2LQM | Genus

Total Genus 37

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	37
sequence length	174
structure length	174
Chain Sequence	AFARDTEVYYENDTVPHMESIEEMYSKYASMNGELPFDNGYAVPLDNVFVYTLDIASGEIKKTRASYIYREKVEKLIEIKLSSGYSLKVTPSHPVLLFRDGLQWVPAAEVKPGDVVVGVREEVLRRRIISKGELEFHEVSSVRIIDYNNWVYDLVIPETHNFIAPNGLVLHNAQ

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

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The Resolver thinks Pdb

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reading 174 atoms

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174 atoms created

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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

Chord Diagram

molecule tags	Unknown function
source organism	Pyrococcus horikoshii
publication title	NMR and Crystal Structures of the Pyrococcus horikoshii RadA Intein Guide a Strategy for Engineering a Highly Efficient and Promiscuous Intein. pubmed doi rcsb
molecule keywords	Pho radA intein
total genus	37
structure length	174
sequence length	174
ec nomenclature
pdb deposition date	2012-03-09

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF14890	Intein_splicing	Intein splicing domain

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
2.170.16.10	Mainly Beta	Beta Complex	Endonuclease - Pi-scei; Chain A, domain 1	Hedgehog/Intein (Hint) domain	2lqmA00

2L8LA 1ZD7A 1LWTA 2JNQA 1UM2A 4KL5A 2IN8A 2LQMA 2CW7A 2CW8A 2JMZA 4GIGA 1EF0A 2IN9A 4OZ6A 1JVAA 1DFAA 2IMZA 5I0AA 1LWSA 4O1SA 1VDEA 1AT0A 4O1RA 4E2UA 2LCJA 1DQ3A 3IGDA 4E2TA 5K08A 3IFJA 4KL6A 1ZDEA 2IN0A 2LWYA 3NZMA 1AM2A 1GPPA 1MI8A 2KEQA
chains in the Genus database with same CATH superfamily

2L8LA 4LX3A 1ZD7A 1LWTA 2JNQA 1UM2A 4KL5A 2IN8A 2LQMA 2CW7A 2CW8A 2JMZA 4GIGA 1EF0A 2IN9A 4OZ6A 1JVAA 1DFAA 2IMZA 5I0AA 1LWSA 4O1SA 1VDEA 1AT0A 4O1RA 4E2UA 4QFQA 2LCJA 1DQ3A 3IGDA 4E2TA 5K08A 3IFJA 4KL6A 1ZDEA 2IN0A 2LWYA 3NZMA 1AM2A 1GPPA 1MI8A 2KEQA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 2L8L A;  1ZD7 A;  1LWT A;  2JNQ A;  1UM2 A;  4KL5 A;  2IN8 A;  2LQM A;  2CW7 A;  2CW8 A;  2JMZ A;  4GIG A;  1EF0 A;  2IN9 A;  4OZ6 A;  1JVA A;  1DFA A;  2IMZ A;  5I0A A;  1LWS A;  4O1S A;  1VDE A;  1AT0 A;  4O1R A;  4E2U A;  2LCJ A;  1DQ3 A;  3IGD A;  4E2T A;  5K08 A;  3IFJ A;  4KL6 A;  1ZDE A;  2IN0 A;  2LWY A;  3NZM A;  1AM2 A;  1GPP A;  1MI8 A;  2KEQ A; 
#chains in the Genus database with same CATH topology
 2L8L A;  4LX3 A;  1ZD7 A;  1LWT A;  2JNQ A;  1UM2 A;  4KL5 A;  2IN8 A;  2LQM A;  2CW7 A;  2CW8 A;  2JMZ A;  4GIG A;  1EF0 A;  2IN9 A;  4OZ6 A;  1JVA A;  1DFA A;  2IMZ A;  5I0A A;  1LWS A;  4O1S A;  1VDE A;  1AT0 A;  4O1R A;  4E2U A;  4QFQ A;  2LCJ A;  1DQ3 A;  3IGD A;  4E2T A;  5K08 A;  3IFJ A;  4KL6 A;  1ZDE A;  2IN0 A;  2LWY A;  3NZM A;  1AM2 A;  1GPP A;  1MI8 A;  2KEQ A; 
#chains in the Genus database with same CATH homology
 2L8L A;  1ZD7 A;  1LWT A;  2JNQ A;  1UM2 A;  4KL5 A;  2IN8 A;  2LQM A;  2CW7 A;  2CW8 A;  2JMZ A;  4GIG A;  1EF0 A;  2IN9 A;  4OZ6 A;  1JVA A;  1DFA A;  2IMZ A;  5I0A A;  1LWS A;  4O1S A;  1VDE A;  1AT0 A;  4O1R A;  4E2U A;  2LCJ A;  1DQ3 A;  3IGD A;  4E2T A;  5K08 A;  3IFJ A;  4KL6 A;  1ZDE A;  2IN0 A;  2LWY A;  3NZM A;  1AM2 A;  1GPP A;  1MI8 A;  2KEQ 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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#similar chains in the pdb database (?% sequence similarity)
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2LQMA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations