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

General features for molecule PDB_00255 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00255 Molecule name [?]: THE STRUCTURAL BASIS OF HAMMERHEAD RIBOZYME SELF-CLEAVAGE Source [?]: RCSB Protein Data Bank Source ID [?]: 379D Reference [?]: J.B.MURRAY,D.P.TERWEY,L.MALONEY,A.KARPEISKY, N.USMAN,L.BEIGELMAN,W.G.SCOTT. THE STRUCTURAL BASIS OF HAMMERHEAD RIBOZYME SELF-CLEAVAGE.. CELL V. 92 665 1998 ASTM CELLB5 US ISSN 0092-8674 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 3.10 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 41 Fragments used [?]: No Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00239, PDB_00246, PDB_00247, PDB_00251 Number of domains [?]: 1 Number of unpaired bases [?]: 13 Number of paired bases [?]: 28

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 14 Maximum length of a stem [?]: 5 Average length of a stem [?]: 3.5 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -5.25 Minimum estimated free energy [?]: -9.8

Hairpin loop features Number of hairpin loops [?]: 2 Maximum number of free bases in hairpin loops [?]: 2 Average number of free bases in hairpin loops [?]: 2 Minimum number of free bases in hairpin loop [?]: 2

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 Number of internal loops [?]: 1 Maximum number of free bases in internal loops: 1 Average number of free bases in internal loops: 1 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 0 Average internal loop absolute asymmetry: 0 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 1 Average internal loop relative asymmetry: 1 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: 2.33 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: 1 Maximum multi-loop relative asymmetry: 4 Average multi-loop relative asymmetry: 1.54 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 [?]: 2 Total number of AG non-canonical base pairs: 2

Pseudoknot features

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