1WRD: Tom1 GAT domain

Crystal structure of Tom1 GAT domain in complex with ubiquitin. Determined by X-ray diffraction at 1.75 Å resolution. Released 11 Oct 2005.

Method: X-ray diffraction
Resolution: 1.75 Å
Organisms: Homo sapiens, Bos taurus
Chains: 2
Atoms: 1,677
Mol. weight: 20.38 kDa
Released: 11 Oct 2005

Explore 1WRD in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1WRD contains 7 α-helices and 7 β-strands across 2 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: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	217-240	24
α-helix	248-274	27
α-helix	278-305	28

Chain B: 4 helices, 7 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	55	1	2
β-strand	66-71	6	1
α-helix	72-73	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Target of Myb protein 1	A	protein	103	Homo sapiens	O60784 (AlphaFold model)
Ubiquitin	B	protein	76	Bos taurus	P0CH28 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>1WRD_1 Target of Myb protein 1 (chains A)
GPLGSEQIGKLRSELEMVSGNVRVMSEMLTELVPTQAEPADLELLQELNRTCRAMQQRVL
ELIPQIANEQLTEELLIVNDNLNNVFLRHERFERFRTGQTTKA

Sequence of entity 2 (B), FASTA

>1WRD_2 Ubiquitin (chains B)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGG

Primary citation

Structural basis for recognition of ubiquitinated cargo by Tom1-GAT domain. Akutsu, M., Kawasaki, M., Katoh, Y. et al. FEBS Lett (2005) 579:5385-5391. DOI 10.1016/j.febslet.2005.08.076 · PubMed

Other PDB entries of the same protein (UniProt O60784 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9KZN 1.35 Å, Crystal structure of Tom1 in complex with Tollip
1ELK 1.5 Å, VHS domain of TOM1 protein from H. sapiens
6J56 1.8 Å, Crystal structure of Myosin VI CBD in complex with Tom1 MBM
2N2N Tom1 negatively modulates binding of Tollip to phosphatidylinositol 3-phosphate via a…
2N9D Structure analysis of the Tom1 GAT domain reveals distinct ligand-specific…

Browse structure collections

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