SMTL ID : 3zhd.1

The crystal structure of single domain antibody 8-4 scaffold.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-hexamer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: W.59 Chain B: S.52, S.54, G.56, S.57 9 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B, 2 interactions with chain C Water bridges: A:W.59, B:S.54, C:S.31, C:S.31 Hydrogen bonds: B:S.52, B:S.52, B:G.56, B:S.57, B:S.57 SO4.2: 5 residues within 4Å: Chain C: W.59 Chain D: S.52, S.54, G.56, S.57 9 PLIP interactions: 6 interactions with chain D, 1 interactions with chain C, 2 interactions with chain E Hydrogen bonds: D:S.52, D:S.52, D:G.56, D:S.57, D:S.57 Water bridges: D:S.54, C:W.59, E:S.31, E:S.31 SO4.3: 5 residues within 4Å: Chain E: W.59 Chain F: S.52, S.54, G.56, S.57 9 PLIP interactions: 6 interactions with chain F, 2 interactions with chain A, 1 interactions with chain E Hydrogen bonds: F:S.52, F:S.52, F:G.56, F:S.57, F:S.57 Water bridges: F:S.54, A:S.31, A:S.31, E:W.59

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, D. et al., Directed Evolution of Human Heavy Chain Variable Domain (Vh) Using in Vivo Protein Fitness Filter. Plos One (2014)

Release Date

2014-01-08

Peptides

MG8-4 SCAFFOLD ANTIBODY: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

MG8-4 SCAFFOLD ANTIBODY