HEADER CELL ADHESION 22-FEB-24 8S4Y TITLE CRYSTAL STRUCTURE OF AN APP-TALIN (F2F3) CHIMERA COMPND MOL_ID: 1; COMPND 2 MOLECULE: C31; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: RESIDUAL VECTOR SEQUENCE AFTER TEV CLEAVAGE (GIDPFT); COMPND 6 AMYLOID PRECURSOR PROTEIN (Q754-F764); COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: TALIN-1; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 OTHER_DETAILS: MTALIN1 F2F3 (RESIDUES 209-400) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: APP, A4, AD1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 10 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 11 ORGANISM_TAXID: 10090; SOURCE 12 GENE: TLN1, TLN; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS AMYLOID PRECURSOR PROTEIN, TALIN, FERM DOMAINS, CHIMERA, ALZHEIMER'S KEYWDS 2 DISEASE, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR N.J.BALL,C.ELLIS,B.T.GOULT REVDAT 2 30-APR-25 8S4Y 1 JRNL REVDAT 1 16-OCT-24 8S4Y 0 JRNL AUTH C.ELLIS,N.L.WARD,M.RICE,N.J.BALL,P.WALLE,C.NAJDEK,D.KILINC, JRNL AUTH 2 J.C.LAMBERT,J.CHAPUIS,B.T.GOULT JRNL TITL THE STRUCTURE OF AN AMYLOID PRECURSOR PROTEIN/TALIN COMPLEX JRNL TITL 2 INDICATES A MECHANICAL BASIS OF ALZHEIMER'S DISEASE. JRNL REF OPEN BIOLOGY V. 14 40185 2024 JRNL REFN ESSN 2046-2441 JRNL PMID 39591990 JRNL DOI 10.1098/RSOB.240185 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.20.1_4487: ???) 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 7322 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.960 REMARK 3 FREE R VALUE TEST SET COUNT : 729 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 45.7000 - 4.6100 1.00 1394 154 0.1916 0.2398 REMARK 3 2 4.6100 - 3.6600 1.00 1341 141 0.1840 0.2334 REMARK 3 3 3.6600 - 3.2000 1.00 1300 140 0.2418 0.2749 REMARK 3 4 3.2000 - 2.9100 0.99 1289 151 0.2552 0.3676 REMARK 3 5 2.9100 - 2.7000 0.99 1269 143 0.2781 0.3615 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 : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.960 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 49.74 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 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 : 0.009 NULL REMARK 3 ANGLE : 1.032 NULL REMARK 3 CHIRALITY : 0.056 247 REMARK 3 PLANARITY : 0.012 309 REMARK 3 DIHEDRAL : 6.453 233 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 8S4Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-FEB-24. REMARK 100 THE DEPOSITION ID IS D_1292136775. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUL-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95375 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : DIALS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7374 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 45.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.11700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.78100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 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 (%): 52.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS PH 8.5, 10% V/V ETHANOL, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 30.19400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 32.59550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.04050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 32.59550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.19400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.04050 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: DIMERIC 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 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 -6 REMARK 465 ILE A -5 REMARK 465 LYS B 322 REMARK 465 ASN B 323 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 TYR A 757 CG CD1 CD2 CE1 CE2 CZ OH REMARK 480 GLU A 758 CG CD OE1 OE2 REMARK 480 LYS B 272 CG CD CE NZ REMARK 480 LYS B 274 CD CE NZ REMARK 480 LYS B 284 CD CE NZ REMARK 480 LYS B 318 CG REMARK 480 LYS B 320 CG CD CE NZ REMARK 480 LYS B 324 CD CE NZ REMARK 480 LYS B 334 CE NZ REMARK 480 LYS B 364 CD CE NZ 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 -2 75.87 -103.35 REMARK 500 GLN A 754 -88.40 -125.47 REMARK 500 LYS A 763 34.00 37.23 REMARK 500 THR B 354 6.68 -69.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 297 0.23 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 8S4Y A 754 764 UNP P12023 A4_MOUSE 754 764 DBREF 8S4Y B 209 400 UNP P54939 TLN1_CHICK 209 400 SEQADV 8S4Y GLY A -6 UNP P12023 EXPRESSION TAG SEQADV 8S4Y ILE A -5 UNP P12023 EXPRESSION TAG SEQADV 8S4Y ASP A -4 UNP P12023 EXPRESSION TAG SEQADV 8S4Y PRO A -3 UNP P12023 EXPRESSION TAG SEQADV 8S4Y PHE A -2 UNP P12023 EXPRESSION TAG SEQADV 8S4Y THR A -1 UNP P12023 EXPRESSION TAG SEQRES 1 A 17 GLY ILE ASP PRO PHE THR GLN ASN GLY TYR GLU ASN PRO SEQRES 2 A 17 THR TYR LYS PHE SEQRES 1 B 192 PRO VAL GLN LEU ASN LEU LEU TYR VAL GLN ALA ARG ASP SEQRES 2 B 192 ASP ILE LEU ASN GLY SER HIS PRO VAL SER PHE ASP LYS SEQRES 3 B 192 ALA CYS GLU PHE ALA GLY TYR GLN CYS GLN ILE GLN PHE SEQRES 4 B 192 GLY PRO HIS ASN GLU GLN LYS HIS LYS PRO GLY PHE LEU SEQRES 5 B 192 GLU LEU LYS ASP PHE LEU PRO LYS GLU TYR ILE LYS GLN SEQRES 6 B 192 LYS GLY GLU ARG LYS ILE PHE MET ALA HIS LYS ASN CYS SEQRES 7 B 192 GLY ASN MET SER GLU ILE GLU ALA LYS VAL ARG TYR VAL SEQRES 8 B 192 LYS LEU ALA ARG SER LEU LYS THR TYR GLY VAL SER PHE SEQRES 9 B 192 PHE LEU VAL LYS GLU LYS MET LYS GLY LYS ASN LYS LEU SEQRES 10 B 192 VAL PRO ARG LEU LEU GLY ILE THR LYS GLU CYS VAL MET SEQRES 11 B 192 ARG VAL ASP GLU LYS THR LYS GLU VAL ILE GLN GLU TRP SEQRES 12 B 192 SER LEU THR ASN ILE LYS ARG TRP ALA ALA SER PRO LYS SEQRES 13 B 192 SER PHE THR LEU ASP PHE GLY ASP TYR GLN ASP GLY TYR SEQRES 14 B 192 TYR SER VAL GLN THR THR GLU GLY GLU GLN ILE ALA GLN SEQRES 15 B 192 LEU ILE ALA GLY TYR ILE ASP ILE ILE LEU FORMUL 3 HOH *8(H2 O) HELIX 1 AA1 VAL B 210 ASN B 225 1 16 HELIX 2 AA2 SER B 231 GLY B 248 1 18 HELIX 3 AA3 GLU B 261 PHE B 265 5 5 HELIX 4 AA4 PRO B 267 LYS B 274 5 8 HELIX 5 AA5 GLY B 275 CYS B 286 1 12 HELIX 6 AA6 SER B 290 SER B 304 1 15 HELIX 7 AA7 THR B 354 ILE B 356 5 3 HELIX 8 AA8 PHE B 370 GLN B 374 5 5 HELIX 9 AA9 GLU B 384 LEU B 400 1 17 SHEET 1 AA1 4 SER B 311 LYS B 318 0 SHEET 2 AA1 4 LEU B 325 ILE B 332 -1 O ARG B 328 N VAL B 315 SHEET 3 AA1 4 CYS B 336 VAL B 340 -1 O MET B 338 N GLY B 331 SHEET 4 AA1 4 VAL B 347 SER B 352 -1 O TRP B 351 N VAL B 337 SHEET 1 AA2 3 ARG B 358 ALA B 361 0 SHEET 2 AA2 3 PHE B 366 ASP B 369 -1 O ASP B 369 N ARG B 358 SHEET 3 AA2 3 TYR B 378 VAL B 380 -1 O TYR B 378 N LEU B 368 LINK C PHE A 764 N PRO B 209 1555 1555 1.34 CRYST1 60.388 64.081 65.191 90.00 90.00 90.00 P 21 21 21 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 0.016560 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015605 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015340 0.00000 TER 130 PHE A 764 TER 1716 LEU B 400 HETATM 1717 O HOH B 501 36.217 8.787 -7.458 1.00 53.89 O HETATM 1718 O HOH B 502 40.854 2.093 -5.001 1.00 53.53 O HETATM 1719 O HOH B 503 17.060 -0.508 -9.359 1.00 62.82 O HETATM 1720 O HOH B 504 29.858 5.076 -7.639 1.00 48.76 O HETATM 1721 O HOH B 505 28.226 3.266 -8.967 1.00 56.34 O HETATM 1722 O HOH B 506 25.505 16.736 4.205 1.00 60.22 O HETATM 1723 O HOH B 507 27.424 -3.788 -5.883 1.00 51.98 O HETATM 1724 O HOH B 508 39.487 16.300 -1.683 1.00 60.39 O CONECT 121 131 CONECT 131 121 MASTER 256 0 0 9 7 0 0 6 1678 2 2 17 END