HEADER TRANSLOCASE 16-OCT-25 9YR4 TITLE CRYO-EM STRUCTURE OF HUMAN TOM70 IN COMPLEX WITH HSP90 C-TERMINAL EEVD TITLE 2 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MITOCHONDRIAL IMPORT RECEPTOR SUBUNIT TOM70; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MITOCHONDRIAL PRECURSOR PROTEINS IMPORT RECEPTOR,TRANSLOCASE COMPND 5 OF OUTER MEMBRANE 70 KDA SUBUNIT,TRANSLOCASE OF OUTER MITOCHONDRIAL COMPND 6 MEMBRANE PROTEIN 70; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: HEAT SHOCK PROTEIN HSP 90-ALPHA; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: HEAT SHOCK 86 KDA,HSP 86,HSP86,HEAT SHOCK PROTEIN FAMILY C COMPND 12 MEMBER 1,LIPOPOLYSACCHARIDE-ASSOCIATED PROTEIN 2,LAP-2,LPS-ASSOCIATED COMPND 13 PROTEIN 2,RENAL CARCINOMA ANTIGEN NY-REN-38; COMPND 14 EC: 3.6.4.10; COMPND 15 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: TOMM70, KIAA0719, TOM70, TOMM70A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS MITOCHONDRION OUTER MEMBRANE, INNATE IMMUNITY, MITOCHONDRIAL KEYWDS 2 BIOGENESIS, SARS-COV-2, TRANSLOCASE EXPDTA ELECTRON MICROSCOPY AUTHOR N.SHERER,G.P.YADAV,J.H.CHO REVDAT 1 24-JUN-26 9YR4 0 JRNL AUTH N.SHERER,G.P.YADAV,J.H.CHO JRNL TITL CRYO-EM STRUCTURE OF HUMAN TOM70 IN COMPLEX WITH HSP90 JRNL TITL 2 C-TERMINAL EEVD PEPTIDE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.64 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, EPU, CRYOSPARC, PHENIX, REMARK 3 CRYOSPARC, CRYOSPARC, CRYOSPARC, REMARK 3 CRYOSPARC, DEEPEMHANCER, PHENIX 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) : 3.640 REMARK 3 NUMBER OF PARTICLES : 353087 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 9YR4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-OCT-25. REMARK 100 THE DEPOSITION ID IS D_1000301115. 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 : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : CRYO-EM STRUCTURE OF HUMAN REMARK 245 TOM70 IN COMPLEX WITH HSP90 C- REMARK 245 TERMINAL EEVD PEPTIDE REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 4.00 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : 0.05% CHAPS ADDED IMMEDIATELY REMARK 245 BEFORE VITRIFICATION REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.00 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : 5301 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOCONTINUUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 800.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2400.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 105000 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: 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 MET A 1 REMARK 465 ALA A 2 REMARK 465 ALA A 3 REMARK 465 SER A 4 REMARK 465 LYS A 5 REMARK 465 PRO A 6 REMARK 465 VAL A 7 REMARK 465 GLU A 8 REMARK 465 ALA A 9 REMARK 465 ALA A 10 REMARK 465 VAL A 11 REMARK 465 VAL A 12 REMARK 465 ALA A 13 REMARK 465 ALA A 14 REMARK 465 ALA A 15 REMARK 465 VAL A 16 REMARK 465 PRO A 17 REMARK 465 SER A 18 REMARK 465 SER A 19 REMARK 465 GLY A 20 REMARK 465 SER A 21 REMARK 465 GLY A 22 REMARK 465 VAL A 23 REMARK 465 GLY A 24 REMARK 465 GLY A 25 REMARK 465 GLY A 26 REMARK 465 GLY A 27 REMARK 465 THR A 28 REMARK 465 ALA A 29 REMARK 465 GLY A 30 REMARK 465 PRO A 31 REMARK 465 GLY A 32 REMARK 465 THR A 33 REMARK 465 GLY A 34 REMARK 465 GLY A 35 REMARK 465 LEU A 36 REMARK 465 PRO A 37 REMARK 465 ARG A 38 REMARK 465 TRP A 39 REMARK 465 GLN A 40 REMARK 465 LEU A 41 REMARK 465 ALA A 42 REMARK 465 LEU A 43 REMARK 465 ALA A 44 REMARK 465 VAL A 45 REMARK 465 GLY A 46 REMARK 465 ALA A 47 REMARK 465 PRO A 48 REMARK 465 LEU A 49 REMARK 465 LEU A 50 REMARK 465 LEU A 51 REMARK 465 GLY A 52 REMARK 465 ALA A 53 REMARK 465 GLY A 54 REMARK 465 ALA A 55 REMARK 465 ILE A 56 REMARK 465 TYR A 57 REMARK 465 LEU A 58 REMARK 465 TRP A 59 REMARK 465 SER A 60 REMARK 465 ARG A 61 REMARK 465 GLN A 62 REMARK 465 GLN A 63 REMARK 465 ARG A 64 REMARK 465 ARG A 65 REMARK 465 ARG A 66 REMARK 465 GLU A 67 REMARK 465 ALA A 68 REMARK 465 ARG A 69 REMARK 465 GLY A 70 REMARK 465 ARG A 71 REMARK 465 GLY A 72 REMARK 465 ASP A 73 REMARK 465 ALA A 74 REMARK 465 SER A 75 REMARK 465 GLY A 76 REMARK 465 LEU A 77 REMARK 465 LYS A 78 REMARK 465 ARG A 79 REMARK 465 ASN A 80 REMARK 465 SER A 81 REMARK 465 GLU A 82 REMARK 465 ARG A 83 REMARK 465 LYS A 84 REMARK 465 THR A 85 REMARK 465 PRO A 86 REMARK 465 GLU A 87 REMARK 465 GLY A 88 REMARK 465 ARG A 89 REMARK 465 ALA A 90 REMARK 465 SER A 91 REMARK 465 PRO A 92 REMARK 465 ALA A 93 REMARK 465 PRO A 94 REMARK 465 GLY A 95 REMARK 465 SER A 96 REMARK 465 GLY A 97 REMARK 465 HIS A 98 REMARK 465 PRO A 99 REMARK 465 GLU A 100 REMARK 465 GLY A 101 REMARK 465 PRO A 102 REMARK 465 GLY A 103 REMARK 465 ALA A 104 REMARK 465 HIS A 105 REMARK 465 LEU A 106 REMARK 465 ASP A 107 REMARK 465 MET A 108 REMARK 465 MET A 273 REMARK 465 LEU A 274 REMARK 465 LYS A 275 REMARK 465 GLY A 276 REMARK 465 GLU A 277 REMARK 465 LYS A 278 REMARK 465 SER A 279 REMARK 465 ASP A 280 REMARK 465 GLU A 281 REMARK 465 ASP A 282 REMARK 465 LYS A 283 REMARK 465 ASP A 284 REMARK 465 LYS A 285 REMARK 465 GLU A 286 REMARK 465 GLY A 287 REMARK 465 GLU A 288 REMARK 465 ALA A 289 REMARK 465 LEU A 290 REMARK 465 GLU A 291 REMARK 465 VAL A 292 REMARK 465 LYS A 293 REMARK 465 GLU A 294 REMARK 465 PRO A 606 REMARK 465 THR A 607 REMARK 465 TYR B 723 REMARK 465 ASP B 724 REMARK 465 THR B 725 REMARK 465 SER B 726 REMARK 465 ARG B 727 REMARK 465 MET B 728 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 GLN A 167 -3.17 70.16 REMARK 500 PRO A 398 -5.93 -59.73 REMARK 500 ASN A 453 61.57 39.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-73359 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF HUMAN TOM70 IN COMPLEX WITH HSP90 C-TERMINAL REMARK 900 EEVD PEPTIDE DBREF 9YR4 A 1 607 UNP O94826 TOM70_HUMAN 1 607 DBREF 9YR4 B 724 732 UNP P07900 HS90A_HUMAN 724 732 SEQADV 9YR4 TYR B 723 UNP P07900 EXPRESSION TAG SEQRES 1 A 607 MET ALA ALA SER LYS PRO VAL GLU ALA ALA VAL VAL ALA SEQRES 2 A 607 ALA ALA VAL PRO SER SER GLY SER GLY VAL GLY GLY GLY SEQRES 3 A 607 GLY THR ALA GLY PRO GLY THR GLY GLY LEU PRO ARG TRP SEQRES 4 A 607 GLN LEU ALA LEU ALA VAL GLY ALA PRO LEU LEU LEU GLY SEQRES 5 A 607 ALA GLY ALA ILE TYR LEU TRP SER ARG GLN GLN ARG ARG SEQRES 6 A 607 ARG GLU ALA ARG GLY ARG GLY ASP ALA SER GLY LEU LYS SEQRES 7 A 607 ARG ASN SER GLU ARG LYS THR PRO GLU GLY ARG ALA SER SEQRES 8 A 607 PRO ALA PRO GLY SER GLY HIS PRO GLU GLY PRO GLY ALA SEQRES 9 A 607 HIS LEU ASP MET ASN SER LEU ASP ARG ALA GLN ALA ALA SEQRES 10 A 607 LYS ASN LYS GLY ASN LYS TYR PHE LYS ALA GLY LYS TYR SEQRES 11 A 607 GLU GLN ALA ILE GLN CYS TYR THR GLU ALA ILE SER LEU SEQRES 12 A 607 CYS PRO THR GLU LYS ASN VAL ASP LEU SER THR PHE TYR SEQRES 13 A 607 GLN ASN ARG ALA ALA ALA PHE GLU GLN LEU GLN LYS TRP SEQRES 14 A 607 LYS GLU VAL ALA GLN ASP CYS THR LYS ALA VAL GLU LEU SEQRES 15 A 607 ASN PRO LYS TYR VAL LYS ALA LEU PHE ARG ARG ALA LYS SEQRES 16 A 607 ALA HIS GLU LYS LEU ASP ASN LYS LYS GLU CYS LEU GLU SEQRES 17 A 607 ASP VAL THR ALA VAL CYS ILE LEU GLU GLY PHE GLN ASN SEQRES 18 A 607 GLN GLN SER MET LEU LEU ALA ASP LYS VAL LEU LYS LEU SEQRES 19 A 607 LEU GLY LYS GLU LYS ALA LYS GLU LYS TYR LYS ASN ARG SEQRES 20 A 607 GLU PRO LEU MET PRO SER PRO GLN PHE ILE LYS SER TYR SEQRES 21 A 607 PHE SER SER PHE THR ASP ASP ILE ILE SER GLN PRO MET SEQRES 22 A 607 LEU LYS GLY GLU LYS SER ASP GLU ASP LYS ASP LYS GLU SEQRES 23 A 607 GLY GLU ALA LEU GLU VAL LYS GLU ASN SER GLY TYR LEU SEQRES 24 A 607 LYS ALA LYS GLN TYR MET GLU GLU GLU ASN TYR ASP LYS SEQRES 25 A 607 ILE ILE SER GLU CYS SER LYS GLU ILE ASP ALA GLU GLY SEQRES 26 A 607 LYS TYR MET ALA GLU ALA LEU LEU LEU ARG ALA THR PHE SEQRES 27 A 607 TYR LEU LEU ILE GLY ASN ALA ASN ALA ALA LYS PRO ASP SEQRES 28 A 607 LEU ASP LYS VAL ILE SER LEU LYS GLU ALA ASN VAL LYS SEQRES 29 A 607 LEU ARG ALA ASN ALA LEU ILE LYS ARG GLY SER MET TYR SEQRES 30 A 607 MET GLN GLN GLN GLN PRO LEU LEU SER THR GLN ASP PHE SEQRES 31 A 607 ASN MET ALA ALA ASP ILE ASP PRO GLN ASN ALA ASP VAL SEQRES 32 A 607 TYR HIS HIS ARG GLY GLN LEU LYS ILE LEU LEU ASP GLN SEQRES 33 A 607 VAL GLU GLU ALA VAL ALA ASP PHE ASP GLU CYS ILE ARG SEQRES 34 A 607 LEU ARG PRO GLU SER ALA LEU ALA GLN ALA GLN LYS CYS SEQRES 35 A 607 PHE ALA LEU TYR ARG GLN ALA TYR THR GLY ASN ASN SER SEQRES 36 A 607 SER GLN ILE GLN ALA ALA MET LYS GLY PHE GLU GLU VAL SEQRES 37 A 607 ILE LYS LYS PHE PRO ARG CYS ALA GLU GLY TYR ALA LEU SEQRES 38 A 607 TYR ALA GLN ALA LEU THR ASP GLN GLN GLN PHE GLY LYS SEQRES 39 A 607 ALA ASP GLU MET TYR ASP LYS CYS ILE ASP LEU GLU PRO SEQRES 40 A 607 ASP ASN ALA THR THR TYR VAL HIS LYS GLY LEU LEU GLN SEQRES 41 A 607 LEU GLN TRP LYS GLN ASP LEU ASP ARG GLY LEU GLU LEU SEQRES 42 A 607 ILE SER LYS ALA ILE GLU ILE ASP ASN LYS CYS ASP PHE SEQRES 43 A 607 ALA TYR GLU THR MET GLY THR ILE GLU VAL GLN ARG GLY SEQRES 44 A 607 ASN MET GLU LYS ALA ILE ASP MET PHE ASN LYS ALA ILE SEQRES 45 A 607 ASN LEU ALA LYS SER GLU MET GLU MET ALA HIS LEU TYR SEQRES 46 A 607 SER LEU CYS ASP ALA ALA HIS ALA GLN THR GLU VAL ALA SEQRES 47 A 607 LYS LYS TYR GLY LEU LYS PRO PRO THR SEQRES 1 B 10 TYR ASP THR SER ARG MET GLU GLU VAL ASP HELIX 1 AA1 SER A 110 GLY A 128 1 19 HELIX 2 AA2 LYS A 129 LEU A 143 1 15 HELIX 3 AA3 VAL A 150 GLN A 165 1 16 HELIX 4 AA4 TRP A 169 ASN A 183 1 15 HELIX 5 AA5 VAL A 187 LEU A 200 1 14 HELIX 6 AA6 ASN A 202 GLY A 218 1 17 HELIX 7 AA7 ASN A 221 LYS A 245 1 25 HELIX 8 AA8 SER A 253 SER A 263 1 11 HELIX 9 AA9 SER A 296 GLU A 308 1 13 HELIX 10 AB1 LYS A 312 ALA A 323 1 12 HELIX 11 AB2 MET A 328 ILE A 342 1 15 HELIX 12 AB3 ALA A 348 LEU A 358 1 11 HELIX 13 AB4 ASN A 362 GLN A 380 1 19 HELIX 14 AB5 GLN A 382 ASP A 397 1 16 HELIX 15 AB6 ASN A 400 LEU A 414 1 15 HELIX 16 AB7 GLN A 416 ARG A 431 1 16 HELIX 17 AB8 ALA A 435 ASN A 453 1 19 HELIX 18 AB9 ASN A 454 PHE A 472 1 19 HELIX 19 AC1 CYS A 475 GLN A 489 1 15 HELIX 20 AC2 GLN A 491 GLU A 506 1 16 HELIX 21 AC3 ASN A 509 LYS A 524 1 16 HELIX 22 AC4 ASP A 526 ASP A 541 1 16 HELIX 23 AC5 CYS A 544 GLY A 559 1 16 HELIX 24 AC6 MET A 561 ASN A 573 1 13 HELIX 25 AC7 SER A 577 GLY A 602 1 26 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 269 0 0 25 0 0 0 6 3819 2 0 48 END