SMTL ID : 4qif.2 (1 other biounit)

Crystal Structure of PduA with edge mutation K26A and pore mutation S40H

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-hexamer

Ligands

2 x TAR: D(-)-TARTARIC ACID(Non-covalent)

TAR.1: 15 residues within 4Å: Chain A: G.47, H.48 Chain B: G.47, H.48 Chain C: G.47, H.48 Chain D: G.47, H.48 Chain E: G.47, H.48 Chain F: G.47, H.48 Ligands: SO4.5, TAR.8, SO4.12 8 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 1 interactions with chain F, 2 interactions with chain C, 1 interactions with chain E, 1 interactions with chain D Hydrogen bonds: A:H.48, B:H.48, F:H.48, C:H.48, E:H.48, D:H.48 Water bridges: B:I.46, C:G.47 TAR.8: 15 residues within 4Å: Chain A: G.47, H.48 Chain B: G.47, H.48 Chain C: G.47, H.48 Chain D: G.47, H.48 Chain E: G.47, H.48 Chain F: G.47, H.48 Ligands: TAR.1, SO4.5, SO4.12 8 PLIP interactions: 2 interactions with chain E, 1 interactions with chain A, 1 interactions with chain B, 2 interactions with chain F, 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: E:H.48, A:H.48, B:H.48, F:H.48, C:H.48, D:H.48 Water bridges: E:I.46, F:G.47

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: A.64, D.67, A.68, A.71 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.64, A:A.68 GOL.4: 7 residues within 4Å: Chain B: R.56, H.89, T.90, D.91, V.92, E.93, K.94 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.56, B:R.56, B:V.92, B:E.93, B:K.94 GOL.9: 4 residues within 4Å: Chain D: A.64, D.67, A.68, A.71 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:A.64, D:A.68 GOL.11: 7 residues within 4Å: Chain E: R.56, H.89, T.90, D.91, V.92, E.93, K.94 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:R.56, E:R.56, E:V.92, E:E.93, E:K.94

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

SO4.3: 4 residues within 4Å: Chain A: K.20, H.48, K.80 Chain E: K.20 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain E Salt bridges: A:K.20, A:H.48, A:K.80, E:K.20 SO4.5: 7 residues within 4Å: Chain B: H.48 Chain D: H.48 Chain E: H.48 Chain F: H.48 Ligands: TAR.1, TAR.8, SO4.12 6 PLIP interactions: 1 interactions with chain E, 2 interactions with chain D, 1 interactions with chain B, 2 interactions with chain F Salt bridges: E:H.48, D:H.48, B:H.48, F:H.48 Hydrogen bonds: D:H.48, F:H.48 SO4.6: 5 residues within 4Å: Chain B: E.44, K.45, P.97, G.99 Chain C: K.45 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:K.45 Water bridges: C:K.45 SO4.10: 4 residues within 4Å: Chain B: K.20 Chain D: K.20, H.48, K.80 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain B Salt bridges: D:K.20, D:H.48, D:K.80, B:K.20 SO4.12: 7 residues within 4Å: Chain A: H.48 Chain B: H.48 Chain C: H.48 Chain E: H.48 Ligands: TAR.1, SO4.5, TAR.8 6 PLIP interactions: 1 interactions with chain E, 2 interactions with chain C, 2 interactions with chain A, 1 interactions with chain B Salt bridges: E:H.48, C:H.48, A:H.48, B:H.48 Hydrogen bonds: C:H.48, A:H.48 SO4.13: 5 residues within 4Å: Chain E: E.44, K.45, P.97, G.99 Chain F: K.45 3 PLIP interactions: 2 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:E.44, E:K.45 Water bridges: F:K.45

2 x PGO: S-1,2-PROPANEDIOL(Non-covalent)

PGO.7: 4 residues within 4Å: Chain A: K.20 Chain C: K.20, H.48, K.80 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:K.20, C:K.80, A:K.20 PGO.14: 4 residues within 4Å: Chain D: K.20 Chain F: K.20, H.48, K.80 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain D Hydrogen bonds: F:K.20, F:K.80, D:K.20

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chowdhury, C. et al., Selective molecular transport through the protein shell of a bacterial microcompartment organelle. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-02-18

Peptides

Propanediol utilization protein PduA: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
I

D
G

E
H

F
I

Propanediol utilization protein PduA

Related Entries With Identical Sequence