PDB Short entry for 4FGX HEADER HYDROLASE/HYDROLASE INHIBITOR 05-JUN-12 4FGX TITLE CRYSTAL STRUCTURE OF BACE1 WITH NOVEL INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-SECRETASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ASPARTYL PROTEASE 2, ASP2, ASP 2, BETA-SITE AMYLOID COMPND 5 PRECURSOR PROTEIN CLEAVING ENZYME 1, BETA-SITE APP CLEAVING ENZYME 1, COMPND 6 MEMAPSIN-2, MEMBRANE-ASSOCIATED ASPARTIC PROTEASE 2; COMPND 7 EC: 3.4.23.46; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: INHIBITOR (2R,5S,8S,12S,13S,16S,19S,22S)-16-(3-AMINO-3- COMPND 12 OXOPROPYL)-2,13-DIBENZYL-12,22-DIHYDROXY-8-ISOBUTYL-19-ISOPROPYL-3,5, COMPND 13 17-TRIMETHYL-4,7,10,15,18,21-HEXAOXO-3,6,9,14,17,20-HEXAAZATRICOSAN- COMPND 14 1-OIC ACID; COMPND 15 CHAIN: B; COMPND 16 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: BACE, BACE1, KIAA1149; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: PET28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.T.CHEN,W.Y.CHEN,L.LI,Y.C.XU REVDAT 2 15-SEP-21 4FGX 1 REMARK SEQADV LINK REVDAT 1 16-JAN-13 4FGX 0 JRNL AUTH Y.LIU,W.ZHANG,L.LI,L.A.SALVADOR,T.CHEN,W.CHEN, JRNL AUTH 2 K.M.FELSENSTEIN,T.B.LADD,A.R.PRICE,T.E.GOLDE,J.HE,Y.XU,Y.LI, JRNL AUTH 3 H.LUESCH JRNL TITL CYANOBACTERIAL PEPTIDES AS A PROTOTYPE FOR THE DESIGN OF JRNL TITL 2 POTENT BETA-SECRETASE INHIBITORS AND THE DEVELOPMENT OF JRNL TITL 3 SELECTIVE CHEMICAL PROBES FOR OTHER ASPARTIC PROTEASES JRNL REF J.MED.CHEM. V. 55 10749 2012 JRNL REFN ISSN 0022-2623 JRNL PMID 23181502 JRNL DOI 10.1021/JM301630S REMARK 2 REMARK 2 RESOLUTION. 1.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7_650 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) : 1.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.14 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 68698 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.181 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2062 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 43.1599 - 3.9204 0.95 4474 139 0.1579 0.1581 REMARK 3 2 3.9204 - 3.1120 0.98 4457 138 0.1528 0.1533 REMARK 3 3 3.1120 - 2.7187 0.99 4448 137 0.1774 0.1868 REMARK 3 4 2.7187 - 2.4702 0.99 4470 139 0.1758 0.1881 REMARK 3 5 2.4702 - 2.2931 0.99 4435 137 0.1696 0.1811 REMARK 3 6 2.2931 - 2.1579 1.00 4458 138 0.1586 0.1773 REMARK 3 7 2.1579 - 2.0499 1.00 4427 137 0.1634 0.1762 REMARK 3 8 2.0499 - 1.9606 1.00 4455 137 0.1597 0.2336 REMARK 3 9 1.9606 - 1.8851 1.00 4424 137 0.1690 0.1902 REMARK 3 10 1.8851 - 1.8201 1.00 4447 138 0.1682 0.2000 REMARK 3 11 1.8201 - 1.7632 1.00 4428 137 0.1777 0.1945 REMARK 3 12 1.7632 - 1.7128 1.00 4450 137 0.1857 0.2134 REMARK 3 13 1.7128 - 1.6677 1.00 4436 138 0.1876 0.1979 REMARK 3 14 1.6677 - 1.6270 1.00 4412 136 0.1947 0.2289 REMARK 3 15 1.6270 - 1.5900 1.00 4415 137 0.2087 0.2274 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.38 REMARK 3 B_SOL : 48.76 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.160 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.29 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.84390 REMARK 3 B22 (A**2) : 6.94870 REMARK 3 B33 (A**2) : -2.10470 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.006 3086 REMARK 3 ANGLE : 1.118 4196 REMARK 3 CHIRALITY : 0.076 458 REMARK 3 PLANARITY : 0.005 535 REMARK 3 DIHEDRAL : 12.226 1080 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4FGX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1000072886. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68706 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 43.144 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.0100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.58200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.950 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.7 M LI2SO4/100 MM HEPES, PH 7.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 38.08000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 38.08000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 52.35500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.36500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 52.35500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.36500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 38.08000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 52.35500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.36500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 38.08000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 52.35500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 64.36500 REMARK 290 SMTRY3 8 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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: 2440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -92.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 38.08000 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 699 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1019 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 MET A 9 REMARK 465 GLY A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 HIS A 13 REMARK 465 HIS A 14 REMARK 465 HIS A 15 REMARK 465 HIS A 16 REMARK 465 HIS A 17 REMARK 465 HIS A 18 REMARK 465 SER A 19 REMARK 465 ALA A 20 REMARK 465 GLY A 21 REMARK 465 GLU A 22 REMARK 465 ASN A 23 REMARK 465 LEU A 24 REMARK 465 TYR A 25 REMARK 465 PHE A 26 REMARK 465 GLN A 27 REMARK 465 GLY A 28 REMARK 465 THR A 29 REMARK 465 LEU A 30 REMARK 465 PRO A 31 REMARK 465 ARG A 32 REMARK 465 GLU A 33 REMARK 465 THR A 34 REMARK 465 ASP A 35 REMARK 465 GLU A 36 REMARK 465 GLU A 37 REMARK 465 PRO A 38 REMARK 465 GLU A 39 REMARK 465 GLU A 40 REMARK 465 PRO A 41 REMARK 465 GLY A 42 REMARK 465 ARG A 43 REMARK 465 ARG A 44 REMARK 465 GLY A 206 REMARK 465 PHE A 207 REMARK 465 PRO A 208 REMARK 465 LEU A 209 REMARK 465 ASN A 210 REMARK 465 GLN A 211 REMARK 465 SER A 212 REMARK 465 GLU A 213 REMARK 465 VAL A 214 REMARK 465 LEU A 215 REMARK 465 ALA A 216 REMARK 465 ASP A 359 REMARK 465 VAL A 360 REMARK 465 ALA A 361 REMARK 465 THR A 362 REMARK 465 PRO A 435 REMARK 465 GLN A 436 REMARK 465 THR A 437 REMARK 465 ASP A 438 REMARK 465 GLU A 439 REMARK 465 SER A 440 REMARK 465 THR A 441 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 GLY A 45 N CA REMARK 470 LYS A 113 CE NZ REMARK 470 GLN A 121 CG CD OE1 NE2 REMARK 470 LYS A 155 CE NZ REMARK 470 LYS A 297 NZ REMARK 470 ASN A 326 CG OD1 ND2 REMARK 470 GLU A 358 CG CD OE1 OE2 REMARK 470 GLN A 364 CG CD OE1 NE2 REMARK 470 LYS A 369 NZ REMARK 470 GLU A 412 CG CD OE1 OE2 REMARK 470 GLU A 428 CG CD OE1 OE2 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 PSA B 4 C LEU B 5 N 0.144 REMARK 500 ALA B 6 C ZAE B 7 N 0.153 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 PHE A 156 -66.42 -106.89 REMARK 500 ASN A 162 -0.30 76.29 REMARK 500 TRP A 245 -89.47 -141.72 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 PSA B 4 LEU B 5 -116.46 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 PSA B 4 31.35 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 796 DISTANCE = 6.35 ANGSTROMS REMARK 525 HOH A 867 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH A 876 DISTANCE = 6.00 ANGSTROMS REMARK 525 HOH A1031 DISTANCE = 7.61 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE URE A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN B OF INHIBITOR REMARK 800 (2R,5S,8S,12S,13S,16S,19S,22S)-16-(3-AMINO-3-OXOPROPYL)-2,13- REMARK 800 DIBENZYL-12,22-DIHYDROXY-8-ISOBUTYL-19-ISOPROPYL-3,5,17- REMARK 800 TRIMETHYL-4,7,10,15,18,21-HEXAOXO-3,6,9,14,17,20-HEXAAZATRICOSAN- REMARK 800 1-OIC ACID REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4FCO RELATED DB: PDB DBREF 4FGX A 30 441 UNP P56817 BACE1_HUMAN 43 454 DBREF 4FGX B 1 7 PDB 4FGX 4FGX 1 7 SEQADV 4FGX MET A 9 UNP P56817 EXPRESSION TAG SEQADV 4FGX GLY A 10 UNP P56817 EXPRESSION TAG SEQADV 4FGX SER A 11 UNP P56817 EXPRESSION TAG SEQADV 4FGX SER A 12 UNP P56817 EXPRESSION TAG SEQADV 4FGX HIS A 13 UNP P56817 EXPRESSION TAG SEQADV 4FGX HIS A 14 UNP P56817 EXPRESSION TAG SEQADV 4FGX HIS A 15 UNP P56817 EXPRESSION TAG SEQADV 4FGX HIS A 16 UNP P56817 EXPRESSION TAG SEQADV 4FGX HIS A 17 UNP P56817 EXPRESSION TAG SEQADV 4FGX HIS A 18 UNP P56817 EXPRESSION TAG SEQADV 4FGX SER A 19 UNP P56817 EXPRESSION TAG SEQADV 4FGX ALA A 20 UNP P56817 EXPRESSION TAG SEQADV 4FGX GLY A 21 UNP P56817 EXPRESSION TAG SEQADV 4FGX GLU A 22 UNP P56817 EXPRESSION TAG SEQADV 4FGX ASN A 23 UNP P56817 EXPRESSION TAG SEQADV 4FGX LEU A 24 UNP P56817 EXPRESSION TAG SEQADV 4FGX TYR A 25 UNP P56817 EXPRESSION TAG SEQADV 4FGX PHE A 26 UNP P56817 EXPRESSION TAG SEQADV 4FGX GLN A 27 UNP P56817 EXPRESSION TAG SEQADV 4FGX GLY A 28 UNP P56817 EXPRESSION TAG SEQADV 4FGX THR A 29 UNP P56817 EXPRESSION TAG SEQADV 4FGX ALA A 123 UNP P56817 LYS 136 ENGINEERED MUTATION SEQADV 4FGX ALA A 125 UNP P56817 GLU 138 ENGINEERED MUTATION SEQRES 1 A 433 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER ALA GLY SEQRES 2 A 433 GLU ASN LEU TYR PHE GLN GLY THR LEU PRO ARG GLU THR SEQRES 3 A 433 ASP GLU GLU PRO GLU GLU PRO GLY ARG ARG GLY SER PHE SEQRES 4 A 433 VAL GLU MET VAL ASP ASN LEU ARG GLY LYS SER GLY GLN SEQRES 5 A 433 GLY TYR TYR VAL GLU MET THR VAL GLY SER PRO PRO GLN SEQRES 6 A 433 THR LEU ASN ILE LEU VAL ASP THR GLY SER SER ASN PHE SEQRES 7 A 433 ALA VAL GLY ALA ALA PRO HIS PRO PHE LEU HIS ARG TYR SEQRES 8 A 433 TYR GLN ARG GLN LEU SER SER THR TYR ARG ASP LEU ARG SEQRES 9 A 433 LYS GLY VAL TYR VAL PRO TYR THR GLN GLY ALA TRP ALA SEQRES 10 A 433 GLY GLU LEU GLY THR ASP LEU VAL SER ILE PRO HIS GLY SEQRES 11 A 433 PRO ASN VAL THR VAL ARG ALA ASN ILE ALA ALA ILE THR SEQRES 12 A 433 GLU SER ASP LYS PHE PHE ILE ASN GLY SER ASN TRP GLU SEQRES 13 A 433 GLY ILE LEU GLY LEU ALA TYR ALA GLU ILE ALA ARG PRO SEQRES 14 A 433 ASP ASP SER LEU GLU PRO PHE PHE ASP SER LEU VAL LYS SEQRES 15 A 433 GLN THR HIS VAL PRO ASN LEU PHE SER LEU GLN LEU CYS SEQRES 16 A 433 GLY ALA GLY PHE PRO LEU ASN GLN SER GLU VAL LEU ALA SEQRES 17 A 433 SER VAL GLY GLY SER MET ILE ILE GLY GLY ILE ASP HIS SEQRES 18 A 433 SER LEU TYR THR GLY SER LEU TRP TYR THR PRO ILE ARG SEQRES 19 A 433 ARG GLU TRP TYR TYR GLU VAL ILE ILE VAL ARG VAL GLU SEQRES 20 A 433 ILE ASN GLY GLN ASP LEU LYS MET ASP CYS LYS GLU TYR SEQRES 21 A 433 ASN TYR ASP LYS SER ILE VAL ASP SER GLY THR THR ASN SEQRES 22 A 433 LEU ARG LEU PRO LYS LYS VAL PHE GLU ALA ALA VAL LYS SEQRES 23 A 433 SER ILE LYS ALA ALA SER SER THR GLU LYS PHE PRO ASP SEQRES 24 A 433 GLY PHE TRP LEU GLY GLU GLN LEU VAL CYS TRP GLN ALA SEQRES 25 A 433 GLY THR THR PRO TRP ASN ILE PHE PRO VAL ILE SER LEU SEQRES 26 A 433 TYR LEU MET GLY GLU VAL THR ASN GLN SER PHE ARG ILE SEQRES 27 A 433 THR ILE LEU PRO GLN GLN TYR LEU ARG PRO VAL GLU ASP SEQRES 28 A 433 VAL ALA THR SER GLN ASP ASP CYS TYR LYS PHE ALA ILE SEQRES 29 A 433 SER GLN SER SER THR GLY THR VAL MET GLY ALA VAL ILE SEQRES 30 A 433 MET GLU GLY PHE TYR VAL VAL PHE ASP ARG ALA ARG LYS SEQRES 31 A 433 ARG ILE GLY PHE ALA VAL SER ALA CYS HIS VAL HIS ASP SEQRES 32 A 433 GLU PHE ARG THR ALA ALA VAL GLU GLY PRO PHE VAL THR SEQRES 33 A 433 LEU ASP MET GLU ASP CYS GLY TYR ASN ILE PRO GLN THR SEQRES 34 A 433 ASP GLU SER THR SEQRES 1 B 7 2OP VAL GNC PSA LEU ALA ZAE MODRES 4FGX GNC B 3 GLN N~2~-METHYL-L-GLUTAMINE MODRES 4FGX PSA B 4 PHE HET 2OP B 1 5 HET GNC B 3 10 HET PSA B 4 14 HET ZAE B 7 13 HET SO4 A 501 5 HET SO4 A 502 5 HET SO4 A 503 5 HET URE A 504 4 HET PEG A 505 7 HETNAM 2OP (2S)-2-HYDROXYPROPANOIC ACID HETNAM GNC N~2~-METHYL-L-GLUTAMINE HETNAM PSA 3-HYDROXY-4-AMINO-5-PHENYLPENTANOIC ACID HETNAM ZAE N-METHYL-D-PHENYLALANINE HETNAM SO4 SULFATE ION HETNAM URE UREA HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 2 2OP C3 H6 O3 FORMUL 2 GNC C6 H12 N2 O3 FORMUL 2 PSA C11 H15 N O3 FORMUL 2 ZAE C10 H13 N O2 FORMUL 3 SO4 3(O4 S 2-) FORMUL 6 URE C H4 N2 O FORMUL 7 PEG C4 H10 O3 FORMUL 8 HOH *462(H2 O) HELIX 1 1 PHE A 47 VAL A 51 5 5 HELIX 2 2 GLN A 101 SER A 105 5 5 HELIX 3 3 TYR A 171 ALA A 175 5 5 HELIX 4 4 PRO A 183 THR A 192 1 10 HELIX 5 5 ASP A 228 SER A 230 5 3 HELIX 6 6 ASP A 264 ASN A 269 1 6 HELIX 7 7 LYS A 286 SER A 300 1 15 HELIX 8 8 PRO A 306 LEU A 311 1 6 HELIX 9 9 PRO A 324 PHE A 328 5 5 HELIX 10 10 LEU A 349 TYR A 353 1 5 HELIX 11 11 GLY A 382 GLU A 387 1 6 HELIX 12 12 ARG A 395 ARG A 397 5 3 HELIX 13 13 ASP A 426 GLY A 431 5 6 SHEET 1 A 9 ARG A 109 PRO A 118 0 SHEET 2 A 9 ALA A 123 SER A 134 -1 O LEU A 128 N LYS A 113 SHEET 3 A 9 TYR A 63 VAL A 68 -1 N THR A 67 O SER A 134 SHEET 4 A 9 LEU A 54 GLY A 56 -1 N ARG A 55 O TYR A 63 SHEET 5 A 9 VAL A 218 ILE A 224 -1 O GLY A 220 N LEU A 54 SHEET 6 A 9 PHE A 198 CYS A 203 -1 N GLN A 201 O SER A 221 SHEET 7 A 9 PHE A 389 ASP A 394 -1 O VAL A 391 N LEU A 200 SHEET 8 A 9 ARG A 399 SER A 405 -1 O ALA A 403 N TYR A 390 SHEET 9 A 9 TYR A 232 PRO A 240 -1 N THR A 239 O ILE A 400 SHEET 1 B13 ARG A 109 PRO A 118 0 SHEET 2 B13 ALA A 123 SER A 134 -1 O LEU A 128 N LYS A 113 SHEET 3 B13 VAL A 143 ASP A 154 -1 O ALA A 149 N GLU A 127 SHEET 4 B13 PHE A 86 GLY A 89 1 N VAL A 88 O ILE A 150 SHEET 5 B13 GLY A 165 GLY A 168 -1 O ILE A 166 N ALA A 87 SHEET 6 B13 GLN A 73 ASP A 80 1 N LEU A 78 O LEU A 167 SHEET 7 B13 TYR A 63 VAL A 68 -1 N VAL A 68 O GLN A 73 SHEET 8 B13 LEU A 54 GLY A 56 -1 N ARG A 55 O TYR A 63 SHEET 9 B13 VAL A 218 ILE A 224 -1 O GLY A 220 N LEU A 54 SHEET 10 B13 PHE A 198 CYS A 203 -1 N GLN A 201 O SER A 221 SHEET 11 B13 PHE A 389 ASP A 394 -1 O VAL A 391 N LEU A 200 SHEET 12 B13 ARG A 399 SER A 405 -1 O ALA A 403 N TYR A 390 SHEET 13 B13 TYR A 232 PRO A 240 -1 N THR A 239 O ILE A 400 SHEET 1 C 5 GLN A 259 ASP A 260 0 SHEET 2 C 5 ILE A 251 ILE A 256 -1 N ILE A 256 O GLN A 259 SHEET 3 C 5 ILE A 331 MET A 336 -1 O TYR A 334 N ARG A 253 SHEET 4 C 5 GLN A 342 ILE A 348 -1 O ILE A 348 N ILE A 331 SHEET 5 C 5 ALA A 417 VAL A 423 -1 O GLU A 419 N ARG A 345 SHEET 1 D 4 SER A 273 VAL A 275 0 SHEET 2 D 4 THR A 379 MET A 381 1 O MET A 381 N ILE A 274 SHEET 3 D 4 LEU A 282 PRO A 285 -1 N ARG A 283 O VAL A 380 SHEET 4 D 4 ILE A 372 SER A 375 1 O SER A 373 N LEU A 284 SHEET 1 E 3 VAL A 316 GLN A 319 0 SHEET 2 E 3 ASP A 365 PHE A 370 -1 O ASP A 366 N TRP A 318 SHEET 3 E 3 LEU A 354 VAL A 357 -1 N ARG A 355 O LYS A 369 SSBOND 1 CYS A 203 CYS A 407 1555 1555 2.04 SSBOND 2 CYS A 265 CYS A 430 1555 1555 2.04 SSBOND 3 CYS A 317 CYS A 367 1555 1555 2.03 LINK C 2OP B 1 N VAL B 2 1555 1555 1.46 LINK C VAL B 2 N GNC B 3 1555 1555 1.46 LINK C GNC B 3 N PSA B 4 1555 1555 1.47 LINK C PSA B 4 N LEU B 5 1555 1555 1.48 LINK C ALA B 6 N ZAE B 7 1555 1555 1.49 CISPEP 1 SER A 70 PRO A 71 0 -5.51 CISPEP 2 ARG A 176 PRO A 177 0 4.23 CISPEP 3 TYR A 270 ASP A 271 0 6.30 CISPEP 4 GLY A 420 PRO A 421 0 -4.34 SITE 1 AC1 2 ARG A 109 HOH A 703 SITE 1 AC2 7 SER A 70 PRO A 71 SER A 106 HIS A 193 SITE 2 AC2 7 PRO A 195 HOH A 637 HOH A1016 SITE 1 AC3 7 TYR A 99 GLN A 101 GLN A 103 LYS A 266 SITE 2 AC3 7 HOH A 745 HOH A 839 HOH A1023 SITE 1 AC4 4 ARG A 355 HOH A 766 HOH A 951 2OP B 1 SITE 1 AC5 9 PRO A 118 TYR A 119 THR A 120 ARG A 397 SITE 2 AC5 9 ARG A 399 HOH A 973 HOH A1037 HOH A1041 SITE 3 AC5 9 ALA B 6 SITE 1 AC6 30 GLY A 59 ASP A 80 GLY A 82 VAL A 117 SITE 2 AC6 30 PRO A 118 TYR A 119 THR A 120 PHE A 156 SITE 3 AC6 30 ILE A 158 ILE A 174 ARG A 176 TYR A 246 SITE 4 AC6 30 LYS A 272 ASP A 276 GLY A 278 THR A 279 SITE 5 AC6 30 THR A 280 ARG A 283 THR A 377 URE A 504 SITE 6 AC6 30 PEG A 505 HOH A 721 HOH A 975 HOH A1037 SITE 7 AC6 30 HOH B 101 HOH B 102 HOH B 103 HOH B 104 SITE 8 AC6 30 HOH B 105 HOH B 107 CRYST1 104.710 128.730 76.160 90.00 90.00 90.00 C 2 2 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 0.009550 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007768 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013130 0.00000