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

General features for molecule PDB_00741 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00741 Molecule name [?]: STEM-LOOP D OF THE CLOVERLEAF DOMAIN OF ENTEROVIRAL 5'UTR RNA Source [?]: RCSB Protein Data Bank Source ID [?]: 1TXS Reference [?]: Z.DU,J.YU,N.B.ULYANOV,R.ANDINO,T.L.JAMES. SOLUTION STRUCTURE OF A CONSENSUS STEM-LOOP D RNA DOMAIN THAT PLAYS IMPORTANT ROLES IN REGULATING TRANSLATION AND REPLICATION IN ENTEROVIRUSES AND RHINOVIRUSES. BIOCHEMISTRY V. 43 11959 2004 ASTM BICHAW US ISSN 0006-2960 Type [?]: Viral & Phage 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 [?]: 38 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 4 Number of paired bases [?]: 34

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 17 Maximum length of a stem [?]: 13 Average length of a stem [?]: 8.5 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -10 Average estimated free energy [?]: -13.2 Minimum estimated free energy [?]: -16.4

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 2 Average number of free bases in hairpin loops [?]: 2 Minimum number of free bases in hairpin loop [?]: 2

Bulge loop features Number of bulge loops [?]: 1 Maximum number of free bases in bulge loops [?]: 2 Average number of free bases in bulge loops [?]: 1 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 [?]: 3 Total number of CU non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 2

Pseudoknot features