5XAD: NLIR - LC3B fusion protein

NLIR - LC3B fusion protein. Determined by X-ray diffraction at 1.88 Å resolution. Released 12 Jul 2017.

Method: X-ray diffraction
Resolution: 1.88 Å
Organisms: Homo sapiens, Legionella pneumophila subsp. pneumophila
Chains: 4
Atoms: 2,546
Mol. weight: 33.67 kDa
Released: 12 Jul 2017

Explore 5XAD in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5XAD contains 12 α-helices and 17 β-strands across 4 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
α-helix	7-10	4
α-helix	13-26	14
β-strand	30-37	8	1
β-strand	51-55	5	1
β-strand	59	1	2
α-helix	60-70	11
β-strand	80-83	4	1
β-strand	87	1	1
β-strand	94	1	2
α-helix	95-102	8
β-strand	109-114	6	1

Chain B: 6 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-10	4
α-helix	13-26	14
β-strand	30-37	8	3
α-helix	45-47	3
β-strand	51-55	5	3
β-strand	59	1	4
α-helix	60-70	11
β-strand	79-83	5	3
β-strand	94	1	4
α-helix	95-102	8
β-strand	109-115	7	3
α-helix	116-118	3

Chains C and D: 1 helix, 2 β-strands

Element	Residues	Length	Sheet
β-strand	13-17	5	5
α-helix	18-19	2
β-strand	29-33	5	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Microtubule-associated proteins 1A/1B light chain 3B	A, B	protein	119	Homo sapiens	Q9GZQ8 (AlphaFold model)
Uncharacterised protein	C, D	protein	25	Legionella pneumophila subsp. pneumophila	Q5ZUV9 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>5XAD_1 Microtubule-associated proteins 1A/1B light chain 3B (chains A, B)
PSEKTFKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMS
ELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKDEDGFLYMVYASQETFG

Sequence of entity 2 (C, D), FASTA

>5XAD_2 Uncharacterised protein (chains C, D)
GSIVDEFEELGEQESDIDEFDLLEG

Primary citation

A novel conformation of the LC3-interacting region motif revealed by the structure of a complex between LC3B and RavZ. Kwon, D.H., Kim, L., Kim, B.W. et al. Biochem Biophys Res Commun (2017) 490:1093-1099. DOI 10.1016/j.bbrc.2017.06.173 · PubMed

Other PDB entries of the same protein (UniProt Q9GZQ8 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8Q53 1.36 Å, Crystal structure of truncated human Microtubule-associated proteins 1A/1B light chain…
6LAN 1.41 Å, Structure of CCDC50 and LC3B complex
5D94 1.53 Å, Crystal structure of LC3-LIR peptide complex
5MS5 1.53 Å, Low-salt structure of RavZ LIR2-fused human LC3B
2ZJD 1.56 Å, Crystal Structure of LC3-p62 complex
7GAG 1.59 Å, PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with…
7GAU 1.59 Å, PanDDA analysis group deposition of ground-state model of MAP1LC3B
7ELG 1.6 Å, LC3B modificated with a covalent probe
3VTU 1.6 Å, Crystal structure of human LC3B_2-119
8Q7K 1.6 Å, IRGQ LIR2 peptide in complex with LC3B
7GAP 1.68 Å, PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with…
7GAO 1.69 Å, PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with…

Browse structure collections

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