IL_5J8B_043

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

GAGUG*CUC

Length

8 nucleotides

Bulged bases

5J8B|1|A|A|1133

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_043 not in the Motif Atlas

Geometric match to IL_5D8H_003

Geometric discrepancy: 0.1263

The information below is about IL_5D8H_003

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

No text annotation

Motif group

IL_51387.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

21

Unit IDs

5J8B|1|A|G|1132
5J8B|1|A|A|1133
5J8B|1|A|G|1134
5J8B|1|A|U|1135
5J8B|1|A|G|1136
*
5J8B|1|A|C|1145
5J8B|1|A|U|1146
5J8B|1|A|C|1147

Current chains

Chain A

23S Ribosomal RNA

Nearby chains

Chain 9

50S ribosomal protein L36

Chain K

50S ribosomal protein L11