SMTL ID : 3o0y.4 (3 other biounits)

The crystal structure of the putative lipoprotein from Colwellia psychrerythraea

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-trimer

Ligands

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: R.504, R.507, R.545, Y.556 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.556 Water bridges: A:H.438, A:E.471, A:R.504 Salt bridges: A:H.438, A:R.504, A:R.507, A:R.545 SO4.2: 2 residues within 4Å: Chain A: S.352, I.353 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.353 Water bridges: A:S.352, A:S.352, A:R.356 SO4.6: 3 residues within 4Å: Chain B: S.56, Q.57, V.63 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.57, B:Q.57 Water bridges: B:K.58, B:S.65 SO4.7: 5 residues within 4Å: Chain B: R.504, R.507, R.545, Y.556 Ligands: GOL.11 4 PLIP interactions: 4 interactions with chain B Water bridges: B:E.439 Salt bridges: B:R.504, B:R.507, B:R.545 SO4.12: 4 residues within 4Å: Chain C: R.504, R.507, R.545, Y.556 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:Y.556 Water bridges: C:G.402, C:G.402, C:R.545 Salt bridges: C:H.438, C:R.504, C:R.507, C:R.545 SO4.13: 3 residues within 4Å: Chain C: S.56, Q.57, V.63 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.57 Water bridges: C:S.65

3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.3: 4 residues within 4Å: Chain A: G.328, Y.329 Chain C: Y.482, R.497 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain C Hydrogen bonds: A:G.328, A:E.344, C:R.497, C:R.497 Water bridges: A:T.330, C:Y.482, C:D.494, C:E.501 TRS.4: 5 residues within 4Å: Chain A: Q.479, Y.482, R.497 Chain B: G.328, Y.329 9 PLIP interactions: 4 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:G.328, B:Y.329, A:Q.479, A:R.497, A:R.497 Water bridges: B:G.328, B:K.331, A:R.315, A:R.315 TRS.8: 5 residues within 4Å: Chain B: Q.479, Y.482, R.497 Chain C: G.328, Y.329 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:Q.479, B:R.497, B:R.497, C:G.328, C:Y.329 Water bridges: B:R.315, B:R.315, B:Q.479

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 7 residues within 4Å: Chain A: F.347, Y.366, K.429, F.430, K.433, D.490, G.493 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.429, A:D.490, A:G.493 GOL.9: 5 residues within 4Å: Chain B: Y.35, L.36, K.39, P.458, F.459 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.35, B:K.39, B:K.39, B:F.459 Water bridges: B:L.36 GOL.10: 7 residues within 4Å: Chain B: F.347, Y.366, K.429, F.430, K.433, D.490, G.493 1 PLIP interactions: 1 interactions with chain B Water bridges: B:D.490 GOL.11: 5 residues within 4Å: Chain B: W.130, E.471, R.545, Y.556 Ligands: SO4.7 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.471, B:R.545 Water bridges: B:W.130, B:Q.403 GOL.14: 5 residues within 4Å: Chain C: Y.35, L.36, K.39, P.458, F.459 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Y.35, C:F.459 Water bridges: C:L.36, C:L.457, C:R.462 GOL.15: 7 residues within 4Å: Chain C: F.347, Y.366, K.429, F.430, K.433, D.490, G.493 1 PLIP interactions: 1 interactions with chain C Water bridges: C:D.490 GOL.16: 4 residues within 4Å: Chain C: W.519, Q.523, S.526, Y.527 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Y.527 Water bridges: C:S.526, C:E.530 GOL.17: 1 residues within 4Å: Chain C: V.286 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, R. et al., The crystal structure of the putative lipoprotein from Colwellia psychrerythraea. To be Published

Release Date

2010-09-22

Peptides

lipoprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

lipoprotein

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