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

General features for molecule PDB_01161 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01161 Molecule name [?]: CRYSTAL STRUCTURE OF PSEUDOUDIRINDE SYNTHASE TRUA IN COMPLEX WITH LEUCYL TRNA Source [?]: RCSB Protein Data Bank Source ID [?]: 2NR0 Reference [?]: S.HUR,R.M.STROUD. HOW U38, 39, AND 40 OF MANY TRNAS BECOME THE TARGETS FOR PSEUDOURIDYLATION BY TRUA.. MOL.CELL V. 26 189 2007 ASTM MOCEFL US ISSN 1097-2765 Type [?]: Other RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: ESCHERICHIA COLI Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 3.90 ANGSTROMS; ran through RNAview Number of molecules [?]: 4 Length [?]: 272 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 4 Number of unpaired bases [?]: 122 Number of paired bases [?]: 150

Click on any header below for additional features.

Stem features Number of stems [?]: 20 Number of base pairs in stems [?]: 75 Maximum length of a stem [?]: 7 Average length of a stem [?]: 3.75 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -3.3 Average estimated free energy [?]: -6.85 Minimum estimated free energy [?]: -11.4

Hairpin loop features Number of hairpin loops [?]: 15 Maximum number of free bases in hairpin loops [?]: 11 Average number of free bases in hairpin loops [?]: 6.07 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 [?]: 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 Number of multi-loops [?]: 4 Maximum number of free bases in multi-loops: 4 Average number of free bases in multi-loops: 1.21 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 4 Average multi-loop absolute asymmetry: 1.63 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 4 Average multi-loop relative asymmetry: 0.48 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 5 Average number of branches in multi-loops: 4.75 Minimum number of branches in multi-loops: 4

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

Pseudoknot features