J3_7MD7_056

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

CUCG*CGAUAGCGCACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

7MD7|1|1A|C|34, 7MD7|1|1A|U|448, 7MD7|1|1A|C|456

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_056 not in the Motif Atlas

Homologous match to J3_9DFE_003

Geometric discrepancy: 0.0641

The information below is about J3_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_07616.1

Basepair signature

cWW-cSS-tSS-tSW-tHW-cWW-tWH-F-F-tHH-tSS-tWH-F-tHS-cWW-F-cSH

Number of instances in this motif group

10

Unit IDs

7MD7|1|1A|C|32
7MD7|1|1A|U|33
7MD7|1|1A|C|34
7MD7|1|1A|G|35
*
7MD7|1|1A|C|445
7MD7|1|1A|G|446
7MD7|1|1A|A|447
7MD7|1|1A|U|448
7MD7|1|1A|A|449
7MD7|1|1A|G|450
7MD7|1|1A|C|451
7MD7|1|1A|G|452
7MD7|1|1A|C|453
7MD7|1|1A|A|454
7MD7|1|1A|C|455
7MD7|1|1A|C|456
7MD7|1|1A|A|457
7MD7|1|1A|G|458
7MD7|1|1A|U|459
7MD7|1|1A|A|460
7MD7|1|1A|C|461
*
7MD7|1|1A|G|468
7MD7|1|1A|G|469
7MD7|1|1A|A|470
7MD7|1|1A|A|471
7MD7|1|1A|A|472
7MD7|1|1A|G|473

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 17

50S ribosomal protein L34

Chain 1F

50S ribosomal protein L4

Chain 1U

50S ribosomal protein L20

Chain 1X

50S ribosomal protein L23