RNA STRAND molecule page

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

General features for molecule PDB_00258
(click to expand/contract all tables)

Format:

Molecule ID [?]:	PDB_00258
Molecule name [?]:	STRUCTURE OF THE 3' HAIRPIN OF THE TYMV PSEUDOKNOT: PREFORMATION IN RNA FOLDING
Source [?]:	RCSB Protein Data Bank
Source ID [?]:	3PHP
Reference [?]:	M.H.KOLK,M.VAN DER GRAAF,C.T.FRANSEN,S.S.WIJMENGA, C.W.PLEIJ,H.A.HEUS,C.W.HILBERS. STRUCTURE OF THE 3'-HAIRPIN OF THE TYMV PSEUDOKNOT: PREFORMATION IN RNA FOLDING.. EMBO J. V. 17 7498 1998 ASTM EMJODG UK ISSN 0261-4189
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 [?]:	23
Fragments used [?]:	No
Duplicated sequence [?]:	No other molecule in the database has the same sequence
Number of domains [?]:	1
Number of unpaired bases [?]:	7
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 [?]:	-16.9
Average estimated free energy [?]:	-16.9
Minimum estimated free energy [?]:	-16.9

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 [?]:

Pseudoknot features