J4_4V8N_023

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

CGAUAAA*UC*GCGC*GG

Length

15 nucleotides

Bulged bases

4V8N|1|DA|G|1271, 4V8N|1|DA|A|1272, 4V8N|1|DA|U|1273, 4V8N|1|DA|G|1647

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

J4_4V8N_023 not in the Motif Atlas

Homologous match to J4_9DFE_003

Geometric discrepancy: 0.073

The information below is about J4_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_64571.5

Basepair signature

cWW-F-cWW-tSS-cWW-F-cWW

Number of instances in this motif group

4

Unit IDs

4V8N|1|DA|C|1270
4V8N|1|DA|G|1271
4V8N|1|DA|A|1272
4V8N|1|DA|U|1273
4V8N|1|DA|A|1274
4V8N|1|DA|A|1275
4V8N|1|DA|A|1276
*
4V8N|1|DA|U|1294
4V8N|1|DA|C|1295
*
4V8N|1|DA|G|1645
4V8N|1|DA|C|1646
4V8N|1|DA|G|1647
4V8N|1|DA|C|1648
*
4V8N|1|DA|G|2009
4V8N|1|DA|G|2010

Current chains

Chain DA

23S RIBOSOMAL RNA

Nearby chains

Chain D5

50S RIBOSOMAL PROTEIN L32

Chain DR

50S RIBOSOMAL PROTEIN L17

Chain DW

50S RIBOSOMAL PROTEIN L22