IL_4V6I_250

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

GUG*UUUUU

Length

8 nucleotides

Bulged bases

4V6I|1|DA|U|2860

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_250 not in the Motif Atlas

Homologous match to IL_8C3A_113

Geometric discrepancy: 0.3235

The information below is about IL_8C3A_113

Detailed Annotation

Major groove minor groove platform with extra cWW

Broad Annotation

Major groove minor groove platform with extra cWW

Motif group

IL_63959.1

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

18

Unit IDs

4V6I|1|DA|G|2828
4V6I|1|DA|U|2829
4V6I|1|DA|G|2830
*
4V6I|1|DA|U|2858
4V6I|1|DA|U|2859
4V6I|1|DA|U|2860
4V6I|1|DA|U|2861
4V6I|1|DA|U|2862

Current chains

Chain DA

25S rRNA

Nearby chains

Chain BC

60S ribosomal protein rpL3 (L3p)

Chain BI

60S ribosomal protein rpL10 (L10e)

Chain CB

Transfer RNA; tRNA