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

General features for molecule PDB_00317 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00317 Molecule name [?]: BOVINE IMMUNODEFICIENCY VIRUS TAT-TAR COMPLEX, NMR, 5 STRUCTURES Source [?]: RCSB Protein Data Bank Source ID [?]: 1BIV Reference [?]: X.YE,R.A.KUMAR,D.J.PATEL. MOLECULAR RECOGNITION IN THE BOVINE IMMUNODEFICIENCY VIRUS TAT PEPTIDE-TAR RNA COMPLEX.. CHEM.BIOL. V. 2 827 1995 ASTM CBOLE2 UK ISSN 1074-5521 Type [?]: Synthetic RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: BOVINE IMMUNODEFICIENCY VIRUS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 28 Fragments used [?]: Yes Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00574, PDB_00884, PDB_00921 Number of domains [?]: 1 Number of unpaired bases [?]: 8 Number of paired bases [?]: 20

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 10 Maximum length of a stem [?]: 6 Average length of a stem [?]: 5 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -7.6 Average estimated free energy [?]: -10.6 Minimum estimated free energy [?]: -13.6

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 4 Average number of free bases in hairpin loops [?]: 4 Minimum number of free bases in hairpin loop [?]: 4

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: 3 Average number of free bases in internal loops: 2 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 2 Average internal loop absolute asymmetry: 2 Minimum internal loop absolute asymmetry: 2 Maximum internal loop relative asymmetry: 3 Average internal loop relative asymmetry: 3 Minimum internal loop relative asymmetry: 3

Multi-loop features

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

Pseudoknot features

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