HL_1VY6_003

3D structure

PDB id

1VY6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

GGGAAACU

Length

8 nucleotides

Bulged bases

None detected

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

HL_1VY6_003 not in the Motif Atlas

Geometric match to HL_6CZR_215

Geometric discrepancy: 0.252

The information below is about HL_6CZR_215

Detailed Annotation

GNRA with extra near cWW

Broad Annotation

GNRA with extra near cWW

Motif group

HL_82182.1

Basepair signature

cWW-F-F-F-F-F-F

Number of instances in this motif group

21

Unit IDs

1VY6|1|AA|G|157
1VY6|1|AA|G|158
1VY6|1|AA|G|159
1VY6|1|AA|A|160
1VY6|1|AA|A|161
1VY6|1|AA|A|162
1VY6|1|AA|C|163
1VY6|1|AA|U|164

Current chains

Chain AA

16S Ribosomal RNA

Nearby chains

Chain AT

30S ribosomal protein S20

Chain BT

50S ribosomal protein L19