HL_4V8Q_103

3D structure

PDB id

4V8Q (explore in PDB, NAKB, or RNA 3D Hub)

Description

Complex of SmpB, a tmRNA fragment and EF-Tu-GDP-Kirromycin with the 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

CAGCCUGGUAG

Length

11 nucleotides

Bulged bases

4V8Q|1|BV|C|16, 4V8Q|1|BV|G|19, 4V8Q|1|BV|G|20, 4V8Q|1|BV|U|21

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_4V8Q_103 not in the Motif Atlas

Homologous match to HL_4TUE_033

Geometric discrepancy: 0.184

The information below is about HL_4TUE_033

Detailed Annotation

tRNA D-loop

Broad Annotation

No text annotation

Motif group

HL_93616.2

Basepair signature

cWW-cWS-F-F-F-F

Number of instances in this motif group

8

Unit IDs

4V8Q|1|BV|C|13
4V8Q|1|BV|A|14
4V8Q|1|BV|G|15
4V8Q|1|BV|C|16
4V8Q|1|BV|C|17
4V8Q|1|BV|U|18
4V8Q|1|BV|G|19
4V8Q|1|BV|G|20
4V8Q|1|BV|U|21
4V8Q|1|BV|A|22
4V8Q|1|BV|G|23

Current chains

Chain BV

E-SITE or P-SITE TRNA FMET

Nearby chains

Chain AA

Large subunit ribosomal RNA; LSU rRNA

Chain AG

50S RIBOSOMAL PROTEIN L5