IL_5T3K_003

3D structure

PDB id

5T3K (explore in PDB, NAKB, or RNA 3D Hub)

Description

Fluorescence detection of RNA-ligand binding and crystal structure determination of ribosomal decoding site RNA using a heavy atom containing fluorescent ribonucleoside

Experimental method

X-RAY DIFFRACTION

Resolution

2.14 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_5T3K_003 not in the Motif Atlas

Geometric match to IL_1ZX7_003

Geometric discrepancy: 0.2566

The information below is about IL_1ZX7_003

Detailed Annotation

Decoding loop related

Broad Annotation

Decoding loop related

Motif group

IL_31531.1

Basepair signature

cWW-L-R-L-cWW

Number of instances in this motif group

15

Unit IDs

5T3K|1|C|G|7
5T3K|1|C|A|8
5T3K|1|C|A|9
5T3K|1|C|G|10
*
5T3K|1|D|C|26
5T3K|1|D|A|27
5T3K|1|D|C|28

Current chains

Chain C

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

Chain D

RNA (5'-R(*CP*AP*GP*CP*GP*(75B)P*CP*AP*CP*AP*CP*CP*AP*CP*CP*C)-3')

Nearby chains

Chain A

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

Chain B

RNA (5'-R(*CP*AP*GP*CP*GP*(75B)P*CP*AP*CP*AP*CP*CP*AP*CP*CP*C)-3')