RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

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General features for molecule PDB_00944
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00944
Molecule name [?]:GUANINE RIBOSWITCH C74U MUTANT BOUND TO 2,6-DIAMINOPURINE
Source [?]:RCSB Protein Data Bank
Source ID [?]:2B57
Reference [?]:S.D.GILBERT,C.D.STODDARD,S.J.WISE,R.T.BATEY. THERMODYNAMIC AND KINETIC CHARACTERIZATION OF LIGAND BINDING TO THE PURINE RIBOSWITCH APTAMER DOMAIN.. J.MOL.BIOL. V. 359 754 2006 ASTM JMOBAK UK ISSN 0022-2836
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 2.15 ANGSTROMS; ran through RNAview
Number of molecules [?]:1
Length [?]:65
Fragments used [?]:Yes
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:21
Number of paired bases [?]:44

Click on any header below for additional features.

Stem features

Number of stems [?]:1
Number of base pairs in stems [?]:6
Maximum length of a stem [?]:6
Average length of a stem [?]:6
Minimum length of a stem [?]:6
Maximum estimated free energy [?]:-9.1
Average estimated free energy [?]:-9.1
Minimum estimated free energy [?]:-9.1

Hairpin loop features

Number of hairpin loops [?]:0
Maximum number of free bases in hairpin loops [?]:N/A
Average number of free bases in hairpin loops [?]:N/A
Minimum number of free bases in hairpin loop [?]:N/A

Bulge loop features
Number of bulge loops [?]:0
Maximum number of free bases in bulge loops [?]:N/A
Average number of free bases in bulge loops [?]:N/A
Minimum number of free bases in bulge loop [?]:N/A

Internal loop features
Number of internal loops [?]:1
Maximum number of free bases in internal loops:5
Average number of free bases in internal loops:3.5
Minimum number of free bases in internal loop:2
Maximum internal loop absolute asymmetry:3
Average internal loop absolute asymmetry:3
Minimum internal loop absolute asymmetry:3
Maximum internal loop relative asymmetry:2
Average internal loop relative asymmetry:2
Minimum internal loop relative asymmetry:2

Multi-loop features

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 0

Pseudoknot features
Number of pseudoknots [?]:1
Number of bands:3
Number of base pairs in bands:16
Maximum band length:6
Average band length:5.33
Minimum band length:5
Maximum number of bands per pseudoknot:3
Average number of bands per pseudoknot:3
Minimum number of bands per pseudoknot:3
Maximum number of un-bands:0
Average number of un-bands:0
Minimum number of un-bands:0
Maximum number of in-bands:0
Average number of in-bands:0
Minimum number of in-bands:0
Maximum number of unpaired bases:14
Average number of unpaired bases:14
Minimum number of unpaired bases:14
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:5
Maximum number of base pairs to remove, per pseudoknot:5
Average number of base pairs to remove, per pseudoknot:5
Minimum number of base pairs to remove, per pseudoknot:5
Minimum number of bands to remove, per molecule:1
Maximum number of bands to remove, per pseudoknot:1
Average number of bands to remove, per pseudoknot:1
Minimum number of bands to remove, per pseudoknot:1



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