SMTL ID : 5e6s.3 (3 other biounits)

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 2.15 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: S.139, S.141, T.206, D.239 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.139, A:S.141, A:D.239, H2O.2, H2O.13

5 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.443, D.447, E.449, E.451 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.443, A:E.449, A:E.451, H2O.1, H2O.3 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.2 CA.4: 5 residues within 4Å: Chain A: D.565, D.569, L.571, D.573, S.586 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.569, A:D.573, A:D.573, H2O.1 CA.6: 4 residues within 4Å: Chain B: S.116, D.119, D.120, E.325 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.116, B:D.119, B:D.120, B:E.325, H2O.20, H2O.26 CA.7: 7 residues within 4Å: Chain B: D.151, F.157, N.207, D.209, P.211, E.212, H.246 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.151, B:D.209, B:D.209, B:P.211

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

NAG.5: 4 residues within 4Å: Chain A: N.64, L.103, Q.117, R.119 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.103 NAG.8: 3 residues within 4Å: Chain B: A.92, N.94, Q.390 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.94 NAG.9: 2 residues within 4Å: Chain B: R.143, N.190 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.143

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
E

B
F

Integrin alpha-L

Integrin beta-2

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