IL_4V6I_248

3D structure

PDB id

4V6I (explore in PDB, NAKB, or RNA 3D Hub)

Description

Localization of the small subunit ribosomal proteins into a 6.1 A cryo-EM map of Saccharomyces cerevisiae translating 80S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

8.8 Å

Loop

Sequence

GAAU*GC

Length

6 nucleotides

Bulged bases

4V6I|1|DA|A|2207

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

IL_4V6I_248 not in the Motif Atlas

Geometric match to IL_1U9S_005

Geometric discrepancy: 0.3697

The information below is about IL_1U9S_005

Detailed Annotation

Minor groove platform, major groove intercalation

Broad Annotation

Minor groove platform, major groove intercalation

Motif group

IL_95583.2

Basepair signature

cWW-L-cWW

Number of instances in this motif group

11

Unit IDs

4V6I|1|DA|G|2206
4V6I|1|DA|A|2207
4V6I|1|DA|A|2208
4V6I|1|DA|U|2209
*
4V6I|1|DA|G|2236
4V6I|1|DA|C|2237

Current chains

Chain DA

25S rRNA

Nearby chains

Chain BB

60S ribosomal protein rpL2 (L2p)

Chain CA

Small subunit ribosomal RNA; SSU rRNA