RNA STRAND v2.0
- The RNA secondary STRucture and statistical ANalysis Database
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General features for molecule PDB_00115
(click to expand/contract all tables)
Format:
CT
RNAML
Bpseq
Dot-parentheses
FASTA
Molecule ID [
?
]:
PDB_00115
Molecule name [
?
]:
CRYSTAL STRUCTURE OF A BULGED RNA FROM THE SL2 STEM-LOOP OF THE HIV-1 PSI-RNA
Source [
?
]:
RCSB Protein Data Bank
Source ID [
?
]:
1JZV
Reference [
?
]:
Y.XIONG,C.SUDARSANAKUMAR,J.DENG,M.PAN, M.SUNDARALINGAM. CRYSTAL STRUCTURE OF A BULGED RNA FROM THE SL2 STEM-LOOP OF THE HIV-1 PSI-RNA. TO BE PUBLISHED
Type [
?
]:
Synthetic RNA
[
?
]
PS figure
PDF figure
Figure from original source
Organism [
?
]:
SYNTHETIC
Validated by NMR or X-Ray [
?
]:
Yes
Method for secondary structure determination [
?
]:
X-RAY, RESOLUTION 1.70 ANGSTROMS; ran through RNAview
Number of molecules [
?
]:
4
Length [
?
]:
34
Fragments used [
?
]:
Yes
Duplicated sequence [
?
]:
No other molecule in the database has the same sequence
Number of domains [
?
]:
2
Number of unpaired bases [
?
]:
2
Number of paired bases [
?
]:
32
Click on any header below for additional features.
Stem features
Number of stems [
?
]:
4
Number of base pairs in stems [
?
]:
16
Maximum length of a stem [
?
]:
4
Average length of a stem [
?
]:
4
Minimum length of a stem [
?
]:
4
Maximum estimated free energy [
?
]:
-6.4
Average estimated free energy [
?
]:
-7.75
Minimum estimated free energy [
?
]:
-9.1
Hairpin loop features
Number of hairpin loops [
?
]:
2
Maximum number of free bases in hairpin loops [
?
]:
0
Average number of free bases in hairpin loops [
?
]:
0
Minimum number of free bases in hairpin loop [
?
]:
0
Bulge loop features
Number of bulge loops [
?
]:
2
Maximum number of free bases in bulge loops [
?
]:
1
Average number of free bases in bulge loops [
?
]:
0.5
Minimum number of free bases in bulge loop [
?
]:
0
Internal loop features
Multi-loop features
Non-canonical base pairs features
Total number of non-canonical base pairs [
?
]:
0
Pseudoknot features
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