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

General features for molecule PDB_00584 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00584 Molecule name [?]: STRUCTURE OF THE L1 PROTUBERANCE IN THE RIBOSOME Source [?]: RCSB Protein Data Bank Source ID [?]: 1MZP Reference [?]: A.NIKULIN,I.ELISEIKINA,S.TISHCHENKO,N.NEVSKAYA, N.DAVYDOVA,O.PLATONOVA,W.PIENDL,M.SELMER,A.LILJAS, D.DRYGIN,R.ZIMMERMANN,M.GARBER,S.NIKONOV. STRUCTURE OF THE L1 PROTUBERANCE IN THE RIBOSOME.. NAT.STRUCT.BIOL. V. 10 104 2003 ASTM NSBIEW US ISSN 1072-8368 Type [?]: Other Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: SULFOLOBUS ACIDOCALDARIUS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 2.65 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 55 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 21 Number of paired bases [?]: 34

Click on any header below for additional features.

Stem features Number of stems [?]: 3 Number of base pairs in stems [?]: 17 Maximum length of a stem [?]: 6 Average length of a stem [?]: 5.67 Minimum length of a stem [?]: 5 Maximum estimated free energy [?]: -6.7 Average estimated free energy [?]: -8.87 Minimum estimated free energy [?]: -10.9

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 [?]: 2 Maximum number of free bases in bulge loops [?]: 10 Average number of free bases in bulge loops [?]: 4.75 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 [?]: 4 Total number of AG non-canonical base pairs: 3 Total number of UU non-canonical base pairs: 1

Pseudoknot features

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