RNA STRAND molecule page

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

General features for molecule PDB_00008
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Format:

Molecule ID [?]:	PDB_00008
Molecule name [?]:	SOLUTION STRUCTURE OF THE P5B STEM LOOP FROM A GROUP I INTRON COMPLEXED WITH COBALT (III) HEXAMMINE,
Source [?]:	RCSB Protein Data Bank
Source ID [?]:	1AJF
Reference [?]:	J.S.KIEFT,I.TINOCO JR.. SOLUTION STRUCTURE OF A METAL-BINDING SITE IN THE MAJOR GROOVE OF RNA COMPLEXED WITH COBALT (III) HEXAMMINE.. STRUCTURE V. 5 713 1997 ASTM STRUE6 UK ISSN 0969-2126
Type [?]:	Group I Intron	[?] 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 [?]:	18
Fragments used [?]:	Yes
Duplicated sequence [?]:	No other molecule in the database has the same sequence
Number of domains [?]:	1
Number of unpaired bases [?]:	2
Number of paired bases [?]:	16

Click on any header below for additional features.

Stem features

Number of stems [?]:	1
Number of base pairs in stems [?]:	8
Maximum length of a stem [?]:	8
Average length of a stem [?]:	8
Minimum length of a stem [?]:	8
Maximum estimated free energy [?]:	-9.9
Average estimated free energy [?]:	-9.9
Minimum estimated free energy [?]:	-9.9

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

Multi-loop features

Non-canonical base pairs features

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

Pseudoknot features