HL_6IP8_103

3D structure

PDB id

6IP8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the HCV IRES dependently initiated CMV-stalled 80S ribosome (Structure iv)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

UAUUCCCAUG

Length

10 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_6IP8_103 not in the Motif Atlas

Geometric match to HL_5ID6_001

Geometric discrepancy: 0.2398

The information below is about HL_5ID6_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_69752.4

Basepair signature

cWW-F

Number of instances in this motif group

7

Unit IDs

6IP8|1|2m|U|1112
6IP8|1|2m|A|1113
6IP8|1|2m|U|1114
6IP8|1|2m|U|1115
6IP8|1|2m|C|1116
6IP8|1|2m|C|1117
6IP8|1|2m|C|1118
6IP8|1|2m|A|1119
6IP8|1|2m|U|1120
6IP8|1|2m|G|1121

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 2o

40S ribosomal protein S3a

Chain 3P

40S ribosomal protein S27

Chain zz

Internal ribosome entry site; IRES