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

General features for molecule PDB_01275 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01275 Molecule name [?]: CRYSTAL STRUCTURE OF THE SRP54-SRP19-7S.S SRP RNA COMPLEX OF M. JANNASCHII Source [?]: RCSB Protein Data Bank Source ID [?]: 2V3C Reference [?]: T.HAINZL,S.HUANG,A.E.SAUER-ERIKSSON. INTERACTION OF SIGNAL-RECOGNITION PARTICLE 54 GTPASE DOMAIN AND SIGNAL-RECOGNITION PARTICLE RNA IN THE FREE SIGNAL-RECOGNITION PARTICLE.. PROC.NAT.ACAD.SCI.USA V. 104 14911 2007 ASTM PNASA6 US ISSN 0027-8424 Type [?]: Signal Recognition Particle RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: METHANOCALDOCOCCUS JANNASCHII Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 2.5 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 192 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 50 Number of paired bases [?]: 142

Click on any header below for additional features.

Stem features Number of stems [?]: 13 Number of base pairs in stems [?]: 71 Maximum length of a stem [?]: 10 Average length of a stem [?]: 5.46 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -4.6 Average estimated free energy [?]: -8.83 Minimum estimated free energy [?]: -18

Hairpin loop features Number of hairpin loops [?]: 4 Maximum number of free bases in hairpin loops [?]: 4 Average number of free bases in hairpin loops [?]: 3 Minimum number of free bases in hairpin loop [?]: 2

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 [?]: 7 Maximum number of free bases in internal loops: 5 Average number of free bases in internal loops: 2 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 3 Average internal loop absolute asymmetry: 1.14 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 4 Average internal loop relative asymmetry: 1.71 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 2 Maximum number of free bases in multi-loops: 4 Average number of free bases in multi-loops: 1.33 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 4 Average multi-loop absolute asymmetry: 2.34 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 4 Average multi-loop relative asymmetry: 0.53 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 [?]: 15 Total number of AC non-canonical base pairs: 4 Total number of AG non-canonical base pairs: 6 Total number of GG non-canonical base pairs: 3 Total number of UU non-canonical base pairs: 2

Pseudoknot features

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