Phospholipase D/nuclease superfamily

SCOP classification

• Root: SCOP hierarchy in SUPERFAMILY [ 0] (11)
• Class: Alpha and beta proteins (a+b) [ 53931] (376)
• Fold: Phospholipase D/nuclease [ 56023]
• Superfamily: Phospholipase D/nuclease [ 56024] (5)
• Families:
  • Nuclease [ 56025]
  • Phospholipase D [ 64391]
  • Tyrosyl-DNA phosphodiesterase TDP1 [ 69815]
  • Polyphosphate kinase C-terminal domain [ 143860]
  • TrmB middle domain-like [ 160780]

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Superfamily statistics

	Genomes (3,051)	Uniprot 2018_03 genome	PDB chains (SCOP 1.75)
Domains	23,361	152,836	18
Proteins	13,331	87,428	10

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Functional annotation

• General category: Metabolism
• Detailed category: Other enzymes

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Enzyme Commission (EC)

Highlighted in gray are those with FDR_all>0.001

	EC term	FDR (all)	IC level	SDEO level	Annotation (direct or inherited)
Enzyme Commission (EC)	CDP-diacylglycerol--glycerol-3-phosphate 3-phospha	0	2.56	--	DIRECT
Enzyme Commission (EC)	Transferring phosphorous-containing groups	0	0.2175	--	DIRECT
Enzyme Commission (EC)	Transferases	0.0000000003056	0	--	DIRECT
Enzyme Commission (EC)	Hydrolases	0.000006932	0.04271	--	DIRECT
Enzyme Commission (EC)	Acting on ester bonds	0	0.4665	Least Informative	DIRECT
Enzyme Commission (EC)	Phosphoric diester hydrolases	0	1.162	Moderately Informative	DIRECT
Enzyme Commission (EC)	Phosphotransferases with a phosphate group as acce	0	1.281	Informative	DIRECT
Enzyme Commission (EC)	Polyphosphate kinase	0	2.083	Highly Informative	DIRECT
Enzyme Commission (EC)	Phospholipase D	0	2.083	Highly Informative	DIRECT
Enzyme Commission (EC)	Transferases for other substituted phosphate group	0.000000153	1.782	Highly Informative	DIRECT

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Worm Phenotype (WP)

Highlighted in gray are those with FDR_all>0.001

	WP term	FDR (all)	IC level	SDWP level	Annotation (direct or inherited)
Worm Phenotype (WP)	embryonic lethal	0	0.07108	--	DIRECT
Worm Phenotype (WP)	lethal	0	0.01121	--	DIRECT
Worm Phenotype (WP)	fertility variant	0	0.08329	--	DIRECT
Worm Phenotype (WP)	development variant	0	0.001706	--	DIRECT
Worm Phenotype (WP)	morphology variant	0	0.06117	--	DIRECT
Worm Phenotype (WP)	organism development variant	0	0.004279	--	DIRECT
Worm Phenotype (WP)	organism morphology variant	0	0.2011	--	DIRECT
Worm Phenotype (WP)	organ system physiology variant	0	0.05921	--	DIRECT
Worm Phenotype (WP)	reproductive system physiology variant	0	0.07209	--	DIRECT
Worm Phenotype (WP)	maternal sterile	0	0.171	--	DIRECT
Worm Phenotype (WP)	hermaphrodite sterile	0	0.1685	--	DIRECT
Worm Phenotype (WP)	embryonic development variant	0	0.06709	--	DIRECT
Worm Phenotype (WP)	hermaphrodite fertility variant	0	0.1278	--	DIRECT
Worm Phenotype (WP)	hermaphrodite fertility reduced	0	0.1672	--	DIRECT
Worm Phenotype (WP)	fertility reduced	0	0.09267	--	DIRECT
Worm Phenotype (WP)	physiology variant	1	0	--	INHERITED FROM: hermaphrodite fertility variant || reproductive system physiology variant || lethal || development variant || hermaphrodite sterile || hermaphrodite fertility reduced || embryonic development variant || embryonic lethal || fertility variant || organ system physiology variant || maternal sterile || organism development variant || fertility reduced
Worm Phenotype (WP)	sterile	1	0.161	--	INHERITED FROM: hermaphrodite sterile || maternal sterile

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Yeast Phenotype (YP)

Highlighted in gray are those with FDR_all>0.001

	YP term	FDR (all)	IC level	SDYP level	Annotation (direct or inherited)
Yeast Phenotype (YP)	cellular processes	0	0.1328	--	DIRECT
Yeast Phenotype (YP)	stress resistance	0	0.2018	--	DIRECT
Yeast Phenotype (YP)	competitive fitness	0	0.1389	--	DIRECT
Yeast Phenotype (YP)	fitness	0	0.1328	--	DIRECT
Yeast Phenotype (YP)	metabolism and growth	0	0.5905	Least Informative	DIRECT

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Xenopus Anatomy (XA)

Highlighted in gray are those with FDR_all>0.001

	XA term	FDR (all)	IC level	SDXA level	Annotation (direct or inherited)
Xenopus ANatomical entity (XAN)	anatomical structure	0	0	--	DIRECT

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Arabidopsis Plant Ontology (AP)

Highlighted in gray are those with FDR_all>0.001

	AP term	FDR (all)	IC level	SDAP level	Annotation (direct or inherited)
Plant ANatomical entity (PAN)	shoot system	0	0.05747	--	DIRECT
Plant ANatomical entity (PAN)	multi-tissue plant structure	0	0.2691	--	DIRECT
Plant ANatomical entity (PAN)	collective plant structure	0	0.01577	--	DIRECT
Plant ANatomical entity (PAN)	plant structure	1	0	--	INHERITED FROM: collective plant structure || multi-tissue plant structure || shoot system
Plant ANatomical entity (PAN)	collective plant organ structure	1	0.04502	--	INHERITED FROM: shoot system

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Enzyme Commission (EC)

Highlighted in gray are those with FDR_all>0.001

	EC term	FDR (all)	IC level	SDEC level	Annotation (direct or inherited)
Enzyme Commission (EC)	Polyphosphate kinase	0	2.475	--	DIRECT
Enzyme Commission (EC)	CDP-diacylglycerol--glycerol-3-phosphate 1-phosphatidyltransferase	0	2.952	--	DIRECT
Enzyme Commission (EC)	Acting on ester bonds	0	0.7559	--	DIRECT
Enzyme Commission (EC)	Exonucleases active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters	0	2.952	--	DIRECT
Enzyme Commission (EC)	Phospholipase D	0	2.475	--	DIRECT
Enzyme Commission (EC)	Transferases	0.000000005204	0.3035	--	DIRECT
Enzyme Commission (EC)	Transferring phosphorus-containing groups	0	0.5453	Least Informative	DIRECT
Enzyme Commission (EC)	Hydrolases	0.00000008644	0.3541	Least Informative	DIRECT
Enzyme Commission (EC)	Phosphotransferases with a phosphate group as acceptor	0	1.59	Informative	DIRECT
Enzyme Commission (EC)	Phosphoric diester hydrolases	0	1.46	Informative	DIRECT
Enzyme Commission (EC)	Transferases for other substituted phosphate groups	0.00000008159	2.049	Highly Informative	DIRECT

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