J3_4V8F_061

3D structure

PDB id

4V8F (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin).

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

4V8F|1|DA|U|504, 4V8F|1|DA|G|508

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

J3_4V8F_061 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.088

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_92134.2

Basepair signature

cWW-cWW-cWW-F-tWH-cSS-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-cSW-F-tHS-cWW

Number of instances in this motif group

6

Unit IDs

4V8F|1|DA|G|30
4V8F|1|DA|C|31
*
4V8F|1|DA|G|474
4V8F|1|DA|U|475
4V8F|1|DA|G|476
4V8F|1|DA|A|477
4V8F|1|DA|A|478
4V8F|1|DA|A|479
4V8F|1|DA|A|480
4V8F|1|DA|G|481
4V8F|1|DA|A|482
4V8F|1|DA|A|483
4V8F|1|DA|C|484
*
4V8F|1|DA|G|496
4V8F|1|DA|A|497
4V8F|1|DA|G|498
4V8F|1|DA|U|499
4V8F|1|DA|G|500
4V8F|1|DA|A|501
4V8F|1|DA|A|502
4V8F|1|DA|A|503
4V8F|1|DA|U|504
4V8F|1|DA|A|505
4V8F|1|DA|G|506
4V8F|1|DA|A|507
4V8F|1|DA|G|508
4V8F|1|DA|C|509
4V8F|1|DA|C|510

Current chains

Chain DA

RNA (2912-MER)

Nearby chains

Chain D1

50S ribosomal protein L20

Chain DS

50S ribosomal protein L22

Chain DU

50S ribosomal protein L24