SMTL ID : 6frg.1

Crystal structure of G-1F mutant of Ssp DnaB Mini-Intein variant M86

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

homo-dimer

Ligands

4 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.1: 7 residues within 4Å: Chain A: K.66, T.67, R.68, G.70, T.72, V.130, S.131 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.66, A:R.68 Water bridges: A:T.72 1PE.3: 3 residues within 4Å: Chain A: K.59, V.137, E.138 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.59 Water bridges: A:E.139 1PE.8: 7 residues within 4Å: Chain B: K.66, T.67, R.68, G.70, T.72, V.130, S.131 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.66, B:R.68 Water bridges: B:T.72 1PE.10: 3 residues within 4Å: Chain B: K.59, V.137, E.138 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.59 Water bridges: B:E.139

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 5 residues within 4Å: Chain A: R.103, S.122, I.124, Y.125, W.126 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.122, A:W.126, A:W.126 Water bridges: A:H.98 PGE.9: 5 residues within 4Å: Chain B: R.103, S.122, I.124, Y.125, W.126 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.122, B:W.126, B:W.126 Water bridges: B:H.98

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

PEG.4: 7 residues within 4Å: Chain A: R.22, L.69, G.70, R.71, N.154, D.155 Chain B: E.115 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Water bridges: B:E.115, B:E.115, B:E.117, A:L.69, A:R.71, A:R.71 Hydrogen bonds: A:R.71 PEG.5: 6 residues within 4Å: Chain A: L.16, S.18, T.19, L.28, E.31, F.34 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.18, A:S.18 Water bridges: A:E.35 PEG.6: 7 residues within 4Å: Chain A: F.6, E.41, R.80, W.87, R.149, H.159, I.162 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.87, A:R.149 PEG.7: 6 residues within 4Å: Chain A: W.37, L.46, K.104, D.123 Chain B: L.110, L.112 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.104 PEG.11: 7 residues within 4Å: Chain A: E.115 Chain B: R.22, L.69, G.70, R.71, N.154, D.155 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:R.71 Water bridges: B:L.69, B:R.71, B:R.71, A:E.115, A:E.115, A:E.117 PEG.12: 6 residues within 4Å: Chain B: L.16, S.18, T.19, L.28, E.31, F.34 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.18, B:S.18 Water bridges: B:E.35 PEG.13: 7 residues within 4Å: Chain B: F.6, E.41, R.80, W.87, R.149, H.159, I.162 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.87, B:R.149 PEG.14: 6 residues within 4Å: Chain A: L.110, L.112 Chain B: W.37, L.46, K.104, D.123 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Friedel, K. et al., A functional interplay between intein and extein sequences in protein splicing compensates for the essential block B histidine. Chem Sci (2019)

Release Date

2019-01-30

Peptides

Replicative DNA helicase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Replicative DNA helicase