IL_9D7T_076

3D structure

PDB id

9D7T (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api137 antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.70A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

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

Length

16 nucleotides

Bulged bases

9D7T|1|1A|A|1938, 9D7T|1|1A|U|1944, 9D7T|1|1A|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_9D7T_076 not in the Motif Atlas

Homologous match to IL_9DFE_077

Geometric discrepancy: 0.1086

The information below is about IL_9DFE_077

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_42218.2

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

9D7T|1|1A|C|1934
9D7T|1|1A|G|1935
9D7T|1|1A|A|1936
9D7T|1|1A|A|1937
9D7T|1|1A|A|1938
9D7T|1|1A|5MU|1939
9D7T|1|1A|U|1940
9D7T|1|1A|C|1941
9D7T|1|1A|5MC|1942
9D7T|1|1A|U|1943
9D7T|1|1A|U|1944
9D7T|1|1A|G|1945
*
9D7T|1|1A|C|1961
9D7T|1|1A|5MC|1962
9D7T|1|1A|U|1963
9D7T|1|1A|G|1964

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1D

50S ribosomal protein L2

Chain 1a

Small subunit ribosomal RNA; SSU rRNA

Chain 1w

Peptide chain release factor 1