J3_1VY7_053

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

CC*GUGGAU*AAUCG

Length

13 nucleotides

Bulged bases

1VY7|1|DA|G|2833, 1VY7|1|DA|A|2835

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_1VY7_053 not in the Motif Atlas

Homologous match to J3_7RQB_014

Geometric discrepancy: 0.0634

The information below is about J3_7RQB_014

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_95952.1

Basepair signature

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

Number of instances in this motif group

2

Unit IDs

1VY7|1|DA|C|2814
1VY7|1|DA|C|2815
*
1VY7|1|DA|G|2831
1VY7|1|DA|U|2832
1VY7|1|DA|G|2833
1VY7|1|DA|G|2834
1VY7|1|DA|A|2835
1VY7|1|DA|U|2836
*
1VY7|1|DA|A|2882
1VY7|1|DA|A|2883
1VY7|1|DA|U|2884
1VY7|1|DA|C|2885
1VY7|1|DA|G|2886

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain D5

50S ribosomal protein L32

Chain DE

50S ribosomal protein L3

Chain DR

50S ribosomal protein L17