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

General features for molecule PDB_00040 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00040 Molecule name [?]: STRUCTURE OF THE RIBOZYME SUBSTRATE HAIRPIN OF NEUROSPORA VS RNA. A CLOSE LOOK AT THE CLEAVAGE SITE Source [?]: RCSB Protein Data Bank Source ID [?]: 1E4P Reference [?]: P.J.MICHIELS,C.H.SCHOUTEN,C.W.HILBERS,H.A.HEUS. STRUCTURE OF THE RIBOZYME SUBSTRATE HAIRPIN OF NEUROSPORA VS RNA: A CLOSE LOOK AT THE CLEAVAGE SITE.. RNA V. 6 1821 2000 ASTM RNARFU UK ISSN 1355-8382 Type [?]: Other Ribozyme [?]     PS figure     PDF figure Figure from original source Organism [?]: NEUROSPORA Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 24 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 4 Number of paired bases [?]: 20

Click on any header below for additional features.

Stem features Number of stems [?]: 1 Number of base pairs in stems [?]: 10 Maximum length of a stem [?]: 10 Average length of a stem [?]: 10 Minimum length of a stem [?]: 10 Maximum estimated free energy [?]: -11.9 Average estimated free energy [?]: -11.9 Minimum estimated free energy [?]: -11.9

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 4 Average number of free bases in hairpin loops [?]: 4 Minimum number of free bases in hairpin loop [?]: 4

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

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 3 Total number of AC non-canonical base pairs: 1 Total number of AG non-canonical base pairs: 2

Pseudoknot features

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