J4_5J8B_011

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

GAGUAACG*UC*GUAG*CC

Length

16 nucleotides

Bulged bases

5J8B|1|a|C|115

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

J4_5J8B_011 not in the Motif Atlas

Homologous match to J4_4LFB_001

Geometric discrepancy: 0.0563

The information below is about J4_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_35578.3

Basepair signature

cWW-F-cWW-F-F-F-tHW-F-cWW-cWW

Number of instances in this motif group

2

Unit IDs

5J8B|1|a|G|109
5J8B|1|a|A|110
5J8B|1|a|G|111
5J8B|1|a|U|112
5J8B|1|a|A|113
5J8B|1|a|A|114
5J8B|1|a|C|115
5J8B|1|a|G|116
*
5J8B|1|a|U|235
5J8B|1|a|C|236
*
5J8B|1|a|G|282
5J8B|1|a|U|283
5J8B|1|a|A|284
5J8B|1|a|G|285
*
5J8B|1|a|C|307
5J8B|1|a|C|308

Current chains

Chain a

16S Ribosomal RNA

Nearby chains

Chain p

30S ribosomal protein S16

Chain q

30S ribosomal protein S17