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

General features for molecule PDB_01118 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01118 Molecule name [?]: CRYSTAL STRUCTURE OF AN H/ACA BOX RNP FROM PYROCOCCUS FURIOSUS Source [?]: RCSB Protein Data Bank Source ID [?]: 2HVY Reference [?]: L.LI,K.YE. CRYSTAL STRUCTURE OF AN H/ACA BOX RIBONUCLEOPROTEIN PARTICLE. NATURE V. 443 302 2006 ASTM NATUAS UK ISSN 1476-4687 Type [?]: Transfer RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: PYROCOCCUS FURIOSUS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 2.30 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 57 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 19 Number of paired bases [?]: 38

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 19 Maximum length of a stem [?]: 10 Average length of a stem [?]: 9.5 Minimum length of a stem [?]: 9 Maximum estimated free energy [?]: -18.1 Average estimated free energy [?]: -20.85 Minimum estimated free energy [?]: -23.6

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 6 Average number of free bases in hairpin loops [?]: 6 Minimum number of free bases in hairpin loop [?]: 6

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: 5 Average number of free bases in internal loops: 5 Minimum number of free bases in internal loop: 5 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

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

Pseudoknot features

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