SMTL ID : 3nke.1

High resolution structure of the C-terminal domain CRISP-associated protein Cas1 from Escherichia coli str. K-12

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-trimer

Ligands

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

EDO.1: 4 residues within 4Å: Chain A: Y.58, R.72, T.93, Y.97 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.72, A:T.93, A:T.93 Water bridges: A:K.133 EDO.2: 6 residues within 4Å: Chain A: R.21, S.42, V.43, E.44, R.47 Chain B: R.154 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.21, A:S.42, A:V.43, A:E.44, A:R.47, A:R.47, B:R.154 Water bridges: B:R.161, B:R.161 EDO.7: 5 residues within 4Å: Chain B: R.47, H.117, T.118, K.120 Chain C: R.157 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:T.118, B:K.120, C:R.157 Water bridges: B:K.120 EDO.8: 5 residues within 4Å: Chain C: Q.87, E.151, P.152, D.153, R.154 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.87, C:D.153, C:R.154 Water bridges: C:R.157

2 x SO3: SULFITE ION(Non-covalent)

SO3.3: 1 residues within 4Å: Chain A: K.63 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.63 SO3.9: 5 residues within 4Å: Chain C: T.136, D.162, I.163, S.166, S.167 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.166 Water bridges: C:S.167

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

SO4.4: 7 residues within 4Å: Chain A: R.154, R.157, R.161 Chain C: R.21, V.43, E.44, R.47 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain C Water bridges: A:R.154, C:R.21 Salt bridges: A:R.154, A:R.157, A:R.161, C:R.21, C:R.47 SO4.5: 2 residues within 4Å: Chain A: R.40, R.41 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.40 Salt bridges: A:R.40, A:R.41 SO4.6: 4 residues within 4Å: Chain A: E.151, P.152, D.153, R.154 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.151, A:D.153, A:D.153, A:R.154 Water bridges: A:R.157, A:R.157, A:R.157 SO4.10: 7 residues within 4Å: Chain B: R.21, V.43, E.44, R.47 Chain C: R.154, R.157, R.161 8 PLIP interactions: 4 interactions with chain C, 4 interactions with chain B Water bridges: C:R.154, B:R.21, B:E.44 Salt bridges: C:R.154, C:R.157, C:R.161, B:R.21, B:R.47 SO4.11: 5 residues within 4Å: Chain C: Y.58, R.72, T.93, Y.97, K.133 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:Y.58, C:Y.97 Water bridges: C:Y.58, C:S.90, C:T.93, C:K.133, C:K.133 Salt bridges: C:R.72, C:K.133

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Babu, M. et al., A dual function of the CRISPR-Cas system in bacterial antivirus immunity and DNA repair. Mol.Microbiol. (2011)

Release Date

2010-08-25

Peptides

protein ygbT: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

protein ygbT