5AOXA

Human alu rna retrotransposition complex in the ribosome-stalling conformation
Total Genus 20
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
20
sequence length
76
structure length
76
Chain Sequence
PQYQTWEEFSRAAEKLYLADPMKARVVLKYRHSDGNLCVKVTDDLVSLVYKTDQAQDVKKIEKFHSQLMRLMVAKE
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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publication title Retrotransposition and Crystal Structure of an Alu Rnp in the Ribosome-Stalling Conformation.
pubmed doi rcsb
molecule tags Translation
source organism Homo sapiens
molecule keywords SIGNAL RECOGNITION PARTICLE 9 KDA PROTEIN
total genus 20
structure length 76
sequence length 76
chains with identical sequence D
ec nomenclature
pdb deposition date 2015-09-12

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF05486 SRP9-21 Signal recognition particle 9 kDa protein (SRP9)
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.720.10 Alpha Beta 2-Layer Sandwich Signal recognition particle alu RNA binding heterodimer, srp9/1 Signal recognition particle alu RNA binding heterodimer, srp9/1 5aoxA00
4UYKB 5AOXB 1914A 2W9JA 4UYJB 1E8OB 4UYKA 4UYJA 5AOXA 1E8OA
chains in the Genus database with same CATH superfamily
3V3LA 1914A 4GZ3A 2W9JA 4UYJB 1UJRA 2FJDB 3ITWA 3OMSA 3PE3A 3TU3B 2K4NA 4XI9A 2RSFA 4CDRA 2A90A 4GYWA 1JNRB 2KJZA 2FJBB 2FJEB 3GYXB 3BT3A 4UYJA 1E8OA 1JNZB 2X5GA 4UYKB 5AOXB 4GYYA 4AKXB 4N39A 1QMOE 5C1DA 5BNWA 4XIFA 1E8OB 2FFGA 3VCXA 3PE4A 3SK1A 4AY5A 4GZ5A 4N3BA 2X5HA 2X5TA 4UYKA 1U7IA 4GZ6A 3TAXA 4AY6A 1X4RA 4N3CA 5AOXA 2DK6A 2FJAB 4N3AA
chains in the Genus database with same CATH topology
3V3LA 1914A 4GZ3A 2W9JA 4UYJB 1UJRA 2FJDB 3ITWA 3OMSA 3PE3A 3TU3B 2K4NA 4XI9A 2RSFA 4CDRA 2A90A 4GYWA 1JNRB 2KJZA 2FJBB 2FJEB 3GYXB 3BT3A 4UYJA 1E8OA 1JNZB 2X5GA 4UYKB 5AOXB 4GYYA 4AKXB 4N39A 1QMOE 5C1DA 5BNWA 4XIFA 1E8OB 2FFGA 3VCXA 3PE4A 3SK1A 4AY5A 4GZ5A 4N3BA 2X5HA 2X5TA 4UYKA 1U7IA 4GZ6A 3TAXA 4AY6A 1X4RA 4N3CA 5AOXA 2DK6A 2FJAB 4N3AA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4UYK B;  5AOX B;  1914 A;  2W9J A;  4UYJ B;  1E8O B;  4UYK A;  4UYJ A;  5AOX A;  1E8O A; 
#chains in the Genus database with same CATH topology
 3V3L A;  1914 A;  4GZ3 A;  2W9J A;  4UYJ B;  1UJR A;  2FJD B;  3ITW A;  3OMS A;  3PE3 A;  3TU3 B;  2K4N A;  4XI9 A;  2RSF A;  4CDR A;  2A90 A;  4GYW A;  1JNR B;  2KJZ A;  2FJB B;  2FJE B;  3GYX B;  3BT3 A;  4UYJ A;  1E8O A;  1JNZ B;  2X5G A;  4UYK B;  5AOX B;  4GYY A;  4AKX B;  4N39 A;  1QMO E;  5C1D A;  5BNW A;  4XIF A;  1E8O B;  2FFG A;  3VCX A;  3PE4 A;  3SK1 A;  4AY5 A;  4GZ5 A;  4N3B A;  2X5H A;  2X5T A;  4UYK A;  1U7I A;  4GZ6 A;  3TAX A;  4AY6 A;  1X4R A;  4N3C A;  5AOX A;  2DK6 A;  2FJA B;  4N3A A; 
#chains in the Genus database with same CATH homology
 3V3L A;  1914 A;  4GZ3 A;  2W9J A;  4UYJ B;  1UJR A;  2FJD B;  3ITW A;  3OMS A;  3PE3 A;  3TU3 B;  2K4N A;  4XI9 A;  2RSF A;  4CDR A;  2A90 A;  4GYW A;  1JNR B;  2KJZ A;  2FJB B;  2FJE B;  3GYX B;  3BT3 A;  4UYJ A;  1E8O A;  1JNZ B;  2X5G A;  4UYK B;  5AOX B;  4GYY A;  4AKX B;  4N39 A;  1QMO E;  5C1D A;  5BNW A;  4XIF A;  1E8O B;  2FFG A;  3VCX A;  3PE4 A;  3SK1 A;  4AY5 A;  4GZ5 A;  4N3B A;  2X5H A;  2X5T A;  4UYK A;  1U7I A;  4GZ6 A;  3TAX A;  4AY6 A;  1X4R A;  4N3C A;  5AOX A;  2DK6 A;  2FJA B;  4N3A A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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#similar chains, but unknotted
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