SMTL ID : 6o75.1

Crystal structure of Csm1-Csm4 cassette in complex with pppApA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

2 x ATP- A: RNA (5'-D(*(ATP))-R(P*A)-3')(Non-covalent)

ATP-A.1: 28 residues within 4Å: Chain A: D.253, F.304, A.306, H.309, K.374, T.378, K.381, D.535, V.536, D.537, R.538, L.539, G.540, F.543, S.556, M.559, D.560, G.601, D.602, K.662, R.666 Chain B: K.94, R.97, K.98 Ligands: ATP-A.2, ATP-A.2, MN.3, MN.4 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:D.535, A:R.538, A:L.539, A:G.540, A:G.601 Salt bridges: A:K.662, A:K.662, A:R.666, B:K.94, B:K.94, B:K.94 ATP-A.2: 20 residues within 4Å: Chain A: D.253, F.254, S.255, G.256, I.257, Q.258, D.259, I.261, S.277, L.280, E.281, G.307, G.308, D.535, Y.598, A.603, D.659 Ligands: ATP-A.1, ATP-A.1, MN.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.256, A:I.257, A:Q.258, A:Q.258, A:R.384, A:D.659 pi-Cation interactions: A:K.533

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 5 residues within 4Å: Chain A: D.535, D.602 Ligands: ATP-A.1, ATP-A.2, MN.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.535, A:D.602 MN.4: 6 residues within 4Å: Chain A: D.535, V.536, D.602, K.662 Ligands: ATP-A.1, MN.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.535, A:V.536, A:D.602

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jia, N. et al., Second Messenger cA4Formation within the Composite Csm1 Palm Pocket of Type III-A CRISPR-Cas Csm Complex and Its Release Path. Mol.Cell (2019)

Release Date

2019-07-31

Peptides

CRISPR system single-strand-specific deoxyribonuclease Cas10/Csm1 (subtype III-A): A
Csm4: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

CRISPR system single-strand-specific deoxyribonuclease Cas10/Csm1 (subtype III-A)

Csm4

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