SMTL ID : 6an0.1

Crystal Structure of Histidinol Dehydrogenase from Elizabethkingia anophelis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.266, D.364 Chain B: H.423 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:H.266, A:D.364, B:H.423, H2O.4, H2O.4 ZN.21: 3 residues within 4Å: Chain A: H.423 Chain B: H.266, D.364 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:H.266, B:D.364, A:H.423, H2O.16, H2O.17

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

EDO.2: 3 residues within 4Å: Chain A: E.98, Q.152, I.182 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.98, A:I.182 EDO.3: 5 residues within 4Å: Chain A: D.235, Y.382, S.383, G.384, S.389 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.383, A:S.389 EDO.4: 7 residues within 4Å: Chain A: Q.29, G.216, N.217, Q.218, T.221, G.239, P.240 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.29, A:G.216 Water bridges: A:K.30, A:Q.218 EDO.5: 4 residues within 4Å: Chain A: N.36, L.39, T.40 Ligands: IOD.18 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.36 EDO.6: 6 residues within 4Å: Chain A: N.376, G.377, Y.378, R.380, N.381 Chain B: G.231 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:K.208 Hydrogen bonds: A:R.380 EDO.22: 3 residues within 4Å: Chain B: E.98, Q.152, I.182 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.98, B:I.182 EDO.23: 5 residues within 4Å: Chain B: D.235, Y.382, S.383, G.384, S.389 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.383, B:S.389 EDO.24: 7 residues within 4Å: Chain B: Q.29, G.216, N.217, Q.218, T.221, G.239, P.240 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.29, B:G.216, B:T.221 Water bridges: B:K.30, B:Q.218 EDO.25: 4 residues within 4Å: Chain B: N.36, L.39, T.40 Ligands: IOD.38 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.36 EDO.26: 6 residues within 4Å: Chain A: G.231 Chain B: N.376, G.377, Y.378, R.380, N.381 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Water bridges: A:K.208 Hydrogen bonds: B:R.380

26 x IOD: IODIDE ION(Non-functional Binders)

IOD.7: 2 residues within 4Å: Chain A: A.123, L.387 Ligand excluded by PLIP IOD.8: 1 residues within 4Å: Chain A: N.55 Ligand excluded by PLIP IOD.9: 4 residues within 4Å: Chain A: N.14, L.314, D.315, K.319 Ligand excluded by PLIP IOD.10: 3 residues within 4Å: Chain A: P.240, S.241, S.270 Ligand excluded by PLIP IOD.11: 1 residues within 4Å: Chain A: F.421 Ligand excluded by PLIP IOD.12: 3 residues within 4Å: Chain A: Y.132, P.134, N.217 Ligand excluded by PLIP IOD.13: 2 residues within 4Å: Chain A: I.193, Q.194 Ligand excluded by PLIP IOD.14: 4 residues within 4Å: Chain A: E.74, N.170, I.171, L.176 Ligand excluded by PLIP IOD.15: 3 residues within 4Å: Chain A: Q.88, A.89 Chain B: G.410 Ligand excluded by PLIP IOD.16: 2 residues within 4Å: Chain B: N.252, N.356 Ligand excluded by PLIP IOD.17: 2 residues within 4Å: Chain A: Q.35, N.229 Ligand excluded by PLIP IOD.18: 2 residues within 4Å: Chain A: N.36 Ligands: EDO.5 Ligand excluded by PLIP IOD.19: 2 residues within 4Å: Chain A: T.400, K.401 Ligand excluded by PLIP IOD.27: 2 residues within 4Å: Chain B: A.123, L.387 Ligand excluded by PLIP IOD.28: 1 residues within 4Å: Chain B: N.55 Ligand excluded by PLIP IOD.29: 4 residues within 4Å: Chain B: N.14, L.314, D.315, K.319 Ligand excluded by PLIP IOD.30: 3 residues within 4Å: Chain B: P.240, S.241, S.270 Ligand excluded by PLIP IOD.31: 1 residues within 4Å: Chain B: F.421 Ligand excluded by PLIP IOD.32: 3 residues within 4Å: Chain B: Y.132, P.134, N.217 Ligand excluded by PLIP IOD.33: 2 residues within 4Å: Chain B: I.193, Q.194 Ligand excluded by PLIP IOD.34: 4 residues within 4Å: Chain B: E.74, N.170, I.171, L.176 Ligand excluded by PLIP IOD.35: 3 residues within 4Å: Chain A: G.410 Chain B: Q.88, A.89 Ligand excluded by PLIP IOD.36: 2 residues within 4Å: Chain A: N.252, N.356 Ligand excluded by PLIP IOD.37: 2 residues within 4Å: Chain B: Q.35, N.229 Ligand excluded by PLIP IOD.38: 2 residues within 4Å: Chain B: N.36 Ligands: EDO.25 Ligand excluded by PLIP IOD.39: 2 residues within 4Å: Chain B: T.400, K.401 Ligand excluded by PLIP

2 x HIS: HISTIDINE(Non-covalent)

HIS.20: 7 residues within 4Å: Chain A: E.106, N.107, K.108, R.121, E.122, A.123, K.393 10 PLIP interactions: 7 interactions with chain A, 3 Ligand-Ligand interactions Hydrophobic interactions: A:A.123 Hydrogen bonds: A:N.107, A:A.123, A:K.393, A:K.393, H.20, H.20, H.20 Water bridges: A:K.108, A:K.108 HIS.40: 7 residues within 4Å: Chain B: E.106, N.107, K.108, R.121, E.122, A.123, K.393 12 PLIP interactions: 9 interactions with chain B, 3 Ligand-Ligand interactions Hydrophobic interactions: B:A.123 Hydrogen bonds: B:E.106, B:N.107, B:E.122, B:A.123, B:K.393, B:K.393, H.40, H.40, H.40 Water bridges: B:K.108, B:K.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dranow, D.M. et al., Crystal Structure of Histidinol Dehydrogenase from Elizabethkingia anophelis. To be Published

Release Date

2017-08-23

Peptides

Histidinol dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Histidinol dehydrogenase