4XPD: Yeast N-terminal acetyltransferase NatE

Crystal structure of yeast N-terminal acetyltransferase NatE (ppGpp) in complex with a bisubstrate. Determined by X-ray diffraction at 2.81 Å resolution. Released 20 Jul 2016.

Method

X-ray diffraction

Resolution

2.81 Å

Organisms

Saccharomyces cerevisiae, Homo sapiens

Chains

4

Atoms

9,262

Mol. weight

149.74 kDa

Ligands

CMC, ACO, G4P

Released

20 Jul 2016

Explore 4XPD in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4XPD contains 66 α-helices and 17 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: 52 helices, 0 β-strands

Molecules and chains

>4XPD_1 N-terminal acetyltransferase A complex subunit NAT1 (chains A)
MSRKRSTKPKPAAKIALKKENDQFLEALKLYEGKQYKKSLKLLDAILKKDGSHVDSLALK
GLDLYSVGEKDDAASYVANAIRKIEGASASPICCHVLGIYMRNTKEYKESIKWFTAALNN
GSTNKQIYRDLATLQSQIGDFKNALVSRKKYWEAFLGYRANWTSLAVAQDVNGERQQAIN
TLSQFEKLAEGKISDSEKYEHSECLMYKNDIMYKAASDNQDKLQNVLKHLNDIEPCVFDK
FGLLERKATIYMKLGQLKDASIVYRTLIKRNPDNFKYYKLLEVSLGIQGDNKLKKALYGK
LEQFYPRCEPPKFIPLTFLQDKEELSKKLREYVLPQLERGVPATFSNVKPLYQRRKSKVS
PLLEKIVLDYLSGLDPTQDPIPFIWTNYYLSQHFLFLKDFPKAQEYIDAALDHTPTLVEF
YILKARILKHLGLMDTAAGILEEGRQLDLQDRFINCKTVKYFLRANNIDKAVEVASLFTK
NDDSVNGIKDLHLVEASWFIVEQAEAYYRLYLDRKKKLDDLASLKKEVESDKSEQIANDI
KENQWLVRKYKGLALKRFNAIPKFYKQFEDDQLDFHSYCMRKGTPRAYLEMLEWGKALYT
KPMYVRAMKEASKLYFQMHDDRLKRKSDSLDENSDEIQNNGQNSSSQKKKAKKEAAAMNK
RKETEAKSVAAYPSDQDNDVFGEKLIETSTPMEDFATEFYNNYSMQVREDERDYILDFEF
NYRIGKLALCFASLNKFAKRFGTTSGLFGSMAIVLLHATRNDTPFDPILKKVVTKSLEKE
YSENFPLNEISNNSFDWLNFYQEKFGKNDINGLLFLYRYRDDVPIGSSNLKEMIISSLSP
LEPHSQNEILQYYL

>4XPD_2 N-terminal acetyltransferase A complex catalytic subunit ARD1 (chains B)
MPINIRRATINDIICMQNANLHNLPENYMMKYYMYHILSWPEASFVATTTTLDCEDSDEQ
DENDKLELTLDGTNDGRTIKLDPTYLAPGEKLVGYVLVKMNDDPDQQNEPPNGHITSLSV
MRTYRRMGIAENLMRQALFALREVHQAEYVSLHVRQSNRAALHLYRDTLAFEVLSIEKSY
YQDGEDAYAMKKVLKLEELQISNFTHRRLKENEEKLEDDLESDLLEDIIKQGVNDIIV

>4XPD_3 N-terminal acetyltransferase A complex subunit NAT5 (chains C)
MGRDICTLDNVYANNLGMLTKLAHVTVPNLYQDAFFSALFAEDSLVAKNKKPSSKKDVHF
TQMAYYSEIPVGGLVAKLVPKKQNELSLKGIQIEFLGVLPNYRHKSIGSKLLKFAEDKCS
ECHQHNVFVYLPAVDDLTKQWFIAHGFEQVGETVNNFIKGVNGDEQDAILLKKHIS

>4XPD_4 human ACTH8 (chains F)
SYSMEHFR

Ligands and cofactors

Primary citation

Crystal structure of yeast N-terminal acetyltransferase NatE (ppGpp) in complex with a bisubstrate. Dong, J., Wang, S., York, J.D. To be published.

Related structures

Other PDB entries of the same protein (UniProt P12945 (AlphaFold model), which also has an AlphaFold model), best resolution first:

• 4XNH 2.1 Å, Crystal structure of yeast N-terminal acetyltransferase NatE (IP6) in complex with a…
• 4HNY 2.25 Å, Apo N-terminal acetyltransferase complex A
• 4HNX 2.34 Å, The NatA Acetyltransferase Complex Bound To ppGpp
• 6O07 2.7 Å, Structure and mechanism of acetylation by the N-terminal dual enzyme NatA/Naa50 complex
• 4HNW 2.8 Å, The NatA Acetyltransferase Complex Bound To Inositol Hexakisphosphate
• 6HD7 3.4 Å, Cryo-EM structure of the ribosome-NatA complex
• 4Y49 3.95 Å, Crystal structure of yeast N-terminal acetyltransferase (ppGpp) NatE in complex with a…
• 6HD5 4.8 Å, Cryo-EM structure of the ribosome-NatA complex

Browse structure collections

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