SMTL ID : 4rdw.1

The structure of N-formimino-L-Glutamate Iminohydrolase from Pseudomonas aeruginosa complexed with N-Guanidino-L-Glutaric acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.56, H.58, H.232, D.320 Ligands: NGQ.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.56, A:H.58, A:H.232, A:D.320, H2O.1 ZN.10: 5 residues within 4Å: Chain B: H.56, H.58, H.232, D.320 Ligands: NGQ.11 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.56, B:H.58, B:H.232, B:D.320, H2O.15

2 x NGQ: N-carbamimidoyl-L-glutamic acid(Non-covalent)

NGQ.2: 14 residues within 4Å: Chain A: H.58, Q.61, F.78, W.81, R.82, M.85, Y.121, H.206, R.209, H.232, E.235, L.298, D.320 Ligands: ZN.1 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.78, A:W.81, A:R.82 Hydrogen bonds: A:Q.61, A:Y.121 Water bridges: A:Q.61, A:R.82, A:R.209, A:D.320 Salt bridges: A:H.58, A:R.82, A:H.206, A:H.206, A:R.209, A:H.232, A:E.235, A:D.320 NGQ.11: 14 residues within 4Å: Chain B: H.58, Q.61, F.78, W.81, R.82, M.85, Y.121, H.206, R.209, H.232, E.235, L.298, D.320 Ligands: ZN.10 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:F.78, B:W.81, B:R.82 Hydrogen bonds: B:Q.61, B:Y.121 Water bridges: B:Q.61, B:R.82, B:R.209, B:D.320 Salt bridges: B:H.58, B:R.82, B:H.206, B:H.206, B:R.209, B:H.232, B:E.235, B:D.320

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

EDO.3: 3 residues within 4Å: Chain A: D.127, R.129 Ligands: GOL.8 No protein-ligand interaction detected (PLIP) EDO.4: 5 residues within 4Å: Chain A: Q.188, R.191, A.222, G.223, H.224 1 PLIP interactions: 1 interactions with chain A Water bridges: A:A.222 EDO.5: 3 residues within 4Å: Chain A: W.246, S.247, W.254 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.246 Water bridges: A:N.258 EDO.12: 3 residues within 4Å: Chain B: D.127, R.129 Ligands: GOL.17 No protein-ligand interaction detected (PLIP) EDO.13: 5 residues within 4Å: Chain B: Q.188, R.191, A.222, G.223, H.224 1 PLIP interactions: 1 interactions with chain B Water bridges: B:A.222 EDO.14: 3 residues within 4Å: Chain B: W.246, S.247, W.254 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.246 Water bridges: B:N.258

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 5 residues within 4Å: Chain A: E.95, Q.96, Q.446, V.447, E.450 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.96, A:Q.446, A:E.450 Water bridges: A:S.93, A:Q.96 GOL.7: 3 residues within 4Å: Chain A: S.130, Y.131, A.132 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.132 Water bridges: A:S.130, A:S.130, A:S.130, A:A.132 GOL.8: 2 residues within 4Å: Chain A: R.129 Ligands: EDO.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.129, A:R.129 GOL.15: 5 residues within 4Å: Chain B: E.95, Q.96, Q.446, V.447, E.450 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.96, B:Q.446, B:E.450 Water bridges: B:S.93, B:Q.96 GOL.16: 3 residues within 4Å: Chain B: S.130, Y.131, A.132 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.132 Water bridges: B:S.130, B:S.130, B:S.130, B:A.132 GOL.17: 2 residues within 4Å: Chain B: R.129 Ligands: EDO.12 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.129, B:R.129

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

PEG.9: 5 residues within 4Å: Chain A: H.124, G.128, R.129, S.130, I.177 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.130 Water bridges: A:S.130, A:S.130, A:S.130, A:S.130 PEG.18: 5 residues within 4Å: Chain B: H.124, G.128, R.129, S.130, I.177 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.130 Water bridges: B:S.130, B:S.130, B:S.130, B:S.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fedorov, A.A. et al., The structure of N-formimino-L-Glutamate Iminohydrolase from Pseudomonas aeruginosa complexed with N-Guanidino-L-Glutaric acid. To be Published

Release Date

2014-10-08

Peptides

N-formimino-L-Glutamate Iminohydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

N-formimino-L-Glutamate Iminohydrolase

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