J4_8PPL_003

3D structure

PDB id

8PPL (explore in PDB, NAKB, or RNA 3D Hub)

Description

MERS-CoV Nsp1 bound to the human 43S pre-initiation complex

Experimental method

ELECTRON MICROSCOPY

Resolution

2.65 Å

Loop

Sequence

GU(1MG)(2MG)*U(2MG)C*GAG(G7M)(H2U)(5MC)G*CC

Length

16 nucleotides

Bulged bases

8PPL|1|Iw|U|8, 8PPL|1|Iw|H2U|46, 8PPL|1|Iw|5MC|47

QA status

Modified nucleotides: 1MG, 2MG, G7M, H2U, 5MC

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

J4_8PPL_003 not in the Motif Atlas

Homologous match to J4_3WQY_001

Geometric discrepancy: 0.1599

The information below is about J4_3WQY_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_95067.1

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

48

Unit IDs

8PPL|1|Iw|G|7
8PPL|1|Iw|U|8
8PPL|1|Iw|1MG|9
8PPL|1|Iw|2MG|10
*
8PPL|1|Iw|U|24
8PPL|1|Iw|2MG|25
8PPL|1|Iw|C|26
*
8PPL|1|Iw|G|42
8PPL|1|Iw|A|43
8PPL|1|Iw|G|44
8PPL|1|Iw|G7M|45
8PPL|1|Iw|H2U|46
8PPL|1|Iw|5MC|47
8PPL|1|Iw|G|48
*
8PPL|1|Iw|C|64
8PPL|1|Iw|C|65

Current chains

Chain Iw

Met-tRNAi(Met)

Nearby chains

Chain A2

Small subunit ribosomal RNA; SSU rRNA

Chain Ir

Eukaryotic translation initiation factor 2 subunit 1

Chain Is

Eukaryotic translation initiation factor 2 subunit 2