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

General features for molecule PDB_00542 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00542 Molecule name [?]: CRYSTAL STRUCTURE OF SRP19 IN COMPLEX WITH THE S DOMAIN OF SIGNAL RECOGNITION PARTICLE RNA Source [?]: RCSB Protein Data Bank Source ID [?]: 1L9A Reference [?]: C.OUBRIDGE,A.KUGLSTATTER,L.JOVINE,K.NAGAI. CRYSTAL STRUCTURE OF SRP19 IN COMPLEX WITH THE S DOMAIN OF SRP RNA AND ITS IMPLICATION FOR THE ASSEMBLY OF THE SIGNAL RECOGNITION PARTICLE.. MOL.CELL V. 9 1251 2002 ASTM MOCEFL US ISSN 1097-2765 Type [?]: Synthetic RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: SYNTHETIC Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 2.90 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 126 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 26 Number of paired bases [?]: 100

Click on any header below for additional features.

Stem features Number of stems [?]: 5 Number of base pairs in stems [?]: 50 Maximum length of a stem [?]: 18 Average length of a stem [?]: 10 Minimum length of a stem [?]: 5 Maximum estimated free energy [?]: -9.1 Average estimated free energy [?]: -14.42 Minimum estimated free energy [?]: -26.7

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 [?]: 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 [?]: 2 Maximum number of free bases in internal loops: 5 Average number of free bases in internal loops: 2.75 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 2 Average internal loop absolute asymmetry: 1.5 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 Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 6 Average number of free bases in multi-loops: 2.33 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 6 Average multi-loop absolute asymmetry: 4 Minimum multi-loop absolute asymmetry: 1 Maximum multi-loop relative asymmetry: 6 Average multi-loop relative asymmetry: 1.54 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 [?]: 8 Total number of AC non-canonical base pairs: 4 Total number of AG non-canonical base pairs: 2 Total number of GG non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 1

Pseudoknot features

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

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