+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-13147 | |||||||||
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Title | Human mitochondrial Lon protease without substrate | |||||||||
Map data | Human mitochondrial LonP1 apo form | |||||||||
Sample |
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Keywords | Protease / Mitochondria / AAA+ / HYDROLASE | |||||||||
Function / homology | Function and homology information oxidation-dependent protein catabolic process / PH domain binding / mitochondrial protein catabolic process / G-quadruplex DNA binding / endopeptidase La / mitochondrial DNA metabolic process / mitochondrial genome maintenance / ATP-dependent peptidase activity / protein quality control for misfolded or incompletely synthesized proteins / mitochondrial nucleoid ...oxidation-dependent protein catabolic process / PH domain binding / mitochondrial protein catabolic process / G-quadruplex DNA binding / endopeptidase La / mitochondrial DNA metabolic process / mitochondrial genome maintenance / ATP-dependent peptidase activity / protein quality control for misfolded or incompletely synthesized proteins / mitochondrial nucleoid / regulation of peptidyl-tyrosine phosphorylation / insulin receptor substrate binding / chaperone-mediated protein complex assembly / DNA polymerase binding / negative regulation of insulin receptor signaling pathway / mitochondrion organization / proteolysis involved in protein catabolic process / Mitochondrial protein degradation / protein catabolic process / ADP binding / single-stranded DNA binding / cellular response to oxidative stress / sequence-specific DNA binding / single-stranded RNA binding / response to hypoxia / mitochondrial matrix / serine-type endopeptidase activity / ATP hydrolysis activity / mitochondrion / nucleoplasm / ATP binding / identical protein binding / membrane / cytosol Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.11 Å | |||||||||
Authors | Valentin Gese G / Shahzad S | |||||||||
Citation | Journal: To Be Published Title: A dual allosteric pathway drives human mitochondrial Lon Authors: Valentin Gese G / Shahzad S / Pardo-Hernandez C / Wramstedt A / Falkenberg M / Hallberg M | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_13147.map.gz | 230.2 MB | EMDB map data format | |
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Header (meta data) | emd-13147-v30.xml emd-13147.xml | 14.2 KB 14.2 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_13147_fsc.xml | 14 KB | Display | FSC data file |
Images | emd_13147.png | 61.7 KB | ||
Filedesc metadata | emd-13147.cif.gz | 5.7 KB | ||
Others | emd_13147_half_map_1.map.gz emd_13147_half_map_2.map.gz | 226.8 MB 226.8 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-13147 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-13147 | HTTPS FTP |
-Related structure data
Related structure data | 7p0bMC 7p09C 7p0mC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_13147.map.gz / Format: CCP4 / Size: 244.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Human mitochondrial LonP1 apo form | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.308 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Half map: Human mitochondrial LonP1 apo form, half map A
File | emd_13147_half_map_1.map | ||||||||||||
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Annotation | Human mitochondrial LonP1 apo form, half map A | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Human mitochondrial LonP1 apo form, half map B
File | emd_13147_half_map_2.map | ||||||||||||
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Annotation | Human mitochondrial LonP1 apo form, half map B | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Human mitochondrial LonP1 G106P, R563W and K594M mutant
Entire | Name: Human mitochondrial LonP1 G106P, R563W and K594M mutant |
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Components |
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-Supramolecule #1: Human mitochondrial LonP1 G106P, R563W and K594M mutant
Supramolecule | Name: Human mitochondrial LonP1 G106P, R563W and K594M mutant type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 591 KDa |
-Macromolecule #1: Lon protease homolog, mitochondrial
Macromolecule | Name: Lon protease homolog, mitochondrial / type: protein_or_peptide / ID: 1 / Number of copies: 6 / Enantiomer: LEVO / EC number: endopeptidase La |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 98.664133 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: SMGFWEASSR GGGAFSGGED ASEGGAEEGA GGAGGSAGAG EGGVITALTP MTIPDVFPHL PLIAITRNPV FPRFIKIIEV KNKKLVELL RRKVRLAQPY VGVFLKRDDS NESDVVESLD EIYHTGTFAQ IHEMQDLGDK LRMIVMGHRR VHISRQLEVE P EEPEAENK ...String: SMGFWEASSR GGGAFSGGED ASEGGAEEGA GGAGGSAGAG EGGVITALTP MTIPDVFPHL PLIAITRNPV FPRFIKIIEV KNKKLVELL RRKVRLAQPY VGVFLKRDDS NESDVVESLD EIYHTGTFAQ IHEMQDLGDK LRMIVMGHRR VHISRQLEVE P EEPEAENK HKPRRKSKRG KKEAEDELSA RHPAELAMEP TPELPAEVLM VEVENVVHED FQVTEEVKAL TAEIVKTIRD II ALNPLYR ESVLQMMQAG QRVVDNPIYL SDMGAALTGA ESHELQDVLE ETNIPKRLYK ALSLLKKEFE LSKLQQRLGR EVE EKIKQT HRKYLLQEQL KIIKKELGLE KDDKDAIEEK FRERLKELVV PKHVMDVVDE ELSKLGLLDN HSSEFNVTRN YLDW LTSIP WGKYSNENLD LARAQAVLEE DHYGMEDVKK RILEFIAVSQ LRGSTQGKIL CFYGPPGVGK TSIARSIARA LNREY FRFS VGGMTDVAEI KGHRWTYVGA MPGKIIQCLK KTKTENPLIL IDEVDMIGRG YQGDPSSALL ELLDPEQNAN FLDHYL DVP VDLSKVLFIC TANVTDTIPE PLRDRMEMIN VSGYVAQEKL AIAERYLVPQ ARALCGLDES KAKLSSDVLT LLIKQYC RE SGVRNLQKQV EKVLRKSAYK IVSGEAESVE VTPENLQDFV GKPVFTVERM YDVTPPGVVM GLAWTAMGGS TLFVETSL R RPQDKDAKGD KDGSLEVTGQ LGEVMKESAR IAYTFARAFL MQHAPANDYL VTSHIHLHVP EGATPKDGPS AGCTIVTAL LSLAMGRPVR QNLAMTGEVS LTGKILPVGG IKEKTIAAKR AGVTCIVLPA ENKKDFYDLA AFITEGLEVH FVEHYREIFD IAFPD UniProtKB: Lon protease homolog, mitochondrial |
-Macromolecule #2: ADENOSINE-5'-DIPHOSPHATE
Macromolecule | Name: ADENOSINE-5'-DIPHOSPHATE / type: ligand / ID: 2 / Number of copies: 6 / Formula: ADP |
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Molecular weight | Theoretical: 427.201 Da |
Chemical component information | ChemComp-ADP: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average exposure time: 1.5 sec. / Average electron dose: 51.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |