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

General features for molecule PDB_01055 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01055 Molecule name [?]: CRYSTAL STRUCTURE OF THE HOMO SAPIENS CYTOPLASMIC RIBOSOMAL DECODING A SITE Source [?]: RCSB Protein Data Bank Source ID [?]: 2FQN Reference [?]: J.KONDO,A.URZHUMTSEV,E.WESTHOF. TWO CONFORMATIONAL STATES IN THE CRYSTAL STRUCTURE OF THE HOMO SAPIENS CYTOPLASMIC RIBOSOMAL DECODING A SITE.. NUCLEIC ACIDS RES. V. 34 676 2006 ASTM NARHAD UK ISSN 0305-1048 Type [?]: Other Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: N/A Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 2.30 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 43 Fragments used [?]: No Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_01169, PDB_01170, PDB_01172 Number of domains [?]: 1 Number of unpaired bases [?]: 11 Number of paired bases [?]: 32

Click on any header below for additional features.

Stem features Number of stems [?]: 3 Number of base pairs in stems [?]: 16 Maximum length of a stem [?]: 7 Average length of a stem [?]: 5.33 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -5.8 Average estimated free energy [?]: -8.47 Minimum estimated free energy [?]: -13.8

Hairpin loop features Number of hairpin loops [?]: 1 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 [?]: 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 [?]: 2 Maximum number of free bases in internal loops: 4 Average number of free bases in internal loops: 2.5 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 1 Average internal loop absolute asymmetry: 1 Minimum internal loop absolute asymmetry: 1 Maximum internal loop relative asymmetry: 2 Average internal loop relative asymmetry: 1.5 Minimum internal loop relative asymmetry: 1

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 3 Total number of AC non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 2

Pseudoknot features

For questions, comments, suggestions and bug reports, please contact:

Copyright © 2004-2008 BETA LAB - University of British Columbia