J5_5J8B_010

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

CAAG*CGGACGGG*CAG*CAC*GGCAG

Length

23 nucleotides

Bulged bases

5J8B|1|a|A|103, 5J8B|1|a|C|348

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

J5_5J8B_010 not in the Motif Atlas

Homologous match to J5_4LFB_002

Geometric discrepancy: 0.0821

The information below is about J5_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_59910.6

Basepair signature

cWW-F-tSS-cSS-F-cWW-cWW-cWW-F-F-cWW-F-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

5J8B|1|a|C|59
5J8B|1|a|A|60
5J8B|1|a|A|61
5J8B|1|a|G|62
*
5J8B|1|a|C|100
5J8B|1|a|G|101
5J8B|1|a|G|102
5J8B|1|a|A|103
5J8B|1|a|C|104
5J8B|1|a|G|105
5J8B|1|a|G|106
5J8B|1|a|G|107
*
5J8B|1|a|C|310
5J8B|1|a|A|311
5J8B|1|a|G|312
*
5J8B|1|a|C|333
5J8B|1|a|A|334
5J8B|1|a|C|335
*
5J8B|1|a|G|346
5J8B|1|a|G|347
5J8B|1|a|C|348
5J8B|1|a|A|349
5J8B|1|a|G|350

Current chains

Chain a

16S Ribosomal RNA

Nearby chains

Chain O

50S ribosomal protein L14

Chain T

50S ribosomal protein L19

Chain p

30S ribosomal protein S16

Chain t

30S ribosomal protein S20