IL_397D_001

3D structure

PDB id

397D (explore in PDB, NAKB, or RNA 3D Hub)

Description

A 1.3 A RESOLUTION CRYSTAL STRUCTURE OF THE HIV-1 TRANS-ACTIVATION RESPONSE REGION RNA STEM REVEALS A METAL ION-DEPENDENT BULGE CONFORMATION

Experimental method

X-RAY DIFFRACTION

Resolution

1.3 Å

Loop

Sequence

AUCUG*CU

Length

7 nucleotides

Bulged bases (A, C, G, U)

25U

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

Multiple bulged bases

Broad Annotation

No text annotation

Motif group

IL_59677.3

Basepair signature

cWW-cWW

Number of instances in this motif group

19

Unit IDs

397D|1|A|A|22
397D|1|A|U|23
397D|1|A|C|24
397D|1|A|U|25
397D|1|A|G|26
*
397D|1|B|C|39
397D|1|B|U|40

Current chains

Chain A

RNA (5'-R(*GP*GP*CP*CP*AP*GP*AP*UP*CP*UP*GP*AP*GP*CP*G)-3')

Chain B

RNA (5'-R(*GP*CP*UP*CP*UP*CP*UP*GP*GP*CP*CP*C)-3')

Nearby chains