J6_1VQ9_002

3D structure

PDB id

1VQ9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

The structure of CCA-PHE-CAP-BIO and the antibiotic sparsomycin bound to the large ribosomal subunit of haloarcula marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

2.4 Å

Loop

Sequence

UUUA*UUUG*CG*CGCC*GUCUAGCGAACC*GAUGACAGAAAA

Length

38 nucleotides

Bulged bases

1VQ9|1|0|U|2117, 1VQ9|1|0|A|2425, 1VQ9|1|0|A|2465, 1VQ9|1|0|A|2467, 1VQ9|1|0|A|2468

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

1VQ9|1|0|U|2115
1VQ9|1|0|U|2116
1VQ9|1|0|U|2117
1VQ9|1|0|A|2118
*
1VQ9|1|0|U|2276
1VQ9|1|0|U|2277
1VQ9|1|0|U|2278
1VQ9|1|0|G|2279
*
1VQ9|1|0|C|2292
1VQ9|1|0|G|2293
*
1VQ9|1|0|C|2315
1VQ9|1|0|G|2316
1VQ9|1|0|C|2317
1VQ9|1|0|C|2318
*
1VQ9|1|0|G|2421
1VQ9|1|0|U|2422
1VQ9|1|0|C|2423
1VQ9|1|0|U|2424
1VQ9|1|0|A|2425
1VQ9|1|0|G|2426
1VQ9|1|0|C|2427
1VQ9|1|0|G|2428
1VQ9|1|0|A|2429
1VQ9|1|0|A|2430
1VQ9|1|0|C|2431
1VQ9|1|0|C|2432
*
1VQ9|1|0|G|2459
1VQ9|1|0|A|2460
1VQ9|1|0|U|2461
1VQ9|1|0|G|2462
1VQ9|1|0|A|2463
1VQ9|1|0|C|2464
1VQ9|1|0|A|2465
1VQ9|1|0|G|2466
1VQ9|1|0|A|2467
1VQ9|1|0|A|2468
1VQ9|1|0|A|2469
1VQ9|1|0|A|2470

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain 3

50S ribosomal protein L44E

Chain A

50S ribosomal protein L2P

Chain L

50S ribosomal protein L15P

Chain M

50S Ribosomal Protein L15E

Chain Q

50S ribosomal protein L21e