J4_1VQ5_009

3D structure

PDB id

1VQ5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

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

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

CUAUG*UUGAC*GAC*GUG

Length

16 nucleotides

Bulged bases

1VQ5|1|0|U|2322, 1VQ5|1|0|U|2419

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

J4_1VQ5_009 not in the Motif Atlas

Homologous match to J4_4V9F_009

Geometric discrepancy: 0.0399

The information below is about J4_4V9F_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_04930.6

Basepair signature

cWW-F-F-tWW-tHH-cWW-cWW-cHW-cWW

Number of instances in this motif group

7

Unit IDs

1VQ5|1|0|C|2319
1VQ5|1|0|U|2320
1VQ5|1|0|A|2321
1VQ5|1|0|U|2322
1VQ5|1|0|G|2323
*
1VQ5|1|0|U|2377
1VQ5|1|0|U|2378
1VQ5|1|0|G|2379
1VQ5|1|0|A|2380
1VQ5|1|0|C|2381
*
1VQ5|1|0|G|2407
1VQ5|1|0|A|2408
1VQ5|1|0|C|2409
*
1VQ5|1|0|G|2418
1VQ5|1|0|U|2419
1VQ5|1|0|G|2420

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain 3

50S ribosomal protein L44E

Chain N

50S ribosomal protein L18P

Chain Q

50S ribosomal protein L21e