IL_6JBF_003

3D structure

PDB id

6JBF (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F)

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

GAAG*CAC

Length

7 nucleotides

Bulged bases

None detected

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_6JBF_003 not in the Motif Atlas

Geometric match to IL_3LOA_003

Geometric discrepancy: 0.2209

The information below is about IL_3LOA_003

Detailed Annotation

Decoding loop with one bulged A

Broad Annotation

Decoding loop with one bulged A

Motif group

IL_55553.2

Basepair signature

cWW-L-R-cWW

Number of instances in this motif group

5

Unit IDs

6JBF|1|A|G|16
6JBF|1|A|A|17
6JBF|1|A|A|18
6JBF|1|A|G|19
*
6JBF|1|B|C|30
6JBF|1|B|A|31
6JBF|1|B|C|32

Current chains

Chain A

RNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')

Chain B

RNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')

Nearby chains

Chain C

RNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')

Chain D

RNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')