SMTL ID : 5e6r.1

Structures of leukocyte integrin aLb2: The aI domain, the headpiece, and the pocket for the internal ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: D.137, S.139, S.141, T.206, D.239 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.139, A:S.141, A:T.206, A:D.239, H2O.3

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.443, D.445, D.447, E.449, E.451 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.443, A:D.445, A:D.447, A:E.449, A:E.451 CA.3: 5 residues within 4Å: Chain A: D.505, N.507, D.509, L.511, D.513 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.505, A:D.509, A:L.511, A:D.513, H2O.1 CA.5: 4 residues within 4Å: Chain B: S.116, D.119, D.120, E.325 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.116, B:D.119, B:E.325, H2O.7, H2O.8 CA.6: 5 residues within 4Å: Chain B: D.151, F.157, N.207, D.209, P.211 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.151, B:D.209, B:D.209, B:P.211

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 2 residues within 4Å: Chain A: G.62, N.64 No protein-ligand interaction detected (PLIP) NAG.7: 2 residues within 4Å: Chain B: L.27, N.28 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.27 Hydrogen bonds: B:N.28 NAG.8: 5 residues within 4Å: Chain B: A.92, N.94, F.363, T.388, Q.390 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:A.92 Hydrogen bonds: B:N.94 NAG.9: 2 residues within 4Å: Chain B: R.143, N.190 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.143, B:N.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sen, M. et al., Leukocyte integrin alpha L beta 2 headpiece structures: The alpha I domain, the pocket for the internal ligand, and concerted movements of its loops. Proc.Natl.Acad.Sci.USA (2016)

Release Date

2016-03-02

Peptides

Integrin alpha-L: A
Integrin beta-2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Integrin alpha-L

Integrin beta-2

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