J3_4V8N_072

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

AC*GAUAAGC*GAUGU

Length

14 nucleotides

Bulged bases

4V8N|1|DA|U|72, 4V8N|1|DA|A|74

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_072 not in the Motif Atlas

Homologous match to J3_9DFE_004

Geometric discrepancy: 0.1102

The information below is about J3_9DFE_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_35667.2

Basepair signature

cWW-cWW-F-F-F-cWW-F-cWW

Number of instances in this motif group

7

Unit IDs

4V8N|1|DA|A|56
4V8N|1|DA|C|57
*
4V8N|1|DA|G|70
4V8N|1|DA|A|71
4V8N|1|DA|U|72
4V8N|1|DA|A|73
4V8N|1|DA|A|74
4V8N|1|DA|G|75
4V8N|1|DA|C|76
*
4V8N|1|DA|G|110
4V8N|1|DA|A|111
4V8N|1|DA|U|112
4V8N|1|DA|G|113
4V8N|1|DA|U|114

Current chains

Chain DA

23S RIBOSOMAL RNA

Nearby chains

Chain D2

50S RIBOSOMAL PROTEIN L29

Chain D7

50S RIBOSOMAL PROTEIN L34

Chain DX

50S RIBOSOMAL PROTEIN L23