SMTL ID : 4lck.2 (1 other biounit)

Co-crystal structure of a T-box riboswitch stem I domain in complex with its cognate tRNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

monomer

Ligands

34 x SR: STRONTIUM ION(Non-functional Binders)

SR.1: 1 residues within 4Å: Chain B: G.48 Ligand excluded by PLIP SR.2: 1 residues within 4Å: Chain B: G.40 Ligand excluded by PLIP SR.3: 1 residues within 4Å: Chain B: G.34 Ligand excluded by PLIP SR.4: 1 residues within 4Å: Chain B: G.68 Ligand excluded by PLIP SR.5: 2 residues within 4Å: Chain B: G.1, A.2 Ligand excluded by PLIP SR.6: 1 residues within 4Å: Chain B: G.38 Ligand excluded by PLIP SR.7: 2 residues within 4Å: Chain B: G.65, G.66 Ligand excluded by PLIP SR.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP SR.9: 2 residues within 4Å: Chain B: G.35, U.36 Ligand excluded by PLIP SR.10: 3 residues within 4Å: Chain B: G.3, G.44, C.45 Ligand excluded by PLIP SR.11: 2 residues within 4Å: Chain B: U.7, U.8 Ligand excluded by PLIP SR.12: 3 residues within 4Å: Chain B: C.25, C.26, U.28 Ligand excluded by PLIP SR.13: 1 residues within 4Å: Chain B: C.74 Ligand excluded by PLIP SR.14: 3 residues within 4Å: Chain B: A.5, G.6, U.7 Ligand excluded by PLIP SR.15: 3 residues within 4Å: Chain B: U.15, A.16, G.17 Ligand excluded by PLIP SR.18: 1 residues within 4Å: Chain C: C.102 Ligand excluded by PLIP SR.19: 1 residues within 4Å: Chain C: G.97 Ligand excluded by PLIP SR.20: 1 residues within 4Å: Chain C: G.43 Ligand excluded by PLIP SR.21: 2 residues within 4Å: Chain C: U.55, G.59 Ligand excluded by PLIP SR.22: 2 residues within 4Å: Chain C: A.11, G.12 Ligand excluded by PLIP SR.23: 1 residues within 4Å: Chain C: G.59 Ligand excluded by PLIP SR.24: 2 residues within 4Å: Chain C: G.45, A.46 Ligand excluded by PLIP SR.25: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP SR.26: 1 residues within 4Å: Chain C: G.43 Ligand excluded by PLIP SR.27: 3 residues within 4Å: Chain C: U.37, G.38, G.70 Ligand excluded by PLIP SR.28: 2 residues within 4Å: Chain C: G.52, G.53 Ligand excluded by PLIP SR.29: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP SR.30: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP SR.31: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP SR.32: 2 residues within 4Å: Chain C: U.50, A.51 Ligand excluded by PLIP SR.33: 1 residues within 4Å: Chain C: G.18 Ligand excluded by PLIP SR.34: 2 residues within 4Å: Chain C: G.74, U.75 Ligand excluded by PLIP SR.35: 2 residues within 4Å: Chain C: A.71, U.72 Ligand excluded by PLIP SR.36: 3 residues within 4Å: Chain C: G.38, A.39, A.46 Ligand excluded by PLIP

4 x MG: MAGNESIUM ION(Non-functional Binders)

MG.16: 3 residues within 4Å: Chain B: A.10, A.16, G.17 No protein-ligand interaction detected (PLIP) MG.17: 1 residues within 4Å: Chain B: C.75 No protein-ligand interaction detected (PLIP) MG.37: 1 residues within 4Å: Chain C: U.21 No protein-ligand interaction detected (PLIP) MG.38: 1 residues within 4Å: Chain C: A.54 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, J. et al., Co-crystal structure of a T-box riboswitch stem I domain in complex with its cognate tRNA. Nature (2013)

Release Date

2013-07-31

Peptides

Ribosomal protein YbxF: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Ribosomal protein YbxF

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