SMTL ID : 1wbi.1 (1 other biounit)

AVR2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-tetramer

Ligands

4 x BTN: BIOTIN(Non-covalent)

BTN.1: 18 residues within 4Å: Chain A: N.15, L.17, S.19, Y.36, T.38, V.40, A.41, D.42, W.71, F.73, S.74, S.76, S.78, F.80, W.98, Q.100, N.119 Chain D: W.111 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.71, A:W.71, A:W.71, A:F.73 Hydrogen bonds: A:N.15, A:S.19, A:Y.36, A:T.38, A:T.38, A:D.42, A:D.42, A:S.74, A:Q.100, A:N.119 Water bridges: A:N.43 BTN.6: 18 residues within 4Å: Chain B: N.15, L.17, S.19, Y.36, T.38, V.40, A.41, D.42, W.71, F.73, S.74, S.76, S.78, F.80, W.98, Q.100, N.119 Chain C: W.111 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:W.71, B:W.71, B:W.71, B:F.73 Hydrogen bonds: B:N.15, B:S.19, B:T.38, B:T.38, B:D.42, B:D.42, B:S.74, B:Q.100, B:N.119 Water bridges: B:N.43 BTN.10: 18 residues within 4Å: Chain B: W.111 Chain C: N.15, L.17, S.19, Y.36, T.38, V.40, A.41, D.42, W.71, F.73, S.74, S.76, S.78, F.80, W.98, Q.100, N.119 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:W.71, C:W.71, C:W.71, C:F.73 Hydrogen bonds: C:N.15, C:S.19, C:T.38, C:D.42, C:S.74, C:S.74, C:Q.100, C:N.119 Water bridges: C:N.43 BTN.14: 18 residues within 4Å: Chain A: W.111 Chain D: N.15, L.17, S.19, Y.36, T.38, V.40, A.41, D.42, W.71, F.73, S.74, S.76, S.78, F.80, W.98, Q.100, N.119 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:W.71, D:W.71, D:W.71, D:F.73 Hydrogen bonds: D:N.15, D:S.19, D:Y.36, D:T.38, D:D.42, D:D.42, D:S.74, D:S.74, D:Q.100, D:N.119 Water bridges: D:N.43

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 2 residues within 4Å: Chain A: D.87, R.88 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.88, A:R.88 Water bridges: A:D.87 GOL.7: 2 residues within 4Å: Chain B: T.48, L.49 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.49 GOL.8: 3 residues within 4Å: Chain B: N.43, S.74, E.75 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.43, B:E.75 GOL.11: 3 residues within 4Å: Chain C: F.73, S.74, E.75 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.75

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

SO4.3: 4 residues within 4Å: Chain A: H.57, K.58, R.59 Chain C: H.70 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:K.58, A:R.59 Water bridges: A:R.59, A:A.60 Salt bridges: A:H.57, A:R.59, C:H.70 SO4.4: 2 residues within 4Å: Chain A: A.60, S.61 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.61, A:S.61 Water bridges: A:Q.62 SO4.5: 1 residues within 4Å: Chain A: R.59 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.59 Salt bridges: A:R.59 SO4.9: 5 residues within 4Å: Chain B: H.57, K.58, R.59 Chain D: H.70, E.75 9 PLIP interactions: 1 interactions with chain D, 8 interactions with chain B Salt bridges: D:H.70, B:H.57 Hydrogen bonds: B:K.58, B:R.59 Water bridges: B:H.57, B:R.59, B:R.59, B:R.59, B:A.60 SO4.12: 4 residues within 4Å: Chain A: H.70 Chain C: H.57, K.58, R.59 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:K.58, C:R.59 Water bridges: C:R.59, C:R.59, C:R.59, C:A.60 Salt bridges: C:H.57, C:R.59, A:H.70 SO4.13: 2 residues within 4Å: Chain C: A.60, S.61 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:S.61, C:S.61 Water bridges: C:Q.62, C:Q.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hytonen, V.P. et al., Avidin Related Protein 2 Shows Unique Structural and Functional Features Among the Avidin Protein Family. Bmc Biotechnol. (2005)

Release Date

2005-10-12

Peptides

AVIDIN-RELATED PROTEIN 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

AVIDIN-RELATED PROTEIN 2

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