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

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General features for molecule PDB_00864
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00864
Molecule name [?]:LOCALIZATION AND DYNAMIC BEHAVIOR OF RIBOSOMAL PROTEIN L30E
Source [?]:RCSB Protein Data Bank
Source ID [?]:1YSH
Reference [?]:M.HALIC,T.BECKER,J.FRANK,C.M.SPAHN,R.BECKMANN. LOCALIZATION AND DYNAMIC BEHAVIOR OF RIBOSOMAL PROTEIN L30E. NAT.STRUCT.MOL.BIOL. V. 12 467 2005 US ISSN 1545-9993
Type [?]:Other Ribosomal RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:ORYZA SATIVA
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:X-RAY, RESOLUTION 9.50 ANGSTROMS; ran through RNAview
Number of molecules [?]:3
Length [?]:162
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:3
Number of unpaired bases [?]:36
Number of paired bases [?]:126

Click on any header below for additional features.

Stem features

Number of stems [?]:9
Number of base pairs in stems [?]:63
Maximum length of a stem [?]:15
Average length of a stem [?]:7
Minimum length of a stem [?]:3
Maximum estimated free energy [?]:-3.4
Average estimated free energy [?]:-9.7
Minimum estimated free energy [?]:-16.7

Hairpin loop features

Number of hairpin loops [?]:4
Maximum number of free bases in hairpin loops [?]:5
Average number of free bases in hairpin loops [?]:3.25
Minimum number of free bases in hairpin loop [?]:2

Bulge loop features
Number of bulge loops [?]:3
Maximum number of free bases in bulge loops [?]:3
Average number of free bases in bulge loops [?]:0.83
Minimum number of free bases in bulge loop [?]:0

Internal loop features
Number of internal loops [?]:1
Maximum number of free bases in internal loops:2
Average number of free bases in internal loops:1.5
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:1
Average internal loop absolute asymmetry:1
Minimum internal loop absolute asymmetry:1
Maximum internal loop relative asymmetry:2
Average internal loop relative asymmetry:2
Minimum internal loop relative asymmetry:2

Multi-loop features
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:7
Average number of free bases in multi-loops:2.67
Minimum number of free bases in multi-loop:0
Maximum multi-loop absolute asymmetry:7
Average multi-loop absolute asymmetry:4.67
Minimum multi-loop absolute asymmetry:1
Maximum multi-loop relative asymmetry:7
Average multi-loop relative asymmetry:1.79
Minimum multi-loop relative asymmetry:0
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 [?]: 17
Total number of AA non-canonical base pairs:2
Total number of AG non-canonical base pairs:12
Total number of GG non-canonical base pairs:3

Pseudoknot features



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