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

General features for molecule PDB_01309 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01309 Molecule name [?]: 5'-R(*CP*AP*CP*CP*GP*GP*AP*UP*GP*GP*UP*(BRO) UP*CP*GP*GP*UP*G)-3' Source [?]: RCSB Protein Data Bank Source ID [?]: 406D Reference [?]: S.A.SHAH,A.T.BRUNGER. THE 1.8 A CRYSTAL STRUCTURE OF A STATICALLY DISORDERED 17 BASE-PAIR RNA DUPLEX: PRINCIPLES OF RNA CRYSTAL PACKING AND ITS EFFECT ON NUCLEIC ACID STRUCTURE.. J.MOL.BIOL. V. 285 1577 1999 ASTM JMOBAK UK ISSN 0022-2836 Type [?]: Other RNA [?]     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 1.80 ANGSTROMS; ran through RNAview Number of molecules [?]: 8 Length [?]: 136 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 58 Number of paired bases [?]: 78

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Stem features

Hairpin loop features Number of hairpin loops [?]: 0 Maximum number of free bases in hairpin loops [?]: N/A Average number of free bases in hairpin loops [?]: N/A Minimum number of free bases in hairpin loop [?]: N/A

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

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

Pseudoknot features Number of pseudoknots [?]: 1 Number of bands: 4 Number of base pairs in bands: 39 Maximum band length: 13 Average band length: 9.75 Minimum band length: 7 Maximum number of bands per pseudoknot: 4 Average number of bands per pseudoknot: 4 Minimum number of bands per pseudoknot: 4 Maximum number of un-bands: 0 Average number of un-bands: 0 Minimum number of un-bands: 0 Maximum number of in-bands: 0 Average number of in-bands: 0 Minimum number of in-bands: 0 Maximum number of unpaired bases: 57 Average number of unpaired bases: 57 Minimum number of unpaired bases: 57 Several ways to remove minimum number of base pairs, per molecule: No Minimum number of base pairs to remove, per molecule: 26 Maximum number of base pairs to remove, per pseudoknot: 26 Average number of base pairs to remove, per pseudoknot: 26 Minimum number of base pairs to remove, per pseudoknot: 26 Minimum number of bands to remove, per molecule: 3 Maximum number of bands to remove, per pseudoknot: 3 Average number of bands to remove, per pseudoknot: 3 Minimum number of bands to remove, per pseudoknot: 3