3A9K: Mouse TAB3-NZF

Crystal structure of the mouse TAB3-NZF in complex with Lys63-linked di-ubiquitin. Determined by X-ray diffraction at 1.4 Å resolution. Released 8 Dec 2009.

Method: X-ray diffraction
Resolution: 1.4 Å
Organism: Mus musculus
Chains: 3
Atoms: 1,613
Mol. weight: 21.2 kDa
Ligands: ZN
Released: 8 Dec 2009

Explore 3A9K in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3A9K contains 8 α-helices and 20 β-strands across 3 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: 5 helices, 9 β-strands

Element	Residues	Length	Sheet
β-strand	2-7	6	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	52	1	3
β-strand	54	1	3
β-strand	55	1	2
α-helix	57-59	3
β-strand	66-71	6	1
α-helix	73-75	3

Chain B: 3 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	4
β-strand	12-16	5	4
β-strand	22	1	5
α-helix	23-34	12
α-helix	38-40	3
β-strand	41-45	5	4
β-strand	48-49	2	4
β-strand	55	1	5
α-helix	56-59	4
β-strand	66-71	6	4

Chain C: 0 helices, 4 β-strands

Element	Residues	Length	Sheet
β-strand	691-692	2	6
β-strand	699-700	2	6
β-strand	706	1	7
β-strand	713	1	7

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Ubiquitin	A	protein	76	Mus musculus	P0CG50 (AlphaFold model)
Ubiquitin	B	protein	77	Mus musculus	P0CG50 (AlphaFold model)
Mitogen-activated protein kinase kinase kinase 7-interacting protein 3	C	protein	34	Mus musculus	Q571K4 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>3A9K_1 Ubiquitin (chains A)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQRESTLHLVLRLRGG

Sequence of entity 2 (B), FASTA

>3A9K_2 Ubiquitin (chains B)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGGD

Sequence of entity 3 (C), FASTA

>3A9K_3 Mitogen-activated protein kinase kinase kinase 7-interacting protein 3 (chains C)
GPGHMGAPWNCDSCTFLNHPALNRCEQCEMPRYT

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	1

Primary citation

Structural basis for specific recognition of Lys 63-linked polyubiquitin chains by NZF domains of TAB2 and TAB3. Sato, Y., Yoshikawa, A., Yamashita, M. et al. EMBO J (2009) 28:3903-3909. DOI 10.1038/emboj.2009.345 · PubMed

Other PDB entries of the same protein (UniProt P0CG50 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3A9J 1.18 Å, Crystal structure of the mouse TAB2-NZF in complex with Lys63-linked di-ubiquitin
2ZNV 1.6 Å, Crystal structure of human AMSH-LP DUB domain in complex with Lys63-linked ubiquitin dimer
3WWQ 1.9 Å, Crystal structure of FAAP20 UBZ domain in complex with Lys63-linked diubiquitin
3A1Q 2.2 Å, Crystal structure of the mouse RAP80 UIMs in complex with Lys63-linked di-ubiquitin
4NQL 2.3 Å, The crystal structure of the DUB domain of AMSH orthologue, Sst2 from S. pombe, in…
6N5M 3.01 Å, Crystal structure of ABIN-1 UBAN in complex with one M1-linked di-ubiquitin
3WXG 3.1 Å, Crystal structure of CYLD USP domain (C596A) in complex with Lys63-linked diubiquitin
9T67 7.7 Å, Cytoplasmic lattice filament repeat unit with ubiquitin
9T68 8.0 Å, Composite structure of the repeat unit of cytoplasmic lattice filament

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