SMTL ID : 5cba.1 (1 other biounit)

3B4 in complex with CXCL13 - 3B4-CXCL13

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

EDO.1: 6 residues within 4Å: Chain A: E.99, D.112 Chain B: Y.93, Y.99 Chain C: R.24, R.25 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:E.99, C:R.24 EDO.3: 8 residues within 4Å: Chain A: P.110, I.111, D.112 Chain B: Y.32, D.33, W.34, D.52 Chain C: D.28 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:D.112, A:D.112, C:D.28 EDO.4: 5 residues within 4Å: Chain C: Q.16, E.17, S.18, V.54, C.55 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:I.53, C:C.55

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 8 residues within 4Å: Chain A: Q.6, S.7, G.8, A.9, Q.119, G.120, T.121, T.122 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.6, A:Q.119, A:Q.119, A:T.122 Water bridges: A:A.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tu, C. et al., A Combination of Structural and Empirical Analyses Delineates the Key Contacts Mediating Stability and Affinity Increases in an Optimized Biotherapeutic Single-chain Fv (scFv). J. Biol. Chem. (2016)

Release Date

2015-11-04

Peptides

3b4 heavy chain: A
3b4 light chain: B
C-X-C motif chemokine 13: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

3b4 heavy chain

3b4 light chain

C-X-C motif chemokine 13

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