SMTL ID : 3jx8.2 (2 other biounits)

Crystal structure of Putative lipid binding protein (YP_001304415.1) from Parabacteroides distasonis ATCC 8503 at 2.16 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: G.126, S.127, G.147, S.148 Chain B: S.206, S.207 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.148, B:S.207 Water bridges: A:S.127 SO4.2: 4 residues within 4Å: Chain A: G.30, S.31, G.105, S.106 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Water bridges: B:S.243, A:S.31, A:S.31 Hydrogen bonds: A:S.106, A:S.106, A:G.107 SO4.3: 2 residues within 4Å: Chain A: R.198, K.199 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.198, A:K.199 SO4.8: 4 residues within 4Å: Chain B: G.30, S.31, G.105, S.106 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.106, B:G.107 Water bridges: B:G.30, B:S.31, B:L.84 SO4.9: 6 residues within 4Å: Chain A: S.206, S.207 Chain B: G.126, S.127, G.147, S.148 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.207, B:S.148 Water bridges: A:S.206, A:S.206, A:S.225, B:S.127 SO4.10: 3 residues within 4Å: Chain B: R.198, K.199, Q.216 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.216 Water bridges: B:K.199, B:K.199 Salt bridges: B:R.198, B:K.199

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: D.55, Y.56, K.71, K.74, Y.82 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.55, A:Y.82 GOL.5: 6 residues within 4Å: Chain A: K.137, G.138, Y.139, Q.157, L.158, D.159 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.138 Water bridges: A:L.158, A:L.158 GOL.6: 4 residues within 4Å: Chain A: D.22, Y.23, D.24, G.64 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.22, A:D.22 Water bridges: A:K.96 GOL.7: 3 residues within 4Å: Chain A: S.39, D.40, K.41 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.40, A:D.40, A:K.41 GOL.11: 5 residues within 4Å: Chain B: D.55, Y.56, K.71, K.74, Y.82 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.55, B:K.71 Water bridges: B:K.71 GOL.12: 4 residues within 4Å: Chain B: D.22, Y.23, D.24, G.64 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of Putative lipid binding protein (YP_001304415.1) from Parabacteroides distasonis ATCC 8503 at 2.16 A resolution. To be published

Release Date

2009-11-10

Peptides

Putative lipoprotein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Putative lipoprotein

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