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

General features for molecule PDB_00679 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00679 Molecule name [?]: CRYSTAL STRUCTURE OF THE COMPLETE CORE OF ARCHAEAL SRP AND IMPLICATIONS FOR INTER-DOMAIN COMMUNICATI Source [?]: RCSB Protein Data Bank Source ID [?]: 1QZW Reference [?]: K.R.ROSENDAL,K.WILD,G.MONTOYA,I.SINNING. CRYSTAL STRUCTURE OF THE COMPLETE CORE OF ARCHAEAL SIGNAL RECOGNITION PARTICLE AND IMPLICATIONS FOR INTERDOMAIN COMMUNICATION. PROC.NATL.ACAD.SCI.USA V. 100 14701 2003 ASTM PNASA6 US ISSN 0027-8424 Type [?]: Other RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: SULFOLOBUS SOLFATARICUS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 4.10 ANGSTROMS; ran through RNAview Number of molecules [?]: 4 Length [?]: 188 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 4 Number of unpaired bases [?]: 76 Number of paired bases [?]: 112

Click on any header below for additional features.

Stem features Number of stems [?]: 12 Number of base pairs in stems [?]: 56 Maximum length of a stem [?]: 6 Average length of a stem [?]: 4.67 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -3.3 Average estimated free energy [?]: -7.4 Minimum estimated free energy [?]: -12.3

Hairpin loop features Number of hairpin loops [?]: 4 Maximum number of free bases in hairpin loops [?]: 2 Average number of free bases in hairpin loops [?]: 2 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 [?]: 8 Maximum number of free bases in internal loops: 6 Average number of free bases in internal loops: 3.25 Minimum number of free bases in internal loop: 2 Maximum internal loop absolute asymmetry: 3 Average internal loop absolute asymmetry: 1.5 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 2 Average internal loop relative asymmetry: 1.5 Minimum internal loop relative asymmetry: 1

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 16 Total number of AC non-canonical base pairs: 4 Total number of AG non-canonical base pairs: 8 Total number of GG non-canonical base pairs: 4

Pseudoknot features