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

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General features for molecule PDB_00194
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00194
Molecule name [?]:CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E.COLI 23S RRNA AT 1.04 RESOLUTION
Source [?]:RCSB Protein Data Bank
Source ID [?]:1Q9A
Reference [?]:C.C.CORRELL,J.BENEKEN,M.J.PLANTINGA,M.LUBBERS, Y.L.CHAN. THE COMMON AND DISTINCTIVE FEATURES OF THE BULGED-G MOTIF BASED ON A 1.04 A RESOLUTION RNA STRUCTURE. NUCLEIC ACIDS RES. V. 31 6806 2003 ASTM NARHAD UK ISSN 0305-1048
Type [?]:23S 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 1.04 ANGSTROMS; ran through RNAview
Number of molecules [?]:1
Length [?]:27
Fragments used [?]:Yes
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00276, PDB_00277
Number of domains [?]:1
Number of unpaired bases [?]:7
Number of paired bases [?]:20

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:10
Maximum length of a stem [?]:6
Average length of a stem [?]:5
Minimum length of a stem [?]:4
Maximum estimated free energy [?]:0
Average estimated free energy [?]:-5.15
Minimum estimated free energy [?]:-10.3

Hairpin loop features

Number of hairpin loops [?]:1
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 [?]:1
Maximum number of free bases in internal loops:2
Average number of free bases in internal loops:1.5
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:1
Average internal loop absolute asymmetry:1
Minimum internal loop absolute asymmetry:1
Maximum internal loop relative asymmetry:2
Average internal loop relative asymmetry:2
Minimum internal loop relative asymmetry:2

Multi-loop features

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 3
Total number of AG non-canonical base pairs:2
Total number of CU non-canonical base pairs:1

Pseudoknot features



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