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

General features for molecule PDB_01136 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01136 Molecule name [?]: MS2-RNA HAIRPIN (4ONE-5) COMPLEX Source [?]: RCSB Protein Data Bank Source ID [?]: 2IZ9 Reference [?]: E.GRAHN,N.J.STONEHOUSE,C.J.ADAMS,K.FRIDBORG, L.BEIGELMAN,J.MATULIC-ADAMIC,S.L.WARRINER, P.G.STOCKLEY,L.LILJAS. DELETION OF A SINGLE HYDROGEN BONDING ATOM FROM THE MS2 RNA OPERATOR LEADS TO DRAMATIC REARRANGEMENTS AT THE RNA-COAT PROTEIN INTERFACE.. NUCLEIC ACIDS RES. V. 28 4611 2000 ASTM NARHAD UK ISSN 0305-1048 Type [?]: Synthetic RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: BACTERIOPHAGE MS2 Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 2.85 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 30 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 14 Number of paired bases [?]: 16

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 8 Maximum length of a stem [?]: 2 Average length of a stem [?]: 2 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -2.1 Average estimated free energy [?]: -2.7 Minimum estimated free energy [?]: -3.3

Hairpin loop features Number of hairpin loops [?]: 2 Maximum number of free bases in hairpin loops [?]: 4 Average number of free bases in hairpin loops [?]: 4 Minimum number of free bases in hairpin loop [?]: 4

Bulge loop features Number of bulge loops [?]: 2 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