IL_9B00_257

3D structure

PDB id

9B00 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with berberine analog of chloramphenicol CAM-BER, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.80A 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

9B00|1|2A|A|1938, 9B00|1|2A|U|1944, 9B00|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_9B00_257 not in the Motif Atlas

Homologous match to IL_8VTW_076

Geometric discrepancy: 0.0745

The information below is about IL_8VTW_076

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_66080.1

Basepair signature

cWW-cWW-tSH-L-cWW-L

Number of instances in this motif group

5

Unit IDs

9B00|1|2A|C|1934
9B00|1|2A|G|1935
9B00|1|2A|A|1936
9B00|1|2A|A|1937
9B00|1|2A|A|1938
9B00|1|2A|5MU|1939
9B00|1|2A|U|1940
9B00|1|2A|C|1941
9B00|1|2A|5MC|1942
9B00|1|2A|U|1943
9B00|1|2A|U|1944
9B00|1|2A|G|1945
*
9B00|1|2A|C|1961
9B00|1|2A|5MC|1962
9B00|1|2A|U|1963
9B00|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