J3_4V8N_068

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

UUAGCUUAGUCUGGUUAAAGCG*UGGGCGC*GCA

Length

32 nucleotides

Bulged bases

4V8N|1|CY|U|16, 4V8N|1|CY|C|17, 4V8N|1|CY|U|18, 4V8N|1|CY|G|19, 4V8N|1|CY|G|20, 4V8N|1|CY|U|21, 4V8N|1|CY|U|22, 4V8N|1|CY|G|49

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

4V8N|1|CY|U|7
4V8N|1|CY|U|8
4V8N|1|CY|A|9
4V8N|1|CY|G|10
4V8N|1|CY|C|11
4V8N|1|CY|U|12
4V8N|1|CY|U|13
4V8N|1|CY|A|14
4V8N|1|CY|G|15
4V8N|1|CY|U|16
4V8N|1|CY|C|17
4V8N|1|CY|U|18
4V8N|1|CY|G|19
4V8N|1|CY|G|20
4V8N|1|CY|U|21
4V8N|1|CY|U|22
4V8N|1|CY|A|23
4V8N|1|CY|A|24
4V8N|1|CY|A|25
4V8N|1|CY|G|26
4V8N|1|CY|C|27
4V8N|1|CY|G|28
*
4V8N|1|CY|U|46
4V8N|1|CY|G|47
4V8N|1|CY|G|48
4V8N|1|CY|G|49
4V8N|1|CY|C|50
4V8N|1|CY|G|51
4V8N|1|CY|C|52
*
4V8N|1|CY|G|66
4V8N|1|CY|C|67
4V8N|1|CY|A|68

Current chains

Chain CY

E-SITE TRNA ILE2 AGMATIDINE OR P-SITE TRNA ILE2 AGMATIDINE

Nearby chains

Chain CV

Transfer RNA; tRNA

Chain DA

Large subunit ribosomal RNA; LSU rRNA

Chain DZ

50S RIBOSOMAL PROTEIN L25