J4_1VY7_028

3D structure

PDB id

1VY7 (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-Cytidine-Puromycin in the A site and acylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

GGGC*GAC*GGAAG*CGC

Length

15 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

J4_1VY7_028 not in the Motif Atlas

Homologous match to J4_9DFE_010

Geometric discrepancy: 0.0757

The information below is about J4_9DFE_010

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_77044.5

Basepair signature

cWW-F-tHS-F-cWW-cWW-cWW-F-cWW

Number of instances in this motif group

3

Unit IDs

1VY7|1|DA|G|2643
1VY7|1|DA|G|2644
1VY7|1|DA|G|2645
1VY7|1|DA|C|2646
*
1VY7|1|DA|G|2674
1VY7|1|DA|A|2675
1VY7|1|DA|C|2676
*
1VY7|1|DA|G|2731
1VY7|1|DA|G|2732
1VY7|1|DA|A|2733
1VY7|1|DA|A|2734
1VY7|1|DA|G|2735
*
1VY7|1|DA|C|2769
1VY7|1|DA|G|2770
1VY7|1|DA|C|2771

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain DE

50S ribosomal protein L3

Chain DN

50S ribosomal protein L13

Chain DO

50S ribosomal protein L14