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

General features for molecule PDB_01100 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01100 Molecule name [?]: TRANSCRIPTION FACTOR IIIA ZINC FINGERS 4-6 BOUND TO 5S RRNA 55MER (NMR STRUCTURE) Source [?]: RCSB Protein Data Bank Source ID [?]: 2HGH Reference [?]: B.M.LEE,J.XU,B.K.CLARKSON,M.A.MARTINEZ-YAMOUT, J.H.DYSON,D.A.CASE,J.M.GOTTESFELD,P.E.WRIGHT. INDUCED FIT AND 'LOCK AND KEY' RECOGNITION OF 5 S RNA BY ZINC FINGERS OF TRANSCRIPTION FACTOR IIIA. J.MOL.BIOL. V. 357 275 2006 ASTM JMOBAK UK ISSN 0022-2836 Type [?]: 5S Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: XENOPUS LAEVIS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 55 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 11 Number of paired bases [?]: 44

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 22 Maximum length of a stem [?]: 9 Average length of a stem [?]: 5.5 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -3.3 Average estimated free energy [?]: -8.55 Minimum estimated free energy [?]: -15.5

Hairpin loop features Number of hairpin loops [?]: 2 Maximum number of free bases in hairpin loops [?]: 4 Average number of free bases in hairpin loops [?]: 3 Minimum number of free bases in hairpin loop [?]: 2

Bulge loop features Number of bulge loops [?]: 1 Maximum number of free bases in bulge loops [?]: 1 Average number of free bases in bulge loops [?]: 0.5 Minimum number of free bases in bulge loop [?]: 0

Internal loop features

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 4 Average number of free bases in multi-loops: 1.33 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 4 Average multi-loop absolute asymmetry: 2.67 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 0 Average multi-loop relative asymmetry: 0 Minimum multi-loop relative asymmetry: 0 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 [?]: 4 Total number of AA non-canonical base pairs: 1 Total number of AG non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 2

Pseudoknot features

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