J4_1VQK_009

3D structure

PDB id

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

Description

The structure of CCDA-PHE-CAP-BIO bound to the a site of the ribosomal subunit of haloarcula marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

2.3 Å

Loop

Sequence

CUAUG*UUGAC*GAC*GUG

Length

16 nucleotides

Bulged bases

1VQK|1|0|U|2322, 1VQK|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_1VQK_009 not in the Motif Atlas

Homologous match to J4_4V9F_009

Geometric discrepancy: 0.0534

The information below is about J4_4V9F_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_98139.1

Basepair signature

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

Number of instances in this motif group

6

Unit IDs

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