IL_12DQ_249

3D structure

PDB id

12DQ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of Thermus thermophilus 70S ribosome in complex with sparsomycin, protein Y, and P-site MTI-tripeptidyl-tRNA analog ACCA-ITM at 2.75A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.75 Å

Loop

Sequence

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

Length

16 nucleotides

Bulged bases

12DQ|1|2A|A|1938, 12DQ|1|2A|U|1944, 12DQ|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_12DQ_249 not in the Motif Atlas

Homologous match to IL_7A0S_072

Geometric discrepancy: 0.225

The information below is about IL_7A0S_072

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_04332.3

Basepair signature

cWW-L-R-L-cWW-L-L-R-L-R-L

Number of instances in this motif group

2

Unit IDs

12DQ|1|2A|C|1934
12DQ|1|2A|G|1935
12DQ|1|2A|A|1936
12DQ|1|2A|A|1937
12DQ|1|2A|A|1938
12DQ|1|2A|5MU|1939
12DQ|1|2A|U|1940
12DQ|1|2A|C|1941
12DQ|1|2A|5MC|1942
12DQ|1|2A|U|1943
12DQ|1|2A|U|1944
12DQ|1|2A|G|1945
*
12DQ|1|2A|C|1961
12DQ|1|2A|5MC|1962
12DQ|1|2A|U|1963
12DQ|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