SMTL ID : 3qht.1 (1 other biounit)

Crystal Structure of the Monobody ySMB-1 bound to yeast SUMO

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-mer

Ligands

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: E.21, H.23, N.25, K.38, D.85 Chain B: E.50 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:E.50, A:E.21, A:H.23, A:N.25, A:K.38, A:N.86 GOL.2: 7 residues within 4Å: Chain A: S.32, S.33, E.34, F.36 Chain B: Y.88, S.89, P.90 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.34, B:S.89 Water bridges: A:S.33 GOL.3: 4 residues within 4Å: Chain A: Y.67, D.68, D.87, I.88 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.68, A:I.88 Water bridges: A:G.69 GOL.4: 2 residues within 4Å: Chain A: D.68, I.70 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.68 GOL.5: 1 residues within 4Å: Chain A: D.75 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.75 GOL.6: 3 residues within 4Å: Chain B: S.80, Y.81, Y.82 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.82 Water bridges: B:S.80 GOL.7: 7 residues within 4Å: Chain B: P.8, T.9, D.26, A.27, S.28, S.29, Y.35 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.9, B:D.26, B:S.28, B:S.29, B:Y.35 GOL.8: 4 residues within 4Å: Chain B: D.70, N.94, Y.95, R.96 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gilbreth, R.N. et al., Isoform-specific monobody inhibitors of small ubiquitin-related modifiers engineered using structure-guided library design. Proc.Natl.Acad.Sci.USA (2011)

Release Date

2011-05-11

Peptides

Ubiquitin-like protein SMT3: A
Monobody ySMB-1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Ubiquitin-like protein SMT3

Monobody ySMB-1

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