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

General features for molecule PDB_00023 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00023 Molecule name [?]: GENTAMICIN C1A A-SITE COMPLEX Source [?]: RCSB Protein Data Bank Source ID [?]: 1BYJ Reference [?]: S.YOSHIZAWA,D.FOURMY,J.D.PUGLISI. STRUCTURAL ORIGINS OF GENTAMICIN ANTIBIOTIC ACTION.. EMBO J. V. 17 6437 1998 ASTM EMJODG UK ISSN 0261-4189 Type [?]: Other RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: N/A Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 27 Fragments used [?]: Yes Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00003, PDB_00189 Number of domains [?]: 1 Number of unpaired bases [?]: 5 Number of paired bases [?]: 22

Click on any header below for additional features.

Stem features Number of stems [?]: 3 Number of base pairs in stems [?]: 11 Maximum length of a stem [?]: 5 Average length of a stem [?]: 3.67 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -6.27 Minimum estimated free energy [?]: -9.7

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 [?]: 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 Number of internal loops [?]: 1 Maximum number of free bases in internal loops: 1 Average number of free bases in internal loops: 1 Minimum number of free bases in internal loop: 1 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

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

Pseudoknot features

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