SMTL ID : 1j3b.1

Crystal structure of ATP-dependent phosphoenolpyruvate carboxykinase from Thermus thermophilus HB8

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: R.130, N.131, F.133, G.267 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:R.130, A:N.131, A:F.133, H2O.29 CA.2: 4 residues within 4Å: Chain B: R.130, N.131, F.133, G.267 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:R.130, B:N.131, B:F.133, B:G.267, H2O.437

9 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 5 residues within 4Å: Chain A: V.20, S.21, P.22, R.130, R.137 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.21 Water bridges: A:R.137 Salt bridges: A:R.130, A:R.137 PO4.4: 5 residues within 4Å: Chain A: S.258, E.259, K.413, K.416, H.417 5 PLIP interactions: 5 interactions with chain A Water bridges: A:K.416, A:H.417 Salt bridges: A:K.413, A:K.416, A:H.417 PO4.5: 8 residues within 4Å: Chain A: L.233, S.234, G.235, T.236, G.237, K.238, T.239, K.272 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.235, A:T.236, A:G.237, A:K.238, A:T.239, A:T.239 Water bridges: A:G.237, A:T.240 Salt bridges: A:K.272 PO4.6: 2 residues within 4Å: Chain A: H.338, R.340 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.417 Salt bridges: A:R.340 PO4.7: 5 residues within 4Å: Chain B: V.20, S.21, P.22, R.130, R.137 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.21 Salt bridges: B:R.130, B:R.137 PO4.8: 4 residues within 4Å: Chain B: E.259, K.413, K.416, H.417 4 PLIP interactions: 4 interactions with chain B Water bridges: B:K.416 Salt bridges: B:K.413, B:K.416, B:H.417 PO4.9: 7 residues within 4Å: Chain B: L.233, S.234, G.235, T.236, G.237, K.238, T.239 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:L.233, B:G.235, B:T.236, B:G.237, B:K.238, B:T.239, B:T.239 Water bridges: B:G.235, B:T.236, B:T.239, B:T.240 PO4.10: 4 residues within 4Å: Chain B: E.5, H.10, P.11, K.12 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.5 Salt bridges: B:H.10, B:K.12 PO4.11: 3 residues within 4Å: Chain B: R.111, Y.112, R.210 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.111, B:R.210

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.12: 4 residues within 4Å: Chain A: Y.93, F.160, Q.161, R.166 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.161, A:R.166, A:R.166 Water bridges: A:Y.93, A:Y.159 GOL.13: 4 residues within 4Å: Chain B: Y.93, F.160, Q.161, R.166 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.159, B:Q.161, B:R.166, B:R.166

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Sugahara, M. et al., Structure of ATP-dependent phosphoenolpyruvate carboxykinase from Thermus thermophilus HB8 showing the structural basis of induced fit and thermostability. Acta Crystallogr.,Sect.D (2005)

Release Date

2003-02-11

Peptides

ATP-dependent phosphoenolpyruvate carboxykinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ATP-dependent phosphoenolpyruvate carboxykinase

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