J3_4V8N_070

3D structure

PDB id

4V8N (explore in PDB, NAKB, or RNA 3D Hub)

Description

The crystal structure of agmatidine tRNA-Ile2 bound to the 70S ribosome in the A and P site.

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

4V8N|1|DA|U|504, 4V8N|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_4V8N_070 not in the Motif Atlas

Homologous match to J3_4WF9_011

Geometric discrepancy: 0.2299

The information below is about J3_4WF9_011

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

4V8N|1|DA|G|30
4V8N|1|DA|C|31
*
4V8N|1|DA|G|474
4V8N|1|DA|U|475
4V8N|1|DA|G|476
4V8N|1|DA|A|477
4V8N|1|DA|A|478
4V8N|1|DA|A|479
4V8N|1|DA|A|480
4V8N|1|DA|G|481
4V8N|1|DA|A|482
4V8N|1|DA|A|483
4V8N|1|DA|C|484
*
4V8N|1|DA|G|496
4V8N|1|DA|A|497
4V8N|1|DA|G|498
4V8N|1|DA|U|499
4V8N|1|DA|G|500
4V8N|1|DA|A|501
4V8N|1|DA|A|502
4V8N|1|DA|A|503
4V8N|1|DA|U|504
4V8N|1|DA|A|505
4V8N|1|DA|G|506
4V8N|1|DA|A|507
4V8N|1|DA|G|508
4V8N|1|DA|C|509
4V8N|1|DA|C|510

Current chains

Chain DA

23S RIBOSOMAL RNA

Nearby chains

Chain DU

50S RIBOSOMAL PROTEIN L20

Chain DW

50S RIBOSOMAL PROTEIN L22

Chain DY

50S RIBOSOMAL PROTEIN L24