J5_8YLR_013

3D structure

PDB id

8YLR (explore in PDB, NAKB, or RNA 3D Hub)

Description

State 6 (S6) of yeast 80S ribosome bound to 2 tRNAs and eEF2 and eEF3 during tranlocation

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

UUGA*UUUG*CA*UG*CAGAAAA

Length

19 nucleotides

Bulged bases

8YLR|1|A|G|2418, 8YLR|1|A|A|2799, 8YLR|1|A|G|2800, 8YLR|1|A|A|2801, 8YLR|1|A|A|2802, 8YLR|1|A|A|2803

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_8YLR_013 not in the Motif Atlas

Homologous match to J5_8C3A_006

Geometric discrepancy: 0.104

The information below is about J5_8C3A_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

8YLR|1|A|U|2416
8YLR|1|A|U|2417
8YLR|1|A|G|2418
8YLR|1|A|A|2419
*
8YLR|1|A|U|2611
8YLR|1|A|U|2612
8YLR|1|A|U|2613
8YLR|1|A|G|2614
*
8YLR|1|A|C|2627
8YLR|1|A|A|2628
*
8YLR|1|A|U|2650
8YLR|1|A|G|2651
*
8YLR|1|A|C|2798
8YLR|1|A|A|2799
8YLR|1|A|G|2800
8YLR|1|A|A|2801
8YLR|1|A|A|2802
8YLR|1|A|A|2803
8YLR|1|A|A|2804

Current chains

Chain A

25S rRNA

Nearby chains

Chain D

Large ribosomal subunit protein uL2A

Chain P

Large ribosomal subunit protein eL15A

Chain S

Large ribosomal subunit protein eL18A

Chain V

Large ribosomal subunit protein eL21A

Chain c

Large ribosomal subunit protein uL15

Chain d

Large ribosomal subunit protein eL29

Chain q

Large ribosomal subunit protein eL42A

Chain u

Transfer RNA; tRNA