SMTL ID : 6hct.1

Crystal structure of Archeoglobus fulgidus L7Ae bound to its cognate UTR k-turn

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.09 Å

Oligo State

homo-trimer

Ligands

1 x C- A- U- G- A- A- G- C: RNA (5'-R(P*CP*AP*UP*GP*AP*AP*GP*C)-3')(Non-covalent)

C-A-U-G-A-A-G-C.1: 17 residues within 4Å: Chain A: G.1 Chain E: G.1, C.2, C.3, G.4, A.5, G.7, A.8, A.9, U.10, G.11 Chain F: K.29, N.33, E.34, K.37, R.41 Ligands: SO4.6 12 PLIP interactions: 1 interactions with chain C, 11 interactions with chain F Salt bridges: C:E.89, F:E.34, F:E.89 Hydrophobic interactions: F:A.93 Hydrogen bonds: F:T.32, F:T.32, F:N.33, F:N.33, F:E.34, F:K.79, F:P.91, F:A.93

4 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain A: C.12, A.13 No protein-ligand interaction detected (PLIP) NA.3: 1 residues within 4Å: Chain B: C.12 No protein-ligand interaction detected (PLIP) NA.4: 2 residues within 4Å: Chain D: N.80, R.84 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.80, D:R.84 NA.5: 1 residues within 4Å: Chain D: N.70 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.70

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

SO4.6: 4 residues within 4Å: Chain E: U.10 Ligands: C-A-U-G-A-A-G-C.1, C-A-U-G-A-A-G-C.1, C-A-U-G-A-A-G-C.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, L. et al., The role of RNA structure in translational regulation by L7Ae protein in archaea. RNA (2019)

Release Date

2018-10-31

Peptides

50S ribosomal protein L7Ae: CDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
C

D
D

F
G

50S ribosomal protein L7Ae