J5_5D8B_017

3D structure

PDB id

5D8B (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch

Experimental method

X-RAY DIFFRACTION

Resolution

3.63 Å

Loop

Sequence

AAAAGACC*GGAUAACA*UCGAUGUC*GGUUCAG*CGGUCU

Length

37 nucleotides

Bulged bases

5D8B|1|VC|A|2062, 5D8B|1|VC|A|2448, 5D8B|1|VC|U|2449, 5D8B|1|VC|U|2609

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

5D8B|1|VC|A|2057
5D8B|1|VC|A|2058
5D8B|1|VC|A|2059
5D8B|1|VC|A|2060
5D8B|1|VC|G|2061
5D8B|1|VC|A|2062
5D8B|1|VC|C|2063
5D8B|1|VC|C|2064
*
5D8B|1|VC|G|2446
5D8B|1|VC|G|2447
5D8B|1|VC|A|2448
5D8B|1|VC|U|2449
5D8B|1|VC|A|2450
5D8B|1|VC|A|2451
5D8B|1|VC|C|2452
5D8B|1|VC|A|2453
*
5D8B|1|VC|U|2500
5D8B|1|VC|C|2501
5D8B|1|VC|G|2502
5D8B|1|VC|A|2503
5D8B|1|VC|U|2504
5D8B|1|VC|G|2505
5D8B|1|VC|U|2506
5D8B|1|VC|C|2507
*
5D8B|1|VC|G|2582
5D8B|1|VC|G|2583
5D8B|1|VC|U|2584
5D8B|1|VC|U|2585
5D8B|1|VC|C|2586
5D8B|1|VC|A|2587
5D8B|1|VC|G|2588
*
5D8B|1|VC|C|2606
5D8B|1|VC|G|2607
5D8B|1|VC|G|2608
5D8B|1|VC|U|2609
5D8B|1|VC|C|2610
5D8B|1|VC|U|2611

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain A

50S ribosomal protein L2

Chain B

50S ribosomal protein L3

Chain C

50S ribosomal protein L4

Chain ED

Transfer RNA; tRNA

Chain Q

50S ribosomal protein L22

Chain Y

50S ribosomal protein L32