SMTL ID : 4oib.1

Crystal Structure of ICAM-5 D1-D4 ectodomain fragment, Space Group R3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

monomer

Ligands

2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 5 residues within 4Å: Chain A: N.23, S.25, Q.46, W.51, A.53 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.4: 2 residues within 4Å: Chain A: N.164, E.189 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA-MAN.2: 1 residues within 4Å: Chain A: N.43 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-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-BMA-MAN.3: 2 residues within 4Å: Chain A: N.106, T.153 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.5: 5 residues within 4Å: Chain A: Y.232, N.272, T.274, N.279, E.281 No protein-ligand interaction detected (PLIP)

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

NAG.6: 4 residues within 4Å: Chain A: P.89, D.90, E.182, N.183 No protein-ligand interaction detected (PLIP) NAG.7: 1 residues within 4Å: Chain A: N.285 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.285 NAG.8: 1 residues within 4Å: Chain A: N.340 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.340 NAG.9: 2 residues within 4Å: Chain A: I.364, N.366 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.366

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Recacha, R. et al., Crystal structures of an ICAM-5 ectodomain fragment show electrostatic-based homophilic adhesions. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-07-16

Peptides

Intercellular adhesion molecule 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Intercellular adhesion molecule 5

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