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

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General features for molecule PDB_00038
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00038
Molecule name [?]:CRYSTAL STRUCTURE OF HELIX II OF THE X. LAEVIS SOMATIC 5S RRNA WITH A CYTOSINE BULGE IN TWO CONFORMA
Source [?]:RCSB Protein Data Bank
Source ID [?]:1DQH
Reference [?]:Y.XIONG,M.SUNDARALINGAM. TWO CRYSTAL FORMS OF HELIX II OF XENOPUS LAEVIS 5S RRNA WITH A CYTOSINE BULGE.. RNA V. 6 1316 2000 ASTM RNARFU UK ISSN 1355-8382
Type [?]:Other Ribosomal RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:N/A
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:X-RAY, RESOLUTION 1.70 ANGSTROMS; ran through RNAview
Number of molecules [?]:2
Length [?]:19
Fragments used [?]:Yes
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00037
Number of domains [?]:1
Number of unpaired bases [?]:1
Number of paired bases [?]:18

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:9
Maximum length of a stem [?]:6
Average length of a stem [?]:4.5
Minimum length of a stem [?]:3
Maximum estimated free energy [?]:-6.7
Average estimated free energy [?]:-9.85
Minimum estimated free energy [?]:-13

Hairpin loop features

Number of hairpin loops [?]:1
Maximum number of free bases in hairpin loops [?]:0
Average number of free bases in hairpin loops [?]:0
Minimum number of free bases in hairpin loop [?]:0

Bulge loop features
Number of bulge loops [?]:1
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

Multi-loop features

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

Pseudoknot features



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