J3_8YLD_009

3D structure

PDB id

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

Description

State 4a (S4a) of yeast 80S ribosome bound to 2 tRNAs and open eEF3 and eEF2 during translocation

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

CCAG*CUAGUAA*UGAUUACG

Length

19 nucleotides

Bulged bases

None detected

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_8YLD_009 not in the Motif Atlas

Homologous match to J3_8C3A_038

Geometric discrepancy: 0.2409

The information below is about J3_8C3A_038

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.2

Basepair signature

cWW-tSH-tHW-cSH-cSS-tHH-cSS-tWW-F-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

8YLD|1|2|C|1161
8YLD|1|2|C|1162
8YLD|1|2|A|1163
8YLD|1|2|G|1164
*
8YLD|1|2|C|1581
8YLD|1|2|U|1582
8YLD|1|2|A|1583
8YLD|1|2|G|1584
8YLD|1|2|U|1585
8YLD|1|2|A|1586
8YLD|1|2|A|1587
*
8YLD|1|2|U|1609
8YLD|1|2|G|1610
8YLD|1|2|A|1611
8YLD|1|2|U|1612
8YLD|1|2|U|1613
8YLD|1|2|A|1614
8YLD|1|2|C|1615
8YLD|1|2|G|1616

Current chains

Chain 2

18S rRNA

Nearby chains

Chain SB

Small ribosomal subunit protein uS7

Chain SF

Small ribosomal subunit protein uS9A

Chain SL

Small ribosomal subunit protein eS28A