J5_9DFE_017

3D structure

PDB id

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

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin and protein Y at 2.60A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

9DFE|1|2A|U|2076, 9DFE|1|2A|G|2428, 9DFE|1|2A|G|2429, 9DFE|1|2A|A|2430, 9DFE|1|2A|U|2431

QA status

Valid loop

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

J5_9DFE_017 not in the Motif Atlas

Homologous match to J5_9DFE_007

Geometric discrepancy: 0.0343

The information below is about J5_9DFE_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.1

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

3

Unit IDs

9DFE|1|2A|U|2074
9DFE|1|2A|U|2075
9DFE|1|2A|U|2076
9DFE|1|2A|A|2077
*
9DFE|1|2A|U|2243
9DFE|1|2A|U|2244
9DFE|1|2A|U|2245
9DFE|1|2A|G|2246
*
9DFE|1|2A|C|2258
9DFE|1|2A|G|2259
*
9DFE|1|2A|C|2281
9DFE|1|2A|G|2282
*
9DFE|1|2A|C|2427
9DFE|1|2A|G|2428
9DFE|1|2A|G|2429
9DFE|1|2A|A|2430
9DFE|1|2A|U|2431
9DFE|1|2A|A|2432
9DFE|1|2A|A|2433
9DFE|1|2A|A|2434
9DFE|1|2A|A|2435

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 20

50S ribosomal protein L27

Chain 21

50S ribosomal protein L28

Chain 26

50S ribosomal protein L33

Chain 28

50S ribosomal protein L35

Chain 2D

50S ribosomal protein L2

Chain 2P

50S ribosomal protein L15

Chain 2Z

50S ribosomal protein L25