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

General features for molecule PDB_00417 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00417 Molecule name [?]: STRUCTURE OF RIBOSOMAL PROTEINS S15, S6, S18, AND 16S RIBOSOMAL RNA Source [?]: RCSB Protein Data Bank Source ID [?]: 1G1X Reference [?]: S.C.AGALAROV,G.SRIDHAR PRASAD,P.M.FUNKE,C.D.STOUT, J.R.WILLIAMSON. STRUCTURE OF THE S15,S6,S18-RRNA COMPLEX: ASSEMBLY OF THE 30S RIBOSOME CENTRAL DOMAIN.. SCIENCE V. 288 107 2000 ASTM SCIEAS US ISSN 0036-8075 Type [?]: Other Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: THERMUS THERMOPHILUS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 2.60 ANGSTROMS; ran through RNAview Number of molecules [?]: 4 Length [?]: 169 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 57 Number of paired bases [?]: 112

Click on any header below for additional features.

Stem features Number of stems [?]: 12 Number of base pairs in stems [?]: 56 Maximum length of a stem [?]: 7 Average length of a stem [?]: 4.67 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -3.4 Average estimated free energy [?]: -7.59 Minimum estimated free energy [?]: -15.5

Hairpin loop features Number of hairpin loops [?]: 4 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 [?]: 4 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 Number of internal loops [?]: 2 Maximum number of free bases in internal loops: 13 Average number of free bases in internal loops: 6.75 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 12 Average internal loop absolute asymmetry: 11.5 Minimum internal loop absolute asymmetry: 11 Maximum internal loop relative asymmetry: 13 Average internal loop relative asymmetry: 12.5 Minimum internal loop relative asymmetry: 12

Multi-loop features Number of multi-loops [?]: 2 Maximum number of free bases in multi-loops: 3 Average number of free bases in multi-loops: 2.33 Minimum number of free bases in multi-loop: 1 Maximum multi-loop absolute asymmetry: 2 Average multi-loop absolute asymmetry: 1.33 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 3 Average multi-loop relative asymmetry: 1.44 Minimum multi-loop relative asymmetry: 0.33 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 [?]: 8 Total number of AG non-canonical base pairs: 4 Total number of GG non-canonical base pairs: 4

Pseudoknot features

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