HEADER HYDROLASE 05-DEC-07 2ZE1 TITLE X-RAY STRUCTURE OF BACE-1 IN COMPLEX WITH COMPOUND 6G COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-SECRETASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 46-454; COMPND 5 SYNONYM: BETA-SITE APP CLEAVING ENZYME 1, BETA-SITE COMPND 6 AMYLOID PRECURSOR PROTEIN CLEAVING ENZYME 1, MEMBRANE- COMPND 7 ASSOCIATED ASPARTIC PROTEASE 2, MEMAPSIN-2, ASPARTYL COMPND 8 PROTEASE 2, ASP 2, ASP2; COMPND 9 EC: 3.4.23.46; COMPND 10 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; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BACE, ASPARTYL PROTEASE, ACYLGUANIDINE INHIBITOR, KEYWDS 2 ALTERNATIVE SPLICING, GLYCOPROTEIN, HYDROLASE, MEMBRANE, KEYWDS 3 TRANSMEMBRANE, ZYMOGEN EXPDTA X-RAY DIFFRACTION AUTHOR R.CHOPRA,A.OLLAND REVDAT 1 09-DEC-08 2ZE1 0 JRNL AUTH D.C.COLE,J.R.STOCK,R.CHOPRA,R.COWLING, JRNL AUTH 2 J.W.ELLINGBOE,K.Y.FAN,B.L.HARRISON,Y.HU,S.JACOBSEN, JRNL AUTH 3 L.D.JENNINGS,G.JIN,P.A.LOHSE,M.S.MALAMAS,E.S.MANAS, JRNL AUTH 4 W.J.MOORE,M.M.O'DONNELL,A.M.OLLAND,A.J.ROBICHAUD, JRNL AUTH 5 K.SVENSON,J.WU,E.WAGNER,J.BARD JRNL TITL ACYLGUANIDINE INHIBITORS OF BETA-SECRETASE: JRNL TITL 2 OPTIMIZATION OF THE PYRROLE RING SUBSTITUENTS JRNL TITL 3 EXTENDING INTO THE S1 AND S3 SUBSTRATE BINDING JRNL TITL 4 POCKETS. JRNL REF BIOORG.MED.CHEM.LETT. V. 18 1063 2008 JRNL REFN ISSN 0960-894X JRNL PMID 18162398 JRNL DOI 10.1016/J.BMCL.2007.12.010 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 87.8 REMARK 3 NUMBER OF REFLECTIONS : 11136 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) : 0.250 REMARK 3 R VALUE (WORKING SET) : 0.248 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 863 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1051 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.27 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 64 REMARK 3 BIN FREE R VALUE : 0.4300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2846 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 86 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.90000 REMARK 3 B22 (A**2) : -0.38000 REMARK 3 B33 (A**2) : 1.19000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.56000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.495 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.292 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.222 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 19.455 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.913 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.877 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2959 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4020 ; 1.288 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 355 ; 5.818 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 134 ;36.351 ;23.507 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 462 ;17.380 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;20.464 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 431 ; 0.136 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2280 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1294 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1932 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 144 ; 0.159 ; 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): 36 ; 0.225 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.111 ; 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): 1830 ; 0.514 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2880 ; 0.918 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1318 ; 0.914 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1140 ; 1.448 ; 4.500 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 61 A 446 REMARK 3 ORIGIN FOR THE GROUP (A): 16.1407 -0.5946 10.0198 REMARK 3 T TENSOR REMARK 3 T11: -0.0247 T22: -0.0285 REMARK 3 T33: -0.0335 T12: 0.0086 REMARK 3 T13: 0.0102 T23: -0.0025 REMARK 3 L TENSOR REMARK 3 L11: 0.7742 L22: 1.1705 REMARK 3 L33: 0.0559 L12: 0.6672 REMARK 3 L13: 0.1865 L23: 0.0800 REMARK 3 S TENSOR REMARK 3 S11: 0.0552 S12: 0.0468 S13: 0.0331 REMARK 3 S21: 0.0972 S22: -0.0405 S23: 0.0532 REMARK 3 S31: 0.0099 S32: -0.0227 S33: -0.0147 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 462 A 547 REMARK 3 ORIGIN FOR THE GROUP (A): 17.0516 -4.5017 9.8280 REMARK 3 T TENSOR REMARK 3 T11: -0.0124 T22: 0.0328 REMARK 3 T33: 0.0242 T12: -0.0048 REMARK 3 T13: 0.0297 T23: 0.0366 REMARK 3 L TENSOR REMARK 3 L11: 0.1184 L22: 0.0855 REMARK 3 L33: 0.1248 L12: 0.1006 REMARK 3 L13: 0.1216 L23: 0.1033 REMARK 3 S TENSOR REMARK 3 S11: -0.0278 S12: -0.0093 S13: 0.0242 REMARK 3 S21: 0.0688 S22: 0.0130 S23: -0.0549 REMARK 3 S31: 0.0105 S32: -0.0486 S33: 0.0148 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 1 REMARK 3 ORIGIN FOR THE GROUP (A): 12.9848 -7.1538 16.2705 REMARK 3 T TENSOR REMARK 3 T11: 0.1115 T22: 0.1010 REMARK 3 T33: 0.0581 T12: -0.1148 REMARK 3 T13: -0.0309 T23: -0.1051 REMARK 3 L TENSOR REMARK 3 L11: 22.0486 L22: 23.5351 REMARK 3 L33: 21.3380 L12: -6.3574 REMARK 3 L13: -8.8197 L23: -9.2683 REMARK 3 S TENSOR REMARK 3 S11: -0.5339 S12: -0.9705 S13: -1.0294 REMARK 3 S21: -0.5061 S22: 0.6363 S23: 0.5349 REMARK 3 S31: 0.8844 S32: -0.6644 S33: -0.1024 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 2ZE1 COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-JAN-08. REMARK 100 THE RCSB ID CODE IS RCSB027853. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-05 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 5.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER SMART 6000 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15940 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 59.760 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 0.9 REMARK 200 DATA REDUNDANCY : 1.300 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 2.0000 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 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 5.4, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 36.51300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.16050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 36.51300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 52.16050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 539 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 GLU A 47 REMARK 465 THR A 48 REMARK 465 ASP A 49 REMARK 465 GLU A 50 REMARK 465 GLU A 51 REMARK 465 PRO A 52 REMARK 465 GLU A 53 REMARK 465 GLU A 54 REMARK 465 PRO A 55 REMARK 465 GLY A 56 REMARK 465 ARG A 57 REMARK 465 ARG A 58 REMARK 465 GLY A 59 REMARK 465 SER A 60 REMARK 465 GLY A 70 REMARK 465 LYS A 71 REMARK 465 SER A 72 REMARK 465 GLY A 73 REMARK 465 PRO A 222 REMARK 465 LEU A 223 REMARK 465 ASN A 224 REMARK 465 GLN A 225 REMARK 465 SER A 226 REMARK 465 GLU A 227 REMARK 465 VAL A 228 REMARK 465 LEU A 229 REMARK 465 ALA A 230 REMARK 465 VAL A 371 REMARK 465 GLU A 372 REMARK 465 ASP A 373 REMARK 465 VAL A 374 REMARK 465 ALA A 375 REMARK 465 THR A 376 REMARK 465 SER A 377 REMARK 465 GLN A 378 REMARK 465 ASP A 379 REMARK 465 ASP A 380 REMARK 465 LEU A 439 REMARK 465 ASP A 440 REMARK 465 MET A 441 REMARK 465 ASN A 447 REMARK 465 ILE A 448 REMARK 465 PRO A 449 REMARK 465 GLN A 450 REMARK 465 THR A 451 REMARK 465 ASP A 452 REMARK 465 GLU A 453 REMARK 465 SER A 454 REMARK 465 THR A 455 REMARK 465 HIS A 456 REMARK 465 HIS A 457 REMARK 465 HIS A 458 REMARK 465 HIS A 459 REMARK 465 HIS A 460 REMARK 465 HIS A 461 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 PHE A 61 N PHE A 61 CA 0.270 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 ALA A 104 21.24 -140.21 REMARK 500 ARG A 126 72.80 44.32 REMARK 500 LYS A 127 134.23 -172.55 REMARK 500 THR A 134 88.84 -68.50 REMARK 500 GLN A 135 -42.71 145.42 REMARK 500 HIS A 151 57.00 -103.75 REMARK 500 ALA A 219 -91.63 -91.57 REMARK 500 TRP A 259 -85.21 -136.45 REMARK 500 CYS A 279 -39.62 -34.20 REMARK 500 ASP A 285 -58.09 103.19 REMARK 500 LYS A 286 165.38 179.00 REMARK 500 LYS A 300 -65.01 -27.34 REMARK 500 THR A 316 101.30 -54.10 REMARK 500 GLU A 317 122.74 65.67 REMARK 500 ALA A 334 -67.41 60.22 REMARK 500 THR A 337 110.23 -21.99 REMARK 500 ASN A 355 -40.58 128.37 REMARK 500 PHE A 407 75.09 -101.77 REMARK 500 PHE A 427 -33.44 -130.86 REMARK 500 ASP A 443 -80.58 61.58 REMARK 500 CYS A 444 -37.53 64.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 487 DISTANCE = 5.88 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 411 A 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2QU2 RELATED DB: PDB REMARK 900 RELATED ID: 2QU3 RELATED DB: PDB REMARK 900 RELATED ID: 2ZDZ RELATED DB: PDB DBREF 2ZE1 A 47 455 UNP P56817 BACE1_HUMAN 46 454 SEQADV 2ZE1 HIS A 456 UNP P56817 EXPRESSION TAG SEQADV 2ZE1 HIS A 457 UNP P56817 EXPRESSION TAG SEQADV 2ZE1 HIS A 458 UNP P56817 EXPRESSION TAG SEQADV 2ZE1 HIS A 459 UNP P56817 EXPRESSION TAG SEQADV 2ZE1 HIS A 460 UNP P56817 EXPRESSION TAG SEQADV 2ZE1 HIS A 461 UNP P56817 EXPRESSION TAG SEQRES 1 A 415 GLU THR ASP GLU GLU PRO GLU GLU PRO GLY ARG ARG GLY SEQRES 2 A 415 SER PHE VAL GLU MET VAL ASP ASN LEU ARG GLY LYS SER SEQRES 3 A 415 GLY GLN GLY TYR TYR VAL GLU MET THR VAL GLY SER PRO SEQRES 4 A 415 PRO GLN THR LEU ASN ILE LEU VAL ASP THR GLY SER SER SEQRES 5 A 415 ASN PHE ALA VAL GLY ALA ALA PRO HIS PRO PHE LEU HIS SEQRES 6 A 415 ARG TYR TYR GLN ARG GLN LEU SER SER THR TYR ARG ASP SEQRES 7 A 415 LEU ARG LYS GLY VAL TYR VAL PRO TYR THR GLN GLY LYS SEQRES 8 A 415 TRP GLU GLY GLU LEU GLY THR ASP LEU VAL SER ILE PRO SEQRES 9 A 415 HIS GLY PRO ASN VAL THR VAL ARG ALA ASN ILE ALA ALA SEQRES 10 A 415 ILE THR GLU SER ASP LYS PHE PHE ILE ASN GLY SER ASN SEQRES 11 A 415 TRP GLU GLY ILE LEU GLY LEU ALA TYR ALA GLU ILE ALA SEQRES 12 A 415 ARG PRO ASP ASP SER LEU GLU PRO PHE PHE ASP SER LEU SEQRES 13 A 415 VAL LYS GLN THR HIS VAL PRO ASN LEU PHE SER LEU GLN SEQRES 14 A 415 LEU CYS GLY ALA GLY PHE PRO LEU ASN GLN SER GLU VAL SEQRES 15 A 415 LEU ALA SER VAL GLY GLY SER MET ILE ILE GLY GLY ILE SEQRES 16 A 415 ASP HIS SER LEU TYR THR GLY SER LEU TRP TYR THR PRO SEQRES 17 A 415 ILE ARG ARG GLU TRP TYR TYR GLU VAL ILE ILE VAL ARG SEQRES 18 A 415 VAL GLU ILE ASN GLY GLN ASP LEU LYS MET ASP CYS LYS SEQRES 19 A 415 GLU TYR ASN TYR ASP LYS SER ILE VAL ASP SER GLY THR SEQRES 20 A 415 THR ASN LEU ARG LEU PRO LYS LYS VAL PHE GLU ALA ALA SEQRES 21 A 415 VAL LYS SER ILE LYS ALA ALA SER SER THR GLU LYS PHE SEQRES 22 A 415 PRO ASP GLY PHE TRP LEU GLY GLU GLN LEU VAL CYS TRP SEQRES 23 A 415 GLN ALA GLY THR THR PRO TRP ASN ILE PHE PRO VAL ILE SEQRES 24 A 415 SER LEU TYR LEU MET GLY GLU VAL THR ASN GLN SER PHE SEQRES 25 A 415 ARG ILE THR ILE LEU PRO GLN GLN TYR LEU ARG PRO VAL SEQRES 26 A 415 GLU ASP VAL ALA THR SER GLN ASP ASP CYS TYR LYS PHE SEQRES 27 A 415 ALA ILE SER GLN SER SER THR GLY THR VAL MET GLY ALA SEQRES 28 A 415 VAL ILE MET GLU GLY PHE TYR VAL VAL PHE ASP ARG ALA SEQRES 29 A 415 ARG LYS ARG ILE GLY PHE ALA VAL SER ALA CYS HIS VAL SEQRES 30 A 415 HIS ASP GLU PHE ARG THR ALA ALA VAL GLU GLY PRO PHE SEQRES 31 A 415 VAL THR LEU ASP MET GLU ASP CYS GLY TYR ASN ILE PRO SEQRES 32 A 415 GLN THR ASP GLU SER THR HIS HIS HIS HIS HIS HIS HET 411 A 1 34 HETNAM 411 3-BROMO-N-[4-[1-(2-CARBAMIMIDAMIDO-2-OXO-ETHYL)-5- HETNAM 2 411 PHENYL-PYRROL-2-YL]PHENYL]BENZAMIDE FORMUL 2 411 C26 H22 BR N5 O2 FORMUL 3 HOH *86(H2 O) HELIX 1 1 GLN A 115 SER A 119 5 5 HELIX 2 2 TYR A 185 ALA A 189 5 5 HELIX 3 3 PRO A 197 THR A 206 1 10 HELIX 4 4 ASP A 242 SER A 244 5 3 HELIX 5 5 ASP A 278 TYR A 282 5 5 HELIX 6 6 LYS A 300 SER A 314 1 15 HELIX 7 7 PRO A 320 LEU A 325 1 6 HELIX 8 8 PRO A 338 PHE A 342 5 5 HELIX 9 9 LEU A 363 TYR A 367 1 5 HELIX 10 10 GLY A 396 GLU A 401 1 6 SHEET 1 A 8 LEU A 68 ARG A 69 0 SHEET 2 A 8 TYR A 77 VAL A 82 -1 O TYR A 77 N ARG A 69 SHEET 3 A 8 GLN A 87 ASP A 94 -1 O ILE A 91 N VAL A 78 SHEET 4 A 8 GLY A 179 GLY A 182 1 O LEU A 181 N LEU A 92 SHEET 5 A 8 PHE A 100 GLY A 103 -1 N ALA A 101 O ILE A 180 SHEET 6 A 8 VAL A 157 ASP A 168 1 O ILE A 164 N VAL A 102 SHEET 7 A 8 GLY A 136 SER A 148 -1 N GLU A 139 O GLU A 166 SHEET 8 A 8 ARG A 123 TYR A 133 -1 N LYS A 127 O LEU A 142 SHEET 1 B 4 LEU A 68 ARG A 69 0 SHEET 2 B 4 TYR A 77 VAL A 82 -1 O TYR A 77 N ARG A 69 SHEET 3 B 4 GLY A 136 SER A 148 -1 O SER A 148 N THR A 81 SHEET 4 B 4 ARG A 123 TYR A 133 -1 N LYS A 127 O LEU A 142 SHEET 1 C 5 GLY A 233 ILE A 238 0 SHEET 2 C 5 PHE A 212 GLY A 218 -1 N GLN A 215 O SER A 235 SHEET 3 C 5 PHE A 403 ASP A 408 -1 O PHE A 407 N PHE A 212 SHEET 4 C 5 ARG A 413 SER A 419 -1 O ALA A 417 N TYR A 404 SHEET 5 C 5 TYR A 246 PRO A 254 -1 N TRP A 251 O PHE A 416 SHEET 1 D 5 GLU A 262 VAL A 263 0 SHEET 2 D 5 SER A 287 VAL A 289 -1 O SER A 287 N VAL A 263 SHEET 3 D 5 THR A 393 MET A 395 1 O MET A 395 N ILE A 288 SHEET 4 D 5 LEU A 296 PRO A 299 -1 N ARG A 297 O VAL A 394 SHEET 5 D 5 ILE A 386 SER A 389 1 O SER A 389 N LEU A 298 SHEET 1 E 5 GLN A 273 ASP A 274 0 SHEET 2 E 5 ILE A 265 ILE A 270 -1 N ILE A 270 O GLN A 273 SHEET 3 E 5 ILE A 345 MET A 350 -1 O TYR A 348 N ARG A 267 SHEET 4 E 5 GLN A 356 ILE A 362 -1 O PHE A 358 N LEU A 349 SHEET 5 E 5 ALA A 431 VAL A 437 -1 O ALA A 431 N THR A 361 SHEET 1 F 2 LEU A 368 ARG A 369 0 SHEET 2 F 2 LYS A 383 PHE A 384 -1 O LYS A 383 N ARG A 369 SSBOND 1 CYS A 217 CYS A 421 1555 1555 2.04 SSBOND 2 CYS A 279 CYS A 444 1555 1555 2.00 SSBOND 3 CYS A 331 CYS A 381 1555 1555 2.03 CISPEP 1 SER A 84 PRO A 85 0 -3.42 CISPEP 2 ARG A 190 PRO A 191 0 -0.09 CISPEP 3 GLY A 434 PRO A 435 0 -2.98 SITE 1 AC1 15 GLN A 74 GLY A 75 LEU A 92 ASP A 94 SITE 2 AC1 15 GLY A 96 SER A 97 TYR A 133 TRP A 138 SITE 3 AC1 15 PHE A 170 ILE A 172 TRP A 177 ASP A 290 SITE 4 AC1 15 SER A 291 GLY A 292 THR A 294 CRYST1 73.026 104.321 50.465 90.00 94.57 90.00 C 1 2 1 4 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 0.013694 0.000000 0.001096 0.00000 SCALE2 0.000000 0.009586 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019879 0.00000