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

General features for molecule PDB_00312 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00312 Molecule name [?]: U1A-UTRRNA, NMR, 31 STRUCTURES Source [?]: RCSB Protein Data Bank Source ID [?]: 1AUD Reference [?]: F.H.ALLAIN,P.W.HOWE,D.NEUHAUS,G.VARANI. STRUCTURAL BASIS OF THE RNA-BINDING SPECIFICITY OF HUMAN U1A PROTEIN.. EMBO J. V. 16 5764 1997 ASTM EMJODG UK ISSN 0261-4189 Type [?]: Other Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: HOMO SAPIENS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 30 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 12 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 [?]: -7.9 Average estimated free energy [?]: -9.4 Minimum estimated free energy [?]: -10.9

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 Total number of UUCG hairpin motifs per molecule [?]: 1

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: 7 Average number of free bases in internal loops: 4 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 6 Average internal loop absolute asymmetry: 6 Minimum internal loop absolute asymmetry: 6 Maximum internal loop relative asymmetry: 7 Average internal loop relative asymmetry: 7 Minimum internal loop relative asymmetry: 7

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 0

Pseudoknot features

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