7E62: Mouse TAB2 NZF

Mouse TAB2 NZF in complex with Lys6-linked diubiquitin. Determined by X-ray diffraction at 1.99 Å resolution. Released 18 Aug 2021.

Method: X-ray diffraction
Resolution: 1.99 Å
Organism: Mus musculus
Chains: 6
Atoms: 2,932
Mol. weight: 47.35 kDa
Ligands: ZN
Released: 18 Aug 2021

Explore 7E62 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7E62 contains 21 α-helices and 36 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.

Chain A: 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	56-59	4
β-strand	66-71	6	1

Chains B and I: 4 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	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

Chains C and J: 2 helices, 4 β-strands

Element	Residues	Length	Sheet
β-strand	668-669	2	5
β-strand	676-677	2	5
β-strand	683	1	6
α-helix	689	1
β-strand	690	1	6
α-helix	691	1

Chain H: 5 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	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	57-59	3
β-strand	66-71	6	7
α-helix	72-73	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
ubiquitin	A, H	protein	76	Mus musculus	P62983 (AlphaFold model)
Ubiquitin	B, I	protein	77	Mus musculus	P62983 (AlphaFold model)
TGF-beta-activated kinase 1 and MAP3K7-binding protein 2	C, J	protein	55	Mus musculus	Q99K90 (AlphaFold model)

Sequence of entity 1 (A, H), FASTA

>7E62_1 ubiquitin (chains A, H)
MQIFVRTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGG

Sequence of entity 2 (B, I), FASTA

>7E62_2 Ubiquitin (chains B, I)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGGD

Sequence of entity 3 (C, J), FASTA

>7E62_3 TGF-beta-activated kinase 1 and MAP3K7-binding protein 2 (chains C, J)
GPLGSKPKDQRSTIKAPKTQDAEDEEGAQWNCTACTFLNHPALIRCEQCEMPRHF

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	2

Water and common crystallization additives (EPE) are not listed.

Primary citation

Structural basis for specific recognition of K6-linked polyubiquitin chains by the TAB2 NZF domain. Li, Y., Okatsu, K., Fukai, S. et al. Biophys J (2021) 120:3355-3362. DOI 10.1016/j.bpj.2021.06.037 · PubMed

Other PDB entries of the same protein (UniProt P62983 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5XIS 1.78 Å, Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, form I
5XIU 1.8 Å, Crystal structure of RNF168 UDM2 in complex with Lys63-linked diubiquitin
5XIT 2.25 Å, Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, form II
3VHT 2.4 Å, Crystal structure of GFP-Wrnip1 UBZ domain fusion protein in complex with ubiquitin
31FX 2.54 Å, Mouse 80S ribosome, sgRNA control
31FY 2.57 Å, Mouse 80S ribosome, Gm10076 KO
9QOH 2.78 Å, Mouse Ribosome POST translocation state
31FZ 2.89 Å, Mouse 80S ribosome, eL41 KO
9QQL 3.09 Å, Mouse RPS15 P131 Mutant Ribosome POST translocation state
7LS2 3.1 Å, 80S ribosome from mouse bound to eEF2 (Class I)
7LS1 3.3 Å, 80S ribosome from mouse bound to eEF2 (Class II)
9QZP 3.43 Å, Mouse Ribosome Classical Pre translocation state

Browse structure collections

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