HL_6IP8_057

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

GAGCCCCGAGGGGCUC

Length

16 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_057 not in the Motif Atlas

Geometric match to HL_4V9F_003

Geometric discrepancy: 0.1477

The information below is about HL_4V9F_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_75660.7

Basepair signature

cWW-F

Number of instances in this motif group

22

Unit IDs

6IP8|1|1A|G|4097
6IP8|1|1A|A|4098
6IP8|1|1A|G|4099
6IP8|1|1A|C|4100
6IP8|1|1A|C|4101
6IP8|1|1A|C|4102
6IP8|1|1A|C|4103
6IP8|1|1A|G|4104
6IP8|1|1A|A|4105
6IP8|1|1A|G|4106
6IP8|1|1A|G|4107
6IP8|1|1A|G|4108
6IP8|1|1A|G|4109
6IP8|1|1A|C|4110
6IP8|1|1A|U|4111
6IP8|1|1A|C|4112

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 2B

60S ribosomal protein L7a

Chain 2a

60S ribosomal protein L34

Chain 2o

40S ribosomal protein S3a