HL_1VQK_061

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

GCUUGAUGC

Length

9 nucleotides

Bulged bases

1VQK|1|0|C|2443

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

HL_1VQK_061 not in the Motif Atlas

Homologous match to HL_4V9F_061

Geometric discrepancy: 0.0664

The information below is about HL_4V9F_061

Detailed Annotation

Pseudoknot geometry

Broad Annotation

No text annotation

Motif group

HL_52651.2

Basepair signature

cWW-F-F-F-F-F-F

Number of instances in this motif group

29

Unit IDs

1VQK|1|0|G|2442
1VQK|1|0|C|2443
1VQK|1|0|U|2444
1VQK|1|0|U|2445
1VQK|1|0|G|2446
1VQK|1|0|A|2447
1VQK|1|0|U|2448
1VQK|1|0|G|2449
1VQK|1|0|C|2450

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain 3

50S ribosomal protein L44E

Chain L

50S ribosomal protein L15P

Chain M

50S Ribosomal Protein L15E