5GKCA

The crystal structure of the cps-6 h148a/f122a
Total Genus 70
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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
70
sequence length
242
structure length
238
Chain Sequence
GSPSRSAEIMKHGYPGFTNVRTYEDFVLSYDYKTRTAHWVCEHLTPERLKVDRKLCEAKPDITFPQKFLSQNTDYKCSGFDRGALAAAGNHRKSQLAVDQTFYLSNMSPQVGRGFNRDKWNDLEMHCRRVAKKMINSYIITGPLYLPKLEGDGKKYIKYQVIGDNNVAVPTHFFKVALFEVTPGKFELESYILPNAVIEDTVEISKFHVPLDAVERSAGLEIFARLDPKSIVKENGAK
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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 Crystal structure of endonuclease G in complex with DNA reveals how it nonspecifically degrades DNA as a homodimer.
pubmed doi rcsb
source organism Caenorhabditis elegans
molecule tags Hydrolase
molecule keywords Endonuclease G, mitochondrial
total genus 70
structure length 238
sequence length 242
chains with identical sequence B
ec nomenclature ec 3.1.30.-:
pdb deposition date 2016-07-04

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01223 Endonuclease_NS DNA/RNA non-specific endonuclease
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.570.10 Alpha Beta 3-Layer(aba) Sandwich Extracellular Endonuclease; Chain A Extracellular Endonuclease, subunit A 5gkcA00
1G8TA 5DLWA 3OWVA 5GKPA 5L0EA 4QH0A 1QL0A 3WAYA 3NKQA 3WAVA 5LQQA 3NKMA 3NKNA 4GTYA 3WAXA 2XR9A 2XRGA 3WAWA 4B56A 5L0BA 5HRTA 5L0KA 5DLTA 3S5BA 4GTWA 1SMNA 4ZG7A 4A1NA 5DLVA 3NKRA 4GTZA 5INHA 1ZM8A 4E3YA 2XH3A 4ZG9A 5LIAA 3NKOA 5GKCA 5IJQA 4ZGAA 4QGOA 1QAEA 2O3BA 5IJSA 5KXAA 4QN0A 3NKPA 3ISMA 4ZG6A 2XGRA 4GTXA
chains in the Genus database with same CATH superfamily
1G8TA 5DLWA 3OWVA 5GKPA 5L0EA 4QH0A 1QL0A 3WAYA 3NKQA 3WAVA 5LQQA 3NKMA 3NKNA 4GTYA 3WAXA 2XR9A 2XRGA 3WAWA 4B56A 5L0BA 5HRTA 5L0KA 5DLTA 3S5BA 4GTWA 1SMNA 4ZG7A 4A1NA 5DLVA 3NKRA 4GTZA 5INHA 1ZM8A 4E3YA 2XH3A 4ZG9A 5LIAA 3NKOA 5GKCA 5IJQA 4ZGAA 4QGOA 1QAEA 2O3BA 5IJSA 5KXAA 4QN0A 3NKPA 3ISMA 4ZG6A 2XGRA 4GTXA
chains in the Genus database with same CATH topology
1G8TA 5DLWA 3OWVA 5GKPA 5L0EA 4QH0A 1QL0A 3WAYA 3NKQA 3WAVA 5LQQA 3NKMA 3NKNA 4GTYA 3WAXA 2XR9A 2XRGA 3WAWA 4B56A 5L0BA 5HRTA 5L0KA 5DLTA 3S5BA 4GTWA 1SMNA 4ZG7A 4A1NA 5DLVA 3NKRA 4GTZA 5INHA 1ZM8A 4E3YA 2XH3A 4ZG9A 5LIAA 3NKOA 5GKCA 5IJQA 4ZGAA 4QGOA 1QAEA 2O3BA 5IJSA 5KXAA 4QN0A 3NKPA 3ISMA 4ZG6A 2XGRA 4GTXA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1G8T A;  5DLW A;  3OWV A;  5GKP A;  5L0E A;  4QH0 A;  1QL0 A;  3WAY A;  3NKQ A;  3WAV A;  5LQQ A;  3NKM A;  3NKN A;  4GTY A;  3WAX A;  2XR9 A;  2XRG A;  3WAW A;  4B56 A;  5L0B A;  5HRT A;  5L0K A;  5DLT A;  3S5B A;  4GTW A;  1SMN A;  4ZG7 A;  4A1N A;  5DLV A;  3NKR A;  4GTZ A;  5INH A;  1ZM8 A;  4E3Y A;  2XH3 A;  4ZG9 A;  5LIA A;  3NKO A;  5GKC A;  5IJQ A;  4ZGA A;  4QGO A;  1QAE A;  2O3B A;  5IJS A;  5KXA A;  4QN0 A;  3NKP A;  3ISM A;  4ZG6 A;  2XGR A;  4GTX A; 
#chains in the Genus database with same CATH topology
 1G8T A;  5DLW A;  3OWV A;  5GKP A;  5L0E A;  4QH0 A;  1QL0 A;  3WAY A;  3NKQ A;  3WAV A;  5LQQ A;  3NKM A;  3NKN A;  4GTY A;  3WAX A;  2XR9 A;  2XRG A;  3WAW A;  4B56 A;  5L0B A;  5HRT A;  5L0K A;  5DLT A;  3S5B A;  4GTW A;  1SMN A;  4ZG7 A;  4A1N A;  5DLV A;  3NKR A;  4GTZ A;  5INH A;  1ZM8 A;  4E3Y A;  2XH3 A;  4ZG9 A;  5LIA A;  3NKO A;  5GKC A;  5IJQ A;  4ZGA A;  4QGO A;  1QAE A;  2O3B A;  5IJS A;  5KXA A;  4QN0 A;  3NKP A;  3ISM A;  4ZG6 A;  2XGR A;  4GTX A; 
#chains in the Genus database with same CATH homology
 1G8T A;  5DLW A;  3OWV A;  5GKP A;  5L0E A;  4QH0 A;  1QL0 A;  3WAY A;  3NKQ A;  3WAV A;  5LQQ A;  3NKM A;  3NKN A;  4GTY A;  3WAX A;  2XR9 A;  2XRG A;  3WAW A;  4B56 A;  5L0B A;  5HRT A;  5L0K A;  5DLT A;  3S5B A;  4GTW A;  1SMN A;  4ZG7 A;  4A1N A;  5DLV A;  3NKR A;  4GTZ A;  5INH A;  1ZM8 A;  4E3Y A;  2XH3 A;  4ZG9 A;  5LIA A;  3NKO A;  5GKC A;  5IJQ A;  4ZGA A;  4QGO A;  1QAE A;  2O3B A;  5IJS A;  5KXA A;  4QN0 A;  3NKP A;  3ISM A;  4ZG6 A;  2XGR A;  4GTX 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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