SMTL ID : 3k71.4 (4 other biounits)

Structure of integrin alphaX beta2 ectodomain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.95 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: A.40, A.41, N.42 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN.2: 4 residues within 4Å: Chain A: F.354, N.373, S.375, Q.376 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG-MAN.3: 5 residues within 4Å: Chain A: T.657, D.659, N.716, Y.741 Chain B: D.501 No protein-ligand interaction detected (PLIP)

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

NAG.4: 3 residues within 4Å: Chain A: T.676, N.678, R.679 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.676 NAG.5: 3 residues within 4Å: Chain A: T.801, N.880, T.887 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.887 NAG.10: 2 residues within 4Å: Chain B: A.92, N.94 No protein-ligand interaction detected (PLIP) NAG.11: 1 residues within 4Å: Chain B: N.479 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.479

4 x CA: CALCIUM ION(Non-covalent)

CA.6: 7 residues within 4Å: Chain A: D.447, V.448, D.449, D.451, S.453, T.454, D.455 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.447, A:S.453 CA.7: 8 residues within 4Å: Chain A: D.511, V.512, N.513, G.514, D.515, K.516, L.517, T.518 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.515, A:L.517 CA.8: 7 residues within 4Å: Chain A: D.574, L.575, T.576, Q.577, D.578, L.580, D.582 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.574, A:D.578, A:D.578, A:L.580, A:D.582 CA.12: 5 residues within 4Å: Chain B: S.116, M.117, D.119, D.120, E.325 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:S.116, B:D.119, B:D.120, B:E.325, B:E.325

1 x MG: MAGNESIUM ION(Non-covalent)

MG.9: 6 residues within 4Å: Chain A: D.138, S.140, S.142, T.207, D.240, G.241 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:S.140, A:S.142, H2O.1, H2O.1, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xie, C. et al., Structure of an integrin with an alphaI domain, complement receptor type 4. Embo J. (2010)

Release Date

2010-01-12

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

Integrin alpha-X

Integrin beta-2

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