HEADER PROTEIN FIBRIL 24-JAN-19 6QJP TITLE CRYO-EM STRUCTURE OF HEPARIN-INDUCED 2N4R TAU JAGGED FILAMENTS COMPND MOL_ID: 1; COMPND 2 MOLECULE: MICROTUBULE-ASSOCIATED PROTEIN TAU; COMPND 3 CHAIN: A, C, B; COMPND 4 SYNONYM: NEUROFIBRILLARY TANGLE PROTEIN,PAIRED HELICAL FILAMENT-TAU, COMPND 5 PHF-TAU; COMPND 6 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: MAPT, MAPTL, MTBT1, TAU; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PRK172 KEYWDS RECOMBINANT TAU PROTEIN, HEPARIN, FILAMENT, CROSS-BETA STRUCTURE, KEYWDS 2 PROTEIN FIBRIL EXPDTA ELECTRON MICROSCOPY AUTHOR W.ZHANG,B.FALCON,A.G.MURZIN,J.FAN,R.A.CROWTHER,M.GOEDERT, AUTHOR 2 S.H.W.SCHERES REVDAT 1 20-FEB-19 6QJP 0 JRNL AUTH W.ZHANG,B.FALCON,A.G.MURZIN,J.FAN,R.A.CROWTHER,M.GOEDERT, JRNL AUTH 2 S.H.SCHERES JRNL TITL HEPARIN-INDUCED TAU FILAMENTS ARE POLYMORPHIC AND DIFFER JRNL TITL 2 FROM THOSE IN ALZHEIMER'S AND PICK'S DISEASES. JRNL REF ELIFE V. 8 2019 JRNL REFN ESSN 2050-084X JRNL PMID 30720432 JRNL DOI 10.7554/ELIFE.43584 REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, EPU, RELION, COOT, RELION, REMARK 3 RELION, RELION, RELION, REFMAC, PHENIX REMARK 3 RECONSTRUCTION SCHEMA : FOURIER SPACE REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : RECIPROCAL REMARK 3 REFINEMENT PROTOCOL : AB INITIO MODEL REMARK 3 REFINEMENT TARGET : FOURIER SHELL CORRELATION REMARK 3 OVERALL ANISOTROPIC B VALUE : 33.200 REMARK 3 REMARK 3 FITTING PROCEDURE : A STACK OF THREE CONSECUTIVE MONOMERS WAS REMARK 3 REFINED TO PRESERVE NEAREST-NEIGHBOUR INTERACTIONS FOR THE REMARK 3 MIDDLE CHAIN. SIDE-CHAIN CLASHES WERE DETECTED USING MOLPROBITY, REMARK 3 AND CORRECTED BY ITERATIVE CYCLES OF REAL-SPACE REFINEMENT IN REMARK 3 COOT AND FOURIER-SPACE REFINEMENT IN REFMAC AND PHENIX. FOR EACH REMARK 3 REFINED STRUCTURE, SEPARATE MODEL REFINEMENTS WERE PERFORMED REMARK 3 AGAINST A SINGLE HALF-MAP, AND THE RESULTING MODEL WAS COMPARED REMARK 3 TO THE OTHER HALF-MAP TO CONFIRM THE ABSENCE OF OVERFITTING. 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) : 3.500 REMARK 3 NUMBER OF PARTICLES : 35695 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: WE PERFORMED THREE ROUNDS OF 3D AUTO-REFINEMENT. REMARK 4 REMARK 4 6QJP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1292100292. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE 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 : HEPARIN-INDUCED 2N4R TAU JAGGED REMARK 245 FILAMENTS REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 2.00 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : BLOT FORCE: -12 ; BLOT TIME: 4S REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : RECOMBINANT TAU PROTEIN WAS REMARK 245 INDUCED INTO FILAMENTS BY INCUBATION WITH HEPARIN AT 37 C FOR 3 REMARK 245 DAYS REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : 717 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI POLARA 300 REMARK 245 DETECTOR TYPE : FEI FALCON III (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1700.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2800.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.00 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 48.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, 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 CYS A 291 REMARK 465 GLY A 292 REMARK 465 SER A 293 REMARK 465 LYS A 294 REMARK 465 ASP A 295 REMARK 465 ASN A 296 REMARK 465 ILE A 297 REMARK 465 LYS A 298 REMARK 465 HIS A 299 REMARK 465 VAL A 300 REMARK 465 PRO A 301 REMARK 465 GLY A 302 REMARK 465 GLY A 303 REMARK 465 CYS C 291 REMARK 465 GLY C 292 REMARK 465 SER C 293 REMARK 465 LYS C 294 REMARK 465 ASP C 295 REMARK 465 ASN C 296 REMARK 465 ILE C 297 REMARK 465 LYS C 298 REMARK 465 HIS C 299 REMARK 465 VAL C 300 REMARK 465 PRO C 301 REMARK 465 GLY C 302 REMARK 465 GLY C 303 REMARK 465 CYS B 291 REMARK 465 GLY B 292 REMARK 465 SER B 293 REMARK 465 LYS B 294 REMARK 465 ASP B 295 REMARK 465 ASN B 296 REMARK 465 ILE B 297 REMARK 465 LYS B 298 REMARK 465 HIS B 299 REMARK 465 VAL B 300 REMARK 465 PRO B 301 REMARK 465 GLY B 302 REMARK 465 GLY B 303 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 LYS A 311 72.86 54.95 REMARK 500 LYS C 311 72.84 54.94 REMARK 500 LYS B 311 72.86 54.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-4565 RELATED DB: EMDB DBREF 6QJP A 274 321 UNP P10636 TAU_HUMAN 274 321 DBREF 6QJP C 274 321 UNP P10636 TAU_HUMAN 274 321 DBREF 6QJP B 274 321 UNP P10636 TAU_HUMAN 274 321 SEQRES 1 A 48 LYS VAL GLN ILE ILE ASN LYS LYS LEU ASP LEU SER ASN SEQRES 2 A 48 VAL GLN SER LYS CYS GLY SER LYS ASP ASN ILE LYS HIS SEQRES 3 A 48 VAL PRO GLY GLY GLY SER VAL GLN ILE VAL TYR LYS PRO SEQRES 4 A 48 VAL ASP LEU SER LYS VAL THR SER LYS SEQRES 1 C 48 LYS VAL GLN ILE ILE ASN LYS LYS LEU ASP LEU SER ASN SEQRES 2 C 48 VAL GLN SER LYS CYS GLY SER LYS ASP ASN ILE LYS HIS SEQRES 3 C 48 VAL PRO GLY GLY GLY SER VAL GLN ILE VAL TYR LYS PRO SEQRES 4 C 48 VAL ASP LEU SER LYS VAL THR SER LYS SEQRES 1 B 48 LYS VAL GLN ILE ILE ASN LYS LYS LEU ASP LEU SER ASN SEQRES 2 B 48 VAL GLN SER LYS CYS GLY SER LYS ASP ASN ILE LYS HIS SEQRES 3 B 48 VAL PRO GLY GLY GLY SER VAL GLN ILE VAL TYR LYS PRO SEQRES 4 B 48 VAL ASP LEU SER LYS VAL THR SER LYS SHEET 1 AA1 3 VAL C 275 GLN C 288 0 SHEET 2 AA1 3 VAL A 275 GLN A 288 1 N LEU A 282 O ASP C 283 SHEET 3 AA1 3 VAL B 275 GLN B 288 1 O LEU B 282 N ASP A 283 SHEET 1 AA2 3 VAL C 306 TYR C 310 0 SHEET 2 AA2 3 VAL A 306 TYR A 310 1 N VAL A 309 O TYR C 310 SHEET 3 AA2 3 VAL B 306 TYR B 310 1 O VAL B 309 N TYR A 310 SHEET 1 AA3 3 VAL C 313 VAL C 318 0 SHEET 2 AA3 3 VAL A 313 VAL A 318 1 N SER A 316 O LYS C 317 SHEET 3 AA3 3 VAL B 313 VAL B 318 1 O SER B 316 N LYS A 317 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