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

General features for molecule PDB_01193 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01193 Molecule name [?]: STRUCTURAL BASIS FOR INTERACTION OF THE RIBOSOME WITH THE SWITCH REGIONS OF GTP-BOUND ELONGATION FAC Source [?]: RCSB Protein Data Bank Source ID [?]: 2OM7 Reference [?]: S.R.CONNELL,C.TAKEMOTO,D.N.WILSON,H.WANG, K.MURAYAMA,T.TERADA,M.SHIROUZU,M.ROST,M.SCHULER, J.GIESEBRECHT,M.DABROWSKI,T.MIELKE,P.FUCINI, S.YOKOYAMA,C.M.SPAHN. STRUCTURAL BASIS FOR INTERACTION OF THE RIBOSOME WITH THE SWITCH REGIONS OF GTP-BOUND ELONGATION FACTORS.. MOL.CELL V. 25 751 2007 ASTM MOCEFL US ISSN 1097-2765 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 7.30 ANGSTROMS; ran through RNAview Number of molecules [?]: 10 Length [?]: 461 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 10 Number of unpaired bases [?]: 159 Number of paired bases [?]: 302

Click on any header below for additional features.

Stem features Number of stems [?]: 28 Number of base pairs in stems [?]: 151 Maximum length of a stem [?]: 25 Average length of a stem [?]: 5.39 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -8.5 Minimum estimated free energy [?]: -41.6

Hairpin loop features Number of hairpin loops [?]: 12 Maximum number of free bases in hairpin loops [?]: 20 Average number of free bases in hairpin loops [?]: 6.67 Minimum number of free bases in hairpin loop [?]: 0

Bulge loop features Number of bulge loops [?]: 6 Maximum number of free bases in bulge loops [?]: 9 Average number of free bases in bulge loops [?]: 1.42 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 9 Maximum number of free bases in internal loops: 22 Average number of free bases in internal loops: 2.72 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 21 Average internal loop absolute asymmetry: 3 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 22 Average internal loop relative asymmetry: 3.78 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 3 Average number of free bases in multi-loops: 1.25 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 3 Average multi-loop absolute asymmetry: 1.83 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 1.5 Average multi-loop relative asymmetry: 0.36 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 4 Average number of branches in multi-loops: 4 Minimum number of branches in multi-loops: 4

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 22 Total number of AC non-canonical base pairs: 3 Total number of AG non-canonical base pairs: 12 Total number of CC non-canonical base pairs: 1 Total number of CU non-canonical base pairs: 2 Total number of UU non-canonical base pairs: 4

Pseudoknot features

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