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

    [ Home | Search | Analyse | Submit structures | News | Help ]



General features for molecule PDB_00749
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00749
Molecule name [?]:GUANINE RIBOSWITCH BOUND TO HYPOXANTHINE
Source [?]:RCSB Protein Data Bank
Source ID [?]:1U8D
Reference [?]:R.T.BATEY,S.D.GILBERT,R.K.MONTANGE. STRUCTURE OF A NATURAL GUANINE-RESPONSIVE RIBOSWITCH COMPLEXED WITH THE METABOLITE HYPOXANTHINE.. NATURE V. 432 411 2004 ASTM NATUAS UK ISSN 0028-0836
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 1.95 ANGSTROMS; ran through RNAview
Number of molecules [?]:1
Length [?]:67
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:19
Number of paired bases [?]:48

Click on any header below for additional features.

Stem features

Number of stems [?]:1
Number of base pairs in stems [?]:7
Maximum length of a stem [?]:7
Average length of a stem [?]:7
Minimum length of a stem [?]:7
Maximum estimated free energy [?]:-12.4
Average estimated free energy [?]:-12.4
Minimum estimated free energy [?]:-12.4

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:3
Average number of free bases in internal loops:2.5
Minimum number of free bases in internal loop:2
Maximum internal loop absolute asymmetry:1
Average internal loop absolute asymmetry:1
Minimum internal loop absolute asymmetry:1
Maximum internal loop relative asymmetry:1
Average internal loop relative asymmetry:1
Minimum internal loop relative asymmetry:1

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:17
Maximum band length:7
Average band length:5.67
Minimum band length:4
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:4
Maximum number of base pairs to remove, per pseudoknot:4
Average number of base pairs to remove, per pseudoknot:4
Minimum number of base pairs to remove, per pseudoknot:4
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



    [ Home | Search | Analyse | Submit structures | News | Help ]

For questions, comments, suggestions and bug reports, please contact:

Copyright © 2004-2008 BETA LAB - University of British Columbia