HL_2CZJ_004

3D structure

PDB id

2CZJ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8

Experimental method

X-RAY DIFFRACTION

Resolution

3.01 Å

Loop

Sequence

G(5MU)(PSU)CGACUC

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_2CZJ_004 not in the Motif Atlas

Geometric match to HL_5UD5_003

Geometric discrepancy: 0.3222

The information below is about HL_5UD5_003

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_28252.8

Basepair signature

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

Number of instances in this motif group

140

Unit IDs

2CZJ|1|D|G|53
2CZJ|1|D|5MU|54
2CZJ|1|D|PSU|55
2CZJ|1|D|C|56
2CZJ|1|D|G|57
2CZJ|1|D|A|58
2CZJ|1|D|C|59
2CZJ|1|D|U|60
2CZJ|1|D|C|61

Current chains

Chain D

tmRNA (63-MER)

Nearby chains

Chain A

SsrA-binding protein

Chain C

SsrA-binding protein