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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | mycobacterial efflux pump, apo state | |||||||||
![]() | EM map of mycobacterial efflux pump, apo state | |||||||||
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![]() | ABC transporter / efflux pump / TRANSPORT PROTEIN | |||||||||
Function / homology | ![]() Translocases; Catalysing the translocation of other compounds; Linked to the hydrolysis of a nucleoside triphosphate / response to antibiotic / ATP hydrolysis activity / ATP binding / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.9 Å | |||||||||
![]() | Wang Y / Wu F / Zhang L / Rao Z | |||||||||
Funding support | ![]()
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![]() | ![]() Title: mycobacterial efflux pump, apo state Authors: Wang Y / Wu F / Zhang L / Rao Z | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 203.7 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 18 KB 18 KB | Display Display | ![]() |
Images | ![]() | 49 KB | ||
Filedesc metadata | ![]() | 6.4 KB | ||
Others | ![]() ![]() | 200.4 MB 200.4 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 974.3 KB | Display | ![]() |
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Full document | ![]() | 973.8 KB | Display | |
Data in XML | ![]() | 15.6 KB | Display | |
Data in CIF | ![]() | 18.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8k1mMC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
File | ![]() | ||||||||||||||||||||||||||||||||||||
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Annotation | EM map of mycobacterial efflux pump, apo state | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.82 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: half map A of mycobacterial efflux pump, apo state
File | emd_36795_half_map_1.map | ||||||||||||
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Annotation | half map A of mycobacterial efflux pump, apo state | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: half map B of mycobacterial efflux pump, apo state
File | emd_36795_half_map_2.map | ||||||||||||
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Annotation | half map B of mycobacterial efflux pump, apo state | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : ternary complex of an ABC transporter Rv1217c-1218c
Entire | Name: ternary complex of an ABC transporter Rv1217c-1218c |
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Components |
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-Supramolecule #1: ternary complex of an ABC transporter Rv1217c-1218c
Supramolecule | Name: ternary complex of an ABC transporter Rv1217c-1218c / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#2 |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 120 KDa |
-Macromolecule #1: Multidrug efflux system permease protein Rv1217c
Macromolecule | Name: Multidrug efflux system permease protein Rv1217c / type: protein_or_peptide / ID: 1 / Details: transmembrane domain / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 56.698039 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MSSTVIDRAR PAGHRAPHRG SGFTGTLGLL RLYLRRDRVS LPLWVLLLSV PLATVYIASV ETVYPDRSAR AAAAAAIMAS PAQRALYGP VYNDSLGAVG IWKAGMFHTL IAVAVILTVI RHTRADEESG RAELIDSTVV GRYANLTGAL LLSFGASIAT G AIGALGLL ...String: MSSTVIDRAR PAGHRAPHRG SGFTGTLGLL RLYLRRDRVS LPLWVLLLSV PLATVYIASV ETVYPDRSAR AAAAAAIMAS PAQRALYGP VYNDSLGAVG IWKAGMFHTL IAVAVILTVI RHTRADEESG RAELIDSTVV GRYANLTGAL LLSFGASIAT G AIGALGLL ATDVAPAGSV AFGVALAASG MVFTAVAAVA AQLSPSARFT RAVAFAVLGT AFALRAIGDA GSGTLSWCSP LG WSLQVRP YAGERWWVLL LSLATAAVLT VLAYRLRAGR DVGAGLIAER PGAGTAGPML SEPFGLAWRL NRGSLLLWTV GLC LYGLVM GSVVHGIGDQ LGDNTAVRDI VTRMGGTGAL EQAFLALAFT MIGMVAAAFA VSLTLRLHQE ETGLRAETLL AGAV SRTHW LASHLAMALA GSAVATLISG VAAGLAYGMT VGDVGGKLPT VVGTAAVQLP AVWLLSAVTV GLFGLAPRFT PVAWG VLVG FIALYLLGSL AGFPQMLLNL EPFAHIPRVG GGDFTAVPLL WLLAIDAALI TLGAMAFRRR DVRC UniProtKB: Multidrug efflux system permease protein Rv1217c |
-Macromolecule #2: Multidrug efflux system ATP-binding protein Rv1218c
Macromolecule | Name: Multidrug efflux system ATP-binding protein Rv1218c / type: protein_or_peptide / ID: 2 / Details: nucleotide binding domain / Number of copies: 2 / Enantiomer: LEVO EC number: Translocases; Catalysing the translocation of other compounds; Linked to the hydrolysis of a nucleoside triphosphate |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 31.227666 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: VPIEIRGLTK HFGSVRALDG LDLTVREGEV HGFLGPNGAG KSTTLRILLG LVKADGGSVR LLGGDPWTDA VDLHRHIAYV PGDVTLWPS LTGGETIDLL ARMRGGIDNA RRAELIERFG LDPTKKARTY SKGNRQKVSL ISALSSHATL LLLDEPSSGL D PLMENVFQ ...String: VPIEIRGLTK HFGSVRALDG LDLTVREGEV HGFLGPNGAG KSTTLRILLG LVKADGGSVR LLGGDPWTDA VDLHRHIAYV PGDVTLWPS LTGGETIDLL ARMRGGIDNA RRAELIERFG LDPTKKARTY SKGNRQKVSL ISALSSHATL LLLDEPSSGL D PLMENVFQ QCIGEARQRG VTVLLSSHIL AETEALCEKV TIIRAGKTVE SGSLDALRHL SRTSIKAEMI GDPGDLSQIK GV EDISIEG TTVRAQVDSE SLRELIQVLG HAGVRSLVSQ PPTLEELFLR HY UniProtKB: Multidrug efflux system ATP-binding protein Rv1218c |
-Macromolecule #3: (1S)-2-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(octadeca...
Macromolecule | Name: (1S)-2-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(octadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate type: ligand / ID: 3 / Number of copies: 1 / Formula: L9Q |
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Molecular weight | Theoretical: 746.05 Da |
Chemical component information | ![]() ChemComp-L9Q: |
-Macromolecule #4: CARDIOLIPIN
Macromolecule | Name: CARDIOLIPIN / type: ligand / ID: 4 / Number of copies: 1 / Formula: CDL |
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Molecular weight | Theoretical: 1.464043 KDa |
Chemical component information | ![]() ChemComp-CDL: |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 8 mg/mL |
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Buffer | pH: 7.4 / Details: 150mM NaCl, 20mM Tris, detergent |
Grid | Material: COPPER / Mesh: 300 / Pretreatment - Type: PLASMA CLEANING / Pretreatment - Time: 30 sec. |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 281 K / Instrument: FEI VITROBOT MARK II |
Details | sample was monodisperse |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Number grids imaged: 1 / Number real images: 5900 / Average exposure time: 2.4 sec. / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | C2 aperture diameter: 70.0 µm / Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.2 µm / Nominal magnification: 29000 |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |