3E46: Ubiquitin-conjugating enzyme E2-25 kDa

Crystal structure of ubiquitin-conjugating enzyme E2-25kDa (Huntington interacting protein 2) M172A mutant. Determined by X-ray diffraction at 1.86 Å resolution. Released 26 Aug 2008.

Method: X-ray diffraction
Resolution: 1.86 Å
Organism: Homo sapiens
Chains: 1
Atoms: 1,805
Mol. weight: 28.25 kDa
Ligands: CA
Released: 26 Aug 2008

Explore 3E46 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3E46 contains 11 α-helices and 8 β-strands across 1 chain. 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: 11 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	3-18	16
α-helix	20-23	4
β-strand	27-31	5	1
β-strand	38-44	7	1
α-helix	45-46	2
β-strand	55-61	7	1
α-helix	70-71	2
β-strand	72-75	4	1
β-strand	81	1	2
β-strand	84	1	2
β-strand	90	1	1
β-strand	91	1	2
α-helix	94-96	3
α-helix	106-118	13
α-helix	128-136	9
α-helix	138-153	16
α-helix	160-171	12
α-helix	176-185	10
α-helix	190-199	10

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Ubiquitin-conjugating enzyme E2-25 kDa	A	protein	253	Homo sapiens	P61086 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>3E46_1 Ubiquitin-conjugating enzyme E2-25 kDa (chains A)
MHHHHHHSSGLVPRGSGMKETAAAKFERQHMDSPDLGTDDDDKAMADIGSEFDMANIAVQ
RIKREFKEVLKSEETSKNQIKVDLVDENFTELRGEIAGPPDTPYEGGRYQLEIKIPETYP
FNPPKVRFITKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALLAAAEPDDPQD
AVVANQYKQNPEMFKQTARLWAHVYAGAPVSSPEYTKKIENLCAAGFDRNAVIVALSSKS
WDVETATELLLSN

Ligands and cofactors

ID	Name	Formula	Copies
CA	Calcium ion	Ca	1

Primary citation

Structure of full-length ubiquitin-conjugating enzyme E2-25K (huntingtin-interacting protein 2). Wilson, R.C., Hughes, R.C., Flatt, J.W. et al. Acta Crystallogr Sect F Struct Biol Cryst Commun (2009) 65:440-444. DOI 10.1107/S1744309109011117 · PubMed

Other PDB entries of the same protein (UniProt P61086 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3K9O 1.8 Å, The crystal structure of E2-25K and UBB+1 complex
5DFL 2.1 Å, Crystal structure of Ube2K~Ubiquitin conjugate
6JB7 2.1 Å, Crystal structure of Ub-conjugated Ube2K C92K&K97A mutant (isopeptide linkage), 2.1 A…
3F92 2.23 Å, Crystal structure of ubiquitin-conjugating enzyme E2-25kDa (Huntington Interacting…
7MYH 2.39 Å, Ubiquitin variant UbV.k.2 in complex with Ube2k
1YLA 2.4 Å, Ubiquitin-conjugating enzyme E2-25 kDa (Huntington interacting protein 2)
7OJX 2.4 Å, E2 UBE2K covalently linked to donor Ub, acceptor di-Ub, and RING E3 primed for…
6IF1 2.47 Å, Crystal structure of Ube2K and K48-linked di-ubiquitin complex
2O25 2.6 Å, Ubiquitin-Conjugating Enzyme E2-25 kDa Complexed With SUMO-1-Conjugating Enzyme UBC9
6JB6 2.7 Å, Crystal structure of Ub-conjugated Ube2K C92K&K97A mutant (isopeptide linkage), 2.7 A…
3K9P 2.8 Å, The crystal structure of E2-25K and ubiquitin complex
7MYF 3.0 Å, Ubiquitin variant UbV.k.1 in complex with Ube2k

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