RNA STRAND v2.0
- The RNA secondary STRucture and statistical ANalysis Database
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General features for molecule PDB_00181
(click to expand/contract all tables)
Format:
CT
RNAML
Bpseq
Dot-parentheses
FASTA
Molecule ID [
?
]:
PDB_00181
Molecule name [
?
]:
THE STEM OF SL1 RNA IN HIV-1: STRUCTURE AND NUCLEOCAPSID PROTEIN BINDING FOR A 1X3 INTERNAL LOOP
Source [
?
]:
RCSB Protein Data Bank
Source ID [
?
]:
1OSW
Reference [
?
]:
Y.YUAN,D.J.KERWOOD,A.C.PAOLETTI,M.F.SHUBSDA, P.N.BORER. STEM OF SL1 RNA IN HIV-1: STRUCTURE AND NUCLEOCAPSID PROTEIN BINDING FOR A 1X3 INTERNAL LOOP. BIOCHEMISTRY V. 42 5259 2003 ASTM BICHAW US ISSN 0006-2960
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 [
?
]:
NMR; ran through RNAview
Number of molecules [
?
]:
1
Length [
?
]:
22
Fragments used [
?
]:
No
Duplicated sequence [
?
]:
No other molecule in the database has the same sequence
Number of domains [
?
]:
1
Number of unpaired bases [
?
]:
4
Number of paired bases [
?
]:
18
Click on any header below for additional features.
Stem features
Number of stems [
?
]:
2
Number of base pairs in stems [
?
]:
9
Maximum length of a stem [
?
]:
5
Average length of a stem [
?
]:
4.5
Minimum length of a stem [
?
]:
4
Maximum estimated free energy [
?
]:
-7.8
Average estimated free energy [
?
]:
-7.85
Minimum estimated free energy [
?
]:
-7.9
Hairpin loop features
Number of hairpin loops [
?
]:
1
Maximum number of free bases in hairpin loops [
?
]:
2
Average number of free bases in hairpin loops [
?
]:
2
Minimum number of free bases in hairpin loop [
?
]:
2
Bulge loop features
Number of bulge loops [
?
]:
1
Maximum number of free bases in bulge loops [
?
]:
2
Average number of free bases in bulge loops [
?
]:
1
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 [
?
]:
1
Total number of AG non-canonical base pairs:
1
Pseudoknot features
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