J5_1VQK_007

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

CGAAGACC*GGAUAACAG*CCUCGAUGU*G(UR3)U(PSU)AG*CGGCUG

Length

38 nucleotides

Bulged bases

1VQK|1|0|A|2483, 1VQK|1|0|U|2539, 1VQK|1|0|C|2644, 1VQK|1|0|U|2645

QA status

Modified nucleotides: UR3, PSU

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

1VQK|1|0|C|2098
1VQK|1|0|G|2099
1VQK|1|0|A|2100
1VQK|1|0|A|2101
1VQK|1|0|G|2102
1VQK|1|0|A|2103
1VQK|1|0|C|2104
1VQK|1|0|C|2105
*
1VQK|1|0|G|2481
1VQK|1|0|G|2482
1VQK|1|0|A|2483
1VQK|1|0|U|2484
1VQK|1|0|A|2485
1VQK|1|0|A|2486
1VQK|1|0|C|2487
1VQK|1|0|A|2488
1VQK|1|0|G|2489
*
1VQK|1|0|C|2533
1VQK|1|0|C|2534
1VQK|1|0|U|2535
1VQK|1|0|C|2536
1VQK|1|0|G|2537
1VQK|1|0|A|2538
1VQK|1|0|U|2539
1VQK|1|0|G|2540
1VQK|1|0|U|2541
*
1VQK|1|0|G|2618
1VQK|1|0|UR3|2619
1VQK|1|0|U|2620
1VQK|1|0|PSU|2621
1VQK|1|0|A|2622
1VQK|1|0|G|2623
*
1VQK|1|0|C|2641
1VQK|1|0|G|2642
1VQK|1|0|G|2643
1VQK|1|0|C|2644
1VQK|1|0|U|2645
1VQK|1|0|G|2646

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain 4

5'-R(*CP*CP*(DA)*(PHE)*(ACA))-3'

Chain A

50S ribosomal protein L2P

Chain B

50S ribosomal protein L3P

Chain C

50S ribosomal protein L4E

Chain L

50S ribosomal protein L15P