HL_4V6I_048

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

UCUUGAAACA

Length

10 nucleotides

Bulged bases

4V6I|1|DA|C|648

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

HL_4V6I_048 not in the Motif Atlas

Homologous match to HL_8C3A_014

Geometric discrepancy: 0.2396

The information below is about HL_8C3A_014

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_43993.1

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

141

Unit IDs

4V6I|1|DA|U|640
4V6I|1|DA|C|641
4V6I|1|DA|U|642
4V6I|1|DA|U|643
4V6I|1|DA|G|644
4V6I|1|DA|A|645
4V6I|1|DA|A|646
4V6I|1|DA|A|647
4V6I|1|DA|C|648
4V6I|1|DA|A|649

Current chains

Chain DA

25S rRNA

Nearby chains

Chain BC

60S ribosomal protein rpL3 (L3p)

Chain BO

60S ribosomal protein rpL28 (L15p)

Chain Bh

60S ribosomal protein pL32 (L32e)