SMTL ID : 3sgw.1 (1 other biounit)

Crystal structure of ribose-5-phosphate isomerase B RpiB from Coccidioides immitis semi-covalently bound to malonic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x MLA: MALONIC ACID(Non-covalent)

MLA.1: 12 residues within 4Å: Chain A: D.37, A.39, Y.74, C.97, G.98, T.99, G.100, L.101, G.102, V.103 Chain B: N.131 Ligands: CL.5 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.74 Hydrogen bonds: A:D.37, A:G.98, A:T.99, A:T.99, A:G.100, A:L.101, A:G.102, A:V.103, B:N.131 Water bridges: B:K.169 MLA.6: 12 residues within 4Å: Chain A: N.131 Chain B: D.37, A.39, Y.74, C.97, G.98, T.99, G.100, L.101, G.102, V.103 Ligands: CL.10 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.74 Hydrogen bonds: B:D.37, B:G.98, B:T.99, B:T.99, B:G.100, B:L.101, B:G.102, B:V.103, A:N.131 Water bridges: A:K.169

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

EDO.2: 6 residues within 4Å: Chain A: R.92, I.128, D.132, A.133, Q.134, F.160 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.92, A:D.132 Water bridges: A:F.160 EDO.3: 5 residues within 4Å: Chain A: K.109, F.180 Chain B: K.109, F.180 Ligands: EDO.8 No protein-ligand interaction detected (PLIP) EDO.7: 6 residues within 4Å: Chain B: R.92, I.128, D.132, A.133, Q.134, F.160 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.92, B:D.132 Water bridges: B:F.160 EDO.8: 5 residues within 4Å: Chain A: K.109, F.180 Chain B: K.109, F.180 Ligands: EDO.3 No protein-ligand interaction detected (PLIP)

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

CL.4: 2 residues within 4Å: Chain A: D.120, T.121 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain A: T.99, R.141 Chain B: F.122 Ligands: MLA.1 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain B: D.120, T.121 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain A: F.122 Chain B: T.99, R.141 Ligands: MLA.6 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Edwards, T.E. et al., Structural characterization of a ribose-5-phosphate isomerase B from the pathogenic fungus Coccidioides immitis. Bmc Struct.Biol. (2011)

Release Date

2011-06-29

Peptides

ribose 5-phosphate isomerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ribose 5-phosphate isomerase

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