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

General features for molecule PDB_00351 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00351 Molecule name [?]: CRYSTAL STRUCTURE OF THE SPLICEOSOMAL 15.5KD PROTEIN BOUND TO A U4 SNRNA FRAGMENT Source [?]: RCSB Protein Data Bank Source ID [?]: 1E7K Reference [?]: I.VIDOVIC,S.NOTTROTT,K.HARTMUTH,R.LUHRMANN,R.FICNER. CRYSTAL STRUCTURE OF THE SPLICEOSOMAL 15.5KD PROTEIN BOUND TO A U4 SNRNA FRAGMENT.. MOL.CELL V. 6 1331 2000 ASTM MOCEFL US ISSN 1097-2765 Type [?]: Small nuclear RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: HOMO SAPIENS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 2.90 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 34 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 10 Number of paired bases [?]: 24

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 12 Maximum length of a stem [?]: 4 Average length of a stem [?]: 3 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -3.3 Average estimated free energy [?]: -5 Minimum estimated free energy [?]: -6.7

Hairpin loop features Number of hairpin loops [?]: 2 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 [?]: 1 Maximum number of free bases in bulge loops [?]: 3 Average number of free bases in bulge loops [?]: 1.5 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 1 Maximum number of free bases in internal loops: 5 Average number of free bases in internal loops: 3.5 Minimum number of free bases in internal loop: 2 Maximum internal loop absolute asymmetry: 3 Average internal loop absolute asymmetry: 3 Minimum internal loop absolute asymmetry: 3 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 AG non-canonical base pairs: 2

Pseudoknot features

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