SMTL ID : 5goo.1

Crystal structure of alkaline invertase InvA from Anabaena sp. PCC 7120 complexed with fructose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.11 Å

Oligo State

homo-hexamer

Ligands

6 x FRU: beta-D-fructofuranose(Non-covalent)

FRU.1: 11 residues within 4Å: Chain A: L.46, N.47, Y.48, A.122, I.123, V.126, D.189, R.190, Y.371, H.372 Ligands: GOL.2 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.47, A:I.123, A:R.190, A:Y.371, A:Y.371 Water bridges: A:D.117, A:R.190 FRU.3: 10 residues within 4Å: Chain B: L.46, N.47, Y.48, A.122, I.123, D.189, R.190, Y.371, H.372 Ligands: GOL.4 9 PLIP interactions: 1 interactions with chain C, 8 interactions with chain B Water bridges: C:N.271, B:D.117 Hydrogen bonds: B:N.47, B:I.123, B:R.190, B:R.190, B:Y.371, B:Y.371, B:Y.371 FRU.5: 10 residues within 4Å: Chain C: L.46, N.47, Y.48, A.122, I.123, D.189, R.190, Y.371, H.372 Ligands: GOL.6 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:N.47, C:I.123, C:R.190, C:R.190, C:Y.371, C:Y.371 Water bridges: B:N.271 FRU.7: 11 residues within 4Å: Chain D: L.46, N.47, Y.48, A.122, I.123, V.126, D.189, R.190, Y.371, H.372 Ligands: GOL.8 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:N.47, D:I.123, D:R.190, D:Y.371, D:Y.371, D:Y.371 Water bridges: D:D.117, D:R.190 FRU.9: 10 residues within 4Å: Chain E: L.46, N.47, Y.48, A.122, I.123, D.189, R.190, Y.371, H.372 Ligands: GOL.10 8 PLIP interactions: 7 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:N.47, E:I.123, E:R.190, E:R.190, E:Y.371, E:Y.371 Water bridges: E:D.117, F:N.271 FRU.11: 10 residues within 4Å: Chain F: L.46, N.47, Y.48, A.122, I.123, D.189, R.190, Y.371, H.372 Ligands: GOL.12 8 PLIP interactions: 8 interactions with chain F Hydrogen bonds: F:N.47, F:I.123, F:R.190, F:R.190, F:Y.371, F:Y.371, F:Y.371 Water bridges: F:Y.48

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: F.52, R.54, D.55, M.187, E.415, Q.433, W.435 Ligands: FRU.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.54, A:D.55, A:Q.433 GOL.4: 8 residues within 4Å: Chain B: A.37, F.52, R.54, D.55, Y.371, Q.433, W.435 Ligands: FRU.3 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.54, B:D.55, B:Y.371, B:Q.433 GOL.6: 6 residues within 4Å: Chain C: A.37, F.52, R.54, D.55, Q.433 Ligands: FRU.5 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.54, C:D.55, C:Y.371, C:Y.371, C:Q.433 GOL.8: 8 residues within 4Å: Chain D: F.52, R.54, D.55, M.187, E.415, Q.433, W.435 Ligands: FRU.7 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:R.54, D:D.55, D:Q.433 GOL.10: 8 residues within 4Å: Chain E: A.37, F.52, R.54, D.55, Y.371, Q.433, W.435 Ligands: FRU.9 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:R.54, E:D.55, E:Y.371, E:Y.371, E:Q.433 GOL.12: 6 residues within 4Å: Chain F: A.37, F.52, R.54, D.55, Q.433 Ligands: FRU.11 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:R.54, F:D.55, F:Y.371, F:Q.433

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xie, J. et al., Structural Analysis of the Catalytic Mechanism and Substrate Specificity of Anabaena Alkaline Invertase InvA Reveals a Novel Glucosidase. J. Biol. Chem. (2016)

Release Date

2016-11-02

Peptides

Alkaline Invertase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

Alkaline Invertase

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