J3_1VY7_059

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

CUCG*CGAUAGCGCACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

1VY7|1|BA|U|448, 1VY7|1|BA|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_1VY7_059 not in the Motif Atlas

Homologous match to J3_9DFE_003

Geometric discrepancy: 0.0564

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

1VY7|1|BA|C|32
1VY7|1|BA|U|33
1VY7|1|BA|C|34
1VY7|1|BA|G|35
*
1VY7|1|BA|C|445
1VY7|1|BA|G|446
1VY7|1|BA|A|447
1VY7|1|BA|U|448
1VY7|1|BA|A|449
1VY7|1|BA|G|450
1VY7|1|BA|C|451
1VY7|1|BA|G|452
1VY7|1|BA|C|453
1VY7|1|BA|A|454
1VY7|1|BA|C|455
1VY7|1|BA|C|456
1VY7|1|BA|A|457
1VY7|1|BA|G|458
1VY7|1|BA|U|459
1VY7|1|BA|A|460
1VY7|1|BA|C|461
*
1VY7|1|BA|G|468
1VY7|1|BA|G|469
1VY7|1|BA|A|470
1VY7|1|BA|A|471
1VY7|1|BA|A|472
1VY7|1|BA|G|473

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain B7

50S ribosomal protein L34

Chain BF

50S ribosomal protein L4

Chain BU

50S ribosomal protein L20

Chain BX

50S ribosomal protein L23