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

General features for molecule PDB_01146 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01146 Molecule name [?]: MODEL FOR THIOSTREPTON BINDING TO THE RIBOSOMAL L11-RNA Source [?]: RCSB Protein Data Bank Source ID [?]: 2JQ7 Reference [?]: H.R.A.JONKER,S.ILIN,S.K.GRIMM,J.WOEHNERT,H.SCHWALBE. L11 DOMAIN REARRANGEMENT UPON BINDING TO RNA AND THIOSTREPTON STUDIED BY NMR SPECTROSCOPY. NUCLEIC ACIDS RES. V. 35 441 2007 ASTM NARHAD UK ISSN 0305-1048 Type [?]: Other Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: STREPTOMYCES AZUREUS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 58 Fragments used [?]: Yes Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00627 Number of domains [?]: 1 Number of unpaired bases [?]: 30 Number of paired bases [?]: 28

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 14 Maximum length of a stem [?]: 6 Average length of a stem [?]: 3.5 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -2.1 Average estimated free energy [?]: -5.77 Minimum estimated free energy [?]: -10.9

Hairpin loop features Number of hairpin loops [?]: 2 Maximum number of free bases in hairpin loops [?]: 9 Average number of free bases in hairpin loops [?]: 7.5 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: 2 Average number of free bases in internal loops: 2 Minimum number of free bases in internal loop: 2 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 Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 9 Average number of free bases in multi-loops: 3.67 Minimum number of free bases in multi-loop: 1 Maximum multi-loop absolute asymmetry: 8 Average multi-loop absolute asymmetry: 5.33 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 9 Average multi-loop relative asymmetry: 3.37 Minimum multi-loop relative asymmetry: 0.11 Maximum number of branches in multi-loops: 3 Average number of branches in multi-loops: 3 Minimum number of branches in multi-loops: 3

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

Pseudoknot features

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