SMTL ID : 3hi6.3 (2 other biounits)

Crystal structure of intermediate affinity I domain of integrin LFA-1 with the Fab fragment of its antibody AL-57

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-2-mer

Ligands

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: S.12, S.14, T.79, D.112 Chain C: D.101 6 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: A:S.12, A:S.14, A:T.79, C:D.101, H2O.1, H2O.9 MN.2: 4 residues within 4Å: Chain B: S.12, S.14, T.79 Chain E: D.101 6 PLIP interactions: 3 interactions with chain B, 1 interactions with chain E, 2 Ligand-Water interactions Metal complexes: B:S.12, B:S.14, B:T.79, E:D.101, H2O.4, H2O.19

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

SO4.3: 1 residues within 4Å: Chain B: K.70 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.70 SO4.4: 4 residues within 4Å: Chain C: K.199, T.200 Chain E: P.192, S.194 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain E Hydrogen bonds: C:T.200, C:T.200, E:S.194, E:S.194 Water bridges: E:S.194 SO4.5: 4 residues within 4Å: Chain C: F.27, T.28, Y.32 Chain E: K.76 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain E Hydrogen bonds: C:T.28, C:T.28, C:Y.32 Water bridges: E:K.76, E:K.76 Salt bridges: E:K.76 SO4.6: 3 residues within 4Å: Chain D: Q.38, K.40, K.46 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Q.38 Salt bridges: D:K.40, D:K.46 SO4.7: 5 residues within 4Å: Chain C: K.76 Chain E: F.27, T.28, Y.32, F.102 6 PLIP interactions: 3 interactions with chain E, 3 interactions with chain C Hydrogen bonds: E:T.28, E:T.28, E:Y.32 Water bridges: C:K.76, C:K.76 Salt bridges: C:K.76 SO4.8: 2 residues within 4Å: Chain F: P.60, R.62 3 PLIP interactions: 3 interactions with chain F Water bridges: F:S.61, F:R.62 Salt bridges: F:R.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, H. et al., Structural basis of activation-dependent binding of ligand-mimetic antibody AL-57 to integrin LFA-1. Proc.Natl.Acad.Sci.USA (2009)

Release Date

2009-09-22

Peptides

Integrin alpha-L: AB
Heavy chain of Fab fragment of AL-57 against alpha L I domain: CE
light chain of Fab fragment of AL-57 against alpha L I domain: DF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
H

E
X

D
L

F
Y

Integrin alpha-L

Heavy chain of Fab fragment of AL-57 against alpha L I domain

light chain of Fab fragment of AL-57 against alpha L I domain

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