SMTL ID : 6g3n.1

Mycobacterial hydrolase complex 14.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.32 Å

Oligo State

homo-tetramer

Ligands

14 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: G.152, M.155, R.156, R.159, D.281 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.159, A:D.281 Water bridges: A:R.159 GOL.2: 6 residues within 4Å: Chain A: E.298, T.299, T.300, D.301, R.308, W.317 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.298 GOL.3: 10 residues within 4Å: Chain A: Y.38, W.42, W.44, D.45, Q.117, Y.377, W.383, E.421, F.436 Ligands: SER.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.42, A:W.44, A:Q.117, A:Y.377, A:E.421 GOL.4: 6 residues within 4Å: Chain A: E.401, R.404 Chain B: R.127, H.131, G.448 Chain D: Q.13 10 PLIP interactions: 4 interactions with chain B, 5 interactions with chain A, 1 interactions with chain D Hydrogen bonds: B:R.127, B:R.127, B:G.448, A:E.401, A:R.404, D:Q.13 Water bridges: B:T.134, A:E.401, A:R.404, A:Q.408 GOL.6: 6 residues within 4Å: Chain A: R.127, E.130, H.131 Chain B: E.401, R.404 Chain C: Q.13 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C, 2 interactions with chain A Hydrogen bonds: B:E.401, B:R.404, C:Q.13, A:R.127, A:R.127 GOL.7: 9 residues within 4Å: Chain B: Y.38, W.42, W.44, D.45, Q.117, Y.377, E.421, F.436 Ligands: SER.9 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:W.44, B:D.45, B:Q.117, B:Y.377 GOL.8: 7 residues within 4Å: Chain B: E.298, T.299, T.300, D.301, Q.302, R.308, W.317 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.298, B:Q.302 GOL.10: 5 residues within 4Å: Chain C: G.152, M.155, R.156, R.159, D.281 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.159, C:D.281 Water bridges: C:R.159 GOL.11: 6 residues within 4Å: Chain C: E.298, T.299, T.300, D.301, R.308, W.317 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.298 GOL.12: 10 residues within 4Å: Chain C: Y.38, W.42, W.44, D.45, Q.117, Y.377, W.383, E.421, F.436 Ligands: SER.14 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:W.42, C:W.44, C:Q.117, C:Y.377, C:E.421 GOL.13: 6 residues within 4Å: Chain B: Q.13 Chain C: E.401, R.404 Chain D: R.127, H.131, G.448 10 PLIP interactions: 4 interactions with chain D, 5 interactions with chain C, 1 interactions with chain B Hydrogen bonds: D:R.127, D:R.127, D:G.448, C:E.401, C:R.404, B:Q.13 Water bridges: D:T.134, C:E.401, C:R.404, C:Q.408 GOL.15: 6 residues within 4Å: Chain A: Q.13 Chain C: R.127, E.130, H.131 Chain D: E.401, R.404 5 PLIP interactions: 2 interactions with chain D, 1 interactions with chain A, 2 interactions with chain C Hydrogen bonds: D:E.401, D:R.404, A:Q.13, C:R.127, C:R.127 GOL.16: 9 residues within 4Å: Chain D: Y.38, W.42, W.44, D.45, Q.117, Y.377, E.421, F.436 Ligands: SER.18 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:W.44, D:D.45, D:Q.117, D:Y.377 GOL.17: 7 residues within 4Å: Chain D: E.298, T.299, T.300, D.301, Q.302, R.308, W.317 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:E.298, D:Q.302

4 x SER: SERINE(Non-covalent)

SER.5: 10 residues within 4Å: Chain A: Y.38, W.42, H.80, Y.90, W.179, D.184, R.218, Y.224, Y.377 Ligands: GOL.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.80, A:Y.90, A:Y.90, A:D.184, A:Y.224, A:Y.377 Salt bridges: A:R.218 SER.9: 9 residues within 4Å: Chain B: Y.38, W.42, H.80, Y.90, D.184, R.218, Y.224, Y.377 Ligands: GOL.7 9 PLIP interactions: 1 Ligand-Ligand interactions, 8 interactions with chain B Hydrogen bonds: S.9, B:Y.38, B:H.80, B:Y.224, B:Y.377, B:Y.377, B:Y.377 Water bridges: B:Y.90 Salt bridges: B:R.218 SER.14: 10 residues within 4Å: Chain C: Y.38, W.42, H.80, Y.90, W.179, D.184, R.218, Y.224, Y.377 Ligands: GOL.12 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:H.80, C:Y.90, C:Y.90, C:D.184, C:Y.224, C:Y.377 Salt bridges: C:R.218 SER.18: 9 residues within 4Å: Chain D: Y.38, W.42, H.80, Y.90, D.184, R.218, Y.224, Y.377 Ligands: GOL.16 9 PLIP interactions: 8 interactions with chain D, 1 Ligand-Ligand interactions Hydrogen bonds: D:Y.38, D:H.80, D:Y.224, D:Y.377, D:Y.377, D:Y.377, S.18 Water bridges: D:Y.90 Salt bridges: D:R.218

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cereija, T.B. et al., Structural characterization of mycobacterial hydrolase. to be published

Release Date

2019-04-10

Peptides

Mycobacterial hydrolase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Mycobacterial hydrolase