SMTL ID : 4i0k.1

Crystal structure of murine B7-H3 extracellular domain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.97 Å

Oligo State

homo-dimer

Ligands

2 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.1: 10 residues within 4Å: Chain A: D.12, T.14, R.16, C.17, S.18, F.63, L.66, N.71, S.73, R.75 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.75, A:R.75, A:T.14, A:R.16, A:R.16 NAG-NAG-BMA-MAN.5: 10 residues within 4Å: Chain B: D.12, T.14, R.16, C.17, S.18, F.63, L.66, N.71, S.73, R.75 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.75, B:R.75, B:R.16, B:R.16

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

NAG.2: 2 residues within 4Å: Chain A: Y.56, N.58 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.58 NAG.6: 2 residues within 4Å: Chain B: Y.56, N.58 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.58

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

SO4.3: 3 residues within 4Å: Chain A: R.59, R.78, R.80 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.78, A:R.80 SO4.4: 6 residues within 4Å: Chain A: D.147, G.148, Q.149, N.182, G.183, T.184 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.147, A:G.148, A:Q.149, A:T.184 SO4.7: 3 residues within 4Å: Chain B: R.59, R.78, R.80 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.78, B:R.80 SO4.8: 6 residues within 4Å: Chain B: D.147, G.148, Q.149, N.182, G.183, T.184 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.147, B:G.148, B:Q.149, B:T.184

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vigdorovich, V. et al., Structure and T cell inhibition properties of B7 family member, B7-H3. Structure (2013)

Release Date

2012-12-05

Peptides

CD276 antigen: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

CD276 antigen