RNA STRAND v2.0
- The RNA secondary STRucture and statistical ANalysis Database
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General features for molecule PDB_00184
(click to expand/contract all tables)
Format:
CT
RNAML
Bpseq
Dot-parentheses
FASTA
Molecule ID [
?
]:
PDB_00184
Molecule name [
?
]:
SOLUTION STRUCTURE OF HCV IRES DOMAIN IIB
Source [
?
]:
RCSB Protein Data Bank
Source ID [
?
]:
1P5N
Reference [
?
]:
P.J.LUKAVSKY,I.KIM,G.A.OTTO,J.D.PUGLISI. STRUCTURE OF HCV IRES DOMAIN II DETERMINED BY NMR.. NAT.STRUCT.BIOL. V. 10 1033 2003 ASTM NSBIEW US ISSN 1072-8368
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 [
?
]:
34
Fragments used [
?
]:
Yes
Duplicated sequence [
?
]:
No other molecule in the database has the same sequence
Number of domains [
?
]:
1
Number of unpaired bases [
?
]:
8
Number of paired bases [
?
]:
26
Click on any header below for additional features.
Stem features
Number of stems [
?
]:
2
Number of base pairs in stems [
?
]:
13
Maximum length of a stem [
?
]:
7
Average length of a stem [
?
]:
6.5
Minimum length of a stem [
?
]:
6
Maximum estimated free energy [
?
]:
-8.8
Average estimated free energy [
?
]:
-9.15
Minimum estimated free energy [
?
]:
-9.5
Hairpin loop features
Number of hairpin loops [
?
]:
1
Maximum number of free bases in hairpin loops [
?
]:
7
Average number of free bases in hairpin loops [
?
]:
7
Minimum number of free bases in hairpin loop [
?
]:
7
Bulge loop features
Number of bulge loops [
?
]:
1
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 [
?
]:
2
Total number of AA non-canonical base pairs:
1
Total number of AG non-canonical base pairs:
1
Pseudoknot features
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