4GGK | Genus

Total Genus 54

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	54
sequence length	174
structure length	164
Chain Sequence	PRREVLFFPSQVTCTEALLQAPGCPCSLPHSESSLSRLLRALLAARSSLELCLFAFSSPQLGRAVQLLHQRGVRVRVITDCDYMGSQIGLLRKAGIQVRHDQDLGYMHHKFAIVDKKVLITGSLNWTTQAIQNNRENVLIMEDTEYVRLFLEEFERIWEEFDPT

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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reading 164 atoms

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164 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

publication title	The structural biochemistry of Zucchini implicates it as a nuclease in piRNA biogenesis. pubmed doi rcsb
molecule keywords	Mitochondrial cardiolipin hydrolase
molecule tags	Hydrolase
source organism	Mus musculus
total genus	54
structure length	164
sequence length	174
ec nomenclature	ec 3.1.4.-:
pdb deposition date	2012-08-06

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF13091	PLDc_2	PLD-like domain

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

cath code	Class	Architecture	Topology	Homology	Domain
3.30.870.10	Alpha Beta	2-Layer Sandwich	Endonuclease; Chain A	Endonuclease Chain A	4ggkA00

4H4AA 5BPIA 1V0UA 1BYSA 4RCTA 1RH0A 2ZE9A 1F0IA 1JY1A 1XDPA 1RFIA 2ZE4A 3QPHA 1QZQA 4URJA 1RG2A 4GENA 3SQ3A 3HSIA 3SQ8A 1MU7A 5BOXA 2F5TX 1RGUA 1V0SA 1V0VA 5BPDA 1V0RA 1XDOA 1BYRA 1RGTA 4GGJA 2C1LA 2O8RA 5LZKA 1RFFA 1RG1A 3SQ7A 5BQTA 3SQ5A 1MU9A 4GELA 4GGKA 1Q32A 1NOPA 1V0YA 1V0TA 1V0WA 4GEMA
chains in the Genus database with same CATH superfamily

4H4AA 5BPIA 1V0UA 1BYSA 4RCTA 1RH0A 2ZE9A 1F0IA 2YMBA 1JY1A 1XDPA 1RFIA 2ZE4A 3QPHA 1QZQA 4URJA 1RG2A 1VSRA 4GENA 3SQ3A 1ODGA 3HSIA 3SQ8A 1MU7A 5BOXA 2F5TX 1RGUA 1V0SA 1V0VA 5BPDA 1V0RA 1XDOA 1BYRA 3HRLA 1RGTA 4GGJA 1CW0A 2C1LA 2O8RA 5LZKA 1RFFA 1RG1A 3SQ7A 4A5ZA 3SQ5A 5BQTA 1MU9A 4GELA 4GGKA 3R3PA 1Q32A 1NOPA 1V0YA 1V0TA 1V0WA 4GEMA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 4H4A A;  5BPI A;  1V0U A;  1BYS A;  4RCT A;  1RH0 A;  2ZE9 A;  1F0I A;  1JY1 A;  1XDP A;  1RFI A;  2ZE4 A;  3QPH A;  1QZQ A;  4URJ A;  1RG2 A;  4GEN A;  3SQ3 A;  3HSI A;  3SQ8 A;  1MU7 A;  5BOX A;  2F5T X;  1RGU A;  1V0S A;  1V0V A;  5BPD A;  1V0R A;  1XDO A;  1BYR A;  1RGT A;  4GGJ A;  2C1L A;  2O8R A;  5LZK A;  1RFF A;  1RG1 A;  3SQ7 A;  5BQT A;  3SQ5 A;  1MU9 A;  4GEL A;  4GGK A;  1Q32 A;  1NOP A;  1V0Y A;  1V0T A;  1V0W A;  4GEM A; 
#chains in the Genus database with same CATH topology
 4H4A A;  5BPI A;  1V0U A;  1BYS A;  4RCT A;  1RH0 A;  2ZE9 A;  1F0I A;  2YMB A;  1JY1 A;  1XDP A;  1RFI A;  2ZE4 A;  3QPH A;  1QZQ A;  4URJ A;  1RG2 A;  1VSR A;  4GEN A;  3SQ3 A;  1ODG A;  3HSI A;  3SQ8 A;  1MU7 A;  5BOX A;  2F5T X;  1RGU A;  1V0S A;  1V0V A;  5BPD A;  1V0R A;  1XDO A;  1BYR A;  3HRL A;  1RGT A;  4GGJ A;  1CW0 A;  2C1L A;  2O8R A;  5LZK A;  1RFF A;  1RG1 A;  3SQ7 A;  4A5Z A;  3SQ5 A;  5BQT A;  1MU9 A;  4GEL A;  4GGK A;  3R3P A;  1Q32 A;  1NOP A;  1V0Y A;  1V0T A;  1V0W A;  4GEM A; 
#chains in the Genus database with same CATH homology
 4H4A A;  5BPI A;  1V0U A;  1BYS A;  4RCT A;  1RH0 A;  2ZE9 A;  1F0I A;  1JY1 A;  1XDP A;  1RFI A;  2ZE4 A;  3QPH A;  1QZQ A;  4URJ A;  1RG2 A;  4GEN A;  3SQ3 A;  3HSI A;  3SQ8 A;  1MU7 A;  5BOX A;  2F5T X;  1RGU A;  1V0S A;  1V0V A;  5BPD A;  1V0R A;  1XDO A;  1BYR A;  1RGT A;  4GGJ A;  2C1L A;  2O8R A;  5LZK A;  1RFF A;  1RG1 A;  3SQ7 A;  5BQT A;  3SQ5 A;  1MU9 A;  4GEL A;  4GGK A;  1Q32 A;  1NOP A;  1V0Y A;  1V0T A;  1V0W A;  4GEM 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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4GGKA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations