RNA STRAND molecule page

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

General features for molecule PDB_00088
(click to expand/contract all tables)

Format:

Molecule ID [?]:	PDB_00088
Molecule name [?]:	SOLUTION STRUCTURE OF THE VS RIBOZYME SUBSTRATE STEM-LOOP
Source [?]:	RCSB Protein Data Bank
Source ID [?]:	1HWQ
Reference [?]:	J.FLINDERS,T.DIECKMANN. A PH CONTROLLED CONFORMATIONAL SWITCH IN THE CLEAVAGE SITE OF THE VS RIBOZYME SUBSTRATE RNA.. J.MOL.BIOL. V. 308 665 2001 ASTM JMOBAK UK ISSN 0022-2836
Type [?]:	Other Ribozyme	[?] 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 [?]:	1
Length [?]:	30
Fragments used [?]:	No
Duplicated sequence [?]:	No other molecule in the database has the same sequence
Number of domains [?]:	1
Number of unpaired bases [?]:	6
Number of paired bases [?]:	24

Click on any header below for additional features.

Stem features

Number of stems [?]:	1
Number of base pairs in stems [?]:	12
Maximum length of a stem [?]:	12
Average length of a stem [?]:	12
Minimum length of a stem [?]:	12
Maximum estimated free energy [?]:	-20.6
Average estimated free energy [?]:	-20.6
Minimum estimated free energy [?]:	-20.6

Hairpin loop features

Number of hairpin loops [?]:	1
Maximum number of free bases in hairpin loops [?]:	6
Average number of free bases in hairpin loops [?]:	6
Minimum number of free bases in hairpin loop [?]:	6

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

Multi-loop features

Non-canonical base pairs features

Total number of non-canonical base pairs [?]:	3
Total number of AC non-canonical base pairs:	1
Total number of AG non-canonical base pairs:	2

Pseudoknot features