2XFMA

Complex structure of the miwi paz domain bound to methylated single stranded rna
Total Genus 24

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
24
sequence length
120
structure length
120
Chain Sequence
RSETVLDFMFNLYQQTEEHKFQEQVSKELIGLIVLTKYNNKTYRVDDIDWDQNPKSTFKKADGSEVSFLEYYRKQYNQEITDLKQPVLVSQPKRRRGPGGTLPGPAMLIPELCYLTGLTD

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.


  Genus data interpretation
molecule tags Rna/protein
source organism Mus musculus
publication title Recognition of 2'-O-Methylated 3'-End of Pirna by the Paz Domain of a Piwi Protein.
pubmed doi rcsb
molecule keywords PIWI-LIKE PROTEIN 1
total genus 24
structure length 120
sequence length 120
ec nomenclature
pdb deposition date 2010-05-27

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02170 PAZ PAZ domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.170.260.10 Mainly Beta Beta Complex paz domain paz domain 2xfmA00
5T7BA 4NHAA 4NGDA 1SI3A 3O7XA 4KRFA 4NGFA 3QIRA 4OLBA 4W5RA 4Z4CA 4OLAA 4W5QA 4Z4FA 4W5OA 1R4KA 4Z4HA 4NH3A 4Z4GA 3MJ0A 1VYNA 3O3IX 4NH6A 4Z4EA 3O6EX 2QVWA 5KI6A 2XFMA 4F3TA 5JS1A 2L5CA 4KREA 1SI2A 4Z4IA 4NH5A 4NGBA 4W5NA 4NGCA 1R6ZA 5JS2A 1T2RA 4NGGA 2FFLA 4W5TA 3O7VX 2L5DA 1T2SA
chains in the Genus database with same CATH superfamily
5T7BA 2DB9A 3HM9A 1SI3A 3O7XA 4NHAA 4NGFA 3QIRA 4OLBA 4NGDA 1U04A 3HJFA 1Z26A 2BZEA 4Z4CA 4W5RA 4OLAA 3DLHA 4W5QA 4Z4FA 4W5OA 1R4KA 4Z4HA 4NH3A 4Z4GA 3MJ0A 1VYNA 3O3IX 3HK2A 4NH6A 4KRFA 4Z4EA 3F73A 3O6EX 2QVWA 3HO1A 5KI6A 2XFMA 4F3TA 5JS1A 2L5CA 3U1UA 4KREA 1SI2A 1Z25A 4Z4IA 4L1UA 4NH5A 3DA5A 4NGBA 4W5NA 4L1PA 4NGCA 1R6ZA 5JS2A 1T2RA 4NGGA 3HVRA 2FFLA 4W5TA 3DLBA 3O7VX 2L5DA 1T2SA
chains in the Genus database with same CATH topology
5T7BA 2DB9A 3HM9A 1SI3A 3O7XA 4NHAA 4NGFA 3QIRA 4OLBA 4NGDA 1U04A 3HJFA 1Z26A 2BZEA 4Z4CA 4W5RA 4OLAA 3DLHA 4W5QA 4Z4FA 4W5OA 1R4KA 4Z4HA 4NH3A 4Z4GA 3MJ0A 1VYNA 3O3IX 3HK2A 4NH6A 4KRFA 4Z4EA 3F73A 3O6EX 2QVWA 3HO1A 5KI6A 2XFMA 4F3TA 5JS1A 2L5CA 3U1UA 4KREA 1SI2A 1Z25A 4Z4IA 4L1UA 4NH5A 3DA5A 4NGBA 4W5NA 4L1PA 4NGCA 1R6ZA 5JS2A 1T2RA 4NGGA 3HVRA 2FFLA 4W5TA 3DLBA 3O7VX 2L5DA 1T2SA
chains in the Genus database with same CATH homology

  
#chains in the Genus database with same CATH superfamily
 5T7B A;  4NHA A;  4NGD A;  1SI3 A;  3O7X A;  4KRF A;  4NGF A;  3QIR A;  4OLB A;  4W5R A;  4Z4C A;  4OLA A;  4W5Q A;  4Z4F A;  4W5O A;  1R4K A;  4Z4H A;  4NH3 A;  4Z4G A;  3MJ0 A;  1VYN A;  3O3I X;  4NH6 A;  4Z4E A;  3O6E X;  2QVW A;  5KI6 A;  2XFM A;  4F3T A;  5JS1 A;  2L5C A;  4KRE A;  1SI2 A;  4Z4I A;  4NH5 A;  4NGB A;  4W5N A;  4NGC A;  1R6Z A;  5JS2 A;  1T2R A;  4NGG A;  2FFL A;  4W5T A;  3O7V X;  2L5D A;  1T2S A; 
#chains in the Genus database with same CATH topology
 5T7B A;  2DB9 A;  3HM9 A;  1SI3 A;  3O7X A;  4NHA A;  4NGF A;  3QIR A;  4OLB A;  4NGD A;  1U04 A;  3HJF A;  1Z26 A;  2BZE A;  4Z4C A;  4W5R A;  4OLA A;  3DLH A;  4W5Q A;  4Z4F A;  4W5O A;  1R4K A;  4Z4H A;  4NH3 A;  4Z4G A;  3MJ0 A;  1VYN A;  3O3I X;  3HK2 A;  4NH6 A;  4KRF A;  4Z4E A;  3F73 A;  3O6E X;  2QVW A;  3HO1 A;  5KI6 A;  2XFM A;  4F3T A;  5JS1 A;  2L5C A;  3U1U A;  4KRE A;  1SI2 A;  1Z25 A;  4Z4I A;  4L1U A;  4NH5 A;  3DA5 A;  4NGB A;  4W5N A;  4L1P A;  4NGC A;  1R6Z A;  5JS2 A;  1T2R A;  4NGG A;  3HVR A;  2FFL A;  4W5T A;  3DLB A;  3O7V X;  2L5D A;  1T2S A; 
#chains in the Genus database with same CATH homology
 5T7B A;  2DB9 A;  3HM9 A;  1SI3 A;  3O7X A;  4NHA A;  4NGF A;  3QIR A;  4OLB A;  4NGD A;  1U04 A;  3HJF A;  1Z26 A;  2BZE A;  4Z4C A;  4W5R A;  4OLA A;  3DLH A;  4W5Q A;  4Z4F A;  4W5O A;  1R4K A;  4Z4H A;  4NH3 A;  4Z4G A;  3MJ0 A;  1VYN A;  3O3I X;  3HK2 A;  4NH6 A;  4KRF A;  4Z4E A;  3F73 A;  3O6E X;  2QVW A;  3HO1 A;  5KI6 A;  2XFM A;  4F3T A;  5JS1 A;  2L5C A;  3U1U A;  4KRE A;  1SI2 A;  1Z25 A;  4Z4I A;  4L1U A;  4NH5 A;  3DA5 A;  4NGB A;  4W5N A;  4L1P A;  4NGC A;  1R6Z A;  5JS2 A;  1T2R A;  4NGG A;  3HVR A;  2FFL A;  4W5T A;  3DLB A;  3O7V X;  2L5D A;  1T2S 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)

  
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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