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

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General features for molecule PDB_00625
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00625
Molecule name [?]:E. COLI ELONGATION FACTOR EF-TU COMPLEXED WITH THE ANTIBIOTIC KIRROMYCIN, A GTP ANALOG, AND PHE-TRNA
Source [?]:RCSB Protein Data Bank
Source ID [?]:1OB2
Reference [?]:R.C.NIELSEN,O.KRISTENSEN,M.KJELDGAARD,S.THIRUP, P.NISSEN. KIRROMYCIN DEFINES A SPECIFIC DOMAIN ARRANGEMENT OF ELONGATION FACTOR EF-TU. TO BE PUBLISHED
Type [?]:Transfer RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:ESCHERICHIA COLI
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:X-RAY, RESOLUTION 3.35 ANGSTROMS; ran through RNAview
Number of molecules [?]:2
Length [?]:78
Fragments used [?]:Yes
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:38
Number of paired bases [?]:40

Click on any header below for additional features.

Stem features

Number of stems [?]:4
Number of base pairs in stems [?]:20
Maximum length of a stem [?]:7
Average length of a stem [?]:5
Minimum length of a stem [?]:4
Maximum estimated free energy [?]:-5.4
Average estimated free energy [?]:-8.1
Minimum estimated free energy [?]:-10.6

Hairpin loop features

Number of hairpin loops [?]:3
Maximum number of free bases in hairpin loops [?]:11
Average number of free bases in hairpin loops [?]:8.67
Minimum number of free bases in hairpin loop [?]:7

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
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:4
Average number of free bases in multi-loops:1.5
Minimum number of free bases in multi-loop:0
Maximum multi-loop absolute asymmetry:4
Average multi-loop absolute asymmetry:2.33
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:2
Average multi-loop relative asymmetry:0.42
Minimum multi-loop relative asymmetry:0
Maximum number of branches in multi-loops:4
Average number of branches in multi-loops:4
Minimum number of branches in multi-loops:4

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

Pseudoknot features



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