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- SASDEG2: Mitochondrial import inner membrane translocase complex TIM9·10 i... -

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Basic information

Entry
Database: SASBDB / ID: SASDEG2
SampleMitochondrial import inner membrane translocase complex TIM9·10 in complex with a precursor (GDP/GTP carrier (Ggc1))
  • Mitochondrial import inner membrane translocase subunit TIM9 (protein), TIM9, Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
  • Mitochondrial import inner membrane translocase subunit TIM10 (protein), TIM10, Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
  • Mitochondrial GTP/GDP carrier protein 1 (protein), GGC1, Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Function / homology
Function and homology information


guanine nucleotide transport / mitochondrial intermembrane space protein transporter complex / Mitochondrial protein import / guanine nucleotide transmembrane transporter activity / TIM22 mitochondrial import inner membrane insertion complex / protein transporter activity / protein insertion into mitochondrial inner membrane / mitochondrial genome maintenance / mitochondrial intermembrane space / transmembrane transport ...guanine nucleotide transport / mitochondrial intermembrane space protein transporter complex / Mitochondrial protein import / guanine nucleotide transmembrane transporter activity / TIM22 mitochondrial import inner membrane insertion complex / protein transporter activity / protein insertion into mitochondrial inner membrane / mitochondrial genome maintenance / mitochondrial intermembrane space / transmembrane transport / unfolded protein binding / intracellular iron ion homeostasis / mitochondrial inner membrane / membrane => GO:0016020 / mitochondrion / metal ion binding
Similarity search - Function
Tim10-like / Tim10-like domain superfamily / Tim10/DDP family zinc finger / Mitochondrial substrate/solute carrier / Mitochondrial carrier domain superfamily / Mitochondrial carrier protein / Solute carrier (Solcar) repeat profile.
Similarity search - Domain/homology
Mitochondrial import inner membrane translocase subunit TIM9 / Mitochondrial GTP/GDP carrier protein 1 / Mitochondrial import inner membrane translocase subunit TIM10
Similarity search - Component
Biological speciesSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
CitationJournal: Cell / Year: 2018
Title: Structural Basis of Membrane Protein Chaperoning through the Mitochondrial Intermembrane Space.
Authors: Katharina Weinhäupl / Caroline Lindau / Audrey Hessel / Yong Wang / Conny Schütze / Tobias Jores / Laura Melchionda / Birgit Schönfisch / Hubert Kalbacher / Beate Bersch / Doron Rapaport ...Authors: Katharina Weinhäupl / Caroline Lindau / Audrey Hessel / Yong Wang / Conny Schütze / Tobias Jores / Laura Melchionda / Birgit Schönfisch / Hubert Kalbacher / Beate Bersch / Doron Rapaport / Martha Brennich / Kresten Lindorff-Larsen / Nils Wiedemann / Paul Schanda /
Abstract: The exchange of metabolites between the mitochondrial matrix and the cytosol depends on β-barrel channels in the outer membrane and α-helical carrier proteins in the inner membrane. The essential ...The exchange of metabolites between the mitochondrial matrix and the cytosol depends on β-barrel channels in the outer membrane and α-helical carrier proteins in the inner membrane. The essential translocase of the inner membrane (TIM) chaperones escort these proteins through the intermembrane space, but the structural and mechanistic details remain elusive. We have used an integrated structural biology approach to reveal the functional principle of TIM chaperones. Multiple clamp-like binding sites hold the mitochondrial membrane proteins in a translocation-competent elongated form, thus mimicking characteristics of co-translational membrane insertion. The bound preprotein undergoes conformational dynamics within the chaperone binding clefts, pointing to a multitude of dynamic local binding events. Mutations in these binding sites cause cell death or growth defects associated with impairment of carrier and β-barrel protein biogenesis. Our work reveals how a single mitochondrial "transfer-chaperone" system is able to guide α-helical and β-barrel membrane proteins in a "nascent chain-like" conformation through a ribosome-free compartment.
Contact author
  • Martha Brennich (EMBL, European Molecular Biology Laboratory (EMBL) - Grenoble Outstation, Grenoble, France)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Models

Model #2193
Type: dummy / Software: (r5575) / Radius of dummy atoms: 3.40 A / Symmetry: C1 / Chi-square value: 1.358 / P-value: 0.000045
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Model #2224
Type: mix / Radius of dummy atoms: 1.90 A / Chi-square value: 1.89
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Model #2237
Type: atomic
Comment: Snapshot from a 7ns coarse-grained simulation. Fit corresponds to weighte ensemble, based on 16 runs
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Model #2238
Type: atomic
Comment: Snapshot from a 7ns coarse-grained simulation. Fit corresponds to weighte ensemble, based on 16 runs
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Model #2239
Type: atomic
Comment: Snapshot from a 7ns coarse-grained simulation. Fit corresponds to weighte ensemble, based on 16 runs
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Model #2240
Type: atomic
Comment: Snapshot from a 7ns coarse-grained simulation. Fit corresponds to weighte ensemble, based on 16 runs
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Model #2241
Type: atomic
Comment: Snapshot from a 7ns coarse-grained simulation. Fit corresponds to weighte ensemble, based on 16 runs
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Model #2242
Type: atomic
Comment: Snapshot from a 7ns coarse-grained simulation. Fit corresponds to weighte ensemble, based on 16 runs
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Model #2243
Type: atomic
Comment: Snapshot from a 7ns coarse-grained simulation. Fit corresponds to weighte ensemble, based on 16 runs
Search similar-shape structures of this assembly by Omokage search (details)
Model #2244
Type: atomic
Comment: Snapshot from a 7ns coarse-grained simulation. Fit corresponds to weighte ensemble, based on 16 runs
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Mitochondrial import inner membrane translocase complex TIM9·10 in complex with a precursor (GDP/GTP carrier (Ggc1))
Specimen concentration: 2 mg/ml / Entity id: 1215 / 1216 / 1217
BufferName: 50mM Tris, 150mM NaCl, imidiazole / pH: 7.4
Comment: The imidiazole concentration varies between 200 mM and 300 mM
Entity #1215Name: TIM9 / Type: protein
Description: Mitochondrial import inner membrane translocase subunit TIM9
Formula weight: 10.202 / Num. of mol.: 6
Source: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
References: UniProt: O74700
Sequence:
MDALNSKEQQ EFQKVVEQKQ MKDFMRLYSN LVERCFTDCV NDFTTSKLTN KEQTCIMKCS EKFLKHSERV GQRFQEQNAA LGQGLGR
Entity #1216Name: TIM10 / Type: protein
Description: Mitochondrial import inner membrane translocase subunit TIM10
Formula weight: 10.23 / Num. of mol.: 6
Source: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
References: UniProt: P87108
Sequence:
GSFLGFGGGQ PQLSSQQKIQ AAEAELDLVT DMFNKLVNNC YKKCINTSYS EGELNKNESS CLDRCVAKYF ETNVQVGENM QKMGQSFNAA GKF
Entity #1217Name: GGC1 / Type: protein / Description: Mitochondrial GTP/GDP carrier protein 1 / Formula weight: 33.426 / Num. of mol.: 1
Source: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
References: UniProt: P38988
Sequence: QSGLARLLGS ASAGIMEIAV FHPVDTISKR LMSNHTKITS GQELNRVIFR DHFSEPLGKR LFTLFPGLGY AASYKVLQRV YKYGGQPFAN EFLNKHYKKD FDNLFGEKTG KAMRSAAAGS LIGIGEIVLL PLDVLKIKRQ TNPESFKGRG FIKILRDEGL FNLYRGWGWT ...Sequence:
QSGLARLLGS ASAGIMEIAV FHPVDTISKR LMSNHTKITS GQELNRVIFR DHFSEPLGKR LFTLFPGLGY AASYKVLQRV YKYGGQPFAN EFLNKHYKKD FDNLFGEKTG KAMRSAAAGS LIGIGEIVLL PLDVLKIKRQ TNPESFKGRG FIKILRDEGL FNLYRGWGWT AARNAPGSFA LFGGNAFAKE YILGLKDYSQ ATWSQNFISS IVGASSSLIV SAPLDVIKTR IQNRNFDNPE SGLRIVKNTL KNEGVTAFFK GLTPKLLTTG PKLVFSFALA QSLIPRFDNL LSKLEHHHHH H

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Experimental information

BeamInstrument name: ESRF BM29 / City: Grenoble / 国: France / Type of source: X-ray synchrotron / Wavelength: 0.099 Å / Dist. spec. to detc.: 2.872 mm
DetectorName: Pilatus 1M / Type: Dectris / Pixsize x: 172 mm
Scan
Title: Mitochondrial import inner membrane translocase complex TIM9·10 in complex with a precursor (GDP/GTP carrier (Ggc1))
Measurement date: Feb 22, 2016 / Storage temperature: 20 °C / Cell temperature: 20 °C / Exposure time: 1 sec. / Number of frames: 50 / Unit: 1/nm /
MinMax
Q0.1696 4.9448
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 771 /
MinMax
Q0.16957 3.7993
P(R) point1 771
R0 16
Result
Type of curve: other /
ExperimentalPorod
MW160 kDa160 kDa
Volume-272 nm3

P(R)GuinierGuinier error
Forward scattering, I013.97 13.9 0.0095
Radius of gyration, Rg4.601 nm4.51 nm0.03

MinMax
D-16
Guinier point1 17

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