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

General features for molecule PDB_00326 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00326 Molecule name [?]: IDENTIFICATION OF KNOWN PROTEIN AND RNA STRUCTURES IN A 5 A MAP OF THE LARGE RIBOSOMAL SUBUNIT FROM Source [?]: RCSB Protein Data Bank Source ID [?]: 1C04 Reference [?]: N.BAN,P.NISSEN,J.HANSEN,M.CAPEL,P.B.MOORE, T.A.STEITZ. PLACEMENT OF PROTEIN AND RNA STRUCTURES INTO A 5 A-RESOLUTION MAP OF THE 50S RIBOSOMAL SUBUNIT.. NATURE V. 400 841 1999 ASTM NATUAS UK ISSN 0028-0836 Type [?]: Other Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: HALOARCULA MARISMORTUI Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 5.00 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 87 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 31 Number of paired bases [?]: 56

Click on any header below for additional features.

Stem features Number of stems [?]: 6 Number of base pairs in stems [?]: 28 Maximum length of a stem [?]: 7 Average length of a stem [?]: 4.67 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -6.97 Minimum estimated free energy [?]: -14.3

Hairpin loop features Number of hairpin loops [?]: 3 Maximum number of free bases in hairpin loops [?]: 7 Average number of free bases in hairpin loops [?]: 4.33 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 Number of internal loops [?]: 2 Maximum number of free bases in internal loops: 3 Average number of free bases in internal loops: 2.25 Minimum number of free bases in internal loop: 2 Maximum internal loop absolute asymmetry: 1 Average internal loop absolute asymmetry: 0.5 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 1 Average internal loop relative asymmetry: 1 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 8 Average number of free bases in multi-loops: 3 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 8 Average multi-loop absolute asymmetry: 5.33 Minimum multi-loop absolute asymmetry: 1 Maximum multi-loop relative asymmetry: 8 Average multi-loop relative asymmetry: 2.03 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 3 Average number of branches in multi-loops: 3 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 5 Total number of AG non-canonical base pairs: 4 Total number of CU non-canonical base pairs: 1

Pseudoknot features