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

General features for molecule PDB_00727 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00727 Molecule name [?]: HIGH RESOLUTION STRUCTURE OF A PICORNAVIRAL INTERNAL CIS- ACTING REPLICATION ELEMENT Source [?]: RCSB Protein Data Bank Source ID [?]: 1T28 Reference [?]: V.THIVIYANATHAN,Y.YANG,K.KALUARACHCHI,R.REYNBRAND, D.G.GORENSTEIN,S.M.LEMON. HIGH RESOLUTION STRUCTURE OF A PICORNAVIRAL INTERNAL CIS-ACTING REPLICATION ELEMENT(CRE).. PROC.NATL.ACAD.SCI.USA V. 101 12688 2004 ASTM PNASA6 US ISSN 0027-8424 Type [?]: Viral & Phage RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: N/A Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 34 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 20 Number of paired bases [?]: 14

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 7 Maximum length of a stem [?]: 5 Average length of a stem [?]: 3.5 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -3.3 Average estimated free energy [?]: -5.4 Minimum estimated free energy [?]: -7.5

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 16 Average number of free bases in hairpin loops [?]: 16 Minimum number of free bases in hairpin loop [?]: 16

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 [?]: 1 Maximum number of free bases in internal loops: 2 Average number of free bases in internal loops: 2 Minimum number of free bases in internal loop: 2 Maximum internal loop absolute asymmetry: 0 Average internal loop absolute asymmetry: 0 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

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 0

Pseudoknot features