IL_5J8B_070

3D structure

PDB id

5J8B (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of Elongation Factor 4 (EF-4/LepA) in complex with GDPCP bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

CCGG*CG

Length

6 nucleotides

Bulged bases

5J8B|1|A|C|1868

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

IL_5J8B_070 not in the Motif Atlas

Homologous match to IL_7RQB_071

Geometric discrepancy: 0.064

The information below is about IL_7RQB_071

Detailed Annotation

Minor groove platform, major groove intercalation

Broad Annotation

Minor groove platform, major groove intercalation

Motif group

IL_88739.3

Basepair signature

cWW-L-cWW

Number of instances in this motif group

11

Unit IDs

5J8B|1|A|C|1867
5J8B|1|A|C|1868
5J8B|1|A|G|1869
5J8B|1|A|G|1870
*
5J8B|1|A|C|1923
5J8B|1|A|G|1924

Current chains

Chain A

23S Ribosomal RNA

Nearby chains

Chain D

50S ribosomal protein L2

Chain a

Small subunit ribosomal RNA; SSU rRNA