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

General features for molecule PDB_01334 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01334 Molecule name [?]: CATALYTIC RNA ENZYME-PRODUCT COMPLEX Source [?]: RCSB Protein Data Bank Source ID [?]: 488D Reference [?]: J.B.MURRAY,H.SZOKE,A.SZOKE,W.G.SCOTT. CAPTURE AND VISUALIZATION OF A CATALYTIC RNA ENZYME-PRODUCT COMPLEX USING CRYSTAL LATTICE TRAPPING AND X-RAY HOLOGRAPHIC RECONSTRUCTION.. MOL.CELL V. 5 279 2000 ASTM MOCEFL US ISSN 1097-2765 Type [?]: Synthetic RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: SYNTHETIC Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 3.10 ANGSTROMS; ran through RNAview Number of molecules [?]: 4 Length [?]: 66 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 38 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 [?]: 3 Maximum estimated free energy [?]: -2.4 Average estimated free energy [?]: -5.33 Minimum estimated free energy [?]: -9.8

Hairpin loop features Number of hairpin loops [?]: 3 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

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 7 Average number of free bases in multi-loops: 5 Minimum number of free bases in multi-loop: 3 Maximum multi-loop absolute asymmetry: 4 Average multi-loop absolute asymmetry: 2.67 Minimum multi-loop absolute asymmetry: 2 Maximum multi-loop relative asymmetry: 2.33 Average multi-loop relative asymmetry: 1.19 Minimum multi-loop relative asymmetry: 0.43 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