2LCJ | Genus

Total Genus 33

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	33
sequence length	185
structure length	185
Chain Sequence	CFPGDTRILVQIDGVPQKITLRELYELFEDERYENMVYVRKKPKREIKVYSIDLETGKVVLTDIEDVIKAPATDHLIRFELEDGRSFETTVDHPVLVYENGRFIEKRAFEVKEGDKVLVSELELVEQSSSSQDNPKNENLGSPEHDQLLEIKNIKYVRANDDFVFSLNAKKYHNVIINENIVTHQ

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 185 atoms

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185 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	Hydrolase
source organism	Pyrococcus abyssi
publication title	Structural and Mutational Studies of a Hyperthermophilic Intein from DNA Polymerase II of Pyrococcus abyssi. pubmed doi rcsb
molecule keywords	Pab polC intein
total genus	33
structure length	185
sequence length	185
ec nomenclature	ec 2.7.7.7: DNA-directed DNA polymerase.
pdb deposition date	2011-04-29

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	2lcjA00

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations