SMTL ID : 6tug.3 (3 other biounits)

Enterococcus italicus Csm6 bound to cyclic hexa-2'-fluoro-hexa-dAMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.42 Å

Oligo State

homo-dimer

Ligands

6 x AF2: 2'-deoxy-2'-fluoroadenosine 5'-(dihydrogen phosphate)(Non-covalent)

AF2.1: 19 residues within 4Å: Chain A: G.12, N.13, T.14, R.18, N.19, R.21, D.22, G.23, A.24, T.114, S.115, G.116, V.140, T.142, P.143, R.176 Ligands: AF2.3, AF2.4, AF2.5 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.13, A:T.14, A:T.14, A:T.14, A:D.22, A:R.176 Water bridges: B:N.84 AF2.2: 14 residues within 4Å: Chain A: E.81, V.82, E.83, N.84, T.117, P.118, Q.119 Chain B: T.114, E.121, Q.139, S.141, T.142 Ligands: AF2.3, AF2.6 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:E.121, A:E.83, A:E.83, A:Q.119 Water bridges: B:Q.139 AF2.3: 14 residues within 4Å: Chain A: I.11, G.12, N.13, T.42, S.44, I.45, E.83, G.116, T.117, P.118, M.120 Ligands: AF2.1, AF2.2, AF2.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.42, A:S.44 AF2.4: 15 residues within 4Å: Chain A: T.114, E.121, Q.139, S.141, T.142, L.144 Chain B: E.81, V.82, E.83, N.84, T.117, P.118, Q.119 Ligands: AF2.1, AF2.5 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:E.83, B:E.83, B:Q.119, A:E.121 Water bridges: A:T.142 AF2.5: 15 residues within 4Å: Chain B: I.11, G.12, N.13, T.14, T.42, S.44, I.45, E.83, G.116, T.117, P.118, M.120 Ligands: AF2.1, AF2.4, AF2.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.42, B:T.42, B:E.83, B:T.117 AF2.6: 19 residues within 4Å: Chain B: G.12, N.13, T.14, R.18, R.21, D.22, G.23, A.24, T.114, S.115, G.116, V.140, S.141, T.142, P.143, R.176 Ligands: AF2.2, AF2.3, AF2.5 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.13, B:T.14, B:T.14, B:R.18, B:G.116, B:R.176

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 4 residues within 4Å: Chain A: R.375, H.380 Chain B: R.375, H.380 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Salt bridges: A:R.375, A:H.380, B:R.375, B:H.380

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garcia-Doval, C. et al., Activation and self-inactivation mechanisms of the cyclic oligoadenylate-dependent CRISPR ribonuclease Csm6. Nat Commun (2020)

Release Date

2020-02-26

Peptides

CRISPR system endoribonuclease Csm6: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

CRISPR system endoribonuclease Csm6

Related Entries With Identical Sequence