J5_9SRO_008

3D structure

PDB id

9SRO (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of SKM-70S ribosomal stalled complex in the rotated state with hybrid tRNAs

Experimental method

ELECTRON MICROSCOPY

Resolution

2.6 Å

Loop

Sequence

UUUA*UUUG*CU*AG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

9SRO|1|a|U|2076, 9SRO|1|a|G|2428, 9SRO|1|a|G|2429, 9SRO|1|a|A|2430, 9SRO|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_9SRO_008 not in the Motif Atlas

Homologous match to J5_7A0S_007

Geometric discrepancy: 0.096

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

9SRO|1|a|U|2074
9SRO|1|a|U|2075
9SRO|1|a|U|2076
9SRO|1|a|A|2077
*
9SRO|1|a|U|2243
9SRO|1|a|U|2244
9SRO|1|a|U|2245
9SRO|1|a|G|2246
*
9SRO|1|a|C|2258
9SRO|1|a|U|2259
*
9SRO|1|a|A|2281
9SRO|1|a|G|2282
*
9SRO|1|a|C|2427
9SRO|1|a|G|2428
9SRO|1|a|G|2429
9SRO|1|a|A|2430
9SRO|1|a|U|2431
9SRO|1|a|A|2432
9SRO|1|a|A|2433
9SRO|1|a|A|2434
9SRO|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