J3_9D7T_040

3D structure

PDB id

9D7T (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api137 antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.70A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

CUCG*CGAUAGCGCACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

9D7T|1|2A|C|34, 9D7T|1|2A|U|448, 9D7T|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_9D7T_040 not in the Motif Atlas

Homologous match to J3_9DFE_003

Geometric discrepancy: 0.0818

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

9D7T|1|2A|C|32
9D7T|1|2A|U|33
9D7T|1|2A|C|34
9D7T|1|2A|G|35
*
9D7T|1|2A|C|445
9D7T|1|2A|G|446
9D7T|1|2A|A|447
9D7T|1|2A|U|448
9D7T|1|2A|A|449
9D7T|1|2A|G|450
9D7T|1|2A|C|451
9D7T|1|2A|G|452
9D7T|1|2A|C|453
9D7T|1|2A|A|454
9D7T|1|2A|C|455
9D7T|1|2A|C|456
9D7T|1|2A|A|457
9D7T|1|2A|G|458
9D7T|1|2A|U|459
9D7T|1|2A|A|460
9D7T|1|2A|C|461
*
9D7T|1|2A|G|468
9D7T|1|2A|G|469
9D7T|1|2A|A|470
9D7T|1|2A|A|471
9D7T|1|2A|A|472
9D7T|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