7OH5
Cryo-EM structure of Drs2p-Cdc50p in the E1-AlFx-ADP state
- PDB DOI: https://doi.org/10.2210/pdb7OH5/pdb
- EM Map EMD-12894: EMDB EMDataResource
- Classification: MEMBRANE PROTEIN
- Organism(s): Saccharomyces cerevisiae S288C
- Expression System: Saccharomyces cerevisiae
- Mutation(s): No 
- Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc
- Deposited: 2021-05-09 Released: 2021-06-09 
- Funding Organization(s): Lundbeckfonden, Novo Nordisk Foundation, Boehringer Ingelheim Fonds (BIF)
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 2.90 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: SINGLE PARTICLE 
wwPDB Validation   3D Report Full Report
This is version 1.0 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Probable phospholipid-transporting ATPase DRS2,Probable phospholipid-transporting ATPase DRS2 | 1,465 | Saccharomyces cerevisiae S288C | Mutation(s): 0  Gene Names: DRS2, YAL026C, FUN38 EC: 7.6.2.1 Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for P39524 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P39524  Go to UniProtKB:  P39524 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P39524 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Cell division control protein 50 | B [auth C] | 413 | Saccharomyces cerevisiae S288C | Mutation(s): 0  Gene Names: PACBIOSEQ_LOCUS691, SCNYR20_0014012900 Membrane Entity: Yes  | |
UniProt | |||||
Find proteins for P25656 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P25656  Go to UniProtKB:  P25656 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P25656 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | C [auth B], D | 2 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT |
Entity ID: 4 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
beta-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | E | 4 | N/A | N-Glycosylation |
Small Molecules
Ligands 5 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
2Y5 Query on 2Y5 | J [auth A] | (2R)-1-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}-3-(octadecanoyloxy)propan-2-yl (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate C47 H84 O16 P2 ROKMWIUSHIHOGI-BWTMTLBLSA-N | |||
ADP Query on ADP | I [auth A] | ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N | |||
NAG Query on NAG | K [auth C] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
ALF Query on ALF | G [auth A] | TETRAFLUOROALUMINATE ION Al F4 UYOMQIYKOOHAMK-UHFFFAOYSA-J | |||
MG Query on MG | F [auth A], H [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 2.90 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: SINGLE PARTICLE 
Task | Software Package | Version |
---|---|---|
RECONSTRUCTION | cryoSPARC | 2 |
MODEL REFINEMENT | PHENIX | 1.18rc7-3834 |
Entry History & Funding Information
Deposition Data
- Released Date: 2021-06-09  Deposition Author(s): Timcenko, M., Dieudonne, T., Montigny, C., Boesen, T., Lyons, J.A., Lenoir, G., Nissen, P.
Funding Organization | Location | Grant Number |
---|---|---|
Lundbeckfonden | Denmark | -- |
Novo Nordisk Foundation | Denmark | -- |
Boehringer Ingelheim Fonds (BIF) | Germany | -- |
Revision History (Full details and data files)
- Version 1.0: 2021-06-09
Type: Initial release