3VUX: A20 ZF7
Crystal structure of A20 ZF7 in complex with linear ubiquitin, form II. Determined by X-ray diffraction at 1.7 Å resolution. Released 13 Feb 2013.
- Method
- X-ray diffraction
- Resolution
- 1.7 Å
- Organism
- Homo sapiens
- Chains
- 6
- Atoms
- 2,886
- Mol. weight
- 38.04 kDa
- Ligands
- ZN
- Released
- 13 Feb 2013
Explore 3VUX in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
3VUX contains 22 α-helices and 31 β-strands across 6 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
Chain A: 4 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 2-6 | 5 | 1 |
| β-strand | 12-16 | 5 | 1 |
| β-strand | 22 | 1 | 2 |
| α-helix | 23-34 | 12 | |
| α-helix | 38-40 | 3 | |
| β-strand | 41-45 | 5 | 1 |
| β-strand | 48-49 | 2 | 1 |
| α-helix | 50-51 | 2 | |
| β-strand | 55 | 1 | 2 |
| α-helix | 57-59 | 3 | |
| β-strand | 66-71 | 6 | 1 |
Chain B: 3 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 2-6 | 5 | 3 |
| β-strand | 12-16 | 5 | 3 |
| β-strand | 22 | 1 | 4 |
| α-helix | 23-34 | 12 | |
| α-helix | 38-40 | 3 | |
| β-strand | 41-45 | 5 | 3 |
| β-strand | 48-49 | 2 | 3 |
| α-helix | 50-51 | 2 | |
| β-strand | 55 | 1 | 4 |
| β-strand | 66-71 | 6 | 3 |
Chain C: 3 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 2-6 | 5 | 5 |
| β-strand | 12-16 | 5 | 5 |
| β-strand | 22 | 1 | 6 |
| α-helix | 23-34 | 12 | |
| α-helix | 38-40 | 3 | |
| β-strand | 41-45 | 5 | 5 |
| β-strand | 48-49 | 2 | 5 |
| β-strand | 55 | 1 | 6 |
| α-helix | 56-59 | 4 | |
| β-strand | 66-71 | 6 | 5 |
Chain E: 5 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 760 | 1 | |
| β-strand | 761 | 1 | 7 |
| α-helix | 762 | 1 | |
| β-strand | 770 | 1 | 7 |
| α-helix | 771 | 1 | |
| α-helix | 773-775 | 3 | |
| β-strand | 776 | 1 | 8 |
| β-strand | 778 | 1 | 8 |
| α-helix | 780-788 | 9 | |
Chain F: 5 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 760 | 1 | |
| β-strand | 761 | 1 | 9 |
| α-helix | 762 | 1 | |
| β-strand | 770 | 1 | 9 |
| α-helix | 771 | 1 | |
| α-helix | 773-775 | 3 | |
| α-helix | 780-789 | 10 | |
Chain G: 2 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 761 | 1 | 10 |
| β-strand | 770 | 1 | 10 |
| α-helix | 771 | 1 | |
| β-strand | 776 | 1 | 11 |
| β-strand | 778 | 1 | 11 |
| α-helix | 780-789 | 10 | |
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Polyubiquitin-C | A, B, C | protein | 76 | Homo sapiens | P0CG48 (AlphaFold model) |
| Tumor necrosis factor alpha-induced protein 3 | E, F, G | protein | 35 | Homo sapiens | P21580 (AlphaFold model) |
Sequence of entity 1 (A, B, C), FASTA
>3VUX_1 Polyubiquitin-C (chains A, B, C)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGG
Sequence of entity 2 (E, F, G), FASTA
>3VUX_2 Tumor necrosis factor alpha-induced protein 3 (chains E, F, G)
GPPKQRCRAPACDHFGNAKCNGYCNECFQFKQMYG
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| ZN | Zinc ion | Zn | 3 |
Water and common crystallization additives (K, EDO) are not listed.
Primary citation
Specific recognition of linear polyubiquitin by A20 zinc finger 7 is involved in NF-kappaB regulation. Tokunaga, F., Nishimasu, H., Ishitani, R. et al. EMBO J (2012) 31:3856-3870. DOI 10.1038/emboj.2012.241 · PubMed
Other PDB entries of the same protein (UniProt P0CG48 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 6Q00 0.85 Å, TDP2 UBA Domain Bound to Ubiquitin at 0.85 Angstroms Resolution, Crystal Form 1
- 1OGW 1.32 Å, Synthetic Ubiquitin with fluoro-Leu at 50 and 67
- 5NL4 1.32 Å, Crystal structure of Zn1.3-E16V human ubiquitin (hUb) mutant adduct, from a solution 35…
- 2GBJ 1.35 Å, Crystal Structure of the 9-10 8 Glycine Insertion Mutant of Ubiquitin.
- 4HK2 1.4 Å, U7Ub25.2540
- 9FJ3 1.4 Å, Structure of ubiquitin bound of coiled-coil UIM form 2
- 1XD3 1.45 Å, Crystal structure of UCHL3-UbVME complex
- 4IUM 1.45 Å, Equine arteritis virus papain-like protease 2 (PLP2) covalently bound to ubiquitin
- 7UV5 1.45 Å, The crystal structure of Papain-Like Protease of SARS CoV-2, C111S/D286N mutant, in…
- 5NLF 1.5 Å, Crystal structure of Zn2.7-E16V human ubiquitin (hUb) mutant adduct, from a solution 100…
- 9F6G 1.5 Å, Human USP30 chimera bound to Ubiquitin-PA
- 9OVX 1.5 Å, Crystal structure of ubiquitin K27M mutant
Browse structure collections
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