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

General features for molecule PDB_01214 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01214 Molecule name [?]: VARIANT 13 OF RIBONUCLEOPROTEIN CORE OF THE E. COLI SIGNAL RECOGNITION PARTICLE Source [?]: RCSB Protein Data Bank Source ID [?]: 2PXP Reference [?]: A.Y.KEEL,R.P.RAMBO,R.T.BATEY,J.S.KIEFT. A GENERAL STRATEGY TO SOLVE THE PHASE PROBLEM IN RNA CRYSTALLOGRAPHY.. STRUCTURE V. 15 761 2007 ASTM STRUE6 UK ISSN 0969-2126 Type [?]: Other 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, RESOLUTION 2.50 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 49 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 9 Number of paired bases [?]: 40

Click on any header below for additional features.

Stem features Number of stems [?]: 3 Number of base pairs in stems [?]: 20 Maximum length of a stem [?]: 10 Average length of a stem [?]: 6.67 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -5.7 Average estimated free energy [?]: -9.87 Minimum estimated free energy [?]: -18.1

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 [?]: 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: 4 Average number of free bases in internal loops: 1.75 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 3 Average internal loop absolute asymmetry: 1.5 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 4 Average internal loop relative asymmetry: 2.5 Minimum internal loop relative asymmetry: 1

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 4 Total number of AC non-canonical base pairs: 1 Total number of AG non-canonical base pairs: 2 Total number of GG non-canonical base pairs: 1

Pseudoknot features