2OOB: UBA domain from Cbl-b ubiquitin ligase

Name: PDB 2OOB: crystal structure of the UBA domain from Cbl-b ubiquitin ligase in complex with ubiquitin
Published: 2007-02-06
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: ligase

crystal structure of the UBA domain from Cbl-b ubiquitin ligase in complex with ubiquitin. Determined by X-ray diffraction at 1.9 Å resolution. Released 6 Feb 2007.

Method: X-ray diffraction
Resolution: 1.9 Å
Organisms: Homo sapiens, Bos taurus
Chains: 2
Atoms: 1,058
Mol. weight: 14.23 kDa
Released: 6 Feb 2007

Explore 2OOB in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2OOB 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	932-941	10
α-helix	946-955	10
α-helix	960-970	11

Chain B: 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

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
E3 ubiquitin-protein ligase CBL-B	A	protein	52	Homo sapiens	Q13191 (AlphaFold model)
Ubiquitin	B	protein	76	Bos taurus	P0CH28 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>2OOB_1 E3 ubiquitin-protein ligase CBL-B (chains A)
GSGPEAALENVDAKIAKLMGEGYAFEEVKRALEIAQNNVEVARSILREFAFP

Sequence of entity 2 (B), FASTA

>2OOB_2 Ubiquitin (chains B)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGG

Primary citation

Structural basis for ubiquitin-mediated dimerization and activation of the ubiquitin protein ligase Cbl-b. Peschard, P., Kozlov, G., Lin, T. et al. Mol Cell (2007) 27:474-485. DOI 10.1016/j.molcel.2007.06.023 · PubMed

Other PDB entries of the same protein (UniProt Q13191 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8QTG 1.42 Å, Crystal structure of CBL-b in complex with an allosteric inhibitor (compound 9)
8QTJ 1.52 Å, Crystal structure of Cbl-b in complex with an allosteric inhibitor (compound 30)
2OOA 1.56 Å, crystal structure of the UBA domain from Cbl-b ubiquitin ligase
9FQJ 1.56 Å, E3 ligase Cbl-b in complex with a carbamate scaffold inhibitor (compound 12)
9XZD 1.65 Å, E3 ubiquitin-protein ligase CBL-B in complex with compound 8
9I0B 1.66 Å, E3 ubiquitin ligase CBL-B in complex with inhibitor
2J6F 1.7 Å, N-terminal SH3 domain of cms (CD2AP human homolog) bound to cbl-B peptide
9XZB 1.75 Å, E3 ubiquitin-protein ligase CBL-B in complex with compound 2
8VW5 1.76 Å, Crystal structure of Cbl-b TKB bound to compound 2
10ZJ 1.77 Å, Structure of Cbl-B bound to compound 8
9FQH 1.79 Å, E3 ligase Cbl-b in complex with a triazolone core inhibitor (compound 1)
9XZC 1.8 Å, E3 ubiquitin-protein ligase CBL-B in complex with compound 6

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