SMTL ID : 2dgk.4 (5 other biounits)

Crystal structure of an N-terminal deletion mutant of Escherichia coli GadB in an autoinhibited state (aldamine)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: K.100, D.277, E.278 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.100, A:E.278 Salt bridges: A:K.100 SO4.4: 4 residues within 4Å: Chain B: P.99, K.100, D.277, E.278 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.100, B:E.278

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.2: 16 residues within 4Å: Chain A: G.111, S.112, S.113, Q.149, C.151, T.194, G.196, T.198, D.229, A.231, S.259, H.261, K.262, H.451 Chain B: F.303, S.304 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Q.149, A:Q.149, A:T.194, A:K.262 Hydrogen bonds: A:S.112, A:S.113, A:T.198, A:S.259, B:S.304 Water bridges: A:Q.149, A:S.232, B:F.303 Salt bridges: A:H.261, A:K.262, A:H.451 PLP.5: 16 residues within 4Å: Chain A: F.303, S.304 Chain B: G.111, S.112, S.113, Q.149, C.151, T.194, G.196, T.198, D.229, A.231, S.259, H.261, K.262, H.451 16 PLIP interactions: 14 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Q.149, B:T.194, B:K.262 Hydrogen bonds: B:S.112, B:S.113, B:S.113, B:T.198, B:S.259, B:S.259, A:F.303, A:S.304 Water bridges: B:Q.149, B:S.232 Salt bridges: B:H.261, B:K.262, B:H.451

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

EDO.3: 4 residues within 4Å: Chain A: Q.78, R.85 Chain B: E.35, L.38 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:E.35, A:Q.78, A:R.85, A:R.85 EDO.6: 4 residues within 4Å: Chain A: E.35, L.38 Chain B: Q.78, R.85 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Q.78, B:R.85, B:R.85, A:E.35

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gut, H. et al., Escherichia coli acid resistance: pH-sensing, activation by chloride and autoinhibition in GadB. Embo J. (2006)

Release Date

2006-06-20

Peptides

Glutamate decarboxylase beta: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

Glutamate decarboxylase beta

Related Entries With Identical Sequence