SMTL ID : 1x9j.5 (4 other biounits)

Structure of butyrate kinase 2 reveals both open- and citrate-induced closed conformations: implications for substrate-induced fit conformational changes

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 5 residues within 4Å: Chain A: V.58, E.59, T.61, G.62, Y.63 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.61, A:T.61, A:Y.63

2 x CIT: CITRIC ACID(Non-functional Binders)

CIT.2: 11 residues within 4Å: Chain A: S.11, H.104, H.154, H.182, G.184, G.185, G.186, A.203, L.204, R.214, E.334 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.11, A:S.11, A:G.185, A:G.186, A:E.334 Salt bridges: A:H.104, A:H.104, A:H.154, A:H.154, A:H.182, A:R.214, A:R.214 CIT.3: 7 residues within 4Å: Chain A: S.13, K.15, N.29, G.304, H.307, G.331, S.332 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:K.15 Hydrogen bonds: A:S.13, A:S.13, A:N.29, A:S.332 Salt bridges: A:K.15

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: M.1, R.3, S.67, F.68, S.69 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.3, A:S.69

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

PO4.5: 8 residues within 4Å: Chain A: D.207, T.217, W.284, K.287 Chain B: D.207, T.217, W.284, K.287 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:W.284, B:T.217, B:T.217 Salt bridges: A:K.287, B:K.287 PO4.6: 3 residues within 4Å: Chain B: K.97, H.114, R.115 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.114 Salt bridges: B:K.97, B:R.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Diao, J.S. et al., Structure of butyrate kinase 2 reveals both open and closed conformations of the two domains: implications for substrate-induced changes. To be Published

Release Date

2005-08-30

Peptides

Probable butyrate kinase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

Probable butyrate kinase 2

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