5VF0: Human RAD18

Solution NMR structure of human RAD18 (198-240) in complex with ubiquitin. Determined by solution NMR. Released 17 May 2017.

Method: Solution NMR
Organism: Homo sapiens
Chains: 2
Atoms: 943
Mol. weight: 13.87 kDa
Ligands: ZN
Released: 17 May 2017

Explore 5VF0 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5VF0 contains 4 α-helices and 9 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: 2 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-7	6	1
β-strand	12-16	5	1
β-strand	22	1	2
α-helix	23-34	12
β-strand	41-45	5	1
β-strand	48-49	2	1
β-strand	55	1	2
α-helix	57-59	3
β-strand	66-71	6	1

Chain B: 2 helices, 2 β-strands

Element	Residues	Length	Sheet
β-strand	201-202	2	3
β-strand	211-212	2	3
α-helix	216-230	15
α-helix	232-233	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Polyubiquitin-B	A	protein	76	Homo sapiens	P0CG47 (AlphaFold model)
E3 ubiquitin-protein ligase RAD18	B	protein	46	Homo sapiens	Q9NS91 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>5VF0_1 Polyubiquitin-B (chains A)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGG

Sequence of entity 2 (B), FASTA

>5VF0_2 E3 ubiquitin-protein ligase RAD18 (chains B)
GHMQVTKVDCPVCGVNIPESHINKHLDSCLSREEKKESLRSSVHKR

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	1

Primary citation

Mechanisms of Ubiquitin-Nucleosome Recognition and Regulation of 53BP1 Chromatin Recruitment by RNF168/169 and RAD18. Hu, Q., Botuyan, M.V., Cui, G. et al. Mol Cell (2017) 66:473-487.e9. DOI 10.1016/j.molcel.2017.04.009 · PubMed

Other PDB entries of the same protein (UniProt P0CG47 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5NVG 1.07 Å, Thr12 Phosphorylated Ubiquitin
5TOG 1.08 Å, Room temperature structure of ubiquitin variant u7ub25.2540
5TOF 1.12 Å, Room temperature structure of ubiquitin variant u7ub25
4XOF 1.15 Å, Observing the overall rocking motion of a protein in a crystal - Orthorhombic Ubiquitin…
5GOD 1.15 Å, Lys27-linked di-ubiquitin
5GOB 1.15 Å, Lys6-linked di-ubiquitin
5W46 1.18 Å, Structure of S65D Phosphomimetic Ubiquitin Refined at 1.2 Angstroms Resolution
7S6O 1.25 Å, The crystal structure of Lys48-linked di-ubiquitin
8IC9 1.25 Å, Lys48-linked K48C-diubiquitin
5DK8 1.32 Å, Human ubiquitin in the P1 space group
7CAP 1.33 Å, Cyclic Lys48-linked triubiquitin
5V1Y 1.42 Å, Crystal structure of the ternary RPN13 PRU-RPN2 (940-953)-ubiquitin complex

Browse structure collections

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