SMTL ID : 6hce.1

Crystal structure of chicken riboflavin binding protein in "Apo" form at 2.5 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: A.163, N.164, T.166 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.164 NAG.2: 2 residues within 4Å: Chain A: Y.51, N.53 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.53

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: R.73, H.150, C.151 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.150, A:C.151 Water bridges: A:R.73 GOL.4: 4 residues within 4Å: Chain A: P.96, H.97, D.193, M.194 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.97, A:N.190 Water bridges: A:L.43 GOL.5: 8 residues within 4Å: Chain A: Y.92, A.108, A.109, I.110, L.138, W.173, S.176 Ligands: SO4.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.110, A:I.110 GOL.6: 1 residues within 4Å: Chain A: K.154 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.154, A:K.154 GOL.7: 4 residues within 4Å: Chain A: S.69, W.71, I.132, W.137 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.69, A:S.69

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

SO4.8: 7 residues within 4Å: Chain A: V.66, S.67, N.68, S.69, R.93, R.143 Ligands: SO4.9 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.67, A:S.67, A:N.68, A:N.68 Water bridges: A:R.93 Salt bridges: A:R.143 SO4.9: 7 residues within 4Å: Chain A: E.89, Y.92, R.93, L.138, W.173 Ligands: GOL.5, SO4.8 2 PLIP interactions: 2 interactions with chain A Water bridges: A:E.89 Salt bridges: A:R.93 SO4.10: 2 residues within 4Å: Chain A: N.190, K.191 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.191 Water bridges: A:N.190

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.11: 3 residues within 4Å: Chain A: A.59, H.60, S.61 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.61 Water bridges: A:A.59, A:K.79 ACT.12: 3 residues within 4Å: Chain A: R.73, E.148, H.150 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.148, A:E.148 Salt bridges: A:R.73, A:H.150 ACT.13: 2 residues within 4Å: Chain A: K.154, C.155 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:C.155 Salt bridges: A:K.154

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.14: 1 residues within 4Å: Chain A: N.37 Ligand excluded by PLIP CL.15: 1 residues within 4Å: Chain A: E.40 Ligand excluded by PLIP

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

EDO.16: 3 residues within 4Å: Chain A: G.21, C.22, E.24 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.24, A:E.24

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Loch, J.I. et al., Crystal structure of chicken riboflavin binding protein in "Apo" form at 2.5 A resolution. To Be Published

Release Date

2018-08-29

Peptides

Riboflavin-binding protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Riboflavin-binding protein