J5_5J8B_008

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

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

5J8B|1|A|U|2097, 5J8B|1|A|G|2439, 5J8B|1|A|G|2440, 5J8B|1|A|A|2441, 5J8B|1|A|U|2442

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_008 not in the Motif Atlas

Homologous match to J5_9DFE_007

Geometric discrepancy: 0.0449

The information below is about J5_9DFE_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.1

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

3

Unit IDs

5J8B|1|A|U|2095
5J8B|1|A|U|2096
5J8B|1|A|U|2097
5J8B|1|A|A|2098
*
5J8B|1|A|U|2254
5J8B|1|A|U|2255
5J8B|1|A|U|2256
5J8B|1|A|G|2257
*
5J8B|1|A|C|2269
5J8B|1|A|G|2270
*
5J8B|1|A|C|2292
5J8B|1|A|G|2293
*
5J8B|1|A|C|2438
5J8B|1|A|G|2439
5J8B|1|A|G|2440
5J8B|1|A|A|2441
5J8B|1|A|U|2442
5J8B|1|A|A|2443
5J8B|1|A|A|2444
5J8B|1|A|A|2445
5J8B|1|A|A|2446

Current chains

Chain A

23S Ribosomal RNA

Nearby chains

Chain 0

50S ribosomal protein L27

Chain 1

50S ribosomal protein L28

Chain 6

50S ribosomal protein L33

Chain D

50S ribosomal protein L2

Chain P

50S ribosomal protein L15

Chain y

Transfer RNA; tRNA