HD domain family

SCOP classification

• Root: SCOP hierarchy in SUPERFAMILY [ 0] (11)
• Class: All alpha proteins [ 46456] (284)
• Fold: HD-domain/PDEase-like [ 109603]
• Superfamily: HD-domain/PDEase-like [ 109604] (5)
• Family: HD domain [ 101340] (13)

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Family statistics

	Genomes (2,607)	Uniprot 2018_03 genome	PDB chains (SCOP 1.75)
Domains	5,223	39,963	14
Proteins	5,223	39,961	14

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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)	Diphosphoric monoester hydrolases	0	2.44	--	DIRECT
Enzyme Commission (EC)	Triphosphoric monoester hydrolases	0	2.741	--	DIRECT
Enzyme Commission (EC)	GTP diphosphokinase	0	2.44	--	DIRECT
Enzyme Commission (EC)	Guanosine-3',5'-bis(diphosphate) 3'-diphosphatase	0	2.44	--	DIRECT
Enzyme Commission (EC)	Transferring phosphorous-containing groups	0.0000012	0.2728	--	DIRECT
Enzyme Commission (EC)	Hydrolases	0.000002749	0.01852	--	DIRECT
Enzyme Commission (EC)	Transferases	0.05663	0	--	INHERITED FROM: Diphosphotransferases || GTP diphosphokinase || Transferring phosphorous-containing groups
Enzyme Commission (EC)	Acting on ester bonds	0	0.5107	Least Informative	DIRECT
Enzyme Commission (EC)	Diphosphotransferases	0	1.838	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)	growth variant	0	0.3438	--	DIRECT
Worm Phenotype (WP)	developmental timing variant	0	0.4548	--	DIRECT
Worm Phenotype (WP)	general pace of development variant	0	0.4786	--	DIRECT
Worm Phenotype (WP)	postembryonic development variant	0	0.269	--	DIRECT
Worm Phenotype (WP)	embryonic lethal	0	0.046	--	DIRECT
Worm Phenotype (WP)	lethal	0	0.00521	--	DIRECT
Worm Phenotype (WP)	fertility variant	0	0.05937	--	DIRECT
Worm Phenotype (WP)	retarded heterochronic variations	0	0.4548	--	DIRECT
Worm Phenotype (WP)	development variant	0	0.001482	--	DIRECT
Worm Phenotype (WP)	organism development variant	0	0.00297	--	DIRECT
Worm Phenotype (WP)	organ system physiology variant	0	0.04518	--	DIRECT
Worm Phenotype (WP)	organism physiology variant	0	0.1342	--	DIRECT
Worm Phenotype (WP)	organism homeostasis metabolism variant	0	0.1444	--	DIRECT
Worm Phenotype (WP)	reproductive system physiology variant	0	0.05515	--	DIRECT
Worm Phenotype (WP)	maternal sterile	0	0.1213	--	DIRECT
Worm Phenotype (WP)	hermaphrodite sterile	0	0.1203	--	DIRECT
Worm Phenotype (WP)	embryonic development variant	0	0.04518	--	DIRECT
Worm Phenotype (WP)	larval development variant	0	0.4322	--	DIRECT
Worm Phenotype (WP)	hermaphrodite fertility variant	0	0.0947	--	DIRECT
Worm Phenotype (WP)	developmental growth variant	0	0.4991	--	DIRECT
Worm Phenotype (WP)	larval growth variant	0	0.4991	--	DIRECT
Worm Phenotype (WP)	sterile progeny	0	0.6547	--	DIRECT
Worm Phenotype (WP)	hermaphrodite fertility reduced	0	0.1193	--	DIRECT
Worm Phenotype (WP)	fertility reduced	0	0.06449	--	DIRECT
Worm Phenotype (WP)	physiology variant	1	0	--	INHERITED FROM: hermaphrodite fertility variant || developmental growth variant || retarded heterochronic variations || larval lethal || reproductive system physiology variant || organism homeostasis metabolism variant || lethal || larval development variant || sterile progeny || organism physiology variant || progeny variant || slow growth || development variant || developmental timing variant || hermaphrodite sterile || growth variant || hermaphrodite fertility reduced || embryonic development variant || embryonic lethal || larval growth variant || general pace of development variant || fertility variant || postembryonic development variant || larval arrest || organ system physiology variant || maternal sterile || organism development variant || fertility reduced
Worm Phenotype (WP)	sterile	1	0.1135	--	INHERITED FROM: hermaphrodite sterile || maternal sterile || sterile progeny
Worm Phenotype (WP)	slow growth	0	0.4945	Least Informative	DIRECT
Worm Phenotype (WP)	larval lethal	0	0.5727	Least Informative	DIRECT
Worm Phenotype (WP)	larval arrest	0	0.4991	Least Informative	DIRECT
Worm Phenotype (WP)	progeny variant	0	0.6514	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)	head region	0	0.4759	--	DIRECT
Xenopus ANatomical entity (XAN)	trunk region	0	0.388	--	DIRECT
Xenopus ANatomical entity (XAN)	central nervous system	0	0.5841	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical structure	0	0	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical group	0	0.1408	--	DIRECT
Xenopus ANatomical entity (XAN)	primary germ layer	0	0.6748	--	DIRECT
Xenopus ANatomical entity (XAN)	organism subdivision	0	0.1679	--	DIRECT
Xenopus ANatomical entity (XAN)	compound organ	0	0.2177	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical region	0	0.1803	--	DIRECT
Xenopus ANatomical entity (XAN)	multicellular anatomical structure	0	0.1131	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical system	1	0.283	--	INHERITED FROM: urogenital system || nervous system || central nervous system
Xenopus ANatomical entity (XAN)	whole organism	1	0.0884	--	INHERITED FROM: urogenital system || head region || nervous system || anatomical group || cavitated compound organ || multicellular anatomical structure || compound organ || trunk || tissue || anatomical region || central nervous system || trunk region || organism subdivision || head || primary germ layer
Xenopus ANatomical entity (XAN)	embryo	0	0.5979	Least Informative	DIRECT
Xenopus ANatomical entity (XAN)	urogenital system	0	0.4777	Least Informative	DIRECT
Xenopus ANatomical entity (XAN)	nervous system	0	0.5619	Least Informative	DIRECT
Xenopus ANatomical entity (XAN)	head	0	0.4777	Least Informative	DIRECT
Xenopus ANatomical entity (XAN)	trunk	0	0.3894	Least Informative	DIRECT
Xenopus ANatomical entity (XAN)	tissue	0	0.4672	Least Informative	DIRECT
Xenopus ANatomical entity (XAN)	cavitated compound organ	0	0.2685	Least Informative	DIRECT
Xenopus DEvelopment stage (XDE)	tadpole stage	0	0.5805	--	DIRECT
Xenopus DEvelopment stage (XDE)	metamorphosing tadpole stage	0	0.6447	--	DIRECT
Xenopus DEvelopment stage (XDE)	climax stage	0	0.7127	--	DIRECT
Xenopus DEvelopment stage (XDE)	NF stage	0	0.01895	--	DIRECT
Xenopus DEvelopment stage (XDE)	post-embryonic stage	0	0.5593	Least Informative	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)	guard cell	0	0.2279	--	DIRECT
Plant ANatomical entity (PAN)	stomatal complex	0	0.2279	--	DIRECT
Plant ANatomical entity (PAN)	epidermal cell	0	0.2152	--	DIRECT
Plant ANatomical entity (PAN)	epidermis	0	0.2046	--	DIRECT
Plant ANatomical entity (PAN)	shoot epidermis	0	0.2224	--	DIRECT
Plant ANatomical entity (PAN)	plant cell	0	0.1228	--	DIRECT
Plant ANatomical entity (PAN)	shoot system	0	0.05272	--	DIRECT
Plant ANatomical entity (PAN)	portion of plant tissue	0	0.1621	--	DIRECT
Plant ANatomical entity (PAN)	shoot epidermal cell	0	0.227	--	DIRECT
Plant ANatomical entity (PAN)	collective plant structure	0	0.01555	--	DIRECT
Plant ANatomical entity (PAN)	plant structure	1	0	--	INHERITED FROM: collective plant structure || guard cell || shoot system || portion of plant tissue || stomatal complex || epidermis || epidermal cell || shoot epidermal cell || plant cell || shoot epidermis
Plant ANatomical entity (PAN)	collective plant organ structure	1	0.03998	--	INHERITED FROM: guard cell || shoot epidermal cell || stomatal complex || shoot system || shoot epidermis
Plant structure DEvelopment stage (PDE)	whole plant development stage	0	0.1547	--	DIRECT
Plant structure DEvelopment stage (PDE)	1 main shoot growth stage	0	0.3245	--	DIRECT
Plant structure DEvelopment stage (PDE)	sporophyte vegetative stage	0	0.1593	--	DIRECT
Plant structure DEvelopment stage (PDE)	floral organ differentiation stage	0	0.07163	--	DIRECT
Plant structure DEvelopment stage (PDE)	corolla development stage	0	0.1484	--	DIRECT
Plant structure DEvelopment stage (PDE)	flowering stage	0	0.1648	--	DIRECT
Plant structure DEvelopment stage (PDE)	plant embryo stage	0	0.2319	--	DIRECT
Plant structure DEvelopment stage (PDE)	collective plant organ structure development stage	0	0.0282	--	DIRECT
Plant structure DEvelopment stage (PDE)	plant organ development stage	0	0.06127	--	DIRECT
Plant structure DEvelopment stage (PDE)	reproductive shoot system development stage	0	0.0371	--	DIRECT
Plant structure DEvelopment stage (PDE)	collective phyllome structure development stage	0	0.07163	--	DIRECT
Plant structure DEvelopment stage (PDE)	phyllome development stage	0	0.3879	--	DIRECT
Plant structure DEvelopment stage (PDE)	floral organ formation stage	0	0.07163	--	DIRECT
Plant structure DEvelopment stage (PDE)	leaf development stage	1	0.3879	--	INHERITED FROM: 4 leaf senescence stage
Plant structure DEvelopment stage (PDE)	leaf production stage	1	0.3272	--	INHERITED FROM: LP.02 two leaves visible stage || LP.10 ten leaves visible stage || LP.04 four leaves visible stage || LP.08 eight leaves visible stage || LP.06 six leaves visible stage
Plant structure DEvelopment stage (PDE)	flower development stage	1	0.05402	--	INHERITED FROM: corolla development stage || flowering stage || floral organ differentiation stage || floral organ formation stage
Plant structure DEvelopment stage (PDE)	life of whole plant stage	1	0.1584	--	INHERITED FROM: sporophyte vegetative stage || C globular stage || LP.10 ten leaves visible stage || E expanded cotyledon stage || F mature embryo stage || LP.04 four leaves visible stage || D bilateral stage || LP.06 six leaves visible stage || LP.08 eight leaves visible stage || LP.02 two leaves visible stage || plant embryo stage || 1 main shoot growth stage
Plant structure DEvelopment stage (PDE)	shoot system development stage	1	0.02956	--	INHERITED FROM: phyllome development stage || reproductive shoot system development stage || floral organ formation stage || floral organ differentiation stage || flowering stage || corolla development stage || plant organ development stage || 4 leaf senescence stage
Plant structure DEvelopment stage (PDE)	sporophyte development stage	1	0.1584	--	INHERITED FROM: LP.08 eight leaves visible stage || E expanded cotyledon stage || LP.10 ten leaves visible stage || LP.06 six leaves visible stage || sporophyte vegetative stage || C globular stage || 1 main shoot growth stage || D bilateral stage || F mature embryo stage || LP.04 four leaves visible stage || plant embryo stage || LP.02 two leaves visible stage
Plant structure DEvelopment stage (PDE)	4 leaf senescence stage	0	0.3895	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	E expanded cotyledon stage	0	0.2861	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	F mature embryo stage	0	0.3205	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	C globular stage	0	0.3087	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	D bilateral stage	0	0.301	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.08 eight leaves visible stage	0	0.4752	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.02 two leaves visible stage	0	0.4603	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.10 ten leaves visible stage	0	0.4234	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.04 four leaves visible stage	0	0.3479	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.06 six leaves visible stage	0	0.4268	Least Informative	DIRECT

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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)	Diphosphotransferases	0	2.327	--	DIRECT
Enzyme Commission (EC)	GTP diphosphokinase	0	2.929	--	DIRECT
Enzyme Commission (EC)	5'-deoxynucleotidase	0	3.23	--	DIRECT
Enzyme Commission (EC)	Diphosphoric monoester hydrolases	0	2.628	--	DIRECT
Enzyme Commission (EC)	Guanosine-3',5'-bis(diphosphate) 3'-diphosphatase	0	2.929	--	DIRECT
Enzyme Commission (EC)	Triphosphoric monoester hydrolases	0.000000000000007958	3.23	--	DIRECT
Enzyme Commission (EC)	Transferring phosphorus-containing groups	0.00000002826	0.7021	--	DIRECT
Enzyme Commission (EC)	Glycine--tRNA ligase	0.00000383	2.753	--	DIRECT
Enzyme Commission (EC)	Hydrolases	3.693e-16	0.4043	Least Informative	DIRECT
Enzyme Commission (EC)	Transferases	0.2212	0.3972	Least Informative	INHERITED FROM: Diphosphotransferases || GTP diphosphokinase || Transferring phosphorus-containing groups
Enzyme Commission (EC)	Acting on ester bonds	0	0.8756	Moderately Informative	DIRECT
Enzyme Commission (EC)	Ligases	1	1.14	Moderately Informative	INHERITED FROM: Glycine--tRNA ligase
Enzyme Commission (EC)	Phosphoric monoester hydrolases	0.000002443	1.338	Informative	DIRECT
Enzyme Commission (EC)	Forming carbon-oxygen bonds	0.7522	1.738	Informative	INHERITED FROM: Glycine--tRNA ligase
Enzyme Commission (EC)	Ligases forming aminoacyl-tRNA and related compounds	0.7518	1.753	Highly Informative	INHERITED FROM: Glycine--tRNA ligase

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UniProtKB KeyWords (KW)

Highlighted in gray are those with FDR_all>0.001

	KW term	FDR (all)	IC level	SDKW level	Annotation (direct or inherited)
Post-translational modification	Hydrolase	0	0.4314	Least Informative	DIRECT

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