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

General features for molecule PDB_00565 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00565 Molecule name [?]: CRYSTAL STRUCTURE ANALYSIS OF A TERNARY S-DOMAIN COMPLEX OF HUMAN SIGNAL RECOGNITION PARTICLE Source [?]: RCSB Protein Data Bank Source ID [?]: 1MFQ Reference [?]: A.KUGLSTATTER,C.OUBRIDGE,K.NAGAI. INDUCED STRUCTURAL CHANGES OF 7SL RNA DURING THE ASSEMBLY OF HUMAN SIGNAL RECOGNITION PARTICLE. NAT.STRUCT.BIOL. V. 9 740 2002 ASTM NSBIEW US ISSN 1072-8368 Type [?]: Other RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: HOMO SAPIENS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 3.10 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 128 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 28 Number of paired bases [?]: 100

Click on any header below for additional features.

Stem features Number of stems [?]: 7 Number of base pairs in stems [?]: 50 Maximum length of a stem [?]: 12 Average length of a stem [?]: 7.14 Minimum length of a stem [?]: 5 Maximum estimated free energy [?]: -3.9 Average estimated free energy [?]: -10 Minimum estimated free energy [?]: -20.2

Hairpin loop features Number of hairpin loops [?]: 2 Maximum number of free bases in hairpin loops [?]: 4 Average number of free bases in hairpin loops [?]: 4 Minimum number of free bases in hairpin loop [?]: 4

Bulge loop features Number of bulge loops [?]: 1 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 [?]: 3 Maximum number of free bases in internal loops: 4 Average number of free bases in internal loops: 1.67 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 2 Average internal loop absolute asymmetry: 0.67 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 2 Average internal loop relative asymmetry: 1.33 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 8 Average number of free bases in multi-loops: 3 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 8 Average multi-loop absolute asymmetry: 5.33 Minimum multi-loop absolute asymmetry: 1 Maximum multi-loop relative asymmetry: 8 Average multi-loop relative asymmetry: 2.03 Minimum multi-loop relative asymmetry: 0 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 [?]: 9 Total number of AA non-canonical base pairs: 1 Total number of AC non-canonical base pairs: 3 Total number of AG non-canonical base pairs: 3 Total number of GG non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 1

Pseudoknot features