3A1Q: Mouse RAP80 UIMs

Crystal structure of the mouse RAP80 UIMs in complex with Lys63-linked di-ubiquitin. Determined by X-ray diffraction at 2.2 Å resolution. Released 21 Jul 2009.

Method: X-ray diffraction
Resolution: 2.2 Å
Organism: Mus musculus
Chains: 6
Atoms: 3,247
Mol. weight: 44.75 kDa
Released: 21 Jul 2009

Explore 3A1Q in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3A1Q contains 18 α-helices and 28 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.

Chains A and D: 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: 4 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-7	6	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
α-helix	57-59	3
β-strand	66-71	6	3

Chain C: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	81-119	39

Chain E: 4 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-7	6	7
β-strand	12-16	5	7
β-strand	22	1	8
α-helix	23-34	12
α-helix	38-40	3
β-strand	41-45	5	7
β-strand	48-49	2	7
α-helix	50-51	2
β-strand	55	1	8
α-helix	56-59	4
β-strand	66-71	6	7

Chain F: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	81-116	36

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Ubiquitin	A, D	protein	77	Mus musculus	P0CG50 (AlphaFold model)
Ubiquitin	B, E	protein	76	Mus musculus	P0CG50 (AlphaFold model)
Ubiquitin interaction motif-containing protein 1	C, F	protein	45	Mus musculus	Q5U5Q9 (AlphaFold model)

Sequence of entity 1 (A, D), FASTA

>3A1Q_1 Ubiquitin (chains A, D)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGGD

Sequence of entity 2 (B, E), FASTA

>3A1Q_2 Ubiquitin (chains B, E)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQRESTLHLVLRLRGG

Sequence of entity 3 (C, F), FASTA

>3A1Q_3 Ubiquitin interaction motif-containing protein 1 (chains C, F)
GPLGSEEEQFALALKMSEQEAREVNNQEEKEEELLRKAIAESLNS

Primary citation

Structural basis for specific recognition of Lys 63-linked polyubiquitin chains by tandem UIMs of RAP80. Sato, Y., Yoshikawa, A., Mimura, H. et al. EMBO J (2009) 28:2461-2468. DOI 10.1038/emboj.2009.160 · 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
3A9K 1.4 Å, Crystal structure of the mouse TAB3-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
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

Browse structure collections

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