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

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General features for molecule PDB_00475
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00475
Molecule name [?]:CRYSTAL STRUCTURE OF ARCHAEOSINE TRNA-GUANINE TRANSGLYCOSYLASE COMPLEXED WITH LAMBDA-FORM TRNA(VAL)
Source [?]:RCSB Protein Data Bank
Source ID [?]:1J2B
Reference [?]:R.ISHITANI,O.NUREKI,N.NAMEKI,N.OKADA,S.NISHIMURA, S.YOKOYAMA. ALTERNATIVE TERTIARY STRUCTURE OF TRNA FOR RECOGNITION BY A POSTTRANSCRIPTIONAL MODIFICATION ENZYME. CELL (CAMBRIDGE,MASS.) V. 113 383 2003 ASTM CELLB5 US ISSN 0092-8674
Type [?]:Transfer RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:PYROCOCCUS HORIKOSHII
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:X-RAY, RESOLUTION 3.30 ANGSTROMS; ran through RNAview
Number of molecules [?]:2
Length [?]:148
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:2
Number of unpaired bases [?]:84
Number of paired bases [?]:64

Click on any header below for additional features.

Stem features

Number of stems [?]:6
Number of base pairs in stems [?]:32
Maximum length of a stem [?]:7
Average length of a stem [?]:5.33
Minimum length of a stem [?]:3
Maximum estimated free energy [?]:-4.6
Average estimated free energy [?]:-12.18
Minimum estimated free energy [?]:-19

Hairpin loop features

Number of hairpin loops [?]:3
Maximum number of free bases in hairpin loops [?]:7
Average number of free bases in hairpin loops [?]:5.67
Minimum number of free bases in hairpin loop [?]:5

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 [?]:2
Maximum number of free bases in internal loops:23
Average number of free bases in internal loops:10.75
Minimum number of free bases in internal loop:2
Maximum internal loop absolute asymmetry:8
Average internal loop absolute asymmetry:4.5
Minimum internal loop absolute asymmetry:1
Maximum internal loop relative asymmetry:1
Average internal loop relative asymmetry:1
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:16
Average number of free bases in multi-loops:5.33
Minimum number of free bases in multi-loop:0
Maximum multi-loop absolute asymmetry:16
Average multi-loop absolute asymmetry:10.67
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:0
Average multi-loop relative asymmetry:0
Minimum multi-loop relative asymmetry:0
Maximum number of branches in multi-loops:3
Average number of branches in multi-loops:3
Minimum number of branches in multi-loops:3

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 2
Total number of AC non-canonical base pairs:2

Pseudoknot features



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