SMTL ID : 4w5j.1 (3 other biounits)

New structural conformations of adenylate kinase from Streptococcus pneumoniae D39 with Ap5A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: G.19, R.133, R.161 Ligands: AP5.2 No protein-ligand interaction detected (PLIP)

1 x AP5: BIS(ADENOSINE)-5'-PENTAPHOSPHATE(Non-covalent)

AP5.2: 37 residues within 4Å: Chain A: P.14, G.15, A.16, G.17, K.18, G.19, T.20, T.36, G.37, F.40, R.41, I.58, E.62, L.63, V.64, T.69, G.91, Y.92, R.94, Q.98, R.129, L.130, R.133, T.142, F.143, H.144, F.147, N.148, R.161, D.163, R.172, G.198, Q.200, D.201, I.202, V.205 Ligands: MG.1 49 PLIP interactions: 49 interactions with chain A Hydrogen bonds: A:G.15, A:G.17, A:K.18, A:G.19, A:T.20, A:T.20, A:T.36, A:G.37, A:E.62, A:V.64, A:R.94, A:R.94, A:Q.98, A:Q.98, A:R.129, A:R.129, A:T.142, A:T.142, A:N.148, A:Q.200 Water bridges: A:S.35, A:R.41, A:R.94, A:R.129, A:R.129, A:R.133, A:R.133, A:R.161, A:R.161, A:D.163, A:R.172, A:R.172, A:N.176, A:D.201 Salt bridges: A:K.18, A:R.41, A:R.94, A:R.94, A:R.133, A:R.133, A:R.133, A:R.161, A:R.161, A:R.161, A:R.172, A:R.172 pi-Stacking: A:F.40 pi-Cation interactions: A:R.94, A:R.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thach, T.T. et al., New crystal structures of adenylate kinase from Streptococcus pneumoniae D39 in two conformations. Acta Crystallogr.,Sect.F (2014)

Release Date

2014-11-26

Peptides

Adenylate kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Adenylate kinase

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