SMTL ID : 7evq.1

Crystal structure of C-terminal half of lactoferrin obtained by limited proteolysis using pepsin at 2.6 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

4 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: 7 residues within 4Å: Chain A: Q.23, S.24, N.27, H.272, Q.273, L.276 Chain B: K.333 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 8 residues within 4Å: Chain A: K.75, S.76, S.77, L.93, N.204, D.205, W.208, Q.244 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.75 NAG-NAG-BMA.3: 6 residues within 4Å: Chain B: Q.23, S.24, G.25, N.27, Q.273, L.276 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.4: 9 residues within 4Å: Chain B: K.75, S.76, S.77, L.93, N.204, D.205, W.208, E.214, Q.244 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.75, B:S.77

2 x FE: FE (III) ION(Non-covalent)

FE.5: 5 residues within 4Å: Chain A: D.54, Y.92, Y.185, H.254 Ligands: BCT.6 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.54, A:Y.92, A:Y.185, A:H.254 FE.10: 5 residues within 4Å: Chain B: D.54, Y.92, Y.185, H.254 Ligands: BCT.11 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.54, B:Y.92, B:Y.185, B:H.254

2 x BCT: BICARBONATE ION(Non-functional Binders)

BCT.6: 10 residues within 4Å: Chain A: D.54, Y.92, T.118, R.122, T.123, A.124, G.125, Y.185, H.254 Ligands: FE.5 No protein-ligand interaction detected (PLIP) BCT.11: 10 residues within 4Å: Chain B: D.54, Y.92, T.118, R.122, T.123, A.124, G.125, Y.185, H.254 Ligands: FE.10 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.118, B:T.123, B:A.124, B:G.125

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

NAG.7: 2 residues within 4Å: Chain A: L.132, N.135 No protein-ligand interaction detected (PLIP) NAG.9: 3 residues within 4Å: Chain A: Q.22, Q.23 Chain B: N.135 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.23

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.8: 1 residues within 4Å: Chain A: D.168 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Viswanathan, V. et al., Crystal structure of C-terminal half of lactoferrin obtained by limited proteolysis using pepsin at 2.6 A resolution. To Be Published

Release Date

2021-06-09

Peptides

Lactotransferrin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lactotransferrin

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