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

General features for molecule PDB_01012 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01012 Molecule name [?]: CRYSTAL STRUCTURE OF ARCHAEOGLOBUS FULGIDUS O-PHOSPHOSERYL- TRNA SYNTHETASE E418N/E420N MUTANT COMPL Source [?]: RCSB Protein Data Bank Source ID [?]: 2DU6 Reference [?]: R.FUKUNAGA,S.YOKOYAMA. STRUCTURAL INSIGHTS INTO THE O-PHOSPHOSERINE-TRNACYS INTERMEDIATE OF RNA-DEPENDENT CYSTEINE BIOSYNTHESIS IN ARCHAEA. NAT.STRUCT.MOL.BIOL. 2007 US ESSN 1545-9985 Type [?]: Other RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: ARCHAEOGLOBUS FULGIDUS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 3.30 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 71 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 31 Number of paired bases [?]: 40

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 20 Maximum length of a stem [?]: 7 Average length of a stem [?]: 5 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -5.5 Average estimated free energy [?]: -11.7 Minimum estimated free energy [?]: -17.5

Hairpin loop features Number of hairpin loops [?]: 3 Maximum number of free bases in hairpin loops [?]: 9 Average number of free bases in hairpin loops [?]: 7.67 Minimum number of free bases in hairpin loop [?]: 7

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

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 5 Average number of free bases in multi-loops: 2 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 5 Average multi-loop absolute asymmetry: 2.67 Minimum multi-loop absolute asymmetry: 1 Maximum multi-loop relative asymmetry: 5 Average multi-loop relative asymmetry: 1.18 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 4 Average number of branches in multi-loops: 4 Minimum number of branches in multi-loops: 4

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 0

Pseudoknot features