SMTL ID : 2dkg.1

Crystal Structure Of Biotin Protein Ligase From Pyrococcus Horikoshii OT3 in Complex with Biotinyl-5'-AMP, Pyrophosphate and Mg(2+)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: N.103, D.104 Ligands: POP.2, BT5.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.104, A:D.104, POP.2

1 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.2: 11 residues within 4Å: Chain A: R.48, R.51, K.100, P.102, N.103, D.104, K.111, S.231, L.232 Ligands: MG.1, BT5.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:L.232 Salt bridges: A:R.48, A:R.51, A:R.51, A:K.100, A:K.100, A:K.111

2 x BT5: BIOTINYL-5-AMP(Non-covalent)

BT5.3: 28 residues within 4Å: Chain A: S.21, T.22, N.23, Q.42, G.45, H.46, G.47, R.48, R.51, K.52, W.53, E.54, W.61, L.62, S.63, N.103, D.104, K.111, G.114, V.115, L.116, I.128, G.129, N.131, P.137, A.140 Ligands: MG.1, POP.2 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:W.53, A:W.53 Hydrogen bonds: A:T.22, A:T.22, A:N.23, A:Q.42, A:H.46, A:H.46, A:R.48, A:E.54, A:N.103, A:N.131, A:N.131 Water bridges: A:K.52 Salt bridges: A:R.51, A:K.111, A:K.111 pi-Stacking: A:W.53, A:W.53 BT5.4: 26 residues within 4Å: Chain B: S.21, T.22, N.23, Q.42, G.45, H.46, G.47, R.48, R.51, K.52, W.53, E.54, W.61, L.62, S.63, N.103, D.104, K.111, G.114, V.115, L.116, I.128, G.129, N.131, P.137, A.140 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:W.53, B:W.53, B:L.116 Hydrogen bonds: B:T.22, B:T.22, B:N.23, B:Q.42, B:H.46, B:H.46, B:H.46, B:R.48, B:E.54, B:N.103, B:D.104, B:K.111, B:V.115, B:N.131, B:N.131 Salt bridges: B:R.48, B:K.111, B:K.111 pi-Stacking: B:W.53, B:W.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bagautdinov, B. et al., Ligand Structures Of Biotin Protein Ligase From Pyrococcus Horikoshii Ot3. To be Published

Release Date

2006-10-11

Peptides

235aa long hypothetical biotin-[acetyl-CoA-carboxylase] ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

235aa long hypothetical biotin-[acetyl-CoA-carboxylase] ligase

Related Entries With Identical Sequence