IL_5J4C_253

3D structure

PDB id

5J4C (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (soaked) and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

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

Length

16 nucleotides

Bulged bases

5J4C|1|2A|A|1938, 5J4C|1|2A|U|1944, 5J4C|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_5J4C_253 not in the Motif Atlas

Geometric match to IL_4WF9_077

Geometric discrepancy: 0.1281

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

5J4C|1|2A|C|1934
5J4C|1|2A|G|1935
5J4C|1|2A|A|1936
5J4C|1|2A|A|1937
5J4C|1|2A|A|1938
5J4C|1|2A|5MU|1939
5J4C|1|2A|U|1940
5J4C|1|2A|C|1941
5J4C|1|2A|5MC|1942
5J4C|1|2A|U|1943
5J4C|1|2A|U|1944
5J4C|1|2A|G|1945
*
5J4C|1|2A|C|1961
5J4C|1|2A|5MC|1962
5J4C|1|2A|U|1963
5J4C|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