SMTL ID : 1xf4.4 (5 other biounits)

Structure of ligand-free Fab DNA-1 in space group P321 solved from crystals with perfect hemihedral twinning

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-6-6-mer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: K.74 Chain C: K.74 Chain E: K.74 Ligands: SO4.2, SO4.3 3 PLIP interactions: 1 interactions with chain C, 1 interactions with chain E, 1 interactions with chain A Salt bridges: C:K.74, E:K.74, A:K.74 SO4.2: 5 residues within 4Å: Chain A: K.74 Chain C: K.74 Chain E: K.74 Ligands: SO4.1, SO4.3 3 PLIP interactions: 1 interactions with chain C, 1 interactions with chain E, 1 interactions with chain A Salt bridges: C:K.74, E:K.74, A:K.74 SO4.3: 5 residues within 4Å: Chain A: K.74 Chain C: K.74 Chain E: K.74 Ligands: SO4.1, SO4.2 3 PLIP interactions: 1 interactions with chain C, 1 interactions with chain E, 1 interactions with chain A Salt bridges: C:K.74, E:K.74, A:K.74 SO4.4: 2 residues within 4Å: Ligands: SO4.6, SO4.8 No protein-ligand interaction detected (PLIP) SO4.5: 5 residues within 4Å: Chain G: K.74 Chain I: K.74 Chain K: K.74 Ligands: SO4.7, SO4.9 3 PLIP interactions: 1 interactions with chain K, 1 interactions with chain I, 1 interactions with chain G Salt bridges: K:K.74, I:K.74, G:K.74 SO4.6: 2 residues within 4Å: Ligands: SO4.4, SO4.8 No protein-ligand interaction detected (PLIP) SO4.7: 5 residues within 4Å: Chain G: K.74 Chain I: K.74 Chain K: K.74 Ligands: SO4.5, SO4.9 3 PLIP interactions: 1 interactions with chain K, 1 interactions with chain I, 1 interactions with chain G Salt bridges: K:K.74, I:K.74, G:K.74 SO4.8: 2 residues within 4Å: Ligands: SO4.4, SO4.6 No protein-ligand interaction detected (PLIP) SO4.9: 5 residues within 4Å: Chain G: K.74 Chain I: K.74 Chain K: K.74 Ligands: SO4.5, SO4.7 3 PLIP interactions: 1 interactions with chain K, 1 interactions with chain I, 1 interactions with chain G Salt bridges: K:K.74, I:K.74, G:K.74

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schuermann, J.P. et al., Evidence for Structural Plasticity of Heavy Chain Complementarity-determining Region 3 in Antibody-ssDNA Recognition. J.Mol.Biol. (2005)

Release Date

2005-04-12

Peptides

Fab light chain: ACEGIK
Fab heavy chain: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

G
L

I
L

K
L

B
B

D
B

F
B

H
H

J
H

L
H

Fab light chain

Fab heavy chain

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