SMTL ID : 5dub.2 (1 other biounit)

Context-independent anti-hypusine antibody FabHpu98 in complex with deoxyhypusine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GLY- 5GG- GLY- ALA: Peptide: GLY-5GG-GLY-ALA(Non-covalent)

GLY-5GG-GLY-ALA.1: 12 residues within 4Å: Chain A: N.34, D.49, Y.51, D.95, W.97, A.99 Chain B: K.30, Y.32, G.91, Y.92, S.94 Ligands: SO4.11 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:Y.32, B:Y.32, A:W.97 Hydrogen bonds: B:Y.32, B:G.91, A:N.34, A:D.49 Water bridges: B:Q.89

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 9 residues within 4Å: Chain A: F.171, P.172, V.174, S.182, L.183, S.184 Chain B: S.164, S.178, T.180 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:F.171, A:S.184, B:S.164, B:S.178, B:S.178 EDO.3: 7 residues within 4Å: Chain A: P.40, T.87, L.113, T.115, P.152, E.153, Y.181 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.115, A:E.153, A:E.153 EDO.4: 4 residues within 4Å: Chain A: K.42, G.43, E.45 Chain B: N.99 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Water bridges: B:N.99 Hydrogen bonds: A:G.43, A:L.44 EDO.5: 3 residues within 4Å: Chain A: P.16, L.17, T.18 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.16, A:T.18, A:T.18, A:T.18

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

SO4.6: 2 residues within 4Å: Chain A: K.42, R.175 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.42 Salt bridges: A:K.42, A:R.175 SO4.7: 3 residues within 4Å: Chain A: Q.176, S.177, S.178 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.176, A:S.177, A:S.178 SO4.8: 2 residues within 4Å: Chain A: K.208, D.210 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.210 Salt bridges: A:K.208 SO4.9: 4 residues within 4Å: Chain A: Y.57, K.63 Chain B: S.95, N.96 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.95, B:N.96 Water bridges: B:V.97, A:K.63 Salt bridges: A:K.63 SO4.10: 4 residues within 4Å: Chain A: S.101, Y.103 Chain B: Y.49, K.53 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.101 Salt bridges: B:K.53 SO4.11: 2 residues within 4Å: Chain A: Y.51 Ligands: GLY-5GG-GLY-ALA.1 1 PLIP interactions: 1 interactions with chain B Water bridges: B:S.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhai, Q. et al., Structural Analysis and Optimization of Context-Independent Anti-Hypusine Antibodies. J.Mol.Biol. (2016)

Release Date

2016-01-20

Peptides

Fab Hpu98 Heavy chain: A
Fab Hpu98 Light chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

Fab Hpu98 Heavy chain

Fab Hpu98 Light chain

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