SMTL ID : 3rhf.3 (2 other biounits)

Crystal structure of Polyphosphate Kinase 2 from Arthrobacter aurescens TC1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

homo-dimer

Ligands

3 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.1: 4 residues within 4Å: Chain A: Y.210, R.212 Chain B: F.277, E.282 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.212 PG4.3: 8 residues within 4Å: Chain A: A.17, T.180, I.181, V.182, I.239, P.241, D.263, A.264 No protein-ligand interaction detected (PLIP) PG4.7: 5 residues within 4Å: Chain A: F.277, E.282 Chain B: Y.210, S.211, R.212 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Water bridges: A:D.278 Hydrogen bonds: B:R.212

2 x FLC: CITRATE ANION(Non-covalent)

FLC.2: 10 residues within 4Å: Chain A: M.83, D.84, T.85, A.86, G.87, K.88, G.89, D.139, R.200 Chain B: Q.102 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:K.88 Hydrogen bonds: A:T.85, A:A.86, A:G.87, A:K.88, A:G.89, B:Q.102 Salt bridges: A:K.88, A:K.88, A:K.110, A:R.140, A:R.200 FLC.9: 9 residues within 4Å: Chain A: Q.102 Chain B: D.84, T.85, K.88, G.89, K.110, D.139, R.140, R.200 23 PLIP interactions: 22 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.84, B:T.85, B:K.88, B:K.88, B:K.88, B:G.89, B:R.140, B:R.140, A:Q.102 Water bridges: B:D.84, B:G.87, B:G.87, B:K.88, B:G.90, B:G.90, B:K.110, B:R.200, B:R.200 Salt bridges: B:K.88, B:K.88, B:K.110, B:R.140, B:R.200

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

PO4.4: 4 residues within 4Å: Chain A: R.200, K.206, K.209, K.250 5 PLIP interactions: 5 interactions with chain A Water bridges: A:K.250, A:K.250 Salt bridges: A:R.200, A:K.209, A:K.250 PO4.5: 5 residues within 4Å: Chain A: K.43, N.248, K.249, K.250, W.251 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.250, A:W.251 Water bridges: A:W.251, A:R.254 Salt bridges: A:K.43 PO4.12: 4 residues within 4Å: Chain B: R.200, K.206, K.209, K.250 6 PLIP interactions: 6 interactions with chain B Water bridges: B:K.250, B:K.250 Salt bridges: B:R.200, B:K.206, B:K.209, B:K.250

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

CL.6: 2 residues within 4Å: Chain A: H.207 Chain B: A.275 Ligand excluded by PLIP

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.8: 9 residues within 4Å: Chain B: A.17, T.180, I.181, V.182, I.239, P.241, L.260, D.263, A.264 No protein-ligand interaction detected (PLIP) PGE.11: 6 residues within 4Å: Chain B: K.43, K.47, K.249, K.250, W.251, R.254 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.43, B:K.47, B:R.254, B:R.254 Water bridges: B:W.251

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.10: 7 residues within 4Å: Chain B: A.82, D.84, R.140, E.144, L.147, E.217, Y.228 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:D.84, B:R.140, B:E.217, B:Y.228, B:Y.228 Water bridges: B:A.82, B:D.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nocek, B. et al., Crystal structure of Polyphosphate Kinase 2 from Arthrobacter aurescens TC1. TO BE PUBLISHED

Release Date

2011-06-01

Peptides

Putative polyphosphate kinase 2 family protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Putative polyphosphate kinase 2 family protein

Related Entries With Identical Sequence