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

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General features for molecule PDB_01255
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_01255
Molecule name [?]:HIGH RESOLUTION STRUCTURE OF A SPECIFIC SYNTHETIC FAB BOUND TO P4-P6 RNA RIBOZYME DOMAIN
Source [?]:RCSB Protein Data Bank
Source ID [?]:2R8S
Reference [?]:J.D.YE,V.TERESHKO,J.K.FREDERIKSEN,A.KOIDE, F.A.FELLOUSE,S.S.SIDHU,S.KOIDE,A.A.KOSSIAKOFF, J.A.PICCIRILLI. SYNTHETIC ANTIBODIES FOR SPECIFIC RECOGNITION AND CRYSTALLIZATION OF STRUCTURED RNA. PROC.NATL.ACAD.SCI.USA ASTM PNASA6 US ESSN 1091-6490
Type [?]:Other Ribozyme

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:MUS MUSCULUS
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:X-RAY, RESOLUTION 1.95 ANGSTROMS; ran through RNAview
Number of molecules [?]:1
Length [?]:159
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:2
Number of unpaired bases [?]:47
Number of paired bases [?]:112

Click on any header below for additional features.

Stem features

Number of stems [?]:11
Number of base pairs in stems [?]:56
Maximum length of a stem [?]:10
Average length of a stem [?]:5.09
Minimum length of a stem [?]:2
Maximum estimated free energy [?]:0
Average estimated free energy [?]:-6.78
Minimum estimated free energy [?]:-13.6

Hairpin loop features

Number of hairpin loops [?]:3
Maximum number of free bases in hairpin loops [?]:5
Average number of free bases in hairpin loops [?]:4.67
Minimum number of free bases in hairpin loop [?]:4

Bulge loop features
Number of bulge loops [?]:3
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
Number of internal loops [?]:4
Maximum number of free bases in internal loops:6
Average number of free bases in internal loops:2
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:5
Average internal loop absolute asymmetry:1.5
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:6
Average internal loop relative asymmetry:2.25
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:4
Average number of free bases in multi-loops:2
Minimum number of free bases in multi-loop:1
Maximum multi-loop absolute asymmetry:3
Average multi-loop absolute asymmetry:2
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:4
Average multi-loop relative asymmetry:1.75
Minimum multi-loop relative asymmetry:0.25
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 [?]: 9
Total number of AA non-canonical base pairs:3
Total number of AC non-canonical base pairs:1
Total number of AG non-canonical base pairs:4
Total number of CC non-canonical base pairs:1

Pseudoknot features



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