IL_12DP_245

3D structure

PDB id

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

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with sparsomycin, mRNA, and aminoacylated initiator P-site fMet-tRNAmet at 2.95A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.95 Å

Loop

Sequence

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

Length

16 nucleotides

Bulged bases

12DP|1|2A|A|1938, 12DP|1|2A|U|1944, 12DP|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_12DP_245 not in the Motif Atlas

Homologous match to IL_7A0S_072

Geometric discrepancy: 0.2361

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

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

Transfer RNA; tRNA