J3_9B00_057

3D structure

PDB id

9B00 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with berberine analog of chloramphenicol CAM-BER, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.80A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

CUCG*CGAUAGCGCACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

9B00|1|2A|C|34, 9B00|1|2A|U|448, 9B00|1|2A|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_9B00_057 not in the Motif Atlas

Homologous match to J3_9DFE_003

Geometric discrepancy: 0.0845

The information below is about J3_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_30040.2

Basepair signature

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

Number of instances in this motif group

7

Unit IDs

9B00|1|2A|C|32
9B00|1|2A|U|33
9B00|1|2A|C|34
9B00|1|2A|G|35
*
9B00|1|2A|C|445
9B00|1|2A|G|446
9B00|1|2A|A|447
9B00|1|2A|U|448
9B00|1|2A|A|449
9B00|1|2A|G|450
9B00|1|2A|C|451
9B00|1|2A|G|452
9B00|1|2A|C|453
9B00|1|2A|A|454
9B00|1|2A|C|455
9B00|1|2A|C|456
9B00|1|2A|A|457
9B00|1|2A|G|458
9B00|1|2A|U|459
9B00|1|2A|A|460
9B00|1|2A|C|461
*
9B00|1|2A|G|468
9B00|1|2A|G|469
9B00|1|2A|A|470
9B00|1|2A|A|471
9B00|1|2A|A|472
9B00|1|2A|G|473

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2F

50S ribosomal protein L4

Chain 2U

50S ribosomal protein L20

Chain 2X

50S ribosomal protein L23