HL_6SW9_032

3D structure

PDB id

6SW9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

IC2A model of cryo-EM structure of a full archaeal ribosomal translation initiation complex devoid of aIF1 in P. abyssi

Experimental method

ELECTRON MICROSCOPY

Resolution

4.2 Å

Loop

Sequence

G(5MU)(PSU)CAAAUC

Length

9 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: 5MU, PSU

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_6SW9_032 not in the Motif Atlas

Homologous match to HL_1SER_002

Geometric discrepancy: 0.3666

The information below is about HL_1SER_002

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_28252.6

Basepair signature

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

Number of instances in this motif group

140

Unit IDs

6SW9|1|4|G|53
6SW9|1|4|5MU|54
6SW9|1|4|PSU|55
6SW9|1|4|C|56
6SW9|1|4|A|57
6SW9|1|4|A|58
6SW9|1|4|A|59
6SW9|1|4|U|60
6SW9|1|4|C|61

Current chains

Chain 4

initiator Met-tRNA fMet from E. coli (A1U72 variant)

Nearby chains