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

General features for molecule PDB_00874 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00874 Molecule name [?]: CRYSTAL STRUCTURE OF RNASE III MUTANT E110Q FROM AQUIFEX AEOLICUS COMPLEXED WITH DOUBLE STRANDED RNA Source [?]: RCSB Protein Data Bank Source ID [?]: 1YZ9 Reference [?]: J.GAN,J.E.TROPEA,B.P.AUSTIN,D.L.COURT,D.S.WAUGH, X.JI. INTERMEDIATE STATES OF RIBONUCLEASE III IN COMPLEX WITH DOUBLE-STRANDED RNA. STRUCTURE V. 13 1435 2005 ASTM STRUE6 UK ISSN 0969-2126 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 2.10 ANGSTROMS; ran through RNAview Number of molecules [?]: 4 Length [?]: 44 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 4 Number of paired bases [?]: 40

Click on any header below for additional features.

Stem features Number of stems [?]: 1 Number of base pairs in stems [?]: 9 Maximum length of a stem [?]: 9 Average length of a stem [?]: 9 Minimum length of a stem [?]: 9 Maximum estimated free energy [?]: -11.4 Average estimated free energy [?]: -11.4 Minimum estimated free energy [?]: -11.4

Hairpin loop features Number of hairpin loops [?]: 1 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

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 1 Total number of CC non-canonical base pairs: 1

Pseudoknot features Number of pseudoknots [?]: 1 Number of bands: 2 Number of base pairs in bands: 11 Maximum band length: 9 Average band length: 5.5 Minimum band length: 2 Maximum number of bands per pseudoknot: 2 Average number of bands per pseudoknot: 2 Minimum number of bands per pseudoknot: 2 Maximum number of un-bands: 1 Average number of un-bands: 1 Minimum number of un-bands: 1 Maximum number of in-bands: 0 Average number of in-bands: 0 Minimum number of in-bands: 0 Maximum number of unpaired bases: 2 Average number of unpaired bases: 2 Minimum number of unpaired bases: 2 Several ways to remove minimum number of base pairs, per molecule: No Minimum number of base pairs to remove, per molecule: 2 Maximum number of base pairs to remove, per pseudoknot: 2 Average number of base pairs to remove, per pseudoknot: 2 Minimum number of base pairs to remove, per pseudoknot: 2 Minimum number of bands to remove, per molecule: 1 Maximum number of bands to remove, per pseudoknot: 1 Average number of bands to remove, per pseudoknot: 1 Minimum number of bands to remove, per pseudoknot: 1