SMTL ID : 7n4y.1

The structure of bovine thyroglobulin with iodinated tyrosines

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

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: 10 residues within 4Å: Chain A: N.1996, Q.1999, G.2002, G.2003, E.2037, T.2040 Chain B: S.193, R.194, F.195, R.208 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.208, B:R.194 NAG-NAG-BMA.5: 10 residues within 4Å: Chain A: S.193, R.194, F.195, R.208 Chain B: N.1996, Q.1999, G.2002, G.2003, E.2037, T.2040 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.208, A:R.194

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

NAG-NAG.2: 6 residues within 4Å: Chain A: N.179, T.181, D.182, F.186, F.209, E.211 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 8 residues within 4Å: Chain A: Q.1275, K.1335, V.1336, E.1337, N.1347, L.1408, D.1411, F.1413 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.1413 NAG-NAG.6: 6 residues within 4Å: Chain B: N.179, T.181, D.182, F.186, F.209, E.211 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 8 residues within 4Å: Chain B: Q.1275, K.1335, V.1336, E.1337, N.1347, L.1408, D.1411, F.1413 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.1413

2 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.3: 9 residues within 4Å: Chain A: E.237, Y.239, G.455, R.456, F.457, N.460, Q.463, N.465, D.492 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.457, A:N.460 Hydrogen bonds: A:Y.239, A:R.456 NAG-NAG-FUC.7: 9 residues within 4Å: Chain B: E.237, Y.239, G.455, R.456, F.457, N.460, Q.463, N.465, D.492 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.457, B:N.460 Hydrogen bonds: B:Y.239, B:R.456

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

NAG.9: 3 residues within 4Å: Chain A: N.929, R.989, R.990 No protein-ligand interaction detected (PLIP) NAG.10: 3 residues within 4Å: Chain A: N.477, S.479, H.480 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.477 NAG.11: 1 residues within 4Å: Chain A: N.2105 No protein-ligand interaction detected (PLIP) NAG.12: 1 residues within 4Å: Chain A: N.1852 No protein-ligand interaction detected (PLIP) NAG.13: 3 residues within 4Å: Chain A: Q.2121, P.2277, N.2278 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.2277 Hydrogen bonds: A:Q.2121 NAG.14: 3 residues within 4Å: Chain B: N.929, R.989, R.990 No protein-ligand interaction detected (PLIP) NAG.15: 3 residues within 4Å: Chain B: N.477, S.479, H.480 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.477 NAG.16: 1 residues within 4Å: Chain B: N.2105 No protein-ligand interaction detected (PLIP) NAG.17: 1 residues within 4Å: Chain B: N.1852 No protein-ligand interaction detected (PLIP) NAG.18: 3 residues within 4Å: Chain B: Q.2121, P.2277, N.2278 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:P.2277 Hydrogen bonds: B:Q.2121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, K. et al., The structure of natively iodinated bovine thyroglobulin. Acta Crystallogr D Struct Biol (2021)

Release Date

2021-11-10

Peptides

Thyroglobulin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Thyroglobulin