SMTL ID : 4bre.1

Legionella pneumophila NTPDase1 crystal form II (closed) in complex with transition state mimic adenosine 5'phosphovanadate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: E.200, H.203 Chain B: E.200, H.203 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.200, A:H.203

2 x 50T: ADENOSINE-5'-PHOSPHOVANADATE(Non-covalent)

50T.2: 19 residues within 4Å: Chain A: G.18, S.19, T.20, R.23, T.85, A.86, G.87, R.89, E.126, M.154, G.155, G.156, A.157, S.158, Q.198, G.266, N.269, Y.313 Ligands: MG.3 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:S.19, A:S.19, A:S.19, A:S.19, A:T.20, A:G.21, A:A.86, A:G.87, A:R.89, A:G.155, A:G.156, A:A.157, A:S.158, A:Q.198, A:N.269 Water bridges: A:R.23, A:T.85, A:Q.160, A:N.269 Salt bridges: A:R.23 pi-Stacking: A:Y.313 50T.6: 19 residues within 4Å: Chain B: G.18, S.19, T.20, R.23, T.85, A.86, G.87, R.89, E.126, M.154, G.155, G.156, A.157, S.158, Q.198, G.266, N.269, Y.313 Ligands: MG.5 23 PLIP interactions: 23 interactions with chain B Hydrogen bonds: B:S.19, B:S.19, B:S.19, B:S.19, B:T.20, B:G.21, B:T.85, B:T.85, B:A.86, B:G.87, B:R.89, B:G.155, B:G.156, B:A.157, B:S.158, B:N.269 Water bridges: B:R.23, B:R.23, B:E.126, B:Q.160, B:Q.160 Salt bridges: B:R.23 pi-Stacking: B:Y.313

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: R.23, E.126 Ligands: 50T.2 No protein-ligand interaction detected (PLIP) MG.5: 3 residues within 4Å: Chain B: R.23, E.126 Ligands: 50T.6 No protein-ligand interaction detected (PLIP)

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.4: 8 residues within 4Å: Chain A: H.191, F.193, V.242, H.243, Q.248 Chain B: N.207, S.208, E.234 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.248, A:Q.248 Salt bridges: A:H.191, A:H.243 MES.7: 9 residues within 4Å: Chain A: N.207, S.208, E.234 Chain B: H.191, F.193, V.242, H.243, K.244, Q.248 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Water bridges: A:S.208 Salt bridges: A:E.234, B:H.191, B:H.243 Hydrogen bonds: B:H.243, B:Q.248

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zebisch, M. et al., Crystallographic Snapshots Along the Reaction Pathway of Nucleoside Triphosphate Diphosphohydrolases. Structure (2013)

Release Date

2013-07-17

Peptides

ECTONUCLEOSIDE TRIPHOSPHATE DIPHOSPHOHYDROLASE I: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ECTONUCLEOSIDE TRIPHOSPHATE DIPHOSPHOHYDROLASE I

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