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

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General features for molecule PDB_00288
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Format:
Molecule ID [?]:PDB_00288
Molecule name [?]:LOOP D/LOOP E ARM OF ESCHERICHIA COLI 5S RRNA, NMR, MINIMIZED AVERAGE STRUCTURE
Source [?]:RCSB Protein Data Bank
Source ID [?]:1A4D
Reference [?]:A.DALLAS,P.B.MOORE. THE LOOP E-LOOP D REGION OF ESCHERICHIA COLI 5S RRNA: THE SOLUTION STRUCTURE REVEALS AN UNUSUAL LOOP THAT MAY BE IMPORTANT FOR BINDING RIBOSOMAL PROTEINS.. STRUCTURE V. 5 1639 1997 ASTM STRUE6 UK ISSN 0969-2126
Type [?]:5S Ribosomal RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:ESCHERICHIA COLI
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:NMR; ran through RNAview
Number of molecules [?]:2
Length [?]:41
Fragments used [?]:Yes
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00004
Number of domains [?]:1
Number of unpaired bases [?]:3
Number of paired bases [?]:38

Click on any header below for additional features.

Stem features

Number of stems [?]:1
Number of base pairs in stems [?]:19
Maximum length of a stem [?]:19
Average length of a stem [?]:19
Minimum length of a stem [?]:19
Maximum estimated free energy [?]:-27
Average estimated free energy [?]:-27
Minimum estimated free energy [?]:-27

Hairpin loop features

Number of hairpin loops [?]:1
Maximum number of free bases in hairpin loops [?]:3
Average number of free bases in hairpin loops [?]:3
Minimum number of free bases in hairpin loop [?]:3

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

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 4
Total number of AG non-canonical base pairs:3
Total number of GG non-canonical base pairs:1

Pseudoknot features



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