SMTL ID : 6wp1.2 (1 other biounit)

The Crystal Structure of Apo Domain-Swapped Trimer Q108K:K40L:T51K Variant of HCRBPII

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.99 Å

Oligo State

homo-trimer

Ligands

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 2 residues within 4Å: Chain A: G.46, D.47 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.47 ACT.2: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.2 ACT.8: 3 residues within 4Å: Chain C: R.2, G.46, D.47 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.2 ACT.9: 2 residues within 4Å: Chain C: D.61, D.63 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:D.61 Hydrogen bonds: C:D.63

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: D.91, V.92, W.109, I.110, E.111 Chain B: T.1 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:T.1, B:T.1, A:E.111 GOL.4: 7 residues within 4Å: Chain A: D.24, I.25, D.26 Chain C: K.31, L.77, D.78, N.79 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:D.24, A:D.26, C:K.31, C:N.79 GOL.5: 3 residues within 4Å: Chain B: D.123, Q.124 Chain C: N.15 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:Q.124, C:N.15 GOL.6: 5 residues within 4Å: Chain A: L.77, D.78 Chain B: D.24, I.25, D.26 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.26, B:D.26, A:L.77 GOL.7: 6 residues within 4Å: Chain B: K.31, R.35, Y.60, S.76 Chain C: T.29, I.32 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.76 GOL.10: 4 residues within 4Å: Chain C: E.72, L.77, Q.97, W.106 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:E.72, C:Q.97, C:W.106 GOL.11: 1 residues within 4Å: Chain C: E.89 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghanbarpour, A. et al., Human Cellular Retinol Binding Protein II Forms a Domain-Swapped Trimer Representing a Novel Fold and a New Template for Protein Engineering. Chembiochem (2020)

Release Date

2020-08-19

Peptides

Retinol-binding protein 2: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

Retinol-binding protein 2

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