SMTL ID : 6wn8.2 (2 other biounits)

2.70 Angstrom Resolution Crystal Structure of Uracil Phosphoribosyl Transferase from Klebsiella pneumoniae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-tetramer

Ligands

1 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)

GLC-FRU.1: 10 residues within 4Å: Chain A: Y.44, E.45, A.48 Chain B: E.8, V.9, K.10, H.11, Y.44, E.45 Ligands: BDF.2 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.8, B:K.10, B:E.45, A:A.48 Water bridges: B:E.45

2 x BDF: beta-D-fructopyranose(Non-covalent)

BDF.2: 9 residues within 4Å: Chain A: V.7, E.8, V.9, K.10, H.11, E.45 Chain B: Y.44, A.48 Ligands: GLC-FRU.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.8, A:E.8, A:K.10, A:E.45, A:E.45 Water bridges: A:E.45 BDF.3: 5 residues within 4Å: Chain A: Y.116, F.117, Q.118, K.119 Chain D: Y.105 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.116, A:Q.118

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

SO4.4: 6 residues within 4Å: Chain A: P.95, S.96 Chain B: H.16, K.17, R.30 Chain D: K.29 Ligand excluded by PLIP SO4.5: 6 residues within 4Å: Chain A: K.150, A.175, H.176, P.177, D.178, V.179 Ligand excluded by PLIP SO4.6: 4 residues within 4Å: Chain A: L.80, R.81, A.82, G.204 Ligand excluded by PLIP SO4.7: 6 residues within 4Å: Chain A: R.106, A.137, T.138, G.139, G.140, S.141 Ligand excluded by PLIP SO4.8: 4 residues within 4Å: Chain A: K.72, K.73, R.98, R.127 Ligand excluded by PLIP SO4.9: 5 residues within 4Å: Chain A: S.27, T.28 Chain D: K.73, R.98 Ligands: SO4.39 Ligand excluded by PLIP SO4.10: 4 residues within 4Å: Chain A: K.73, R.98 Chain D: S.27, T.28 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain B: L.80, R.81, A.82, G.204 Ligand excluded by PLIP SO4.15: 7 residues within 4Å: Chain B: R.106, L.136, A.137, T.138, G.139, G.140, S.141 Ligand excluded by PLIP SO4.16: 6 residues within 4Å: Chain B: K.150, A.175, H.176, P.177, D.178, V.179 Ligand excluded by PLIP SO4.17: 4 residues within 4Å: Chain B: K.72, K.73, R.98, R.127 Ligand excluded by PLIP SO4.18: 5 residues within 4Å: Chain A: H.16, R.30 Chain B: P.95, S.96 Chain C: K.29 Ligand excluded by PLIP SO4.19: 6 residues within 4Å: Chain B: K.29 Chain C: P.95, S.96 Chain D: H.16, K.17, R.30 Ligand excluded by PLIP SO4.20: 1 residues within 4Å: Chain B: T.56 Ligand excluded by PLIP SO4.21: 2 residues within 4Å: Chain B: N.191, E.192 Ligand excluded by PLIP SO4.22: 3 residues within 4Å: Chain A: E.23 Chain B: I.57, E.58 Ligand excluded by PLIP SO4.27: 6 residues within 4Å: Chain C: R.106, A.137, T.138, G.139, G.140, S.141 Ligand excluded by PLIP SO4.28: 4 residues within 4Å: Chain C: K.72, K.73, R.98, R.127 Ligand excluded by PLIP SO4.29: 4 residues within 4Å: Chain B: S.27, T.28, K.206 Chain C: R.98 Ligand excluded by PLIP SO4.30: 6 residues within 4Å: Chain C: K.150, A.175, H.176, P.177, D.178, V.179 Ligand excluded by PLIP SO4.31: 5 residues within 4Å: Chain B: K.73, R.98 Chain C: S.27, T.28, K.211 Ligand excluded by PLIP SO4.32: 5 residues within 4Å: Chain C: L.80, R.81, A.82, G.204, D.205 Ligand excluded by PLIP SO4.33: 3 residues within 4Å: Chain C: S.122, N.123, I.124 Ligand excluded by PLIP SO4.34: 2 residues within 4Å: Chain C: N.191, E.192 Ligand excluded by PLIP SO4.36: 3 residues within 4Å: Chain D: R.81, A.82, G.204 Ligand excluded by PLIP SO4.37: 6 residues within 4Å: Chain A: K.29 Chain C: L.20, R.30 Chain D: P.95, S.96 Ligands: SO4.46 Ligand excluded by PLIP SO4.38: 5 residues within 4Å: Chain D: K.150, H.176, P.177, D.178, V.179 Ligand excluded by PLIP SO4.39: 5 residues within 4Å: Chain D: K.72, K.73, R.98, R.127 Ligands: SO4.9 Ligand excluded by PLIP SO4.40: 3 residues within 4Å: Chain D: S.122, N.123, I.124 Ligand excluded by PLIP SO4.41: 2 residues within 4Å: Chain D: E.53, K.54 Ligand excluded by PLIP SO4.42: 2 residues within 4Å: Chain D: N.191, E.192 Ligand excluded by PLIP SO4.43: 3 residues within 4Å: Chain D: Q.118, K.119, L.120 Ligand excluded by PLIP SO4.44: 6 residues within 4Å: Chain C: Y.44 Chain D: E.8, V.9, K.10, H.11, E.45 Ligand excluded by PLIP SO4.45: 4 residues within 4Å: Chain C: Y.44, E.45 Chain D: Y.44, E.45 Ligand excluded by PLIP SO4.46: 5 residues within 4Å: Chain D: K.73, I.74, V.94, S.96 Ligands: SO4.37 Ligand excluded by PLIP SO4.47: 7 residues within 4Å: Chain D: R.106, L.136, A.137, T.138, G.139, G.140, S.141 Ligand excluded by PLIP

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

CL.11: 2 residues within 4Å: Chain A: E.53, K.54 Ligand excluded by PLIP CL.12: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.13: 1 residues within 4Å: Chain A: H.193 Ligand excluded by PLIP CL.23: 1 residues within 4Å: Chain B: T.56 Ligand excluded by PLIP CL.24: 3 residues within 4Å: Chain A: I.57, E.58 Chain B: E.23 Ligand excluded by PLIP CL.25: 1 residues within 4Å: Chain B: N.123 Ligand excluded by PLIP CL.26: 2 residues within 4Å: Chain B: E.53, K.54 Ligand excluded by PLIP CL.35: 2 residues within 4Å: Chain C: V.9, K.10 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Inniss, N.L. et al., A Structural Systems Biology Approach to High-Risk CG23 Klebsiella pneumoniae. Microbiol Resour Announc (2023)

Release Date

2020-05-06

Peptides

Uracil phosphoribosyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

Uracil phosphoribosyltransferase

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