SMTL ID : 1wbi.2 (1 other biounit)

AVR2

Coordinates

PDB Format Compare

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 B: W.111 13 PLIP interactions: 13 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:D.42, A:S.74, A:Q.100, A:N.119 Water bridges: A:N.43 BTN.4: 18 residues within 4Å: Chain A: W.111 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 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:W.71, B:W.71, B:F.73 Hydrogen bonds: B:N.15, B:S.19, B:Y.36, 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.9: 18 residues within 4Å: 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 Chain D: W.111 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:T.38, 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.12: 18 residues within 4Å: Chain C: 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 14 PLIP interactions: 14 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:T.38, D:T.38, D:D.42, D:D.42, D:S.74, D:Q.100, D:N.119 Water bridges: D:N.43

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

SO4.2: 1 residues within 4Å: Chain A: R.59 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.59, A:R.59, A:R.59, A:R.59 Salt bridges: A:R.59 SO4.3: 4 residues within 4Å: Chain A: H.57, K.58, R.59 Chain D: H.70 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:K.58, A:R.59 Water bridges: A:R.59, A:A.60 Salt bridges: A:H.57, A:R.59, D:H.70 SO4.7: 4 residues within 4Å: Chain B: H.57, K.58, R.59 Chain C: H.70 7 PLIP interactions: 1 interactions with chain C, 6 interactions with chain B Salt bridges: C:H.70, B:H.57, B:R.59 Hydrogen bonds: B:K.58, B:R.59 Water bridges: B:R.59, B:A.60 SO4.8: 2 residues within 4Å: Chain B: A.60, S.61 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.61 Water bridges: B:S.61, B:S.61, B:Q.62, B:Q.62 SO4.10: 4 residues within 4Å: Chain B: H.70 Chain C: H.57, K.58, R.59 12 PLIP interactions: 11 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:K.58, C:R.59 Water bridges: C:R.59, C:R.59, C:R.59, C:R.59, C:R.59, C:R.59, C:A.60 Salt bridges: C:H.57, C:R.59, B:H.70 SO4.11: 2 residues within 4Å: Chain C: A.60, S.61 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.61 Water bridges: C:Q.62, C:Q.62 SO4.13: 5 residues within 4Å: Chain A: H.70, E.75 Chain D: H.57, K.58, R.59 8 PLIP interactions: 4 interactions with chain D, 4 interactions with chain A Hydrogen bonds: D:K.58, D:R.59, A:E.75 Water bridges: D:A.60, A:H.70, A:E.75 Salt bridges: D:H.57, A:H.70 SO4.14: 2 residues within 4Å: Chain D: A.60, S.61 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:S.61, D:S.61 Water bridges: D:Q.62, D:Q.62

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 2 residues within 4Å: Chain B: D.87, R.88 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.88 Water bridges: B:D.87, B:D.87 GOL.6: 5 residues within 4Å: Chain A: L.17 Chain B: D.110, W.111 Chain C: K.95, K.97 7 PLIP interactions: 3 interactions with chain C, 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: C:K.95, C:K.97, B:D.110, B:D.110 Water bridges: C:K.95, B:W.111, A:N.119

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
E

B
F

C
G

D
H

AVIDIN-RELATED PROTEIN 2

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