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

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



General features for molecule PDB_00214
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00214
Molecule name [?]:THE SARCIN-RICIN LOOP, A MODULAR RNA
Source [?]:RCSB Protein Data Bank
Source ID [?]:1SCL
Reference [?]:A.A.SZEWCZAK,P.B.MOORE,Y.L.CHANG,I.G.WOOL. THE CONFORMATION OF THE SARCIN/RICIN LOOP FROM 28S RIBOSOMAL RNA.. PROC.NATL.ACAD.SCI.USA V. 90 9581 1993 ASTM PNASA6 US ISSN 0027-8424
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 [?]:29
Fragments used [?]:Yes
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00265
Number of domains [?]:1
Number of unpaired bases [?]:7
Number of paired bases [?]:22

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:11
Maximum length of a stem [?]:7
Average length of a stem [?]:5.5
Minimum length of a stem [?]:4
Maximum estimated free energy [?]:0
Average estimated free energy [?]:-7.15
Minimum estimated free energy [?]:-14.3

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 [?]: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 [?]: 3
Total number of AG non-canonical base pairs:2
Total number of CU 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