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

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General features for molecule PDB_01181
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_01181
Molecule name [?]:FULL-LENGTH HAMMERHEAD RIBOZYME WITH MN(II) BOUND
Source [?]:RCSB Protein Data Bank
Source ID [?]:2OEU
Reference [?]:M.MARTICK,W.G.SCOTT. FULL-LENGTH HAMMERHEAD RIBOZYME WITH MN(II) BOUND. TO BE PUBLISHED
Type [?]:Hammerhead Ribozyme

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:N/A
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:X-RAY, RESOLUTION 2.00 ANGSTROMS; ran through RNAview
Number of molecules [?]:2
Length [?]:63
Fragments used [?]:No
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_01077
Number of domains [?]:1
Number of unpaired bases [?]:21
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 [?]:6
Average length of a stem [?]:4.2
Minimum length of a stem [?]:2
Maximum estimated free energy [?]:0
Average estimated free energy [?]:-7.18
Minimum estimated free energy [?]:-11.3

Hairpin loop features

Number of hairpin loops [?]:2
Maximum number of free bases in hairpin loops [?]:6
Average number of free bases in hairpin loops [?]:3
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 [?]:2
Average number of free bases in bulge loops [?]:1
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:3
Average number of free bases in internal loops:2
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:2
Average internal loop absolute asymmetry:2
Minimum internal loop absolute asymmetry:2
Maximum internal loop relative asymmetry:3
Average internal loop relative asymmetry:3
Minimum internal loop relative asymmetry:3

Multi-loop features
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:6
Average number of free bases in multi-loops:3
Minimum number of free bases in multi-loop:1
Maximum multi-loop absolute asymmetry:5
Average multi-loop absolute asymmetry:3.33
Minimum multi-loop absolute asymmetry:1
Maximum multi-loop relative asymmetry:6
Average multi-loop relative asymmetry:2
Minimum multi-loop relative asymmetry:0.17
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 CU non-canonical base pairs:1

Pseudoknot features



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