IL_6XHV_246

3D structure

PDB id

6XHV (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.40A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.4 Å

Loop

Sequence

CGAAA(5MU)UC(5MC)UUG*C(5MC)UG

Length

16 nucleotides

Bulged bases

6XHV|1|2A|A|1938, 6XHV|1|2A|U|1944, 6XHV|1|2A|U|1963

QA status

Modified nucleotides: 5MU, 5MC

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

IL_6XHV_246 not in the Motif Atlas

Geometric match to IL_4WF9_077

Geometric discrepancy: 0.136

The information below is about IL_4WF9_077

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_84014.1

Basepair signature

cWW-L-R-cHW-cWW-L-L-tSW-L

Number of instances in this motif group

8

Unit IDs

6XHV|1|2A|C|1934
6XHV|1|2A|G|1935
6XHV|1|2A|A|1936
6XHV|1|2A|A|1937
6XHV|1|2A|A|1938
6XHV|1|2A|5MU|1939
6XHV|1|2A|U|1940
6XHV|1|2A|C|1941
6XHV|1|2A|5MC|1942
6XHV|1|2A|U|1943
6XHV|1|2A|U|1944
6XHV|1|2A|G|1945
*
6XHV|1|2A|C|1961
6XHV|1|2A|5MC|1962
6XHV|1|2A|U|1963
6XHV|1|2A|G|1964

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2D

50S ribosomal protein L2

Chain 2a

Small subunit ribosomal RNA; SSU rRNA

Chain 2w

Transfer RNA; tRNA

Chain 2x

Transfer RNA; tRNA