HEADER PROTEIN FIBRIL 11-JUN-25 9RIV TITLE POPULATION B FIBRIL GENERATED FROM THE HETEROTYPIC INTERACTION OF TITLE 2 ABETA40 AND MEDIN. COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMYLOID-BETA PROTEIN 40; COMPND 3 CHAIN: A, B, C, D, E, F, G, H, I, J; COMPND 4 SYNONYM: ABETA40,BETA-APP40; COMPND 5 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: APP, A4, AD1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS AMYLOID BETA 40, AGGREGATION, NEURODEGENERATION, MEDIN, PROTEIN KEYWDS 2 FIBRIL EXPDTA ELECTRON MICROSCOPY AUTHOR B.PRADHAN,S.T.KUMAR,J.WAGNER,R.GALLARDO,G.ORLANDO,M.D.VLEESCHOUWER, AUTHOR 2 J.MADINE,N.LOUROS,J.NEHER,J.SCHYMKOWITZ,F.ROUSSEAU REVDAT 1 08-APR-26 9RIV 0 JRNL AUTH B.PRADHAN,S.T.KUMAR,J.WAGNER,R.GALLARDO,G.ORLANDO, JRNL AUTH 2 M.D.VLEESCHOUWER,J.MADINE,N.LOUROS,J.NEHER,J.SCHYMKOWITZ, JRNL AUTH 3 F.ROUSSEAU JRNL TITL IN VITRO CO-AGGREGATION WITH MEDIN INDUCES AN ABETA42-LIKE JRNL TITL 2 POLYMORPH OF ABETA40 FIBRILS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.63 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, SERIALEM, CTFFIND, COOT, REMARK 3 PHENIX, CRYOSPARC, CRYOSPARC, CRYOSPARC, REMARK 3 CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 2.630 REMARK 3 NUMBER OF PARTICLES : 20491 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 9RIV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-JUN-25. REMARK 100 THE DEPOSITION ID IS D_1292148349. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : HELICAL REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : FILAMENT REMARK 245 PARTICLE TYPE : HELICAL REMARK 245 NAME OF SAMPLE : IN VITRO ASSEMBLED, REMARK 245 RECOMBINANTLY PURIFIED AMYLOID REMARK 245 BETA 40 PEPTIDE IN CO- REMARK 245 AGGREGATION WITH SYNTHETICALLY REMARK 245 PRODUCED MEDIN. REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : JEOL CRYO ARM 300 REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 500.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1500.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.55 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 6000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 60000 REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: DECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F, G, H, I, J 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-54006 RELATED DB: EMDB REMARK 900 POPULATION B FIBRIL GENERATED FROM THE HETEROTYPIC INTERACTION OF REMARK 900 ABETA40 AND MEDIN. REMARK 900 RELATED ID: 9RIW RELATED DB: PDB REMARK 900 POPULATION A FIBRIL GENERATED FROM THE HETEROTYPIC INTERACTION OF REMARK 900 ABETA40 AND MEDIN. REMARK 900 RELATED ID: EMD-54007 RELATED DB: EMDB REMARK 900 POPULATION A FIBRIL GENERATED FROM THE HETEROTYPIC INTERACTION OF REMARK 900 ABETA40 AND MEDIN. REMARK 900 RELATED ID: EMD-56480 RELATED DB: EMDB REMARK 900 MEDIN FIBRIL GENERATED FROM THE HETEROTYPIC INTERACTION OF ABETA40 REMARK 900 AND MEDIN. REMARK 900 RELATED ID: 9U02 RELATED DB: PDB REMARK 900 MEDIN FIBRIL GENERATED FROM THE HETEROTYPIC INTERACTION OF ABETA40 REMARK 900 AND MEDIN. DBREF 9RIV A 1 40 UNP P05067 A4_HUMAN 672 711 DBREF 9RIV B 1 40 UNP P05067 A4_HUMAN 672 711 DBREF 9RIV C 1 40 UNP P05067 A4_HUMAN 672 711 DBREF 9RIV D 1 40 UNP P05067 A4_HUMAN 672 711 DBREF 9RIV E 1 40 UNP P05067 A4_HUMAN 672 711 DBREF 9RIV F 1 40 UNP P05067 A4_HUMAN 672 711 DBREF 9RIV G 1 40 UNP P05067 A4_HUMAN 672 711 DBREF 9RIV H 1 40 UNP P05067 A4_HUMAN 672 711 DBREF 9RIV I 1 40 UNP P05067 A4_HUMAN 672 711 DBREF 9RIV J 1 40 UNP P05067 A4_HUMAN 672 711 SEQRES 1 A 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 A 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 A 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 A 40 VAL SEQRES 1 B 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 B 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 B 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 B 40 VAL SEQRES 1 C 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 C 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 C 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 C 40 VAL SEQRES 1 D 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 D 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 D 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 D 40 VAL SEQRES 1 E 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 E 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 E 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 E 40 VAL SEQRES 1 F 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 F 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 F 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 F 40 VAL SEQRES 1 G 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 G 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 G 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 G 40 VAL SEQRES 1 H 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 H 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 H 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 H 40 VAL SEQRES 1 I 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 I 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 I 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 I 40 VAL SEQRES 1 J 40 ASP ALA GLU PHE ARG HIS ASP SER GLY TYR GLU VAL HIS SEQRES 2 J 40 HIS GLN LYS LEU VAL PHE PHE ALA GLU ASP VAL GLY SER SEQRES 3 J 40 ASN LYS GLY ALA ILE ILE GLY LEU MET VAL GLY GLY VAL SEQRES 4 J 40 VAL SHEET 1 1 1 ALA A 2 VAL A 12 0 SHEET 1 2 1 LYS A 16 GLU A 22 0 SHEET 1 3 1 ASN A 27 ILE A 32 0 SHEET 1 4 1 ALA B 2 VAL B 12 0 SHEET 1 5 1 LYS B 16 GLU B 22 0 SHEET 1 6 1 ASN B 27 ILE B 32 0 SHEET 1 7 1 ALA C 2 VAL C 12 0 SHEET 1 8 1 LYS C 16 GLU C 22 0 SHEET 1 9 1 ASN C 27 ILE C 32 0 SHEET 1 10 1 ALA D 2 VAL D 12 0 SHEET 1 11 1 LYS D 16 GLU D 22 0 SHEET 1 12 1 ASN D 27 ILE D 32 0 SHEET 1 13 1 ALA E 2 VAL E 12 0 SHEET 1 14 1 LYS E 16 GLU E 22 0 SHEET 1 15 1 ASN E 27 ILE E 32 0 SHEET 1 16 1 ALA F 2 VAL F 12 0 SHEET 1 17 1 LYS F 16 GLU F 22 0 SHEET 1 18 1 ASN F 27 ILE F 32 0 SHEET 1 19 1 ALA G 2 VAL G 12 0 SHEET 1 20 1 LYS G 16 GLU G 22 0 SHEET 1 21 1 ASN G 27 ILE G 32 0 SHEET 1 22 1 ALA H 2 VAL H 12 0 SHEET 1 23 1 LYS H 16 GLU H 22 0 SHEET 1 24 1 ASN H 27 ILE H 32 0 SHEET 1 25 1 ALA I 2 VAL I 12 0 SHEET 1 26 1 LYS I 16 GLU I 22 0 SHEET 1 27 1 ASN I 27 ILE I 32 0 SHEET 1 28 1 ALA J 2 VAL J 12 0 SHEET 1 29 1 LYS J 16 GLU J 22 0 SHEET 1 30 1 ASN J 27 ILE J 32 0 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MASTER 118 0 0 0 30 0 0 6 3050 10 0 40 END