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

General features for molecule PDB_01134 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01134 Molecule name [?]: PHENYLALANYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS COMPLEXED WITH TRNA AND A PHENYLALANYL-ADENYL Source [?]: RCSB Protein Data Bank Source ID [?]: 2IY5 Reference [?]: N.MOOR,O.KOTIK-KOGAN,D.TWOROWSKI,M.SUKHANOVA, M.SAFRO. THE CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF PHENYLALANYL-TRNA SYNTHETASE WITH TRNAPHE AND A PHENYLALANYL-ADENYLATE ANALOGUE REVEALS A CONFORMATIONAL SWITCH OF THE CCA END.. BIOCHEMISTRY V. 45 10572 2006 ASTM BICHAW US ISSN 0006-2960 Type [?]: Other 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 3.10 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 76 Fragments used [?]: No Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00362 Number of domains [?]: 1 Number of unpaired bases [?]: 38 Number of paired bases [?]: 38

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 19 Maximum length of a stem [?]: 7 Average length of a stem [?]: 4.75 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -2.4 Average estimated free energy [?]: -9.45 Minimum estimated free energy [?]: -16.9

Hairpin loop features Number of hairpin loops [?]: 3 Maximum number of free bases in hairpin loops [?]: 9 Average number of free bases in hairpin loops [?]: 7.33 Minimum number of free bases in hairpin loop [?]: 5

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

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 5 Average number of free bases in multi-loops: 3 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 5 Average multi-loop absolute asymmetry: 2.67 Minimum multi-loop absolute asymmetry: 1 Maximum multi-loop relative asymmetry: 1.67 Average multi-loop relative asymmetry: 0.71 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 [?]: 1 Total number of AC non-canonical base pairs: 1

Pseudoknot features