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

General features for molecule PDB_00890 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00890 Molecule name [?]: STRUCTURE OF BACTERIOPHAGE COAT PROTEIN-LOOP RNA COMPLEX Source [?]: RCSB Protein Data Bank Source ID [?]: 1ZDK Reference [?]: E.GRAHN,N.J.STONEHOUSE,J.B.MURRAY,S.VAN DEN WORM, K.VALEGARD,K.FRIDBORG,P.G.STOCKLEY,L.LILJAS. CRYSTALLOGRAPHIC STUDIES OF RNA HAIRPINS IN COMPLEXES WITH RECOMBINANT MS2 CAPSIDS: IMPLICATIONS FOR BINDING REQUIREMENTS.. RNA V. 5 131 1999 ASTM RNARFU UK ISSN 1355-8382 Type [?]: Viral & Phage 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 2.86 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 38 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 10 Number of paired bases [?]: 28

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 14 Maximum length of a stem [?]: 5 Average length of a stem [?]: 3.5 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -3.3 Average estimated free energy [?]: -5.4 Minimum estimated free energy [?]: -7.5

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