1ZDE | Genus

Total Genus 40

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	40
sequence length	170
structure length	160
Chain Sequence	AMEKFAEYALSFGTEILTVEYGPLPIGKIVSEEINCSVYSVDPEGRVYTQAIAQWHDRGEQEVLEYELEDGSVIRATSDHRFLTTDYQLLAIEEIFARQLDLLTLENHRLPFPLLDAGTIKMVKVIGRRSLGVQRIFDIGLPQDHNFLLANGAIAAACFN

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 160 atoms

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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	Transferase
source organism	Synechocystis sp. pcc 6803
publication title	Crystal structures of an intein from the split dnaE gene of Synechocystis sp. PCC6803 reveal the catalytic model without the penultimate histidine and the mechanism of zinc ion inhibition of protein splicing pubmed doi rcsb
molecule keywords	DNA polymerase III alpha subunit
total genus	40
structure length	160
sequence length	170
ec nomenclature	ec 2.7.7.7: DNA-directed DNA polymerase.
pdb deposition date	2005-04-14

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	1zdeA00

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN