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

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General features for molecule PDB_00144
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00144
Molecule name [?]:CRYSTAL STRUCTURE OF THE HIGHLY CONSERVED RNA INTERNAL LOOP OF SRP
Source [?]:RCSB Protein Data Bank
Source ID [?]:1LNT
Reference [?]:J.DENG,Y.XIONG,B.PAN,M.SUNDARALINGAM. STRUCTURE OF AN RNA DODECAMER CONTAINING A FRAGMENT FROM SRP DOMAIN IV OF ESCHERICHIA COLI.. ACTA CRYSTALLOGR.,SECT.D V. 59 1004 2003 ASTM ABCRE6 DK ISSN 0907-4449
Type [?]:Synthetic RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:SYNTHETIC
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 [?]:24
Fragments used [?]:Yes
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:2
Number of paired bases [?]:22

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:11
Maximum length of a stem [?]:6
Average length of a stem [?]:5.5
Minimum length of a stem [?]:5
Maximum estimated free energy [?]:-8.1
Average estimated free energy [?]:-8.2
Minimum estimated free energy [?]:-8.3

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 [?]: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:1
Average number of free bases in internal loops:1
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:0
Average internal loop absolute asymmetry:0
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:1
Average internal loop relative asymmetry:1
Minimum internal loop relative asymmetry:1

Multi-loop features

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

Pseudoknot features



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