SMTL ID : 9f7v.1 (1 other biounit)

N-acetylglucosamine 6-phosphate dehydratase: GlcNAc6P substrate-bound state of NagS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: R.19, R.22 Chain B: I.15, R.19 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.19, A:R.22, B:R.19 SO4.3: 4 residues within 4Å: Chain A: I.15, R.19 Chain B: R.19, R.22 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Salt bridges: A:R.19, B:R.19, B:R.22

2 x 16G: 2-acetamido-2-deoxy-6-O-phosphono-alpha-D-glucopyranose(Non-covalent)

16G.2: 23 residues within 4Å: Chain A: A.51, G.52, H.53, S.54, I.82, S.91, E.94, S.119, L.120, S.121, G.122, N.124, P.127 Chain B: Y.63, R.64, A.65, L.224, R.225, S.226, G.227, N.228, H.233, N.236 22 PLIP interactions: 8 interactions with chain B, 14 interactions with chain A Hydrogen bonds: B:Y.63, B:G.227, B:N.228, B:H.233, A:H.53, A:S.54, A:S.54, A:S.91, A:E.94, A:L.120, A:S.121, A:S.121, A:S.121 Water bridges: B:A.65, B:A.65, B:S.226, B:G.227, A:N.124, A:N.124, A:N.124, A:D.179 Salt bridges: A:H.53 16G.4: 23 residues within 4Å: Chain A: Y.63, R.64, A.65, L.224, R.225, S.226, G.227, N.228, H.233, N.236 Chain B: A.51, G.52, H.53, S.54, I.82, S.91, E.94, S.119, L.120, S.121, G.122, N.124, P.127 21 PLIP interactions: 8 interactions with chain A, 13 interactions with chain B Hydrogen bonds: A:Y.63, A:G.227, A:N.228, A:H.233, B:H.53, B:S.54, B:S.54, B:S.91, B:E.94, B:L.120, B:S.121, B:S.121, B:S.121 Water bridges: A:A.65, A:A.65, A:S.226, A:G.227, B:N.124, B:N.124, B:N.124 Salt bridges: B:H.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, C. et al., A new pathway in central metabolism mediates nutrient control of development and antibiotic production by Streptomyces. Biorxiv (2024)

Release Date

2025-02-19

Peptides

UPF0309 protein SCO4393: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

UPF0309 protein SCO4393

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