HL_9KDT_104

3D structure

PDB id

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

Description

Cryo-EM structure of 80S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

2.63 Å

Loop

Sequence

GAUCGAAAC

Length

9 nucleotides

Bulged bases

None detected

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_9KDT_104 not in the Motif Atlas

Homologous match to HL_2ZZN_006

Geometric discrepancy: 0.182

The information below is about HL_2ZZN_006

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_33597.6

Basepair signature

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

Number of instances in this motif group

139

Unit IDs

9KDT|1|S7|G|53
9KDT|1|S7|A|54
9KDT|1|S7|U|55
9KDT|1|S7|C|56
9KDT|1|S7|G|57
9KDT|1|S7|A|58
9KDT|1|S7|A|59
9KDT|1|S7|A|60
9KDT|1|S7|C|61

Current chains

Chain S7

P/P, E/E tRNA

Nearby chains

Chain L5

Large subunit ribosomal RNA; LSU rRNA

Chain LJ

Large ribosomal subunit protein uL5

Chain Lo

Large ribosomal subunit protein eL42