J4_1VQM_001

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

CC*GAGUAG*CGAAUAAC*GAAG

Length

20 nucleotides

Bulged bases

1VQM|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_1VQM_001 not in the Motif Atlas

Homologous match to J4_4V9F_001

Geometric discrepancy: 0.0336

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

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

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain M

50S Ribosomal Protein L15E