SMTL ID : 9m1v.2 (1 other biounit)

Crystal structure of N-terminal domain of hypothetical protein Rv1421 from Mycobacterium tuberculosis H37Rv in complex with uridine diphosphate N-acetyl glucosamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x UD1: URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE(Non-covalent)

UD1.1: 21 residues within 4Å: Chain A: L.25, S.26, G.27, A.28, G.29, R.30, G.31, T.32, R.77, R.114, Y.115, N.118, R.120, P.123, T.154, L.157, S.158, V.159, L.162 Chain B: K.35, E.38 33 PLIP interactions: 11 interactions with chain B, 22 interactions with chain A Hydrogen bonds: B:E.38, A:G.27, A:G.29, A:R.30, A:R.30, A:G.31, A:T.32, A:T.32, A:R.114, A:Y.115, A:Y.115, A:Y.115, A:R.120, A:R.120, A:L.157 Water bridges: B:K.35, B:K.35, B:K.35, B:K.35, B:K.35, B:K.35, B:K.35, B:K.35, A:N.118, A:V.159 Salt bridges: B:K.35, B:K.35, A:R.30, A:R.30 Hydrophobic interactions: A:R.114, A:Y.115, A:L.162 pi-Cation interactions: A:R.114 UD1.3: 21 residues within 4Å: Chain A: K.35, E.38 Chain B: L.25, S.26, G.27, A.28, G.29, R.30, G.31, T.32, R.77, R.114, Y.115, N.118, R.120, P.123, T.154, L.157, S.158, V.159, L.162 30 PLIP interactions: 22 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:R.114, B:Y.115, B:L.162 Hydrogen bonds: B:G.27, B:G.29, B:R.30, B:R.30, B:G.31, B:T.32, B:T.32, B:R.114, B:Y.115, B:Y.115, B:Y.115, B:N.118, B:R.120, B:R.120, B:L.157, A:E.38 Water bridges: B:R.77, A:K.35, A:K.35, A:K.35, A:K.35 Salt bridges: B:R.30, B:R.30, A:K.35, A:K.35, A:K.35 pi-Cation interactions: B:R.114

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.2: 6 residues within 4Å: Chain A: D.149, L.150, I.151, I.152, D.153, S.165 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.151, A:S.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, K.S. et al., Structure-based biochemical properties of N-terminal domain of hypothetical protein Rv1421 from Mycobacterium tuberculosis H37Rv in complex with uridine diphosphate N-acetyl glucosamine. To Be Published

Release Date

2025-09-03

Peptides

Nucleotide-binding protein Rv1421: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Nucleotide-binding protein Rv1421

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