IL_1VQM_020

3D structure

PDB id

1VQM (explore in PDB, NAKB, or RNA 3D Hub)

Description

The structure of the transition state analogue 'DAN' bound to the large ribosomal subunit of haloarcula marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

2.3 Å

Loop

Sequence

UGACCG*CCAGUAA

Length

13 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_1VQM_020 not in the Motif Atlas

Homologous match to IL_4V9F_019

Geometric discrepancy: 0.0573

The information below is about IL_4V9F_019

Detailed Annotation

7x6 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_16458.6

Basepair signature

cWW-L-R-L-R-cSH-tWH-tHS-cWW

Number of instances in this motif group

6

Unit IDs

1VQM|1|0|U|567
1VQM|1|0|G|568
1VQM|1|0|A|569
1VQM|1|0|C|570
1VQM|1|0|C|571
1VQM|1|0|G|572
*
1VQM|1|0|C|585
1VQM|1|0|C|586
1VQM|1|0|A|587
1VQM|1|0|G|588
1VQM|1|0|U|589
1VQM|1|0|A|590
1VQM|1|0|A|591

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain W

50S ribosomal protein L30P