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

General features for molecule PDB_00527 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00527 Molecule name [?]: RNA APTAMER COMPLEXED WITH CITRULLINE, NMR Source [?]: RCSB Protein Data Bank Source ID [?]: 1KOD Reference [?]: Y.YANG,M.KOCHOYAN,P.BURGSTALLER,E.WESTHOF,M.FAMULOK. STRUCTURAL BASIS OF LIGAND DISCRIMINATION BY TWO RELATED RNA APTAMERS RESOLVED BY NMR SPECTROSCOPY.. SCIENCE V. 272 1343 1996 ASTM SCIEAS US ISSN 0036-8075 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 [?]: NMR; ran through RNAview Number of molecules [?]: 2 Length [?]: 25 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 15 Number of paired bases [?]: 10

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 5 Maximum length of a stem [?]: 3 Average length of a stem [?]: 2.5 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -1.8 Minimum estimated free energy [?]: -3.6

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 0 Average number of free bases in hairpin loops [?]: 0 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 Number of internal loops [?]: 1 Maximum number of free bases in internal loops: 8 Average number of free bases in internal loops: 6 Minimum number of free bases in internal loop: 4 Maximum internal loop absolute asymmetry: 4 Average internal loop absolute asymmetry: 4 Minimum internal loop absolute asymmetry: 4 Maximum internal loop relative asymmetry: 2 Average internal loop relative asymmetry: 2 Minimum internal loop relative asymmetry: 2

Multi-loop features

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

Pseudoknot features

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