J5_9D7T_010

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

CGAUGAAG*CGAAUG*CG*CAC*GGG

Length

22 nucleotides

Bulged bases

9D7T|1|2A|U|50

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_9D7T_010 not in the Motif Atlas

Homologous match to J5_9DFE_001

Geometric discrepancy: 0.0567

The information below is about J5_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

9D7T|1|2A|C|47
9D7T|1|2A|G|48
9D7T|1|2A|A|49
9D7T|1|2A|U|50
9D7T|1|2A|G|51
9D7T|1|2A|A|52
9D7T|1|2A|A|53
9D7T|1|2A|G|54
*
9D7T|1|2A|C|116
9D7T|1|2A|G|117
9D7T|1|2A|A|118
9D7T|1|2A|A|119
9D7T|1|2A|U|120
9D7T|1|2A|G|121
*
9D7T|1|2A|C|130
9D7T|1|2A|G|131
*
9D7T|1|2A|C|148
9D7T|1|2A|A|149
9D7T|1|2A|C|150
*
9D7T|1|2A|G|176
9D7T|1|2A|G|177
9D7T|1|2A|G|178

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2X

50S ribosomal protein L23