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- EMDB-26914: Rat Kidney V1 complex lacking subunit H with SidK and NCOA7B, State 1 -
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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | Rat Kidney V1 complex lacking subunit H with SidK and NCOA7B, State 1 | |||||||||
![]() | V1 complex lacking subunit H with SidK and NCOA7B, State 1 | |||||||||
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![]() | V-ATPase / Complex / Membrane protein / PROTON TRANSPORT | |||||||||
Function / homology | ![]() Transferrin endocytosis and recycling / Ion channel transport / Amino acids regulate mTORC1 / Insulin receptor recycling / cellular response to increased oxygen levels / proton-transporting V-type ATPase, V1 domain / synaptic vesicle lumen acidification / extrinsic component of synaptic vesicle membrane / clathrin-coated vesicle membrane / vacuolar proton-transporting V-type ATPase, V1 domain ...Transferrin endocytosis and recycling / Ion channel transport / Amino acids regulate mTORC1 / Insulin receptor recycling / cellular response to increased oxygen levels / proton-transporting V-type ATPase, V1 domain / synaptic vesicle lumen acidification / extrinsic component of synaptic vesicle membrane / clathrin-coated vesicle membrane / vacuolar proton-transporting V-type ATPase, V1 domain / proton-transporting V-type ATPase complex / protein localization to cilium / vacuolar proton-transporting V-type ATPase complex / regulation of cellular pH / vacuolar acidification / ROS and RNS production in phagocytes / Neutrophil degranulation / ATPase complex / microvillus / cilium assembly / transmembrane transporter complex / ATP metabolic process / H+-transporting two-sector ATPase / proton transmembrane transport / ruffle / proton-transporting ATPase activity, rotational mechanism / proton-transporting ATP synthase activity, rotational mechanism / secretory granule / cilium / synaptic vesicle membrane / melanosome / apical part of cell / ATPase binding / intracellular iron ion homeostasis / endosome / apical plasma membrane / lysosomal membrane / centrosome / ATP hydrolysis activity / nucleoplasm / ATP binding / membrane / plasma membrane / cytosol / cytoplasm Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.0 Å | |||||||||
![]() | Abbas YM / Rubinstein JL | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structure of V-ATPase with NCOA7B Authors: Abbas YM / Rubinstein JL | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 21.9 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 19.4 KB 19.4 KB | Display Display | ![]() |
Images | ![]() | 107.5 KB | ||
Filedesc metadata | ![]() | 7.2 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7uzkMC ![]() 7uzfC ![]() 7uzgC ![]() 7uzhC ![]() 7uziC ![]() 7uzjC C: citing same article ( M: atomic model generated by this map |
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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 | V1 complex lacking subunit H with SidK and NCOA7B, State 1 | ||||||||||||||||||||
Voxel size | X=Y=Z: 1.06 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
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Sample components
+Entire : Rat Kidney V1 Complex with SidK and NCOA7B
+Supramolecule #1: Rat Kidney V1 Complex with SidK and NCOA7B
+Macromolecule #1: ATPase H+-transporting V1 subunit A
+Macromolecule #2: V-type proton ATPase subunit B, brain isoform
+Macromolecule #3: V-type proton ATPase subunit C 1
+Macromolecule #4: ATPase H+-transporting V1 subunit D
+Macromolecule #5: V-type proton ATPase subunit E 1
+Macromolecule #6: V-type proton ATPase subunit F
+Macromolecule #7: V-type proton ATPase subunit G
+Macromolecule #8: Effector SidK
+Macromolecule #9: Nuclear receptor coactivator 7B
+Macromolecule #10: ADENOSINE-5'-DIPHOSPHATE
+Macromolecule #11: MAGNESIUM ION
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 40.826 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.8000000000000003 µm / Nominal defocus min: 0.3 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Startup model | Type of model: INSILICO MODEL |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.0 Å / Resolution method: OTHER Details: Model-map FSC (threshold 0.5) calculated in phenix.validation_cryoem Number images used: 175138 |
Initial angle assignment | Type: PROJECTION MATCHING |
Final angle assignment | Type: PROJECTION MATCHING |