6LP2: Lpg2148/UBE2N-Ub complex

Structure of Lpg2148/UBE2N-Ub complex. Determined by X-ray diffraction at 2.48 Å resolution. Released 13 Jan 2021.

Method: X-ray diffraction
Resolution: 2.48 Å
Organisms: Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513), Homo sapiens
Chains: 3
Atoms: 4,985
Mol. weight: 69.89 kDa
Released: 13 Jan 2021

Explore 6LP2 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6LP2 contains 40 α-helices and 26 β-strands across 3 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: 30 helices, 12 β-strands

Element	Residues	Length	Sheet
α-helix	12-15	4
α-helix	16-31	16
α-helix	32-36	5
α-helix	40-51	12
α-helix	52-54	3
α-helix	61-71	11
α-helix	73-77	5
α-helix	79-80	2
α-helix	83-95	13
α-helix	97-105	9
α-helix	107-108	2
β-strand	109-110	2	1
α-helix	111-112	2
α-helix	116-123	8
β-strand	132-141	10	1
β-strand	146-149	4	2
α-helix	152-154	3
α-helix	161	1
β-strand	164-167	4	2
β-strand	172-175	4	2
β-strand	181-183	3	2
α-helix	188-197	10
β-strand	203-205	3	2
α-helix	209-213	5
α-helix	218-231	14
α-helix	234-236	3
β-strand	240-250	11	1
α-helix	251-253	3
α-helix	257-259	3
β-strand	262-264	3	1
β-strand	267	1	3
β-strand	271	1	3
α-helix	273-278	6
α-helix	281-286	6
α-helix	290-302	13
α-helix	306-317	12
α-helix	319	1
α-helix	323-326	4
α-helix	329-331	3
β-strand	337-345	9	1
α-helix	348-363	16
α-helix	370-392	23

Chain C: 3 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	4
β-strand	12-16	5	4
β-strand	22	1	5
α-helix	23-34	12
α-helix	38-40	3
β-strand	42-45	4	4
β-strand	48-49	2	4
β-strand	55	1	5
α-helix	57-59	3
β-strand	66-70	5	4

Chain D: 7 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	6-17	12
α-helix	19-20	2
β-strand	23-27	5	6
β-strand	34-40	7	6
α-helix	41-42	2
β-strand	51-57	7	6
α-helix	66-67	2
β-strand	68-71	4	6
β-strand	80	1	7
β-strand	85	1	6
β-strand	86	1	7
α-helix	101-113	13
α-helix	123-131	9
α-helix	133-147	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Uncharacterized protein lpg2148	A	protein	386	Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513)	Q5ZTL3 (AlphaFold model)
Ubiquitin	C	protein	76	Homo sapiens	P0CG47 (AlphaFold model)
Ubiquitin-conjugating enzyme E2 N	D	protein	152	Homo sapiens	P61088 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>6LP2_1 Uncharacterized protein lpg2148 (chains A)
GSLESPGFMVHKKLKSMSQSYGVMMTGVPAEVLGQMQAERSIPSINKTGNLKQQIAKEVS
KVCHMMTEPTQSAGQASNDVCELLLGKIEAEKFHFTKYEALSADGDNLKNVLENTAPSST
NLLIRFEIDREDPPIVLVKTKNENFNPETAVKNKIYLLENKLYFIDKMGNLFNLGPGKKK
CTQLFNAIGDSAEYSLCDPFVLEEPEKPEDFAISEIVDIFNEQKERFDFWIGSHSFTIYI
PQTLGESPRQFYPYQAYFGSHTLQDWFVSDKDEYLSRIGIDKYIEKLAVLGKTTNTKERS
DIYAEFFSKRGREAFFCAHLNEKRQPLRVKFKITEINPELALKNLQETQEFIDTHPGENP
SDKVENYRNRAKLAMTEHLESLLDIK

Sequence of entity 2 (C), FASTA

>6LP2_2 Ubiquitin (chains C)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGG

Sequence of entity 3 (D), FASTA

>6LP2_3 Ubiquitin-conjugating enzyme E2 N (chains D)
MAGLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGPQDSPFEGGTFKLELFLPE
EYPMAAPKVRFMTKIYHPNVDKLGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDP
LANDVAEQWKTNEAQAIETARAWTRLYAMNNI

Primary citation

Structure of Lpg2148/UBE2N-Ub complex. Feng, Y., Wang, Y., Huang, Y. et al. To be published.

Other PDB entries of the same protein (UniProt Q5ZTL3 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6K11 1.94 Å, Crystal structure of MvcA from Legionella pneumophila
5SUJ 2.36 Å, Crystal structure of uncharacterized protein LPG2148 from Legionella pneumophila
6JKY 2.45 Å, Crystal structure of MvcA-UBE2N-Ub complex from Legionella pneumophila
5YM9 2.5 Å, Crystal Structure of the Deamidase from Legionella pneumophila
6LW4 2.7 Å, Structure of Lpg2148/Lpg2149 complex
7BXF 2.7 Å, MvcA-Lpg2149 complex

Browse structure collections

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