SMTL ID : 4x8l.2 (1 other biounit)

Crystal structure of E. coli Adenylate kinase P177A mutant in complex with inhibitor Ap5a

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

AP5.1: 41 residues within 4Å: Chain A: A.8, P.9, G.10, A.11, G.12, K.13, G.14, T.15, T.31, G.32, L.35, R.36, I.52, M.53, K.57, L.58, V.59, V.64, G.85, F.86, P.87, R.88, Q.92, R.119, I.120, R.123, R.124, V.132, Y.133, H.134, F.137, N.138, R.156, D.158, R.167, G.198, K.200, P.201, V.202, V.205 Ligands: MG.2 42 PLIP interactions: 42 interactions with chain A Hydrogen bonds: A:G.10, A:A.11, A:G.12, A:K.13, A:G.14, A:T.15, A:T.15, A:T.15, A:T.31, A:K.57, A:V.59, A:G.85, A:Q.92, A:Y.133, A:G.198 Water bridges: A:K.13, A:K.13, A:S.30, A:S.30, A:R.36, A:G.56, A:K.57, A:R.119, A:R.119, A:R.123, A:R.123, A:N.138, A:R.167 Salt bridges: A:K.13, A:K.13, A:R.36, A:R.88, A:R.88, A:R.123, A:R.123, A:R.123, A:R.156, A:R.156, A:R.156, A:R.167 pi-Cation interactions: A:R.88, A:R.119

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: K.13, G.14, D.84 Ligands: AP5.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.84, A:D.84

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

NA.3: 2 residues within 4Å: Chain A: N.102, N.190 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kovermann, M. et al., Structural basis for catalytically restrictive dynamics of a high-energy enzyme state. Nat Commun (2015)

Release Date

2015-07-22

Peptides

Adenylate kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Adenylate kinase

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