HL_9E5K_001

3D structure

PDB id

9E5K (explore in PDB, NAKB, or RNA 3D Hub)

Description

env2 cobalamin riboswitch aptamer domain in complex with ethynyl-3-methylbenzene-cobalamin

Experimental method

X-RAY DIFFRACTION

Resolution

1.9 Å

Loop

Sequence

GUGAAAUUC

Length

9 nucleotides

Bulged bases

9E5K|1|A|U|32, 9E5K|1|A|U|33

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_9E5K_001 not in the Motif Atlas

Geometric match to HL_3F2X_001

Geometric discrepancy: 0.1084

The information below is about HL_3F2X_001

Detailed Annotation

T-loop with 2 bulged bases not stacked

Broad Annotation

T-loop

Motif group

HL_13999.2

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

22

Unit IDs

9E5K|1|A|G|26
9E5K|1|A|U|27
9E5K|1|A|G|28
9E5K|1|A|A|29
9E5K|1|A|A|30
9E5K|1|A|A|31
9E5K|1|A|U|32
9E5K|1|A|U|33
9E5K|1|A|C|34

Current chains

Chain A

RNA (76-MER)

Nearby chains

Chain B

RNA (76-MER)

Chain C

RNA (76-MER)