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

General features for molecule PDB_00860 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00860 Molecule name [?]: NMR STRUCTURE OF THE APOB MRNA STEM-LOOP AND ITS INTERACTION WITH THE C TO U EDITING APOBEC1 COMPLEM Source [?]: RCSB Protein Data Bank Source ID [?]: 1YNC Reference [?]: C.MARIS,J.MASSE,A.CHESTER,N.NAVARATNAM,F.H.ALLAIN. NMR STRUCTURE OF THE APOB MRNA STEM-LOOP AND ITS INTERACTION WITH THE C TO U EDITING APOBEC1 COMPLEMENTARY FACTOR.. RNA V. 11 173 2005 ASTM RNARFU UK ISSN 1355-8382 Type [?]: Other RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: N/A Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 31 Fragments used [?]: Yes Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00855 Number of domains [?]: 1 Number of unpaired bases [?]: 9 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 [?]: 7 Average length of a stem [?]: 5.5 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -5.6 Average estimated free energy [?]: -8.05 Minimum estimated free energy [?]: -10.5

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 8 Average number of free bases in hairpin loops [?]: 8 Minimum number of free bases in hairpin loop [?]: 8

Bulge loop features Number of bulge loops [?]: 1 Maximum number of free bases in bulge loops [?]: 1 Average number of free bases in bulge loops [?]: 0.5 Minimum number of free bases in bulge loop [?]: 0

Internal loop features

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 0

Pseudoknot features