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

General features for molecule PDB_00601 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00601 Molecule name [?]: CRYSTAL STRUCTURE OF THE SPECIFICITY DOMAIN OF RIBONUCLEASE P RNA Source [?]: RCSB Protein Data Bank Source ID [?]: 1NBS Reference [?]: A.S.KRASILNIKOV,X.YANG,T.PAN,A.MONDRAGON. CRYSTAL STRUCTURE OF THE SPECIFICITY DOMAIN OF RIBONUCLEASE P. NATURE V. 421 760 2003 ASTM NATUAS UK ISSN 0028-0836 Type [?]: Ribonuclease P RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: BACILLUS SUBTILIS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 3.15 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 270 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 112 Number of paired bases [?]: 158

Click on any header below for additional features.

Stem features Number of stems [?]: 18 Number of base pairs in stems [?]: 79 Maximum length of a stem [?]: 8 Average length of a stem [?]: 4.39 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -2.2 Average estimated free energy [?]: -7.53 Minimum estimated free energy [?]: -14.3

Hairpin loop features Number of hairpin loops [?]: 8 Maximum number of free bases in hairpin loops [?]: 10 Average number of free bases in hairpin loops [?]: 5.12 Minimum number of free bases in hairpin loop [?]: 0 Total number of UUCG hairpin motifs per molecule [?]: 1

Bulge loop features Number of bulge loops [?]: 3 Maximum number of free bases in bulge loops [?]: 2 Average number of free bases in bulge loops [?]: 0.83 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 3 Maximum number of free bases in internal loops: 12 Average number of free bases in internal loops: 7.83 Minimum number of free bases in internal loop: 2 Maximum internal loop absolute asymmetry: 3 Average internal loop absolute asymmetry: 2.33 Minimum internal loop absolute asymmetry: 1 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: 5 Average number of free bases in multi-loops: 1.29 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 5 Average multi-loop absolute asymmetry: 2.25 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 5 Average multi-loop relative asymmetry: 0.86 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 4 Average number of branches in multi-loops: 3.5 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 4 Total number of AA non-canonical base pairs: 3 Total number of AG non-canonical base pairs: 1

Pseudoknot features