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

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General features for molecule PDB_00343
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00343
Molecule name [?]:DETAILED VIEW OF A KEY ELEMENT OF THE RIBOSOME ASSEMBLY: CRYSTAL STRUCTURE OF THE S15-RRNA COMPLEX
Source [?]:RCSB Protein Data Bank
Source ID [?]:1DK1
Reference [?]:A.NIKULIN,A.SERGANOV,E.ENNIFAR,S.TISHCHENKO, N.NEVSKAYA,W.SHEPARD,C.PORTIER,M.GARBER, B.EHRESMANN,C.EHRESMANN,S.NIKONOV,P.DUMAS. CRYSTAL STRUCTURE OF THE S15-RRNA COMPLEX.. NAT.STRUCT.BIOL. V. 7 273 2000 ASTM NSBIEW US ISSN 1072-8368
Type [?]:Other Ribosomal RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:THERMUS THERMOPHILUS
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:X-RAY, RESOLUTION 2.80 ANGSTROMS; ran through RNAview
Number of molecules [?]:1
Length [?]:57
Fragments used [?]:Yes
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00394, PDB_00535
Number of domains [?]:1
Number of unpaired bases [?]:15
Number of paired bases [?]:42

Click on any header below for additional features.

Stem features

Number of stems [?]:5
Number of base pairs in stems [?]:21
Maximum length of a stem [?]:7
Average length of a stem [?]:4.2
Minimum length of a stem [?]:3
Maximum estimated free energy [?]:-4.6
Average estimated free energy [?]:-7
Minimum estimated free energy [?]:-9.1

Hairpin loop features

Number of hairpin loops [?]:2
Maximum number of free bases in hairpin loops [?]:4
Average number of free bases in hairpin loops [?]:3
Minimum number of free bases in hairpin loop [?]:2
Total number of UUCG hairpin motifs per molecule [?]:1

Bulge loop features
Number of bulge loops [?]:2
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
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:3
Average number of free bases in multi-loops:2.33
Minimum number of free bases in multi-loop:1
Maximum multi-loop absolute asymmetry:2
Average multi-loop absolute asymmetry:1.33
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:3
Average multi-loop relative asymmetry:1.44
Minimum multi-loop relative asymmetry:0.33
Maximum number of branches in multi-loops:3
Average number of branches in multi-loops:3
Minimum number of branches in multi-loops:3

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 2
Total number of AG non-canonical base pairs:1
Total number of GG non-canonical base pairs:1

Pseudoknot features



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