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

General features for molecule PDB_01144 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01144 Molecule name [?]: MODEL OF MAMMALIAN SRP BOUND TO 80S RNCS Source [?]: RCSB Protein Data Bank Source ID [?]: 2J37 Reference [?]: M.HALIC,M.BLAU,T.BECKER,T.MIELKE,M.R.POOL,K.WILD, I.SINNING,R.BECKMANN. FOLLOWING THE SIGNAL SEQUENCE FROM RIBOSOMAL TUNNEL EXIT TO SIGNAL RECOGNITION PARTICLE.. NATURE V. 444 507 2006 ASTM NATUAS UK ISSN 0028-0836 Type [?]: Other Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: CANIS FAMILIARIS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 8.00 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 408 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 6 Number of unpaired bases [?]: 154 Number of paired bases [?]: 254

Click on any header below for additional features.

Stem features Number of stems [?]: 23 Number of base pairs in stems [?]: 127 Maximum length of a stem [?]: 12 Average length of a stem [?]: 5.52 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -7.97 Minimum estimated free energy [?]: -20.2

Hairpin loop features Number of hairpin loops [?]: 10 Maximum number of free bases in hairpin loops [?]: 8 Average number of free bases in hairpin loops [?]: 4.8 Minimum number of free bases in hairpin loop [?]: 2

Bulge loop features Number of bulge loops [?]: 3 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 [?]: 7 Maximum number of free bases in internal loops: 4 Average number of free bases in internal loops: 2 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 2 Average internal loop absolute asymmetry: 1.14 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 3 Average internal loop relative asymmetry: 1.71 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 3 Maximum number of free bases in multi-loops: 8 Average number of free bases in multi-loops: 1.4 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 8 Average multi-loop absolute asymmetry: 2.44 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 8 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: 3.33 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 24 Total number of AA non-canonical base pairs: 2 Total number of AC non-canonical base pairs: 6 Total number of AG non-canonical base pairs: 11 Total number of CC non-canonical base pairs: 3 Total number of GG non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 1

Pseudoknot features

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