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

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



General features for molecule PDB_00003
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00003
Molecule name [?]:PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMATIONAL CHANGE IN THE A SITE OF 16S RRNA, NMR, 20 STRUCTU
Source [?]:RCSB Protein Data Bank
Source ID [?]:1A3M
Reference [?]:D.FOURMY,S.YOSHIZAWA,J.D.PUGLISI. PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMATIONAL CHANGE IN THE A-SITE OF 16 S RRNA.. J.MOL.BIOL. V. 277 333 1998 ASTM JMOBAK UK ISSN 0022-2836
Type [?]:Other RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:N/A
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:NMR; ran through RNAview
Number of molecules [?]:2
Length [?]:27
Fragments used [?]:Yes
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00023, PDB_00189
Number of domains [?]:1
Number of unpaired bases [?]:3
Number of paired bases [?]:24

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:12
Maximum length of a stem [?]:7
Average length of a stem [?]:6
Minimum length of a stem [?]:5
Maximum estimated free energy [?]:-9.1
Average estimated free energy [?]:-9.4
Minimum estimated free energy [?]:-9.7

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 [?]: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 UU non-canonical base pairs:1

Pseudoknot features



    [ 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