Activating enzymes of the ubiquitin-like proteins superfamily

SCOP classification

• Root: SCOP hierarchy in SUPERFAMILY [ 0] (11)
• Class: Alpha and beta proteins (a/b) [ 51349] (147)
• Fold: Activating enzymes of the ubiquitin-like proteins [ 69571]
• Superfamily: Activating enzymes of the ubiquitin-like proteins [ 69572] (2)
• Families:
  • Molybdenum cofactor biosynthesis protein MoeB [ 69573]
  • Ubiquitin activating enzymes (UBA) [ 89763] (2)

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Superfamily statistics

	Genomes (2,682)	Uniprot 2018_03 genome	PDB chains (SCOP 1.75)
Domains	11,658	63,156	11
Proteins	10,518	60,132	11

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Functional annotation

• General category: Metabolism
• Detailed category: Coenzyme metabolism and transport

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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)	Molybdopterin-synthase adenylyltransferase	0	2.56	--	DIRECT
Enzyme Commission (EC)	Transferring sulfur-containing groups	0	1.384	--	DIRECT
Enzyme Commission (EC)	Transferring phosphorous-containing groups	0	0.2175	--	DIRECT
Enzyme Commission (EC)	Transferases	0	0	--	DIRECT
Enzyme Commission (EC)	Molybdopterin-synthase sulfurtransferase	0	2.56	--	DIRECT
Enzyme Commission (EC)	Nucleotidyltransferases	0	0.6105	Least Informative	DIRECT
Enzyme Commission (EC)	Sulfurtransferases	0	1.56	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	0.4022	--	DIRECT
Worm Phenotype (WP)	developmental timing variant	0	0.5373	--	DIRECT
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)	organism physiology variant	0	0.1405	--	DIRECT
Worm Phenotype (WP)	organism homeostasis metabolism variant	0	0.1501	--	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)	protein aggregation variant	0.00000155	1.074	--	DIRECT
Worm Phenotype (WP)	protein protein interaction variant	0.000001807	1.064	--	DIRECT
Worm Phenotype (WP)	accumulated cell corpses	0.00000668	1.327	--	DIRECT
Worm Phenotype (WP)	cell corpse number variant	0.00001022	1.245	--	DIRECT
Worm Phenotype (WP)	germ cell compartment nuclei number variant	0.00002958	1.929	--	DIRECT
Worm Phenotype (WP)	transgene subcellular localization variant	0.00006363	1.23	--	DIRECT
Worm Phenotype (WP)	everted vulva	0.0001283	2.407	--	DIRECT
Worm Phenotype (WP)	protein subcellular localization variant	0.000234	1.708	--	DIRECT
Worm Phenotype (WP)	vulva morphology variant	0.0003244	1.365	--	DIRECT
Worm Phenotype (WP)	organ system development variant	0.0003531	0.8099	--	DIRECT
Worm Phenotype (WP)	programmed cell death variant	0.0003537	0.9594	--	DIRECT
Worm Phenotype (WP)	cell component morphology variant	0.0009961	0.7833	--	DIRECT
Worm Phenotype (WP)	transgene expression variant	0.001827	0.7938	--	INHERITED FROM: pattern of transgene expression variant || transgene subcellular localization variant
Worm Phenotype (WP)	cell death variant	0.03036	0.9441	--	INHERITED FROM: apoptosis variant || cell corpse number variant || accumulated cell corpses || programmed cell death variant
Worm Phenotype (WP)	germ cell compartment morphology variant	0.0911	1.31	--	INHERITED FROM: germ cell compartment nuclei number variant
Worm Phenotype (WP)	hermaphrodite reproductive system morphology variant	0.1991	1.365	--	INHERITED FROM: protruding vulva || everted vulva || vulva morphology variant
Worm Phenotype (WP)	gametogenesis variant	0.2003	0.9517	--	INHERITED FROM: meiotic chromosome organization variant
Worm Phenotype (WP)	meiosis variant	0.3536	1.176	--	INHERITED FROM: meiotic chromosome organization variant
Worm Phenotype (WP)	cell type morphology variant	0.3849	0.8211	--	INHERITED FROM: germ cell morphology variant || germ cell compartment nuclei number variant
Worm Phenotype (WP)	gene expression variant	0.5042	0.6038	--	INHERITED FROM: protein subcellular localization variant || transgene subcellular localization variant || pattern of transgene expression variant
Worm Phenotype (WP)	physiology variant	1	0	--	INHERITED FROM: cell corpse number variant || hermaphrodite fertility variant || retarded heterochronic variations || protein protein interaction variant || reproductive system physiology variant || early embryonic lethal || organ system development variant || organism homeostasis metabolism variant || apoptosis variant || lethal || meiotic chromosome organization variant || protein interaction variant || organism physiology variant || transgene subcellular localization variant || protein subcellular localization variant || cell division variant || development variant || exploded through vulva || developmental timing variant || hermaphrodite sterile || growth variant || hermaphrodite fertility reduced || accumulated cell corpses || embryonic development variant || embryonic lethal || general pace of development variant || fertility variant || pattern of transgene expression variant || protein aggregation variant || organ system physiology variant || maternal sterile || organism development variant || programmed cell death variant || fertility reduced || cell development variant
Worm Phenotype (WP)	sterile	1	0.161	--	INHERITED FROM: hermaphrodite sterile || maternal sterile
Worm Phenotype (WP)	general pace of development variant	0	0.5708	Least Informative	DIRECT
Worm Phenotype (WP)	retarded heterochronic variations	0	0.5373	Least Informative	DIRECT
Worm Phenotype (WP)	organ system morphology variant	0.000221	0.7119	Least Informative	DIRECT
Worm Phenotype (WP)	cell development variant	0.000396	0.632	Least Informative	DIRECT
Worm Phenotype (WP)	cell physiology variant	0.001147	0.5344	Least Informative	INHERITED FROM: apoptosis variant || cell corpse number variant || meiotic chromosome organization variant || cell division variant || accumulated cell corpses || programmed cell death variant
Worm Phenotype (WP)	organism metabolism processing variant	0.00223	0.4572	Least Informative	INHERITED FROM: protein subcellular localization variant || protein interaction variant || transgene subcellular localization variant || pattern of transgene expression variant || protein aggregation variant || protein protein interaction variant
Worm Phenotype (WP)	cell morphology variant	0.003217	0.6905	Least Informative	INHERITED FROM: germ cell morphology variant || germ cell compartment nuclei number variant || cell component morphology variant
Worm Phenotype (WP)	cell division variant	0.000001969	1	Moderately Informative	DIRECT
Worm Phenotype (WP)	early embryonic lethal	0.00001069	1.106	Moderately Informative	DIRECT
Worm Phenotype (WP)	pattern of transgene expression variant	0.0002316	1.017	Moderately Informative	DIRECT
Worm Phenotype (WP)	apoptosis variant	0.0002675	1	Moderately Informative	DIRECT
Worm Phenotype (WP)	protein interaction variant	0.0002952	1.035	Moderately Informative	DIRECT
Worm Phenotype (WP)	germ cell morphology variant	0.0005726	1.064	Moderately Informative	DIRECT
Worm Phenotype (WP)	germ cell development variant	0.001613	0.9752	Moderately Informative	INHERITED FROM: meiotic chromosome organization variant
Worm Phenotype (WP)	cell cycle variant	0.01508	1.164	Moderately Informative	INHERITED FROM: meiotic chromosome organization variant
Worm Phenotype (WP)	protein expression variant	0.01552	1.117	Moderately Informative	INHERITED FROM: protein subcellular localization variant
Worm Phenotype (WP)	reproductive system morphology variant	0.09599	1.017	Moderately Informative	INHERITED FROM: everted vulva || protruding vulva || vulva morphology variant
Worm Phenotype (WP)	protruding vulva	0.0001846	1.561	Informative	DIRECT
Worm Phenotype (WP)	meiotic chromosome organization variant	0.0001967	1.503	Informative	DIRECT
Worm Phenotype (WP)	pattern protein expression variant	0.06524	1.628	Informative	INHERITED FROM: protein subcellular localization variant
Worm Phenotype (WP)	epithelial system development variant	0.09744	1.561	Informative	INHERITED FROM: exploded through vulva
Worm Phenotype (WP)	exploded through vulva	0.0004966	1.753	Highly Informative	DIRECT

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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

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Fly Phenotype (FP)

Highlighted in gray are those with FDR_all>0.001

	FP term	FDR (all)	IC level	SDFP level	Annotation (direct or inherited)
Fly Phenotype (FP)	phenotype	0	0.05522	--	DIRECT
Fly Phenotype (FP)	increased cell death	0.000001302	2.303	--	DIRECT
Fly Phenotype (FP)	cell death defective	0.00001372	1.826	Highly Informative	DIRECT

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Fly Anatomy (FA)

Highlighted in gray are those with FDR_all>0.001

	FA term	FDR (all)	IC level	SDFA level	Annotation (direct or inherited)
Fly Anatomy (FA)	organism	0	0.07918	--	DIRECT
Fly Anatomy (FA)	multicellular structure	0	0.009143	--	DIRECT
Fly Anatomy (FA)	anatomical structure	1	0	--	INHERITED FROM: organism || larva || multicellular structure
Fly Anatomy (FA)	material anatomical entity	1	0	--	INHERITED FROM: multicellular structure || larva || organism
Fly Anatomy (FA)	larva	0	0.4611	Least Informative	DIRECT

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Zebrafish Anatomy (ZA)

Highlighted in gray are those with FDR_all>0.001

	ZA term	FDR (all)	IC level	SDZA level	Annotation (direct or inherited)
Zebrafish Anatomy (ZA)	whole organism	0	0.004764	--	DIRECT
Zebrafish Anatomy (ZA)	anatomical structure	1	0	--	INHERITED FROM: whole organism

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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)	trunk region	0	0.4287	--	DIRECT
Xenopus ANatomical entity (XAN)	genital system	0	0.5909	--	DIRECT
Xenopus ANatomical entity (XAN)	male genitalia	0	0.8318	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical structure	0	0	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical group	0	0.1442	--	DIRECT
Xenopus ANatomical entity (XAN)	male organism	0	0.8318	--	DIRECT
Xenopus ANatomical entity (XAN)	organism subdivision	0	0.1871	--	DIRECT
Xenopus ANatomical entity (XAN)	compound organ	0	0.24	--	DIRECT
Xenopus ANatomical entity (XAN)	gonad	0	0.8318	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical region	0	0.193	--	DIRECT
Xenopus ANatomical entity (XAN)	multicellular anatomical structure	0	0.1217	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical system	1	0.3094	--	INHERITED FROM: testis || urogenital system || genital system || male genitalia
Xenopus ANatomical entity (XAN)	whole organism	1	0.09747	--	INHERITED FROM: urogenital system || genital system || anatomical group || testis || cavitated compound organ || multicellular anatomical structure || gonad || compound organ || trunk || anatomical region || male genitalia || trunk region || male organism || organism subdivision
Xenopus ANatomical entity (XAN)	urogenital system	0	0.5011	Least Informative	DIRECT
Xenopus ANatomical entity (XAN)	trunk	0	0.4308	Least Informative	DIRECT
Xenopus ANatomical entity (XAN)	cavitated compound organ	0	0.3033	Least Informative	DIRECT
Xenopus ANatomical entity (XAN)	testis	0	0.8318	Moderately Informative	DIRECT
Xenopus DEvelopment stage (XDE)	NF stage	0	0.02327	--	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)	stomatal complex	0	0.2774	--	DIRECT
Plant ANatomical entity (PAN)	epidermal cell	0	0.2569	--	DIRECT
Plant ANatomical entity (PAN)	epidermis	0	0.2464	--	DIRECT
Plant ANatomical entity (PAN)	shoot epidermis	0	0.2691	--	DIRECT
Plant ANatomical entity (PAN)	plant cell	0	0.1489	--	DIRECT
Plant ANatomical entity (PAN)	shoot system	0	0.05747	--	DIRECT
Plant ANatomical entity (PAN)	portion of plant tissue	0	0.1892	--	DIRECT
Plant ANatomical entity (PAN)	shoot epidermal cell	0	0.276	--	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 || 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	0.04502	--	INHERITED FROM: guard cell || shoot epidermal cell || stomatal complex || shoot system || shoot epidermis
Plant ANatomical entity (PAN)	guard cell	0	0.2774	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	whole plant development stage	0	0.1968	--	DIRECT
Plant structure DEvelopment stage (PDE)	1 main shoot growth stage	0	0.3937	--	DIRECT
Plant structure DEvelopment stage (PDE)	leaf production stage	0	0.3937	--	DIRECT
Plant structure DEvelopment stage (PDE)	sporophyte vegetative stage	0	0.2036	--	DIRECT
Plant structure DEvelopment stage (PDE)	floral organ differentiation stage	0	0.0937	--	DIRECT
Plant structure DEvelopment stage (PDE)	corolla development stage	0	0.1981	--	DIRECT
Plant structure DEvelopment stage (PDE)	flowering stage	0	0.2162	--	DIRECT
Plant structure DEvelopment stage (PDE)	plant embryo stage	0	0.2833	--	DIRECT
Plant structure DEvelopment stage (PDE)	collective plant organ structure development stage	0	0.03771	--	DIRECT
Plant structure DEvelopment stage (PDE)	plant organ development stage	0	0.08108	--	DIRECT
Plant structure DEvelopment stage (PDE)	reproductive shoot system development stage	0	0.05008	--	DIRECT
Plant structure DEvelopment stage (PDE)	collective phyllome structure development stage	0	0.0937	--	DIRECT
Plant structure DEvelopment stage (PDE)	floral organ formation stage	0	0.0937	--	DIRECT
Plant structure DEvelopment stage (PDE)	flower development stage	1	0.07083	--	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	0.2022	--	INHERITED FROM: sporophyte vegetative stage || C globular stage || E expanded cotyledon stage || F mature embryo stage || LP.04 four leaves visible stage || D bilateral stage || plant embryo stage || leaf production stage || 1 main shoot growth stage
Plant structure DEvelopment stage (PDE)	shoot system development stage	1	0.04053	--	INHERITED FROM: reproductive shoot system development stage || floral organ formation stage || floral organ differentiation stage || flowering stage || corolla development stage || plant organ development stage
Plant structure DEvelopment stage (PDE)	sporophyte development stage	1	0.2022	--	INHERITED FROM: E expanded cotyledon stage || sporophyte vegetative stage || C globular stage || leaf production stage || 1 main shoot growth stage || D bilateral stage || F mature embryo stage || LP.04 four leaves visible stage || plant embryo stage
Plant structure DEvelopment stage (PDE)	E expanded cotyledon stage	0	0.353	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	F mature embryo stage	0	0.4088	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	C globular stage	0	0.3937	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	D bilateral stage	0	0.3729	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.04 four leaves visible stage	0	0.4338	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)	Molybdopterin-synthase adenylyltransferase	0	2.952	--	DIRECT
Enzyme Commission (EC)	Molybdopterin synthase sulfurtransferase	0	2.952	--	DIRECT
Enzyme Commission (EC)	Forming carbon-sulfur bonds	0	1.952	--	DIRECT
Enzyme Commission (EC)	E1 ubiquitin-activating enzyme	0	2.952	--	DIRECT
Enzyme Commission (EC)	Sulfur carrier protein ThiS adenylyltransferase	0.000000002487	2.952	--	DIRECT
Enzyme Commission (EC)	Transferases	0.000000002565	0.3035	--	DIRECT
Enzyme Commission (EC)	Transferring phosphorus-containing groups	0	0.5453	Least Informative	DIRECT
Enzyme Commission (EC)	Nucleotidyltransferases	0	0.9432	Moderately Informative	DIRECT
Enzyme Commission (EC)	Ligases	0.0004855	0.9606	Moderately Informative	DIRECT
Enzyme Commission (EC)	Transferring sulfur-containing groups	0	1.748	Informative	DIRECT
Enzyme Commission (EC)	Sulfurtransferases	0	1.952	Highly Informative	DIRECT
Enzyme Commission (EC)	Acid--thiol ligases	1	1.952	Highly Informative	INHERITED FROM: E1 ubiquitin-activating enzyme

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InterPro annotation

• Cross references: IPR009036 SSF69572 Protein matches
• Abstract:

  The Escherichia coli protein is involved in molybdenum cofactor (MoCF) biosynthesis, an evolutionarily conserved pathway. MoeB activates the C terminus of MoaD to form an acyl-adenylate, which is subsequently converted to a thiocarboxylate that acts as the sulphur donor during Moco biosynthesis. The structure of MoeB consists of a three-layer sandwich of alpha/beta/alpha [11713534]. The sandwich is composed of eight beta-strands, which form a continuous mixed beta sheet in the order 32145678 surrounded by eight helices. Beta strands 6 and 8 are antiparallel to the rest. The N-terminal half of the sheet contains the ATP nucleotide-binding site, which is similar to that of the NAD-binding Rossmann fold. A loop between beta-1 and alpha-3 contains a glycine-rich motif similar to the P loop found in enzymes that hydrolyse ATP. The C-terminal half of the sheet contains a fold that is similar to that found in a family of sugar-binding proteins.

InterPro database

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