J6_1VQ5_002

3D structure

PDB id

1VQ5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

The structure of the transition state analogue 'RAA' bound to the large ribosomal subunit of haloarcula marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

UUUA*UUUG*CG*CGCC*GUCUAGCGAACC*GAUGACAGAAAA

Length

38 nucleotides

Bulged bases

1VQ5|1|0|U|2117, 1VQ5|1|0|A|2425, 1VQ5|1|0|A|2465, 1VQ5|1|0|A|2467, 1VQ5|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

1VQ5|1|0|U|2115
1VQ5|1|0|U|2116
1VQ5|1|0|U|2117
1VQ5|1|0|A|2118
*
1VQ5|1|0|U|2276
1VQ5|1|0|U|2277
1VQ5|1|0|U|2278
1VQ5|1|0|G|2279
*
1VQ5|1|0|C|2292
1VQ5|1|0|G|2293
*
1VQ5|1|0|C|2315
1VQ5|1|0|G|2316
1VQ5|1|0|C|2317
1VQ5|1|0|C|2318
*
1VQ5|1|0|G|2421
1VQ5|1|0|U|2422
1VQ5|1|0|C|2423
1VQ5|1|0|U|2424
1VQ5|1|0|A|2425
1VQ5|1|0|G|2426
1VQ5|1|0|C|2427
1VQ5|1|0|G|2428
1VQ5|1|0|A|2429
1VQ5|1|0|A|2430
1VQ5|1|0|C|2431
1VQ5|1|0|C|2432
*
1VQ5|1|0|G|2459
1VQ5|1|0|A|2460
1VQ5|1|0|U|2461
1VQ5|1|0|G|2462
1VQ5|1|0|A|2463
1VQ5|1|0|C|2464
1VQ5|1|0|A|2465
1VQ5|1|0|G|2466
1VQ5|1|0|A|2467
1VQ5|1|0|A|2468
1VQ5|1|0|A|2469
1VQ5|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