HEADER METAL TRANSPORT 10-MAY-21 7OHF TITLE CRYO-EM STRUCTURE OF PYROCOCCUS FURIOSUS APOFERRITIN IN NANOFLUIDIC TITLE 2 CHANNELS COMPND MOL_ID: 1; COMPND 2 MOLECULE: FERRITIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS COM1; SOURCE 3 ORGANISM_TAXID: 1185654; SOURCE 4 GENE: PFC_02870; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS IRON STORAGE, METAL TRANSPORT EXPDTA ELECTRON MICROSCOPY AUTHOR S.T.HUBER,E.SARAJLIC,R.HUIJINK,W.H.EVERS,A.J.JAKOBI REVDAT 2 16-FEB-22 7OHF 1 JRNL REMARK REVDAT 1 11-AUG-21 7OHF 0 JRNL AUTH S.T.HUBER,E.SARAJLIC,R.HUIJINK,F.WEIS,W.H.EVERS,A.J.JAKOBI JRNL TITL NANOFLUIDIC CHIPS FOR CRYO-EM STRUCTURE DETERMINATION FROM JRNL TITL 2 PICOLITER SAMPLE VOLUMES. JRNL REF ELIFE V. 11 2022 JRNL REFN ESSN 2050-084X JRNL PMID 35060902 JRNL DOI 10.7554/ELIFE.72629 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.T.HUBER,E.SARAJLIC,R.HUIJINK,F.WEIS,W.H.EVERS,A.J.JAKOBI REMARK 1 TITL NANOFLUIDIC CHIPS FOR CRYO-EM STRUCTURE DETERMINATION FROM REMARK 1 TITL 2 PICOLITER SAMPLE VOLUMES REMARK 1 REF BIORXIV 2021 REMARK 1 REFN REMARK 1 DOI 10.1101/2021.05.25.444805 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : SERIALEM, CRYOSPARC, UCSF CHIMERA, REMARK 3 CRYOSPARC, CRYOSPARC, CRYOSPARC, PHENIX, REMARK 3 COOT REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 2X17 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) : 3.000 REMARK 3 NUMBER OF PARTICLES : 21238 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 7OHF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-MAY-21. REMARK 100 THE DEPOSITION ID IS D_1292115744. 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 : 24-MER OF PYROCOCCUS FURIOSUS REMARK 245 APOFERRITIN REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 3.40 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : THE SAMPLE WAS FILLED INTO REMARK 245 CRYOCHIPS THROUGH THE REMARK 245 CANTILEVER AND THEN TRANSFERRED REMARK 245 WITHIN ~10 SECONDS TO THE LEICA REMARK 245 PLUNGER FOR FREEZING. 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 : 948 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : -1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : -2000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.70 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 6300.00 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: 24-MERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT1 6 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT2 6 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 6 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT1 7 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT2 7 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 8 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 8 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 8 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT1 9 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 9 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 9 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT1 10 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 10 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 10 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 11 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 11 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT3 11 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT1 12 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT2 12 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 12 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 13 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 13 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT3 13 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT1 14 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT2 14 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 14 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT1 15 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT2 15 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 15 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT1 16 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT2 16 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT3 16 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT1 17 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT2 17 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT3 17 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 18 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT2 18 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT3 18 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 19 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 19 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT3 19 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 20 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 20 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT3 20 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 21 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT2 21 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT3 21 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT1 22 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT2 22 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT3 22 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT1 23 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 23 0.000000 0.000000 -1.000000 260.06400 REMARK 350 BIOMT3 23 -1.000000 0.000000 0.000000 260.06400 REMARK 350 BIOMT1 24 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 24 0.000000 -1.000000 0.000000 260.06400 REMARK 350 BIOMT3 24 0.000000 0.000000 -1.000000 260.06400 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 0 REMARK 465 MET A 170 REMARK 465 GLN A 171 REMARK 465 GLY A 172 REMARK 465 GLY A 173 REMARK 465 GLU A 174 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-12901 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF PYROCOCCUS FURIOSUS APOFERRITIN FROM PICOLITER REMARK 900 SAMPLE VOLUMES IN NANOFLUIDIC CHANNELS DBREF 7OHF A 1 174 UNP I6V0I9 I6V0I9_9EURY 1 174 SEQADV 7OHF MET A -1 UNP I6V0I9 EXPRESSION TAG SEQADV 7OHF ALA A 0 UNP I6V0I9 EXPRESSION TAG SEQRES 1 A 176 MET ALA MET LEU SER GLU ARG MET LEU LYS ALA LEU ASN SEQRES 2 A 176 ASP GLN LEU ASN ARG GLU LEU TYR SER ALA TYR LEU TYR SEQRES 3 A 176 PHE ALA MET ALA ALA TYR PHE GLU ASP LEU GLY LEU GLU SEQRES 4 A 176 GLY PHE ALA ASN TRP MET LYS ALA GLN ALA GLU GLU GLU SEQRES 5 A 176 ILE GLY HIS ALA LEU ARG PHE TYR ASN TYR ILE TYR ASP SEQRES 6 A 176 ARG ASN GLY ARG VAL GLU LEU ASP GLU ILE PRO LYS PRO SEQRES 7 A 176 PRO LYS GLU TRP GLU SER PRO LEU LYS ALA PHE GLU ALA SEQRES 8 A 176 ALA TYR GLU HIS GLU LYS PHE ILE SER LYS SER ILE TYR SEQRES 9 A 176 GLU LEU ALA ALA LEU ALA GLU GLU GLU LYS ASP TYR SER SEQRES 10 A 176 THR ARG ALA PHE LEU GLU TRP PHE ILE ASN GLU GLN VAL SEQRES 11 A 176 GLU GLU GLU ALA SER VAL LYS LYS ILE LEU ASP LYS LEU SEQRES 12 A 176 LYS PHE ALA LYS ASP SER PRO GLN ILE LEU PHE MET LEU SEQRES 13 A 176 ASP LYS GLU LEU SER ALA ARG ALA PRO LYS LEU PRO GLY SEQRES 14 A 176 LEU LEU MET GLN GLY GLY GLU HELIX 1 AA1 SER A 3 TYR A 22 1 20 HELIX 2 AA2 LEU A 23 GLU A 32 1 10 HELIX 3 AA3 GLY A 38 TYR A 62 1 25 HELIX 4 AA4 LEU A 84 GLU A 109 1 26 HELIX 5 AA5 ASP A 113 ALA A 118 1 6 HELIX 6 AA6 PHE A 119 LYS A 142 1 24 HELIX 7 AA7 SER A 147 LEU A 158 1 12 HELIX 8 AA8 SER A 159 ARG A 161 5 3 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