SMTL ID : 9b3i.1

Cryo-EM structure of yeast (Nap1)2-H2A-H2B-Kap114-RanGTP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-2-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain D: T.27, Y.42, I.43 Ligands: GTP.2 No protein-ligand interaction detected (PLIP)

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.2: 27 residues within 4Å: Chain D: D.21, G.22, G.23, T.24, G.25, K.26, T.27, T.28, F.38, E.39, K.40, K.41, Y.42, I.43, A.44, T.45, T.69, A.70, G.71, L.72, N.125, K.126, D.128, S.153, A.154, K.155 Ligands: MG.1 24 PLIP interactions: 24 interactions with chain D Hydrogen bonds: D:G.23, D:T.24, D:G.25, D:K.26, D:T.27, D:T.27, D:T.28, D:E.39, D:K.41, D:T.45, D:T.45, D:G.71, D:N.125, D:K.126, D:K.126, D:A.154, D:K.155, D:K.155, D:K.155 Salt bridges: D:K.26, D:K.26, D:D.128 pi-Stacking: D:F.38, D:F.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fung, H.Y.J. et al., Nap1 and Kap114 co-chaperone H2A-H2B and facilitate targeted histone release in the nucleus. J.Cell Biol. (2025)

Release Date

2024-11-27

Peptides

KAP114 isoform 1: A
Histone H2A: B
Histone H2B: C
GTP-binding nuclear protein: D
NAP1 isoform 1: EF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

KAP114 isoform 1

Histone H2A

Histone H2B

GTP-binding nuclear protein

NAP1 isoform 1

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