IL_1JZV_002

3D structure

PDB id

1JZV (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of a bulged RNA from the SL2 stem-loop of the HIV-1 psi-RNA

Experimental method

X-RAY DIFFRACTION

Resolution

1.7 Å

Loop

Sequence

GA*UAC

Length

5 nucleotides

Bulged bases (A, C, G, U)

13A

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

Detailed Annotation

Single bulged A

Broad Annotation

No text annotation

Motif group

IL_37497.7

Basepair signature

cWW-L-cWW

Number of instances in this motif group

120

Unit IDs

1JZV|1|A|G|4
1JZV|1|A|A|5
*
1JZV|1|B|U|12
1JZV|1|B|A|13
1JZV|1|B|C|14

Current chains

Chain A

5'-R(*GP*GP*CP*GP*AP*CP*(5BU)P*G)-3'

Chain B

5'-R(*CP*AP*GP*UP*AP*CP*GP*(5IC)P*C)-3'

Nearby chains

Chain C

5'-R(*GP*GP*CP*GP*AP*CP*(5BU)P*G)-3'

Chain D

5'-R(*CP*AP*GP*UP*AP*CP*GP*(5IC)P*C)-3'