J5_5UYP_006

3D structure

PDB id

5UYP (explore in PDB, NAKB, or RNA 3D Hub)

Description

70S ribosome bound with near-cognate ternary complex base-paired to A site codon, open 30S (Structure II-nc)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

UUUA*UUUG*CU*AG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

5UYP|1|01|U|2076, 5UYP|1|01|G|2428, 5UYP|1|01|G|2429, 5UYP|1|01|A|2430, 5UYP|1|01|U|2431, 5UYP|1|01|A|2434

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_5UYP_006 not in the Motif Atlas

Homologous match to J5_4WF9_007

Geometric discrepancy: 0.1059

The information below is about J5_4WF9_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.2

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

5UYP|1|01|U|2074
5UYP|1|01|U|2075
5UYP|1|01|U|2076
5UYP|1|01|A|2077
*
5UYP|1|01|U|2243
5UYP|1|01|U|2244
5UYP|1|01|U|2245
5UYP|1|01|G|2246
*
5UYP|1|01|C|2258
5UYP|1|01|U|2259
*
5UYP|1|01|A|2281
5UYP|1|01|G|2282
*
5UYP|1|01|C|2427
5UYP|1|01|G|2428
5UYP|1|01|G|2429
5UYP|1|01|A|2430
5UYP|1|01|U|2431
5UYP|1|01|A|2432
5UYP|1|01|A|2433
5UYP|1|01|A|2434
5UYP|1|01|A|2435

Current chains

Chain 01

23S ribosomal RNA

Nearby chains

Chain 04

50S ribosomal protein L2

Chain 14

50S ribosomal protein L15

Chain 25

50S ribosomal protein L27

Chain 26

50S ribosomal protein L28

Chain 31

50S ribosomal protein L33

Chain 33

50S ribosomal protein L35

Chain X

Transfer RNA; tRNA