HL_4YVJ_001

3D structure

PDB id

4YVJ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal Structure of H. influenzae TrmD in complex with sinefungin and tRNA variant (G36U)

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

UAACGGUAG

Length

9 nucleotides

Bulged bases

4YVJ|1|C|C|16, 4YVJ|1|C|G|18, 4YVJ|1|C|G|19, 4YVJ|1|C|U|20

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_4YVJ_001 not in the Motif Atlas

Homologous match to HL_5B63_003

Geometric discrepancy: 0.1676

The information below is about HL_5B63_003

Detailed Annotation

tRNA D-loop

Broad Annotation

No text annotation

Motif group

HL_20490.1

Basepair signature

cWW-cWS-F

Number of instances in this motif group

13

Unit IDs

4YVJ|1|C|U|13
4YVJ|1|C|A|14
4YVJ|1|C|A|15
4YVJ|1|C|C|16
4YVJ|1|C|G|18
4YVJ|1|C|G|19
4YVJ|1|C|U|20
4YVJ|1|C|A|21
4YVJ|1|C|G|22

Current chains

Chain C

tRNA

Nearby chains