Download MendeleyNucleosome intermediate preference of SMARCAD1 chromatin remodeler, and the structural insights
Chen, Z.C., Hu, P.J., Sia, Y.Y., Chen, K.J., Xia, X.To be published.
9JAO | pdb_00009jao
The structure of SMARCAD1 bound to the hexasome in the presence of ADP-BeFx
- PDB DOI: https://doi.org/10.2210/pdb9JAO/pdb
- EM Map EMD-61296: EMDB EMDataResource
- Classification: DNA BINDING PROTEIN/DNA
- Organism(s): Homo sapiens, Xenopus laevis, synthetic construct
- Expression System: Homo sapiens, Escherichia coli
- Mutation(s): No
- Deposited: 2024-08-25 Released: 2025-04-30
- Funding Organization(s): National Natural Science Foundation of China (NSFC)
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 3.10 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.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A containing DEAD/H box 1 | A [auth C], J [auth K] | 845 | Homo sapiens | Mutation(s): 0 Gene Names: SMARCAD1, KIAA1122 EC: 3.6.4.12 |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q9H4L7 (Homo sapiens) Explore Q9H4L7 Go to UniProtKB: Q9H4L7 | |||||
PHAROS: Q9H4L7 GTEx: ENSG00000163104 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q9H4L7 | ||||
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 |
| Histone H3 | B [auth D], D [auth E] | 136 | Xenopus laevis | Mutation(s): 0 Gene Names: XELAEV_18002543mg |  |
UniProt | |||||
Find proteins for A0A310TTQ1 (Xenopus laevis) Explore A0A310TTQ1 Go to UniProtKB: A0A310TTQ1 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A310TTQ1 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Histone H4 | C [auth B], E [auth F] | 103 | Xenopus laevis | Mutation(s): 0 |  |
UniProt | |||||
Find proteins for P62799 (Xenopus laevis) Explore P62799 Go to UniProtKB: P62799 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P62799 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Histone H2A | F [auth G] | 130 | Xenopus laevis | Mutation(s): 0 Gene Names: h2ac14.L, h2ac14, hist1h2aj, LOC494591, XELAEV_18003602mg |  |
UniProt | |||||
Find proteins for Q6AZJ8 (Xenopus laevis) Explore Q6AZJ8 Go to UniProtKB: Q6AZJ8 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q6AZJ8 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 5 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Histone H2B 1.1 | G [auth H] | 123 | Xenopus laevis | Mutation(s): 0 |  |
UniProt | |||||
Find proteins for P02281 (Xenopus laevis) Explore P02281 Go to UniProtKB: P02281 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P02281 | ||||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 6 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (157-MER) | H [auth I] | 157 | synthetic construct |  | |
Sequence AnnotationsExpand | |||||
| |||||
Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 7 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (157-MER) | I [auth J] | 157 | synthetic construct |  | |
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ADP (Subject of Investigation/LOI) Query on ADP | K [auth C] | ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N |  | ||
| BEF (Subject of Investigation/LOI) Query on BEF | L [auth C] | BERYLLIUM TRIFLUORIDE ION Be F3 OGIAHMCCNXDTIE-UHFFFAOYSA-K |  | ||
| MG (Subject of Investigation/LOI) Query on MG | M [auth C] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 3.10 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
| Task | Software Package | Version |
|---|---|---|
| MODEL REFINEMENT | PHENIX | 1.18.2_3874: |
Entry History & Funding Information
Deposition Data
- Released Date: 2025-04-30 Deposition Author(s): Chen, Z.C., Hu, P.J., Sia, Y.Y., Chen, K.J., Xia, X.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Natural Science Foundation of China (NSFC) | China | -- |
Revision History (Full details and data files)
- Version 1.0: 2025-04-30
Type: Initial release
