PHE PRO VAL ILE SER LEU TYR LEU MET GLY SEQRES 25 A 416 GLU VAL THR ASN GLN SER PHE ARG ILE THR ILE LEU PRO SEQRES 26 A 416 GLN GLN TYR LEU ARG PRO VAL GLU ASP VAL ALA THR SER SEQRES 27 A 416 GLN ASP ASP CYS TYR LYS PHE ALA ILE SER GLN SER SER SEQRES 28 A 416 THR GLY THR VAL MET GLY ALA VAL ILE MET GLU GLY PHE SEQRES 29 A 416 TYR VAL VAL PHE ASP ARG ALA ARG LYS ARG ILE GLY PHE SEQRES 30 A 416 ALA VAL SER ALA CYS HIS VAL HIS ASP GLU PHE ARG THR SEQRES 31 A 416 ALA ALA VAL GLU GLY PRO PHE VAL THR LEU ASP MET GLU SEQRES 32 A 416 ASP CYS GLY TYR ASN ILE PRO GLN THR ASP GLU SER THR HET GOL A 501 6 HET GOL A 502 6 HET GOL A 503 6 HET GOL A 504 6 HET IOD A 505 1 HET IOD A 506 1 HET 0B3 A 507 18 HETNAM GOL GLYCEROL HETNAM IOD IODIDE ION HETNAM 0B3 (6R)-2-AMINO-3,6-DIMETHYL-6-(2-PHENYLETHYL)-5,6- HETNAM 2 0B3 DIHYDROPYRIMIDIN-4(3H)-ONE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 4(C3 H8 O3) FORMUL 6 IOD 2(I 1-) FORMUL 8 0B3 C14 H19 N3 O FORMUL 9 HOH *101(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 ALA A 251 1 14 HELIX 7 7 PRO A 258 LEU A 263 1 6 HELIX 8 8 LEU A 301 TYR A 305 1 5 HELIX 9 9 GLY A 334 GLU A 339 1 6 HELIX 10 10 MET A 379 GLY A 383 5 5 SHEET 1 A 9 ARG A 61 PRO A 70 0 SHEET 2 A 9 LYS A 75 SER A 86 -1 O LEU A 80 N LYS A 65 SHEET 3 A 9 TYR A 14 VAL A 20 -1 N THR A 19 O SER A 86 SHEET 4 A 9 LEU A 6 LYS A 9 -1 N ARG A 7 O TYR A 15 SHEET 5 A 9 SER A 169 ILE A 176 -1 O VAL A 170 N GLY A 8 SHEET 6 A 9 PHE A 150 LEU A 154 -1 N GLN A 153 O SER A 173 SHEET 7 A 9 PHE A 341 ASP A 346 -1 O VAL A 343 N LEU A 152 SHEET 8 A 9 ARG A 351 SER A 357 -1 O ALA A 355 N TYR A 342 SHEET 9 A 9 TYR A 184 PRO A 192 -1 N THR A 191 O ILE A 352 SHEET 1 B13 ARG A 61 PRO A 70 0 SHEET 2 B13 LYS A 75 SER A 86 -1 O LEU A 80 N LYS A 65 SHEET 3 B13 VAL A 95 ASP A 106 -1 O GLU A 104 N GLU A 77 SHEET 4 B13 PHE A 38 GLY A 41 1 N VAL A 40 O ILE A 102 SHEET 5 B13 GLY A 117 GLY A 120 -1 O ILE A 118 N ALA A 39 SHEET 6 B13 GLN A 25 ASP A 32 1 N LEU A 30 O LEU A 119 SHEET 7 B13 TYR A 14 VAL A 20 -1 N TYR A 14 O VAL A 31 SHEET 8 B13 LEU A 6 LYS A 9 -1 N ARG A 7 O TYR A 15 SHEET 9 B13 SER A 169 ILE A 176 -1 O VAL A 170 N GLY A 8 SHEET 10 B13 PHE A 150 LEU A 154 -1 N GLN A 153 O SER A 173 SHEET 11 B13 PHE A 341 ASP A 346 -1 O VAL A 343 N LEU A 152 SHEET 12 B13 ARG A 351 SER A 357 -1 O ALA A 355 N TYR A 342 SHEET 13 B13 TYR A 184 PRO A 192 -1 N THR A 191 O ILE A 352 SHEET 1 C 5 GLN A 211 ASP A 212 0 SHEET 2 C 5 ILE A 203 ILE A 208 -1 N ILE A 208 O GLN A 211 SHEET 3 C 5 ILE A 283 MET A 288 -1 O TYR A 286 N ARG A 205 SHEET 4 C 5 GLN A 294 ILE A 300 -1 O ILE A 298 N LEU A 285 SHEET 5 C 5 ALA A 369 VAL A 375 -1 O GLU A 371 N ARG A 297 SHEET 1 D 4 SER A 225 VAL A 227 0 SHEET 2 D 4 THR A 331 MET A 333 1 O MET A 333 N ILE A 226 SHEET 3 D 4 LEU A 234 PRO A 237 -1 N ARG A 235 O VAL A 332 SHEET 4 D 4 ILE A 324 SER A 327 1 O SER A 325 N LEU A 236 SHEET 1 E 2 LEU A 306 ARG A 307 0 SHEET 2 E 2 LYS A 321 PHE A 322 -1 O LYS A 321 N ARG A 307 SSBOND 1 CYS A 155 CYS A 359 1555 1555 2.05 SSBOND 2 CYS A 217 CYS A 382 1555 1555 2.07 SSBOND 3 CYS A 269 CYS A 319 1555 1555 2.04 CISPEP 1 SER A 22 PRO A 23 0 -2.32 CISPEP 2 ARG A 128 PRO A 129 0 3.22 CISPEP 3 TYR A 222 ASP A 223 0 6.79 CISPEP 4 GLY A 372 PRO A 373 0 -2.98 SITE 1 AC1 8 SER A 10 GLY A 11 GLN A 12 GLY A 13 SITE 2 AC1 8 VAL A 170 THR A 232 ALA A 335 GLU A 339 SITE 1 AC2 4 GLU A 17 ASN A 28 ARG A 50 ASN A 114 SITE 1 AC3 4 TYR A 51 GLN A 53 SER A 187 HOH A1072 SITE 1 AC4 4 LEU A 56 HIS A 181 TYR A 184 GLY A 186 SITE 1 AC5 1 ARG A 96 SITE 1 AC6 1 LYS A 75 SITE 1 AC7 7 ASP A 32 TYR A 71 PHE A 108 ILE A 118 SITE 2 AC7 7 ASP A 228 GLY A 230 THR A 231 CRYST1 102.208 102.208 169.984 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 0.009784 0.005649 0.000000 0.00000 SCALE2 0.000000 0.011298 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005883 0.00000