J4_1VQK_001

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

CC*GAGUAG*CGAAUAAC*GAAG

Length

20 nucleotides

Bulged bases

1VQK|1|0|A|411

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_001 not in the Motif Atlas

Homologous match to J4_4V9F_001

Geometric discrepancy: 0.0318

The information below is about J4_4V9F_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_94698.1

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-cWW

Number of instances in this motif group

10

Unit IDs

1VQK|1|0|C|239
1VQK|1|0|C|240
*
1VQK|1|0|G|379
1VQK|1|0|A|380
1VQK|1|0|G|381
1VQK|1|0|U|382
1VQK|1|0|A|383
1VQK|1|0|G|384
*
1VQK|1|0|C|405
1VQK|1|0|G|406
1VQK|1|0|A|407
1VQK|1|0|A|408
1VQK|1|0|U|409
1VQK|1|0|A|410
1VQK|1|0|A|411
1VQK|1|0|C|412
*
1VQK|1|0|G|428
1VQK|1|0|A|429
1VQK|1|0|A|430
1VQK|1|0|G|431

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain M

50S Ribosomal Protein L15E