SMTL ID : 5vw1.1

Crystal structure of SpyCas9-sgRNA-AcrIIA4 ternary complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.1: 8 residues within 4Å: Chain A: D.25, Y.27, K.1001, I.1074, V.1075, D.1077, R.1080, D.1081 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.25, A:K.1001, A:R.1080 PEG.2: 9 residues within 4Å: Chain A: Y.138, R.141, H.162, F.166, G.168, N.409, H.417 Chain B: A.20, A.21 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.141, A:H.162, A:N.409 Water bridges: A:H.169, A:I.412

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.3: 4 residues within 4Å: Chain A: T.926, R.927, Q.928 Chain B: U.13 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.926 PG4.6: 6 residues within 4Å: Chain A: A.70, R.73, Y.74 Chain B: A.20, A.21, A.22 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.73, A:R.77 Water bridges: A:R.80

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 9 residues within 4Å: Chain A: R.326, E.329, H.330, D.333, K.394, D.399, L.400, L.401, R.402 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.333, A:L.401, A:R.402

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.5: 2 residues within 4Å: Chain B: U.52, G.64 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, H. et al., Inhibition Mechanism of an Anti-CRISPR Suppressor AcrIIA4 Targeting SpyCas9. Mol. Cell (2017)

Release Date

2017-06-28

Peptides

CRISPR-associated endonuclease Cas9/Csn1: A
anti-CRISPR protein AcrIIA4: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

CRISPR-associated endonuclease Cas9/Csn1

anti-CRISPR protein AcrIIA4