SMTL ID : 1tb3.3 (2 other biounits)

Crystal Structure Analysis of Recombinant Rat Kidney Long-chain Hydroxy Acid Oxidase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-octamer

Ligands

8 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 25 residues within 4Å: Chain A: F.23, I.24, S.75, P.76, T.77, A.78, S.105, Q.127, Y.129, T.155, K.223, S.245, H.247, G.248, R.250, D.278, G.279, G.280, R.282, L.300, G.301, R.302, P.303, L.305 Ligands: ACY.2 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:F.23, A:T.77, A:R.302, A:L.305 Hydrogen bonds: A:P.76, A:A.78, A:Q.127, A:T.155, A:K.223, A:K.223, A:S.245, A:G.280, A:G.301, A:R.302 Water bridges: A:H.247, A:V.281, A:R.282, A:R.302, A:R.302 Salt bridges: A:R.282, A:R.302 pi-Cation interactions: A:R.250 FMN.3: 25 residues within 4Å: Chain B: F.23, I.24, S.75, P.76, T.77, A.78, S.105, Q.127, Y.129, T.155, K.223, S.245, H.247, G.248, R.250, D.278, G.279, G.280, R.282, L.300, G.301, R.302, P.303, L.305 Ligands: ACY.4 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:F.23, B:T.77, B:R.302, B:L.305 Hydrogen bonds: B:P.76, B:A.78, B:Q.127, B:Y.129, B:K.223, B:K.223, B:S.245, B:G.280, B:G.301, B:R.302 Water bridges: B:H.247, B:G.279, B:G.279, B:R.302, B:R.302 Salt bridges: B:R.282, B:R.302 pi-Cation interactions: B:R.250 FMN.5: 25 residues within 4Å: Chain C: F.23, I.24, S.75, P.76, T.77, A.78, S.105, Q.127, Y.129, T.155, K.223, S.245, H.247, G.248, R.250, D.278, G.279, G.280, R.282, L.300, G.301, R.302, P.303, L.305 Ligands: ACY.6 23 PLIP interactions: 23 interactions with chain C Hydrophobic interactions: C:F.23, C:T.77, C:R.302, C:L.305 Hydrogen bonds: C:P.76, C:A.78, C:Q.127, C:Y.129, C:K.223, C:K.223, C:S.245, C:G.279, C:G.280, C:G.301, C:R.302 Water bridges: C:H.247, C:R.282, C:R.282, C:R.302, C:R.302 Salt bridges: C:R.282, C:R.302 pi-Cation interactions: C:R.250 FMN.7: 25 residues within 4Å: Chain D: F.23, I.24, S.75, P.76, T.77, A.78, S.105, Q.127, Y.129, T.155, K.223, S.245, H.247, G.248, R.250, D.278, G.279, G.280, R.282, L.300, G.301, R.302, P.303, L.305 Ligands: ACY.8 23 PLIP interactions: 23 interactions with chain D Hydrophobic interactions: D:F.23, D:T.77, D:R.302, D:L.305 Hydrogen bonds: D:P.76, D:A.78, D:Q.127, D:T.155, D:K.223, D:K.223, D:S.245, D:G.279, D:G.280, D:G.301, D:R.302 Water bridges: D:N.37, D:H.247, D:V.281, D:V.281, D:R.302 Salt bridges: D:R.282, D:R.302 pi-Cation interactions: D:R.250 FMN.9: 25 residues within 4Å: Chain E: F.23, I.24, S.75, P.76, T.77, A.78, S.105, Q.127, Y.129, T.155, K.223, S.245, H.247, G.248, R.250, D.278, G.279, G.280, R.282, L.300, G.301, R.302, P.303, L.305 Ligands: ACY.10 22 PLIP interactions: 22 interactions with chain E Hydrophobic interactions: E:F.23, E:T.77, E:R.302, E:L.305 Hydrogen bonds: E:P.76, E:A.78, E:Q.127, E:Y.129, E:K.223, E:K.223, E:S.245, E:G.280, E:G.301, E:R.302 Water bridges: E:H.247, E:G.279, E:F.299, E:R.302, E:R.302 Salt bridges: E:R.282, E:R.302 pi-Cation interactions: E:R.250 FMN.11: 25 residues within 4Å: Chain F: F.23, I.24, S.75, P.76, T.77, A.78, S.105, Q.127, Y.129, T.155, K.223, S.245, H.247, G.248, R.250, D.278, G.279, G.280, R.282, L.300, G.301, R.302, P.303, L.305 Ligands: ACY.12 22 PLIP interactions: 22 interactions with chain F Hydrophobic interactions: F:F.23, F:T.77, F:R.302, F:L.305 Hydrogen bonds: F:P.76, F:A.78, F:Q.127, F:T.155, F:K.223, F:K.223, F:S.245, F:G.280, F:G.301, F:R.302 Water bridges: F:H.247, F:V.281, F:V.281, F:R.302, F:R.302 Salt bridges: F:R.282, F:R.302 pi-Cation interactions: F:R.250 FMN.13: 25 residues within 4Å: Chain G: F.23, I.24, S.75, P.76, T.77, A.78, S.105, Q.127, Y.129, T.155, K.223, S.245, H.247, G.248, R.250, D.278, G.279, G.280, R.282, L.300, G.301, R.302, P.303, L.305 Ligands: ACY.14 22 PLIP interactions: 22 interactions with chain G Hydrophobic interactions: G:F.23, G:T.77, G:R.302, G:L.305 Hydrogen bonds: G:P.76, G:A.78, G:Q.127, G:T.155, G:K.223, G:K.223, G:S.245, G:G.280, G:G.301, G:R.302 Water bridges: G:H.247, G:V.281, G:V.281, G:R.282, G:R.302 Salt bridges: G:R.282, G:R.302 pi-Cation interactions: G:R.250 FMN.15: 25 residues within 4Å: Chain H: F.23, I.24, S.75, P.76, T.77, A.78, S.105, Q.127, Y.129, T.155, K.223, S.245, H.247, G.248, R.250, D.278, G.279, G.280, R.282, L.300, G.301, R.302, P.303, L.305 Ligands: ACY.16 23 PLIP interactions: 23 interactions with chain H Hydrophobic interactions: H:F.23, H:T.77, H:R.302, H:L.305 Hydrogen bonds: H:P.76, H:A.78, H:Q.127, H:Y.129, H:K.223, H:K.223, H:S.245, H:G.279, H:G.280, H:G.301, H:R.302 Water bridges: H:H.247, H:R.282, H:R.282, H:F.299, H:R.302 Salt bridges: H:R.282, H:R.302 pi-Cation interactions: H:R.250

8 x ACY: ACETIC ACID(Non-functional Binders)

ACY.2: 5 residues within 4Å: Chain A: Y.129, R.164, H.247, R.250 Ligands: FMN.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.129 Salt bridges: A:R.164, A:H.247, A:R.250 ACY.4: 5 residues within 4Å: Chain B: Y.129, R.164, H.247, R.250 Ligands: FMN.3 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.129, B:Y.129 Salt bridges: B:R.164, B:H.247, B:R.250 ACY.6: 5 residues within 4Å: Chain C: Y.129, R.164, H.247, R.250 Ligands: FMN.5 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Y.129 Salt bridges: C:R.164, C:H.247, C:R.250 ACY.8: 5 residues within 4Å: Chain D: Y.129, R.164, H.247, R.250 Ligands: FMN.7 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:Y.129, D:R.250 Salt bridges: D:R.164, D:H.247 ACY.10: 5 residues within 4Å: Chain E: Y.129, R.164, H.247, R.250 Ligands: FMN.9 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:Y.129 Salt bridges: E:R.164, E:H.247, E:R.250 ACY.12: 5 residues within 4Å: Chain F: Y.129, R.164, H.247, R.250 Ligands: FMN.11 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:Y.129 Salt bridges: F:R.164, F:H.247, F:R.250 ACY.14: 5 residues within 4Å: Chain G: Y.129, R.164, H.247, R.250 Ligands: FMN.13 3 PLIP interactions: 3 interactions with chain G Salt bridges: G:R.164, G:H.247, G:R.250 ACY.16: 5 residues within 4Å: Chain H: Y.129, R.164, H.247, R.250 Ligands: FMN.15 4 PLIP interactions: 4 interactions with chain H Hydrogen bonds: H:Y.129 Salt bridges: H:R.164, H:H.247, H:R.250

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cunane, L.M. et al., Crystal Structure Analysis of Recombinant Rat Kidney Long Chain Hydroxy Acid Oxidase. Biochemistry (2005)

Release Date

2005-02-01

Peptides

Hydroxyacid oxidase 3: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

Hydroxyacid oxidase 3

Related Entries With Identical Sequence