J5_28UJ_009

3D structure

PDB id

28UJ (explore in PDB, NAKB, or RNA 3D Hub)

Description

E. coli 70S ribosome, trapped conformational excited state of SSU-h44 apical loop, with A/P- and P/E-site tRNA

Experimental method

ELECTRON MICROSCOPY

Resolution

2.16 Å

Loop

Sequence

UUUA*UUUG*CU*AG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

28UJ|1|a|U|2076, 28UJ|1|a|G|2428, 28UJ|1|a|G|2429, 28UJ|1|a|A|2430, 28UJ|1|a|U|2431

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_28UJ_009 not in the Motif Atlas

Homologous match to J5_7A0S_007

Geometric discrepancy: 0.0869

The information below is about J5_7A0S_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

28UJ|1|a|U|2074
28UJ|1|a|U|2075
28UJ|1|a|U|2076
28UJ|1|a|A|2077
*
28UJ|1|a|U|2243
28UJ|1|a|U|2244
28UJ|1|a|U|2245
28UJ|1|a|G|2246
*
28UJ|1|a|C|2258
28UJ|1|a|U|2259
*
28UJ|1|a|A|2281
28UJ|1|a|G|2282
*
28UJ|1|a|C|2427
28UJ|1|a|G|2428
28UJ|1|a|G|2429
28UJ|1|a|A|2430
28UJ|1|a|U|2431
28UJ|1|a|A|2432
28UJ|1|a|A|2433
28UJ|1|a|A|2434
28UJ|1|a|A|2435

Current chains

Chain a

23S rRNA

Nearby chains

Chain 0

Large ribosomal subunit protein bL33

Chain 2

Large ribosomal subunit protein bL35

Chain Z

Transfer RNA; tRNA

Chain c

Large ribosomal subunit protein uL2

Chain k

Large ribosomal subunit protein uL15

Chain v

Large ribosomal subunit protein bL27

Chain w

Large ribosomal subunit protein bL28