RNA STRAND molecule page

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

General features for molecule PDB_00002
(click to expand/contract all tables)

Format:

Molecule ID [?]:	PDB_00002
Molecule name [?]:	BRANCHPOINT HELIX FROM YEAST AND BINDING SITE FOR PHAGE GA/MS2 COAT PROTEINS, NMR, 12 STRUCTURES
Source [?]:	RCSB Protein Data Bank
Source ID [?]:	17RA
Reference [?]:	J.S.SMITH,E.P.NIKONOWICZ. NMR STRUCTURE AND DYNAMICS OF AN RNA MOTIF COMMON TO THE SPLICEOSOME BRANCH-POINT HELIX AND THE RNA-BINDING SITE FOR PHAGE GA COAT PROTEIN.. BIOCHEMISTRY V. 37 13486 1998 ASTM BICHAW US ISSN 0006-2960
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 [?]:	21
Fragments used [?]:	Yes
Duplicated sequence [?]:	No other molecule in the database has the same sequence
Number of domains [?]:	1
Number of unpaired bases [?]:	5
Number of paired bases [?]:	16

Click on any header below for additional features.

Stem features

Number of stems [?]:	2
Number of base pairs in stems [?]:	8
Maximum length of a stem [?]:	5
Average length of a stem [?]:	4
Minimum length of a stem [?]:	3
Maximum estimated free energy [?]:	-5.4
Average estimated free energy [?]:	-7.45
Minimum estimated free energy [?]:	-9.5

Hairpin loop features

Number of hairpin loops [?]:	1
Maximum number of free bases in hairpin loops [?]:	4
Average number of free bases in hairpin loops [?]:	4
Minimum number of free bases in hairpin loop [?]:	4

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