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

General features for molecule PDB_01338 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01338 Molecule name [?]: F6 APTAMER MS2 COAT PROTEIN COMPLEX Source [?]: RCSB Protein Data Bank Source ID [?]: 6MSF Reference [?]: M.A.CONVERY,S.ROWSELL,N.J.STONEHOUSE,A.D.ELLINGTON, I.HIRAO,J.B.MURRAY,D.S.PEABODY,S.E.PHILLIPS, P.G.STOCKLEY. CRYSTAL STRUCTURE OF AN RNA APTAMER-PROTEIN COMPLEX AT 2.8 A RESOLUTION.. NAT.STRUCT.BIOL. V. 5 133 1998 ASTM NSBIEW US ISSN 1072-8368 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 2.80 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 [?]: 2 Number of unpaired bases [?]: 8 Number of paired bases [?]: 16

Click on any header below for additional features.

Stem features Number of stems [?]: 3 Number of base pairs in stems [?]: 8 Maximum length of a stem [?]: 3 Average length of a stem [?]: 2.67 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -3.3 Average estimated free energy [?]: -3.9 Minimum estimated free energy [?]: -4.2

Hairpin loop features Number of hairpin loops [?]: 2 Maximum number of free bases in hairpin loops [?]: 3 Average number of free bases in hairpin loops [?]: 3 Minimum number of free bases in hairpin loop [?]: 3

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