SMTL ID : 7vo1.1

Structure of aminotransferase-substrate complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.99 Å

Oligo State

homo-tetramer

Ligands

4 x PGU: N-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-L-glutamic acid(Non-covalent)

PGU.1: 21 residues within 4Å: Chain A: I.63, S.123, G.124, T.125, N.128, F.151, H.152, G.153, R.154, E.231, E.236, D.264, V.266, Q.267, K.293, R.419 Chain B: E.126, S.319, N.320, T.321, F.322 16 PLIP interactions: 13 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.151, A:V.266 Hydrogen bonds: A:G.124, A:T.125, A:N.128, A:E.236, A:E.236, A:Q.267, A:K.293, B:S.319, B:T.321 Salt bridges: A:R.154, A:K.293, A:R.419 pi-Stacking: A:F.151 Water bridges: B:S.319 PGU.2: 22 residues within 4Å: Chain A: E.126, S.319, N.320, T.321, F.322 Chain B: T.30, I.63, S.123, G.124, T.125, N.128, F.151, H.152, G.153, R.154, E.231, E.236, D.264, V.266, Q.267, K.293, R.419 20 PLIP interactions: 15 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:F.151, B:V.266 Hydrogen bonds: B:G.124, B:T.125, B:N.128, B:F.151, B:E.236, B:Q.267, B:Q.267, A:E.126, A:S.319, A:T.321, A:T.321, A:T.321 Water bridges: B:T.125, B:T.125 Salt bridges: B:R.154, B:K.293, B:R.419 pi-Stacking: B:F.151 PGU.3: 21 residues within 4Å: Chain C: I.63, S.123, G.124, T.125, N.128, F.151, H.152, G.153, R.154, E.231, E.236, D.264, V.266, Q.267, K.293, R.419 Chain D: E.126, S.319, N.320, T.321, F.322 16 PLIP interactions: 12 interactions with chain C, 4 interactions with chain D Hydrophobic interactions: C:F.151, C:V.266 Hydrogen bonds: C:G.124, C:T.125, C:N.128, C:E.236, C:Q.267, C:K.293, D:S.319, D:T.321, D:T.321 Salt bridges: C:R.154, C:K.293, C:R.419 pi-Stacking: C:F.151 Water bridges: D:S.319 PGU.4: 22 residues within 4Å: Chain C: E.126, S.319, N.320, T.321, F.322 Chain D: T.30, I.63, S.123, G.124, T.125, N.128, F.151, H.152, G.153, R.154, E.231, E.236, D.264, V.266, Q.267, K.293, R.419 16 PLIP interactions: 4 interactions with chain C, 12 interactions with chain D Hydrogen bonds: C:E.126, C:S.319, C:T.321, C:T.321, D:G.124, D:T.125, D:N.128, D:F.151, D:Q.267, D:Q.267 Hydrophobic interactions: D:F.151, D:V.266 Salt bridges: D:R.154, D:K.293, D:R.419 pi-Stacking: D:F.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kawakami, R. et al., Crystal structure of a novel type of ornithine delta-aminotransferase from the hyperthermophilic archaeon Pyrococcus horikoshii. Int.J.Biol.Macromol. (2022)

Release Date

2022-03-30

Peptides

454aa long hypothetical 4-aminobutyrate aminotransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

454aa long hypothetical 4-aminobutyrate aminotransferase

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