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

General features for molecule PDB_00773 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00773 Molecule name [?]: CRYSTAL STRUCTURE OF FIVE 70S RIBOSOMES FROM ESCHERICHIA COLI IN COMPLEX WITH PROTEIN Y. THIS FILE C Source [?]: RCSB Protein Data Bank Source ID [?]: 1VOV Reference [?]: A.VILA-SANJURJO,B.S.SCHUWIRTH,C.W.HAU,J.H.CATE. STRUCTURAL BASIS FOR THE CONTROL OF TRANSLATION INITIATION DURING STRESS.. NAT.STRUCT.MOL.BIOL. V. 11 1054 2004 US ISSN 1545-9993 Type [?]: 16S Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: ESCHERICHIA COLI Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION11.50 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 1526 Fragments used [?]: No Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00769, PDB_00771, PDB_00775, PDB_00777 Number of domains [?]: 7 Number of unpaired bases [?]: 680 Number of paired bases [?]: 846

Click on any header below for additional features.

Stem features Number of stems [?]: 96 Number of base pairs in stems [?]: 401 Maximum length of a stem [?]: 10 Average length of a stem [?]: 4.19 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -6.94 Minimum estimated free energy [?]: -25.4

Hairpin loop features Number of hairpin loops [?]: 29 Maximum number of free bases in hairpin loops [?]: 18 Average number of free bases in hairpin loops [?]: 6.28 Minimum number of free bases in hairpin loop [?]: 2

Bulge loop features Number of bulge loops [?]: 18 Maximum number of free bases in bulge loops [?]: 3 Average number of free bases in bulge loops [?]: 0.69 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 34 Maximum number of free bases in internal loops: 19 Average number of free bases in internal loops: 2.97 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 11 Average internal loop absolute asymmetry: 1.35 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 4 Average internal loop relative asymmetry: 1.56 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 14 Maximum number of free bases in multi-loops: 11 Average number of free bases in multi-loops: 3.53 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 7 Average multi-loop absolute asymmetry: 2.61 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 8 Average multi-loop relative asymmetry: 1.23 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 5 Average number of branches in multi-loops: 3.5 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 42 Total number of AA non-canonical base pairs: 5 Total number of AC non-canonical base pairs: 5 Total number of AG non-canonical base pairs: 21 Total number of CU non-canonical base pairs: 1 Total number of GG non-canonical base pairs: 3 Total number of UU non-canonical base pairs: 7

Pseudoknot features Number of pseudoknots [?]: 2 Number of bands: 4 Number of base pairs in bands: 22 Maximum band length: 9 Average band length: 5.5 Minimum band length: 2 Maximum number of bands per pseudoknot: 2 Average number of bands per pseudoknot: 2 Minimum number of bands per pseudoknot: 2 Maximum number of un-bands: 2 Average number of un-bands: 1 Minimum number of un-bands: 0 Maximum number of in-bands: 1 Average number of in-bands: 0.5 Minimum number of in-bands: 0 Maximum number of unpaired bases: 29 Average number of unpaired bases: 21.5 Minimum number of unpaired bases: 14 Several ways to remove minimum number of base pairs, per molecule: No Minimum number of base pairs to remove, per molecule: 5 Maximum number of base pairs to remove, per pseudoknot: 3 Average number of base pairs to remove, per pseudoknot: 2.5 Minimum number of base pairs to remove, per pseudoknot: 2 Minimum number of bands to remove, per molecule: 2 Maximum number of bands to remove, per pseudoknot: 1 Average number of bands to remove, per pseudoknot: 1 Minimum number of bands to remove, per pseudoknot: 1