J5_6CFL_017

3D structure

PDB id

6CFL (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with lysyl-CAM and bound to protein Y (YfiA) at 2.6A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

6CFL|1|2A|U|2076, 6CFL|1|2A|G|2428, 6CFL|1|2A|G|2429, 6CFL|1|2A|A|2430, 6CFL|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_6CFL_017 not in the Motif Atlas

Homologous match to J5_9DFE_007

Geometric discrepancy: 0.0551

The information below is about J5_9DFE_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.2

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

6CFL|1|2A|U|2074
6CFL|1|2A|U|2075
6CFL|1|2A|U|2076
6CFL|1|2A|A|2077
*
6CFL|1|2A|U|2243
6CFL|1|2A|U|2244
6CFL|1|2A|U|2245
6CFL|1|2A|G|2246
*
6CFL|1|2A|C|2258
6CFL|1|2A|G|2259
*
6CFL|1|2A|C|2281
6CFL|1|2A|G|2282
*
6CFL|1|2A|C|2427
6CFL|1|2A|G|2428
6CFL|1|2A|G|2429
6CFL|1|2A|A|2430
6CFL|1|2A|U|2431
6CFL|1|2A|A|2432
6CFL|1|2A|A|2433
6CFL|1|2A|A|2434
6CFL|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