SMTL ID : 2zxi.2 (1 other biounit)

Structure of Aquifex aeolicus GidA in the form II crystal

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 33 residues within 4Å: Chain A: I.33, G.34, G.35, G.36, H.37, A.38, F.56, V.57, L.58, S.67, C.68, K.77, E.144, E.145, V.146, T.175, T.176, G.177, T.178, F.179, R.195, S.201, T.220, G.221, Y.368, I.370, G.396, N.397, T.402, G.403, Y.404, A.407, R.454 38 PLIP interactions: 38 interactions with chain A Hydrophobic interactions: A:Y.368, A:I.370 Hydrogen bonds: A:G.35, A:H.37, A:H.37, A:A.38, A:L.58, A:K.77, A:V.146, A:V.146, A:T.178, A:S.201, A:T.220, A:N.397, A:N.397, A:T.402, A:T.402, A:G.403, A:R.454 Water bridges: A:G.35, A:G.36, A:G.39, A:N.59, A:N.59, A:S.67, A:K.77, A:G.177, A:R.195, A:R.195, A:R.195, A:R.195, A:R.195, A:R.195, A:E.202, A:T.402, A:Y.404, A:Y.404 Salt bridges: A:R.195 FAD.2: 33 residues within 4Å: Chain B: I.33, G.34, G.35, G.36, H.37, A.38, F.56, V.57, L.58, S.67, C.68, K.77, E.144, E.145, V.146, T.175, T.176, G.177, T.178, F.179, R.195, S.201, T.220, G.221, Y.368, I.370, G.396, N.397, T.402, G.403, Y.404, A.407, R.454 38 PLIP interactions: 38 interactions with chain B Hydrophobic interactions: B:R.195, B:Y.368, B:I.370 Hydrogen bonds: B:G.35, B:H.37, B:H.37, B:A.38, B:L.58, B:K.77, B:V.146, B:V.146, B:G.177, B:T.178, B:S.201, B:T.220, B:N.397, B:N.397, B:T.402, B:T.402, B:G.403, B:R.454 Water bridges: B:G.35, B:G.36, B:G.36, B:N.59, B:N.59, B:E.145, B:R.195, B:R.195, B:R.195, B:R.195, B:R.195, B:R.195, B:G.221, B:F.398, B:Y.404, B:Y.404 Salt bridges: B:R.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Osawa, T. et al., Conserved cysteine residues of GidA are essential for biogenesis of 5-carboxymethylaminomethyluridine at tRNA anticodon. Structure (2009)

Release Date

2009-05-19

Peptides

tRNA uridine 5-carboxymethylaminomethyl modification enzyme mnmG: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

tRNA uridine 5-carboxymethylaminomethyl modification enzyme mnmG

Related Entries With Identical Sequence