8F0X: Kap114

Cryo-EM structure of Kap114 bound to H2A-H2B. Determined by electron microscopy at 3.21 Å resolution. Released 26 Jul 2023.

Method
Electron microscopy
Resolution
3.21 Å
Organism
Saccharomyces cerevisiae S288C
Chains
3
Atoms
8,743
Mol. weight
142.03 kDa
Released
26 Jul 2023

Explore 8F0X in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8F0X contains 69 α-helices and 8 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: 59 helices, 4 β-strands

ElementResiduesLengthSheet
α-helix3-119
α-helix15-4531
α-helix51-6818
α-helix84-9916
α-helix105-12218
α-helix130-1367
α-helix137-1415
α-helix144-15714
α-helix1601
α-helix161-1655
α-helix168-18114
α-helix187-20519
α-helix213-23422
α-helix243-26220
α-helix266-2683
α-helix271-29121
α-helix303-32018
α-helix325-3273
α-helix328-34114
α-helix344-3452
α-helix346-3549
α-helix356-3638
α-helix372-3809
α-helix385-40218
α-helix406-42015
α-helix425-4262
α-helix429-44719
α-helix453-46917
α-helix477-49317
α-helix498-51417
α-helix517-54125
α-helix548-56114
α-helix571-58717
α-helix592-60413
α-helix611-63121
α-helix632-6354
α-helix641-65515
α-helix665-68117
α-helix685-70117
α-helix704-7074
α-helix708-7103
α-helix711-72212
α-helix734-74411
α-helix746-7494
α-helix750-7523
α-helix753-76614
α-helix770-78617
α-helix788-79710
β-strand799-80021
β-strand803-80421
α-helix805-81612
α-helix817-8193
α-helix823-83917
α-helix842-8454
β-strand848-85472
α-helix855-8562
α-helix864-8663
β-strand873-87862
α-helix879-89416
α-helix965-97713
α-helix981-9833
α-helix984-9907
α-helix993-9997
Chain B: 5 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix19-224
α-helix28-3710
β-strand43-4423
α-helix47-7327
β-strand78-7924
α-helix81-9010
α-helix92-987
Chain C: 5 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix41-5111
β-strand56-5724
α-helix59-8527
α-helix86-883
β-strand91-9223
α-helix94-10411
α-helix108-12316

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Importin subunit beta-5Aprotein1004Saccharomyces cerevisiae S288CP53067 (AlphaFold model)
Histone H2A.2Bprotein131Saccharomyces cerevisiae S288CP04912 (AlphaFold model)
Histone H2B.2Cprotein130Saccharomyces cerevisiae S288CP02294 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>8F0X_1 Importin subunit beta-5 (chains A)
MDINELIIGAQSADKHTREVAETQLLQWCDSDASQVFKALANVALQHEASLESRQFALLS
LRKLITMYWSPGFESYRSTSNVEIDVKDFIREVLLKLCLNDNENTKIKNGASYCIVQISA
VDFPDQWPQLLTVIYDAISHQHSLNAMSLLNEIYDDVVSEEMFFEGGIGLATMEIVFKVL
NTETSTLIAKIAALKLLKACLLQMSSHNEYDEASRKSFVSQCLATSLQILGQLLTLNFGN
VDVISQLKFKSIIYENLVFIKNDFSRKHFSSELQKQFKIMAIQDLENVTHINANVETTES
EPLLETVHDCSIYIVEFLTSVCTLQFSVEEMNKIITSLTILCQLSSETREIWTSDFNTFV
SKETGLAASYNVRDQANEFFTSLPNPQLSLIFKVVSNDIEHSTCNYSTLESLLYLLQCIL
LNDDEITGENIDQSLQILIKTLENILVSQEIPELILARAILTIPRVLDKFIDALPDIKPL
TSAFLAKSLNLALKSDKELIKSATLIAFTYYCYFAELDSVLGPEVCSETQEKVIRIINQV
SSDAEEDTNGALMEVLSQVISYNPKEPHSRKEILQAEFHLVFTISSEDPANVQVVVQSQE
CLEKLLDNINMDNYKNYIELCLPSFINVLDSNNANNYRYSPLLSLVLEFITVFLKKKPND
GFLPDEINQYLFEPLAKVLAFSTEDETLQLATEAFSYLIFNTDTRAMEPRLMDIMKVLER
LLSLEVSDSAAMNVGPLVVAIFTRFSKEIQPLIGRILEAVVVRLIKTQNISTEQNLLSVL
CFLTCNDPKQTVDFLSSFQIDNTDALTLVMRKWIEAFEVIRGEKRIKENIVALSNLFFLN
DKRLQKVVVNGNLIPYEGDLIITRSMAKKMPDRYVQVPLYTKIIKLFVSELSFQSKQPNP
EQLITSDIKQEVVNANKDDDNDDWEDVDDVLDYDKLKEYIDDDVDEEADDDSDDITGLMD
VKESVVQLLVRFFKEVASKDVSGFHCIYETLSDSERKVLSEALL
Sequence of entity 2 (B), FASTA
>8F0X_2 Histone H2A.2 (chains B)
SGGKGGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLA
AEILELAGNAARDNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKK
SAKTAKASQEL
Sequence of entity 3 (C), FASTA
>8F0X_3 Histone H2B.2 (chains C)
SSAAEKKPASKAPAEKKPAAKKTSTSVDGKKRSKVRKETYSSYIYKVLKQTHPDTGISQK
SMSILNSFVNDIFERIATEASKLAAYNKKSTISAREIQTAVRLILPGELAKHAVSEGTRA
VTKYSSSTQA

Primary citation

Mechanism of RanGTP priming H2A-H2B release from Kap114 in an atypical RanGTP•Kap114•H2A-H2B complex. Jiou, J., Shaffer, J.M., Bernades, N.E. et al. Proc Natl Acad Sci U S A (2023) 120:e2301199120-e2301199120. DOI 10.1073/pnas.2301199120 · PubMed

Other PDB entries of the same protein (UniProt P53067 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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