J3_7MD7_068

3D structure

PDB id

7MD7 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with triphenylphosphonium analog of chloramphenicol CAM-C4-TPP and protein Y (YfiA) at 2.80A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

GCC*GCCUAGUGAACC*GAUCAAC

Length

22 nucleotides

Bulged bases

7MD7|1|2A|A|2388, 7MD7|1|2A|U|2390, 7MD7|1|2A|A|2426

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

J3_7MD7_068 not in the Motif Atlas

Homologous match to J3_9DFE_015

Geometric discrepancy: 0.0605

The information below is about J3_9DFE_015

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_20992.1

Basepair signature

cWW-F-F-cWW-tHW-tHW-F-cWW-F-F-F-F-F

Number of instances in this motif group

5

Unit IDs

7MD7|1|2A|G|2282
7MD7|1|2A|C|2283
7MD7|1|2A|C|2284
*
7MD7|1|2A|G|2384
7MD7|1|2A|C|2385
7MD7|1|2A|C|2386
7MD7|1|2A|U|2387
7MD7|1|2A|A|2388
7MD7|1|2A|G|2389
7MD7|1|2A|U|2390
7MD7|1|2A|G|2391
7MD7|1|2A|A|2392
7MD7|1|2A|A|2393
7MD7|1|2A|C|2394
7MD7|1|2A|C|2395
*
7MD7|1|2A|G|2421
7MD7|1|2A|A|2422
7MD7|1|2A|U|2423
7MD7|1|2A|C|2424
7MD7|1|2A|A|2425
7MD7|1|2A|A|2426
7MD7|1|2A|C|2427

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 2P

50S ribosomal protein L15

Chain 2Z

50S ribosomal protein L25