RNA STRAND v2.0
- The RNA secondary STRucture and statistical ANalysis Database
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General features for molecule PDB_00835
(click to expand/contract all tables)
Format:
CT
RNAML
Bpseq
Dot-parentheses
FASTA
Molecule ID [
?
]:
PDB_00835
Molecule name [
?
]:
HIV-1 DIS(MAL) DUPLEX CO HEXAMINE-SOAKED
Source [
?
]:
RCSB Protein Data Bank
Source ID [
?
]:
1Y6T
Reference [
?
]:
E.ENNIFAR,P.WALTER,P.DUMAS. A CRYSTALLOGRAPHIC STUDY OF THE BINDING OF 13 METAL IONS TO TWO RELATED RNA DUPLEXES. NUCLEIC ACIDS RES. V. 31 2671 2003 ASTM NARHAD UK ISSN 0305-1048
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 2.60 ANGSTROMS; ran through RNAview
Number of molecules [
?
]:
2
Length [
?
]:
46
Fragments used [
?
]:
No
Duplicated sequence [
?
]:
Molecules in the database with the same sequence:
PDB_00174
,
PDB_00179
,
PDB_00803
,
PDB_00818
,
PDB_00834
,
PDB_00836
,
PDB_00837
,
PDB_00838
,
PDB_00839
,
PDB_00951
,
PDB_00272
Number of domains [
?
]:
1
Number of unpaired bases [
?
]:
2
Number of paired bases [
?
]:
44
Click on any header below for additional features.
Stem features
Number of stems [
?
]:
3
Number of base pairs in stems [
?
]:
22
Maximum length of a stem [
?
]:
8
Average length of a stem [
?
]:
7.33
Minimum length of a stem [
?
]:
7
Maximum estimated free energy [
?
]:
-12
Average estimated free energy [
?
]:
-12.47
Minimum estimated free energy [
?
]:
-12.7
Hairpin loop features
Number of hairpin loops [
?
]:
1
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 [
?
]:
2
Total number of AG non-canonical base pairs:
2
Pseudoknot features
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