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

General features for molecule PDB_00877 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00877 Molecule name [?]: NMR STRUCTURE OF THE APICAL PART OF STEMLOOP D FROM CLOVERLEAF 1 OF BOVINE ENTEROVIRUS 1 RNA Source [?]: RCSB Protein Data Bank Source ID [?]: 1Z30 Reference [?]: Y.IHLE,O.OHLENSCHLAGER,S.HAFNER,E.DUCHARDT, M.ZACHARIAS,S.SEITZ,R.ZELL,R.RAMACHANDRAN,M.GORLACH. A NOVEL CGUUAG TETRALOOP STRUCTURE WITH A CONSERVED YYNMGG-TYPE BACKBONE CONFORMATION FROM CLOVERLEAF 1 OF BOVINE ENTEROVIRUS 1 RNA. NUCLEIC ACIDS RES. V. 33 2003 2005 ASTM NARHAD UK ISSN 0305-1048 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 [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 18 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 2 Number of paired bases [?]: 16

Click on any header below for additional features.

Stem features Number of stems [?]: 1 Number of base pairs in stems [?]: 8 Maximum length of a stem [?]: 8 Average length of a stem [?]: 8 Minimum length of a stem [?]: 8 Maximum estimated free energy [?]: -11.9 Average estimated free energy [?]: -11.9 Minimum estimated free energy [?]: -11.9

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 [?]: 0 Maximum number of free bases in bulge loops [?]: N/A Average number of free bases in bulge loops [?]: N/A Minimum number of free bases in bulge loop [?]: N/A

Internal loop features

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 1 Total number of AG non-canonical base pairs: 1

Pseudoknot features