Zinc beta-ribbon superfamily

SCOP classification

• Root: SCOP hierarchy in SUPERFAMILY [ 0] (11)
• Class: Small proteins [ 56992] (90)
• Fold: Rubredoxin-like [ 57769] (17)
• Superfamily: Zinc beta-ribbon [ 57783] (5)
• Families:
  • Transcriptional factor domain [ 57784] (4)
  • DNA primase zinc finger [ 57792] (2)
  • Prokaryotic DNA topoisomerase I, a C-terminal fragment [ 57795]
  • Putative zinc binding domain [ 118285]
  • PhnA zinc-binding domain [ 144191]

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Superfamily statistics

	Genomes (3,238)	Uniprot 2018_03 genome	PDB chains (SCOP 1.75)
Domains	15,693	98,494	16
Proteins	13,146	82,867	14

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Functional annotation

• General category: Other
• Detailed category: Unknown function

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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)	Other isomerases	0	1.446	--	DIRECT
Enzyme Commission (EC)	Transferring phosphorous-containing groups	0.1236	0.2175	--	INHERITED FROM: Nucleotidyltransferases || DNA-directed RNA polymerase
Enzyme Commission (EC)	Transferases	1	0	--	INHERITED FROM: Nucleotidyltransferases || DNA-directed RNA polymerase
Enzyme Commission (EC)	Isomerases	0	0.5914	Least Informative	DIRECT
Enzyme Commission (EC)	Nucleotidyltransferases	0.00009124	0.6105	Least Informative	DIRECT
Enzyme Commission (EC)	DNA-directed RNA polymerase	0.000000001471	1.606	Informative	DIRECT
Enzyme Commission (EC)	Sole sub-subclass for isomerases that do not belon	1	1.481	Informative	INHERITED FROM: DNA topoisomerase
Enzyme Commission (EC)	DNA topoisomerase	0	1.861	Highly Informative	DIRECT

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Mouse Phenotype (MP)

Highlighted in gray are those with FDR_all>0.001

	MP term	FDR (all)	IC level	SDMP level	Annotation (direct or inherited)
Mammalian Phenotype (MP)	abnormal survival	0	0.7297	--	DIRECT
Mammalian Phenotype (MP)	preweaning lethality	0	0.8266	--	DIRECT
Mammalian Phenotype (MP)	embryonic lethality prior to tooth bud stage	0.0009966	1.508	--	DIRECT
Mammalian Phenotype (MP)	embryonic lethality	0.4983	1.304	--	INHERITED FROM: embryonic lethality prior to organogenesis || embryonic lethality prior to tooth bud stage
Mammalian Phenotype (MP)	mortality/aging	0	0.5888	Least Informative	DIRECT
Mammalian Phenotype (MP)	prenatal lethality	0	1.076	Moderately Informative	DIRECT
Mammalian Phenotype (MP)	embryonic lethality prior to organogenesis	0.0007402	1.508	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)	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 mortality during development	0	0.6799	--	DIRECT
Fly Phenotype (FP)	increased mortality	0	0.5628	Least Informative	DIRECT
Fly Phenotype (FP)	lethal	0	0.798	Moderately 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)	multicellular structure	0	0.009143	--	DIRECT
Fly Anatomy (FA)	anatomical structure	1	0	--	INHERITED FROM: multicellular structure
Fly Anatomy (FA)	material anatomical entity	1	0	--	INHERITED FROM: multicellular structure

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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 system	0	0.2245	--	DIRECT
Zebrafish Anatomy (ZA)	anatomical group	0	0.1889	--	DIRECT
Zebrafish Anatomy (ZA)	anatomical structure	1	0	--	INHERITED FROM: cell || anatomical system || hematopoietic cell || anatomical group || whole organism || hematopoietic system
Zebrafish Anatomy (ZA)	cell	0	0.7491	Least Informative	DIRECT
Zebrafish Anatomy (ZA)	hematopoietic system	0	1.536	Informative	DIRECT
Zebrafish Anatomy (ZA)	hematopoietic cell	0	1.594	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)	trunk region	0	0.4287	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical structure	0	0	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical group	0	0.1442	--	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)	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: urogenital system
Xenopus ANatomical entity (XAN)	whole organism	1	0.09747	--	INHERITED FROM: urogenital system || anatomical group || cavitated compound organ || multicellular anatomical structure || compound organ || trunk || anatomical region || trunk region || 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 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)	shoot system	0	0.05747	--	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 || shoot system
Plant ANatomical entity (PAN)	collective plant organ structure	1	0.04502	--	INHERITED FROM: shoot system
Plant structure DEvelopment stage (PDE)	floral organ differentiation stage	0	0.0937	--	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: floral organ differentiation stage || floral organ formation 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 || plant organ development stage

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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)	Enzymes altering nucleic acid conformation	0	1.806	--	DIRECT
Enzyme Commission (EC)	Acyltransferases	0.08057	0.8446	--	INHERITED FROM: Histone acetyltransferase
Enzyme Commission (EC)	Transferases	1	0.3035	--	INHERITED FROM: Histone acetyltransferase || DNA-directed RNA polymerase
Enzyme Commission (EC)	Transferring phosphorus-containing groups	0.769	0.5453	Least Informative	INHERITED FROM: DNA-directed RNA polymerase
Enzyme Commission (EC)	Isomerases	0	0.8446	Moderately Informative	DIRECT
Enzyme Commission (EC)	Transferring groups other than amino-acyl groups	0.01986	1.119	Moderately Informative	INHERITED FROM: Histone acetyltransferase
Enzyme Commission (EC)	Nucleotidyltransferases	0.04805	0.9432	Moderately Informative	INHERITED FROM: DNA-directed RNA polymerase
Enzyme Commission (EC)	Isomerases altering macromolecular conformation	0	1.651	Informative	DIRECT
Enzyme Commission (EC)	Histone acetyltransferase	0.0000000005424	1.721	Informative	DIRECT
Enzyme Commission (EC)	DNA topoisomerase	0	2.174	Highly Informative	DIRECT
Enzyme Commission (EC)	DNA-directed RNA polymerase	0.0001529	1.952	Highly Informative	DIRECT

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