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

General features for molecule PDB_00182 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00182 Molecule name [?]: NMR STRUCTURE OF THE ACTIVE CONFORMATION OF THE VS RIBOZYME CLEAVAGE SITE Source [?]: RCSB Protein Data Bank Source ID [?]: 1OW9 Reference [?]: B.HOFFMANN,G.T.MITCHELL,P.GENDRON,F.MAJOR, A.A.ANDERSEN,R.A.COLLINS,P.LEGAULT. NMR STRUCTURE OF THE ACTIVE CONFORMATION OF THE VARKUD SATELLITE RIBOZYME CLEAVAGE SITE. PROC.NATL.ACAD.SCI.USA V. 100 7003 2003 ASTM PNASA6 US ISSN 0027-8424 Type [?]: Other Ribozyme [?]     PS figure     PDF figure Figure from original source Organism [?]: N/A Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 23 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 5 Number of paired bases [?]: 18

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 9 Maximum length of a stem [?]: 5 Average length of a stem [?]: 4.5 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -4.6 Average estimated free energy [?]: -6.25 Minimum estimated free energy [?]: -7.9

Hairpin loop features Number of hairpin loops [?]: 1 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: 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

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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