SMTL ID : 8pe3.1

Structure of Csm6' from Streptococcus thermophilus in complex with cyclic hexa-adenylate (cA6)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-dimer

Ligands

1 x A- A- A- A- A- A: Cyclic hexaadenosine monophosphate (cA6)(Non-covalent)

A-A-A-A-A-A.1: 64 residues within 4Å: Chain A: V.12, G.13, D.14, T.15, R.19, H.22, D.23, S.43, H.45, D.77, V.80, H.81, S.109, A.111, T.112, P.113, Q.114, K.116, V.135, S.136, S.137, P.138, H.140, A.141, S.142, N.143, E.144, R.171 Chain B: V.12, G.13, D.14, T.15, R.19, H.22, D.23, S.43, H.45, T.46, D.77, V.80, H.81, S.109, S.110, A.111, T.112, P.113, Q.114, K.116, V.135, S.136, S.137, P.138, H.140, A.141, S.142, N.143, E.144, R.171 Ligands: ADN-A-A23.2, ADN-A-A23.2, ADN-A-A23.2, ADN-A-A23.3, ADN-A-A23.3, ADN-A-A23.3 Protein-ligand interaction information (PLIP) not available

2 x ADN- A- A23: RNA(Non-covalent)

ADN-A-A23.2: 39 residues within 4Å: Chain A: V.12, G.13, D.14, T.15, S.43, H.45, D.77, N.78, V.80, H.81, S.110, A.111, T.112, P.113, Q.114, K.116 Chain B: T.15, R.19, H.22, D.23, S.109, K.116, Q.134, V.135, S.136, S.137, P.138, H.140, A.141, S.142, N.143, R.171 Ligands: A-A-A-A-A-A.1, A-A-A-A-A-A.1, A-A-A-A-A-A.1, A-A-A-A-A-A.1, A-A-A-A-A-A.1, ADN-A-A23.3, ADN-A-A23.3 21 PLIP interactions: 12 interactions with chain A, 9 interactions with chain B Hydrogen bonds: A:D.14, A:T.15, A:T.15, A:S.43, A:D.77, A:A.111, A:T.112, B:N.143, B:N.143, B:E.144, B:T.15, B:T.15, B:R.19, B:R.19, B:S.137, B:N.143, B:R.171 Water bridges: A:G.13, A:D.16, A:R.19, A:K.116, B:R.19, B:R.19, B:A.25, B:V.135 Salt bridges: A:K.116 ADN-A-A23.3: 38 residues within 4Å: Chain A: T.15, R.19, H.22, D.23, S.109, K.116, Q.134, V.135, S.136, S.137, P.138, H.140, A.141, S.142, N.143, R.171 Chain B: V.12, G.13, D.14, T.15, S.43, H.45, D.77, N.78, V.80, H.81, A.111, T.112, P.113, Q.114, K.116 Ligands: A-A-A-A-A-A.1, A-A-A-A-A-A.1, A-A-A-A-A-A.1, A-A-A-A-A-A.1, A-A-A-A-A-A.1, ADN-A-A23.2, ADN-A-A23.2 20 PLIP interactions: 10 interactions with chain B, 10 interactions with chain A Hydrogen bonds: B:D.14, B:T.15, B:T.15, B:S.43, B:D.77, B:A.111, A:N.143, A:N.143, A:T.15, A:T.15, A:R.19, A:R.19, A:K.116, A:S.137, A:N.143, A:R.171 Water bridges: B:G.13, B:D.16, B:K.116, A:A.25, A:V.135 Salt bridges: B:K.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McQuarrie, S. et al., Activation of Csm6 ribonuclease by cyclic nucleotide binding: in an emergency, twist to open. Nucleic Acids Res. (2023)

Release Date

2023-10-04

Peptides

CRISPR system endoribonuclease Csm6': AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

CRISPR system endoribonuclease Csm6'

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