SMTL ID : 3kzn.1

Crystal structure of N-acetyl-L-ornithine transcarbamylase complexed with N-acetyl-L-ornirthine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-trimer

Ligands

3 x AOR: N~2~-ACETYL-L-ORNITHINE(Non-covalent)

AOR.1: 12 residues within 4Å: Chain A: R.71, F.134, E.164, L.204, N.205, K.272, C.314, L.315, P.316 Chain B: W.97, E.112 Ligands: GOL.2 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.134, A:L.204, B:W.97 Hydrogen bonds: A:N.205, A:L.315 Water bridges: A:R.132, A:K.272 Salt bridges: A:K.272 AOR.6: 12 residues within 4Å: Chain B: R.71, F.134, E.164, L.204, N.205, K.272, C.314, L.315, P.316 Chain C: W.97, E.112 Ligands: GOL.7 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:F.134, B:L.204, C:W.97 Hydrogen bonds: B:N.205, B:L.315 Water bridges: B:R.132, B:E.164, B:E.164 Salt bridges: B:K.272 AOR.11: 12 residues within 4Å: Chain A: W.97, E.112 Chain C: R.71, F.134, E.164, L.204, N.205, K.272, C.314, L.315, P.316 Ligands: GOL.12 8 PLIP interactions: 7 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:F.134, C:L.204, A:W.97 Hydrogen bonds: C:N.205, C:L.315 Water bridges: C:R.132, C:K.272 Salt bridges: C:K.272

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: S.69, M.70, R.71, R.132, P.316 Chain B: W.97 Ligands: AOR.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:M.70, A:R.71, A:R.71, A:R.132 GOL.3: 4 residues within 4Å: Chain A: S.33, R.34, R.218, E.248 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.34, A:R.218 Water bridges: A:Q.30, A:W.32, A:R.218, A:E.248 GOL.7: 7 residues within 4Å: Chain B: S.69, M.70, R.71, R.132, P.316 Chain C: W.97 Ligands: AOR.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:M.70, B:R.71, B:R.71, B:R.132 GOL.8: 4 residues within 4Å: Chain B: S.33, R.34, R.218, E.248 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.34, B:R.218 Water bridges: B:Q.30, B:W.32, B:R.218, B:E.248 GOL.12: 7 residues within 4Å: Chain A: W.97 Chain C: S.69, M.70, R.71, R.132, P.316 Ligands: AOR.11 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:M.70, C:R.71, C:R.71, C:R.132 GOL.13: 4 residues within 4Å: Chain C: S.33, R.34, R.218, E.248 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:R.34, C:R.218 Water bridges: C:Q.30, C:W.32, C:R.218, C:E.248

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

SO4.4: 8 residues within 4Å: Chain A: R.73, Q.91 Chain B: R.73, Q.91 Chain C: R.73, Q.91 Ligands: SO4.9, SO4.14 12 PLIP interactions: 4 interactions with chain C, 3 interactions with chain A, 5 interactions with chain B Hydrogen bonds: C:Q.91, A:Q.91, B:Q.91 Water bridges: C:R.73, C:R.73, A:R.73, B:R.73, B:R.73, B:V.89 Salt bridges: C:R.73, A:R.73, B:R.73 SO4.5: 8 residues within 4Å: Chain A: F.81, H.86 Chain B: F.81, H.86 Chain C: F.81, H.86 Ligands: SO4.10, SO4.15 7 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C, 3 interactions with chain B Water bridges: A:G.85, A:H.86, B:H.86, B:H.86 Salt bridges: A:H.86, C:H.86, B:H.86 SO4.9: 8 residues within 4Å: Chain A: R.73, Q.91 Chain B: R.73, Q.91 Chain C: R.73, Q.91 Ligands: SO4.4, SO4.14 12 PLIP interactions: 5 interactions with chain C, 4 interactions with chain A, 3 interactions with chain B Hydrogen bonds: C:Q.91, A:Q.91, B:Q.91 Water bridges: C:R.73, C:R.73, C:V.89, A:R.73, A:R.73, B:R.73 Salt bridges: C:R.73, A:R.73, B:R.73 SO4.10: 8 residues within 4Å: Chain A: F.81, H.86 Chain B: F.81, H.86 Chain C: F.81, H.86 Ligands: SO4.5, SO4.15 8 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B, 2 interactions with chain C Water bridges: A:H.86, A:H.86, B:G.85, B:H.86, C:H.86 Salt bridges: A:H.86, B:H.86, C:H.86 SO4.14: 8 residues within 4Å: Chain A: R.73, Q.91 Chain B: R.73, Q.91 Chain C: R.73, Q.91 Ligands: SO4.4, SO4.9 12 PLIP interactions: 3 interactions with chain C, 5 interactions with chain A, 4 interactions with chain B Hydrogen bonds: C:Q.91, A:Q.91, B:Q.91 Water bridges: C:R.73, A:R.73, A:R.73, A:V.89, B:R.73, B:R.73 Salt bridges: C:R.73, A:R.73, B:R.73 SO4.15: 8 residues within 4Å: Chain A: F.81, H.86 Chain B: F.81, H.86 Chain C: F.81, H.86 Ligands: SO4.5, SO4.10 9 PLIP interactions: 3 interactions with chain A, 3 interactions with chain C, 3 interactions with chain B Water bridges: A:H.86, A:H.86, C:G.85, C:H.86, B:H.86, B:H.86 Salt bridges: A:H.86, C:H.86, B:H.86

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shi, D. et al., Structures of N-acetylornithine transcarbamoylase from Xanthomonas campestris complexed with substrates and substrate analogs imply mechanisms for substrate binding and catalysis. Proteins (2006)

Release Date

2010-03-31

Peptides

N-acetylornithine carbamoyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

N-acetylornithine carbamoyltransferase

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