SMTL ID : 4brd.1

Legionella pneumophila NTPDase1 Q193E crystal form II, closed, Mg AMPPNP complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

5 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: E.200 Chain B: E.200 No protein-ligand interaction detected (PLIP) MG.3: 2 residues within 4Å: Chain A: E.126 Ligands: ANP.2 No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Chain B: D.63 No protein-ligand interaction detected (PLIP) MG.7: 1 residues within 4Å: Chain B: F.276 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain B: E.126 Ligands: ANP.9 No protein-ligand interaction detected (PLIP)

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 19 residues within 4Å: Chain A: G.18, S.19, T.20, R.23, T.85, A.86, E.126, M.154, G.155, G.156, A.157, S.158, Q.198, T.199, G.265, G.266, N.269, Y.313 Ligands: MG.3 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:S.19, A:T.20, A:G.21, A:R.23, A:R.23, A:A.86, A:G.156, A:A.157, A:S.158, A:S.158, A:G.266 Water bridges: A:T.85, A:T.85, A:G.155, A:L.270 Salt bridges: A:R.23 ANP.9: 21 residues within 4Å: Chain B: G.18, S.19, T.20, G.21, R.23, T.85, A.86, E.126, M.154, G.155, G.156, A.157, S.158, Q.198, T.199, G.265, G.266, N.269, Y.313, Y.317 Ligands: MG.10 24 PLIP interactions: 24 interactions with chain B Hydrogen bonds: B:S.19, B:S.19, B:T.20, B:G.21, B:R.23, B:R.23, B:T.85, B:A.86, B:G.156, B:A.157, B:S.158, B:S.158, B:T.199, B:G.266, B:Y.317 Water bridges: B:E.126, B:E.126, B:E.126, B:G.155, B:Q.198, B:Y.324 Salt bridges: B:R.23 pi-Stacking: B:Y.313, B:Y.313

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

MES.4: 9 residues within 4Å: Chain A: H.191, F.193, V.242, H.243, K.244, Q.248 Chain B: N.207, S.208, E.234 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:N.207, A:H.243, A:Q.248, A:Q.248 Water bridges: B:S.208 Salt bridges: B:E.234, A:H.243 MES.11: 10 residues within 4Å: Chain A: N.207, S.208, E.234 Chain B: H.191, S.192, F.193, V.242, H.243, K.244, Q.248 8 PLIP interactions: 2 interactions with chain A, 6 interactions with chain B Water bridges: A:S.208 Salt bridges: A:E.234, B:H.191, B:H.243 Hydrogen bonds: B:L.194, B:H.243, B:H.243, B:Q.248

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 5 residues within 4Å: Chain A: N.207, P.219, D.220 Chain B: R.89, G.123 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain A: R.89 Chain B: N.207, P.219, D.220 Ligand excluded by PLIP

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