IL_9SRD_079

3D structure

PDB id

9SRD (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of P. abyssi 70S ribosome in complex with hibernation factor HibA (HibA-uL5 conformation)

Experimental method

ELECTRON MICROSCOPY

Resolution

2.1 Å

Loop

Sequence

(5MC)CAG*C(OMG)

Length

6 nucleotides

Bulged bases

9SRD|1|1|C|2094

QA status

Modified nucleotides: 5MC, OMG

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_9SRD_079 not in the Motif Atlas

Homologous match to IL_4V9F_066

Geometric discrepancy: 0.1293

The information below is about IL_4V9F_066

Detailed Annotation

Minor groove platform, major groove intercalation

Broad Annotation

Minor groove platform, major groove intercalation

Motif group

IL_55206.3

Basepair signature

cWW-L-cWW

Number of instances in this motif group

11

Unit IDs

9SRD|1|1|5MC|2093
9SRD|1|1|C|2094
9SRD|1|1|A|2095
9SRD|1|1|G|2096
*
9SRD|1|1|C|2143
9SRD|1|1|OMG|2144

Current chains

Chain 1

rRNA 23S

Nearby chains

Chain 2

Small subunit ribosomal RNA; SSU rRNA

Chain BB

Large ribosomal subunit protein uL2

Chain H

Dehydrogenase