SMTL ID : 3tod.1

Crystal Structure of C-lobe of Bovine lactoferrin Complexed with 1-Butyl-1H-Pyrazole-5-carboxylic acid at 1.38 A Resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.38 Å

Oligo State

monomer

Ligands

1 x LEU- GLU- ALA- CYS- ALA- PHE: peptide, LEACAF from Lactotransferrin(Non-covalent)

LEU-GLU-ALA-CYS-ALA-PHE.1: 7 residues within 4Å: Chain A: D.37, I.40, V.41, L.44, T.60, K.63, C.64 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:D.37, A:I.40, A:V.41, A:L.44, A:T.60

3 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: 7 residues within 4Å: Chain A: Y.1, Q.23, S.24, N.27, H.272, Q.273, L.276 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.1 NAG-NAG.3: 7 residues within 4Å: Chain A: G.131, L.132, N.135, E.323, T.326, A.327, N.330 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.330 Water bridges: A:T.326 NAG-NAG.4: 10 residues within 4Å: Chain A: K.75, S.76, S.77, L.93, N.204, D.205, W.208, E.214, Q.244 Ligands: GOL.10 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.75

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

FE.5: 5 residues within 4Å: Chain A: D.54, Y.92, Y.185, H.254 Ligands: CO3.8 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.54, A:Y.92, A:Y.185, A:H.254

2 x ZN: ZINC ION(Non-covalent)

ZN.6: 2 residues within 4Å: Chain A: G.312, E.318 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.318, A:E.318, H2O.3 ZN.7: 1 residues within 4Å: Chain A: H.247 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.247, H2O.1, H2O.6, H2O.12

1 x CO3: CARBONATE ION(Non-functional Binders)

CO3.8: 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 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.118, A:A.124, A:G.125

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

SO4.9: 3 residues within 4Å: Chain A: K.100, R.229, R.237 7 PLIP interactions: 7 interactions with chain A Water bridges: A:K.100, A:R.229, A:R.229, A:R.229, A:R.237 Salt bridges: A:R.229, A:R.237

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 4 residues within 4Å: Chain A: N.212, E.214, R.225 Ligands: NAG-NAG.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.212, A:R.225, A:R.225 Water bridges: A:N.212 GOL.11: 6 residues within 4Å: Chain A: N.52, L.53, D.54, Y.57, R.122, H.254 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:D.54, A:R.122 Water bridges: A:T.36, A:N.52, A:R.122, A:R.122, A:H.254, A:H.254, A:N.297, A:L.299, A:L.299

2 x EOH: ETHANOL(Non-functional Binders)

EOH.12: 6 residues within 4Å: Chain A: Q.274, G.278, K.279, F.291, E.305, C.306 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.274, A:K.279 EOH.13: 4 residues within 4Å: Chain A: W.107, N.108, Q.136, F.145 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.136 Hydrogen bonds: A:W.107

1 x XXB: 1-butyl-1H-pyrazole-5-carboxylic acid(Non-covalent)

XXB.14: 9 residues within 4Å: Chain A: E.90, G.91, V.250, A.251, P.252, E.318, Y.319, L.320, G.321 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.250 Water bridges: A:N.253, A:E.318

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shukla, P.K. et al., Crystal Structure of C-lobe of Bovine lactoferrin Complexed with 1-Butyl-1H-Pyrazole-5-carboxylic acid at 1.38 A Resolution. TO BE PUBLISHED

Release Date

2011-09-21

Peptides

Lactotransferrin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lactotransferrin

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