RNA STRAND molecule page

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

General features for molecule PDB_00108
(click to expand/contract all tables)

Format:

Molecule ID [?]:	PDB_00108
Molecule name [?]:	NMR STRUCTURE OF THE LP5.1 HAIRPIN FROM BACILLUS RNASE P RNA REFINED WITH RESIDUAL DIPOLAR COUPLINGS
Source [?]:	RCSB Protein Data Bank
Source ID [?]:	1JOX
Reference [?]:	T.C.LEEPER,M.B.MARTIN,H.KIM,S.COX,V.SEMENCHENKO, F.J.SCHMIDT,S.R.VAN DOREN. STRUCTURE OF THE UGAGAU HEXALOOP THAT BRACES BACILLUS RNASE P FOR ACTION.. NAT.STRUCT.BIOL. V. 9 397 2002 ASTM NSBIEW US ISSN 1072-8368
Type [?]:	Ribonuclease P 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 [?]:	1
Length [?]:	21
Fragments used [?]:	No
Duplicated sequence [?]:	Molecules in the database with the same sequence: PDB_00109
Number of domains [?]:	1
Number of unpaired bases [?]:	7
Number of paired bases [?]:	14

Click on any header below for additional features.

Stem features

Number of stems [?]:	2
Number of base pairs in stems [?]:	7
Maximum length of a stem [?]:	5
Average length of a stem [?]:	3.5
Minimum length of a stem [?]:	2
Maximum estimated free energy [?]:	-3.4
Average estimated free energy [?]:	-6.55
Minimum estimated free energy [?]:	-9.7

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 [?]:	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 [?]:

Pseudoknot features