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

General features for molecule PDB_00247 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00247 Molecule name [?]: CAPTURING THE STRUCTURE OF A CATALYTIC RNA INTERMEDIATE: RNA HAMMERHEAD RIBOZYME, MG(II)-SOAKED Source [?]: RCSB Protein Data Bank Source ID [?]: 301D Reference [?]: W.G.SCOTT,J.B.MURRAY,J.R.ARNOLD,B.L.STODDARD,A.KLUG. CAPTURING THE STRUCTURE OF A CATALYTIC RNA INTERMEDIATE: THE HAMMERHEAD RIBOZYME.. SCIENCE V. 274 2065 1996 ASTM SCIEAS US ISSN 0036-8075 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 3.00 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_00251, PDB_00255 Number of domains [?]: 1 Number of unpaired bases [?]: 5 Number of paired bases [?]: 36

Click on any header below for additional features.

Stem features Number of stems [?]: 3 Number of base pairs in stems [?]: 18 Maximum length of a stem [?]: 7 Average length of a stem [?]: 6 Minimum length of a stem [?]: 5 Maximum estimated free energy [?]: -6.7 Average estimated free energy [?]: -8.83 Minimum estimated free energy [?]: -10

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 [?]: 1 Minimum number of free bases in hairpin loop [?]: 0

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

Pseudoknot features

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