HL_4V6I_039

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

UUGGAACA

Length

8 nucleotides

Bulged bases

4V6I|1|DA|C|200

QA status

Unknown status

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

HL_4V6I_039 not in the Motif Atlas

Homologous match to HL_8C3A_005

Geometric discrepancy: 0.1922

The information below is about HL_8C3A_005

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_58705.1

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

4V6I|1|DA|U|194
4V6I|1|DA|U|195
4V6I|1|DA|G|196
4V6I|1|DA|G|197
4V6I|1|DA|A|198
4V6I|1|DA|A|199
4V6I|1|DA|C|200
4V6I|1|DA|A|201

Current chains

Chain DA

25S rRNA

Nearby chains

Chain BD

60S ribosomal protein rpL4 (L4p)

Chain BY

60S ribosomal protein rpL26 (L24p)

Chain Bh

60S ribosomal protein pL32 (L32e)