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FYVE/PHD zinc finger superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   FYVE/PHD zinc finger [ 57902]
Superfamily:   FYVE/PHD zinc finger [ 57903] (3)
Families:   FYVE, a phosphatidylinositol-3-phosphate binding domain [ 57904] (6)
  PHD domain [ 57911] (13)
  variant PHD-like domain [ 118346]


Superfamily statistics
Genomes (556) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 40,412 42,588 26
Proteins 33,922 36,016 26


Functional annotation
General category Information
Detailed category DNA replication/repair

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details) Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) biological regulation 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0.00000000003327 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular metabolic process 0.00000000001444 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0000000414 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.000003465 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.000008898 Moderately Informative Direct
Biological Process (BP) cellular localization 0.00002255 Moderately Informative Direct
Biological Process (BP) reproduction 0.00004916 Moderately Informative Direct
Biological Process (BP) regulation of nitrogen compound metabolic process 0.0001427 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.0005086 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 0.0006467 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.01486 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.3354 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.5533 Moderately Informative Inherited
Biological Process (BP) system development 0.2257 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 0.004796 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) signaling 0.8209 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing compound biosynthetic process 0.1933 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.8602 Moderately Informative Inherited
Biological Process (BP) response to stress 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.8457 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) immune system process 0.552 Moderately Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.00000000009616 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.0000000001145 Informative Direct
Biological Process (BP) regulation of transcription, DNA-templated 0.0000009939 Informative Direct
Biological Process (BP) multi-organism reproductive process 0.000004618 Informative Direct
Biological Process (BP) secretion 0.00001304 Informative Direct
Biological Process (BP) transcription, DNA-templated 0.0001332 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.0002425 Informative Direct
Biological Process (BP) DNA metabolic process 0.0003962 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.0004652 Informative Direct
Biological Process (BP) regulation of proteolysis 1 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.00985 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 1 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.00738 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.005618 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 1 Informative Inherited
Biological Process (BP) regulation of organelle organization 1 Informative Inherited
Biological Process (BP) negative regulation of cell death 1 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.01755 Informative Inherited
Biological Process (BP) response to nitrogen compound 1 Informative Inherited
Biological Process (BP) response to inorganic substance 1 Informative Inherited
Biological Process (BP) cell adhesion 1 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.009826 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.189 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.1343 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.08635 Informative Inherited
Biological Process (BP) cell cycle process 0.2549 Informative Inherited
Biological Process (BP) microtubule-based process 0.748 Informative Inherited
Biological Process (BP) generation of neurons 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.1022 Informative Inherited
Biological Process (BP) glycerolipid metabolic process 0.01621 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.02859 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.6454 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) regulation of cell differentiation 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.8091 Informative Inherited
Biological Process (BP) organelle fission 0.2723 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 1 Informative Inherited
Biological Process (BP) single organism reproductive process 0.001286 Informative Inherited
Biological Process (BP) regulation of protein modification process 0.001046 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.1367 Informative Inherited
Biological Process (BP) central nervous system development 0.8398 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.8688 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.986 Informative Inherited
Biological Process (BP) cellular response to DNA damage stimulus 0.05578 Informative Inherited
Biological Process (BP) actin filament-based process 1 Informative Inherited
Biological Process (BP) system process 1 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.0138 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 0.4084 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.8086 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.2449 Informative Inherited
Biological Process (BP) regulation of cell cycle 1 Informative Inherited
Biological Process (BP) post-embryonic development 0.05393 Informative Inherited
Biological Process (BP) cell development 0.7552 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.1616 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.9255 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) epithelium development 1 Informative Inherited
Biological Process (BP) embryo development 0.84 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.07608 Informative Inherited
Biological Process (BP) reproductive system development 0.1799 Informative Inherited
Biological Process (BP) demethylation 0 Highly Informative Direct
Biological Process (BP) macromolecule methylation 0 Highly Informative Direct
Biological Process (BP) histone modification 0 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 0 Highly Informative Direct
Biological Process (BP) DNA methylation or demethylation 0 Highly Informative Direct
Biological Process (BP) protein modification by small protein conjugation 0.000000000000003692 Highly Informative Direct
Biological Process (BP) gene silencing 0.0000000003464 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.00000000263 Highly Informative Direct
Biological Process (BP) chromosome organization 0.00000005856 Highly Informative Direct
Biological Process (BP) establishment of organelle localization 0.0000001035 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 0.0000002577 Highly Informative Direct
Biological Process (BP) endosomal transport 0.000002598 Highly Informative Direct
Biological Process (BP) phosphatidylinositol metabolic process 0.0000225 Highly Informative Direct
Biological Process (BP) vesicle localization 0.00005598 Highly Informative Direct
Biological Process (BP) negative regulation of endopeptidase activity 0.00006601 Highly Informative Direct
Biological Process (BP) negative regulation of RNA metabolic process 0.00006919 Highly Informative Direct
Biological Process (BP) modification-dependent protein catabolic process 0.0005003 Highly Informative Direct
Biological Process (BP) regulation of chromosome organization 0.0005331 Highly Informative Direct
Biological Process (BP) myeloid cell homeostasis 0.0006239 Highly Informative Direct
Biological Process (BP) regulation of protein modification by small protein conjugation or removal 0.1329 Highly Informative Inherited
Biological Process (BP) regulation of apoptotic signaling pathway 0.002812 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.0583 Highly Informative Inherited
Biological Process (BP) signal release 0.00345 Highly Informative Inherited
Biological Process (BP) synaptic signaling 0.1879 Highly Informative Inherited
Biological Process (BP) regulation of membrane potential 0.06398 Highly Informative Inherited
Biological Process (BP) endomembrane system organization 0.9683 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-templated 0.4677 Highly Informative Inherited
Biological Process (BP) digestion 0.0183 Highly Informative Inherited
Biological Process (BP) anatomical structure homeostasis 0.6016 Highly Informative Inherited
Biological Process (BP) meiotic cell cycle process 0.2413 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.269 Highly Informative Inherited
Biological Process (BP) neuron development 0.1357 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.2964 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.509 Highly Informative Inherited
Biological Process (BP) positive regulation of nervous system development 0.009733 Highly Informative Inherited
Biological Process (BP) positive regulation of cell development 0.01068 Highly Informative Inherited
Biological Process (BP) hemopoiesis 0.1631 Highly Informative Inherited
Biological Process (BP) regulation of cysteine-type endopeptidase activity 0.00641 Highly Informative Inherited
Biological Process (BP) cell division 0.001111 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.4094 Highly Informative Inherited
Biological Process (BP) lymphocyte activation 0.4449 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 1 Highly Informative Inherited
Biological Process (BP) DNA replication 0.06743 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.002603 Highly Informative Inherited
Biological Process (BP) brain development 0.2817 Highly Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.983 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.4492 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to growth factor stimulus 0.501 Highly Informative Inherited
Biological Process (BP) multicellular organismal homeostasis 0.5212 Highly Informative Inherited
Biological Process (BP) leukocyte cell-cell adhesion 0.01672 Highly Informative Inherited
Biological Process (BP) actin filament organization 1 Highly Informative Inherited
Biological Process (BP) internal protein amino acid acetylation 0.007276 Highly Informative Inherited
Biological Process (BP) regulated exocytosis 0.7366 Highly Informative Inherited
Biological Process (BP) DNA recombination 1 Highly Informative Inherited
Biological Process (BP) cell projection organization 0.1734 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.3556 Highly Informative Inherited
Biological Process (BP) muscle structure development 0.968 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.04663 Highly Informative Inherited
Biological Process (BP) germ cell development 0.2674 Highly Informative Inherited
Biological Process (BP) spermatogenesis 0.7973 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.2239 Highly Informative Inherited
Biological Process (BP) epithelial cell differentiation 1 Highly Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.008434 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 0.000000006384 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) metal ion binding 0.000000000008704 Moderately Informative Direct
Molecular Function (MF) protein binding 0.00000001107 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.000003654 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.9921 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.04648 Moderately Informative Inherited
Molecular Function (MF) oxidoreductase activity 1 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 1 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) phospholipid binding 0 Informative Direct
Molecular Function (MF) macromolecular complex binding 8.405e-16 Informative Direct
Molecular Function (MF) zinc ion binding 0.0000000000001361 Informative Direct
Molecular Function (MF) DNA binding 0.000000000004932 Informative Direct
Molecular Function (MF) transferase activity, transferring acyl groups 0.00000002414 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.0000003538 Informative Direct
Molecular Function (MF) ATPase activity 0.2987 Informative Inherited
Molecular Function (MF) receptor binding 1 Informative Inherited
Molecular Function (MF) enzyme binding 0.223 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0.6146 Informative Inherited
Molecular Function (MF) kinase activity 1 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 1 Informative Inherited
Molecular Function (MF) acetyltransferase activity 0 Highly Informative Direct
Molecular Function (MF) chromatin binding 0 Highly Informative Direct
Molecular Function (MF) ubiquitin-like protein transferase activity 0.00000000002853 Highly Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.00000000003901 Highly Informative Direct
Molecular Function (MF) small GTPase binding 0.0000000004745 Highly Informative Direct
Molecular Function (MF) dioxygenase activity 0.0001123 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.0004187 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) phosphatidylinositol bisphosphate binding 1 Highly Informative Inherited
Molecular Function (MF) oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxyge 0.004188 Highly Informative Inherited
Molecular Function (MF) S-adenosylmethionine-dependent methyltransferase activity 0.004073 Highly Informative Inherited
Molecular Function (MF) phosphoprotein phosphatase activity 0.1194 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.1107 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.058 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) whole membrane 0.000004889 Moderately Informative Direct
Cellular Component (CC) transferase complex 0.0003898 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum 1 Moderately Informative Inherited
Cellular Component (CC) cell projection 1 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 1 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 0.1877 Moderately Informative Inherited
Cellular Component (CC) vesicle 0.02093 Moderately Informative Inherited
Cellular Component (CC) endosome 0 Informative Direct
Cellular Component (CC) nucleoplasm part 0 Informative Direct
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) cytoplasmic vesicle part 0.00000000001798 Informative Direct
Cellular Component (CC) extrinsic component of membrane 0.00000001319 Informative Direct
Cellular Component (CC) synapse 0.00004 Informative Direct
Cellular Component (CC) transport vesicle 0.2931 Informative Inherited
Cellular Component (CC) cell surface 1 Informative Inherited
Cellular Component (CC) site of polarized growth 0.1868 Informative Inherited
Cellular Component (CC) organelle subcompartment 0.3786 Informative Inherited
Cellular Component (CC) neuron projection 0.8606 Informative Inherited
Cellular Component (CC) cell projection part 1 Informative Inherited
Cellular Component (CC) secretory vesicle 0.8433 Informative Inherited
Cellular Component (CC) histone deacetylase complex 0 Highly Informative Direct
Cellular Component (CC) chromatin 0 Highly Informative Direct
Cellular Component (CC) protein acetyltransferase complex 0 Highly Informative Direct
Cellular Component (CC) nuclear chromosome 0.000000000009513 Highly Informative Direct
Cellular Component (CC) endosome membrane 0.00000000003665 Highly Informative Direct
Cellular Component (CC) endoplasmic reticulum subcompartment 0.0000006048 Highly Informative Direct
Cellular Component (CC) growth cone 0.04284 Highly Informative Inherited
Cellular Component (CC) cell division site 0.05834 Highly Informative Inherited
Cellular Component (CC) vesicle membrane 0.01286 Highly Informative Inherited
Cellular Component (CC) synaptic vesicle 0.05915 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups0.0000000006577Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.008364Least InformativeInherited
Enzyme Commission (EC)Acting on ester bonds0.2911Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases0.067Least InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0Moderately InformativeDirect
Enzyme Commission (EC)Methyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0.0000000268Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0.0000003973Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.0005085Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0.0831Moderately InformativeInherited
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.0000000008157InformativeDirect
Enzyme Commission (EC)With 2-oxoglutarate as one donor, and incorporatio0Highly InformativeDirect
Enzyme Commission (EC)1-phosphatidylinositol-3-phosphate 5-kinase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.0001429Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0007037Least InformativeDirect
Worm Phenotype (WP)cell development variant0.003719Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.03327Least InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.03879Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.06404Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant0.06896Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant0.5564Moderately InformativeInherited
Worm Phenotype (WP)apoptosis variant0.9342Moderately InformativeInherited
Worm Phenotype (WP)endocytic transport defect0.000001592InformativeDirect
Worm Phenotype (WP)vulva development variant0.00009866InformativeDirect
Worm Phenotype (WP)tail morphology variant0.0002802InformativeDirect
Worm Phenotype (WP)protein modification variant0.001448InformativeInherited
Worm Phenotype (WP)VPC competence variant0.007582InformativeInherited
Worm Phenotype (WP)alimentary system development variant0.4928InformativeInherited
Worm Phenotype (WP)coelomocyte uptake defective0.00000008469Highly InformativeDirect
Worm Phenotype (WP)ectopic expression transgene0.0000004045Highly InformativeDirect
Worm Phenotype (WP)organism UV hypersensitive0.0000005911Highly InformativeDirect
Worm Phenotype (WP)transgenerational loss of fertility0.000001554Highly InformativeDirect
Worm Phenotype (WP)vulvaless0.0007449Highly InformativeDirect
Worm Phenotype (WP)gut granule development variant0.002476Highly InformativeInherited
Worm Phenotype (WP)lysosome organization biogenesis variant0.00321Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)modifier of variegation0.0000001904InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0.5745Least InformativeInherited
Fly Anatomy (FA)cell0.6166Least InformativeInherited
Fly Anatomy (FA)late embryo0.6948Moderately InformativeInherited
Fly Anatomy (FA)embryonic/larval circulatory system0.2086InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)male organism0.00002747Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0.0003016Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0.0003994Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0.006102Least InformativeInherited
Xenopus ANatomical entity (XAN)egg0.0006124Moderately InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)portion of meristem tissue0.4074Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.675Least InformativeInherited
Plant ANatomical entity (PAN)shoot apical meristem0.000005463Highly InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0.1514Least InformativeInherited
Enzyme Commission (EC)Hydrolases0.5999Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorus-containing groups1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.000000001108Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.00004289Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.0001969Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.002357Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.02141Moderately InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen. The oxygen incorporate0InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)DNA helicase0.00000000002024InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.0000005791InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.0000374InformativeDirect
Enzyme Commission (EC)Aminoacyltransferases0.1638InformativeInherited
Enzyme Commission (EC)With 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors0Highly InformativeDirect
Enzyme Commission (EC)1-phosphatidylinositol-3-phosphate 5-kinase0Highly InformativeDirect
Enzyme Commission (EC)HECT-type E3 ubiquitin transferase0.00000001851Highly InformativeDirect
Enzyme Commission (EC)Non-specific protein-tyrosine kinase0.000000605Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport1Least InformativeInherited
Biological processApoptosis0Moderately InformativeDirect
Biological processTranscription regulation0Moderately InformativeDirect
Biological processUbl conjugation pathway0Moderately InformativeDirect
Biological processCell cycle0.000000369Moderately InformativeDirect
Biological processProtein transport0.000005975Moderately InformativeDirect
Biological processNeurogenesis0InformativeDirect
Biological processBiological rhythms0.000000002138InformativeDirect
Biological processAutophagy0.000000002439InformativeDirect
Biological processMeiosis0.00000007551InformativeDirect
Biological processEndocytosis0.000004098InformativeDirect
Biological processExocytosis0.0000000000001164Highly InformativeDirect
Biological processGrowth regulation0.0000000000009979Highly InformativeDirect
Biological processFlowering0.0000006309Highly InformativeDirect
Biological processNeurotransmitter transport0.0000008494Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0.00000000000109Moderately InformativeDirect
Cellular componentCytoskeleton0.00000000001898Moderately InformativeDirect
Cellular componentCell junction0.0000000003184Moderately InformativeDirect
Cellular componentChromosome0.0000000000008298InformativeDirect
Cellular componentCentromere0.0008168Highly InformativeDirect
Coding sequence diversityAlternative splicing0.000000000000004627Least InformativeDirect
Coding sequence diversityChromosomal rearrangement0.0000001868InformativeDirect
DiseaseTumor suppressor0.000004144Moderately InformativeDirect
DomainRepeat0.000000000000001854Least InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainCoiled coil0.000000000000007001Moderately InformativeDirect
DomainBromodomain0Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionDNA-binding0.00005305Least InformativeDirect
Molecular functionLipid-binding0.00008552Moderately InformativeDirect
Molecular functionActin-binding0.0004145InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000006672Moderately InformativeDirect
Post-translational modificationOxidoreductase0.3168Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationHelicase0.0001701InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0.000272InformativeDirect
Post-translational modificationMethyltransferase0.000441InformativeDirect
Post-translational modificationDioxygenase0Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.0000000000002044Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately InformativeDirect
Post-translational modificationCitrullination0.000000009908Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein ubiquitination0.0000004897Moderately InformativeDirect
UniPathway (UP)protein sumoylation0.00003498Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR011011 SSF57903 Protein matches
Abstract

The FYVE zinc finger domain is conserved from yeast to man, and is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. It functions in the membrane recruitment of cytosolic proteins by binding to phosphatidylinositol 3-phosphate (PI3P), which is found mainly on endosomes [PubMed11911884, PubMed12665246].

The plant homeodomain (PHD) zinc finger domain has a C4HC3-type motif, and is widely distributed in eukaryotes, being found in many chromatin regulatory factors [PubMed14679290].

Both the FYVE and the PHD zinc finger motifs display strikingly similar dimetal(zinc)-bound alpha+beta folds.

More information about these proteins can be found at Protein of the Month: Zinc Fingers.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 22 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a FYVE/PHD zinc finger domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 22 hidden Markov models representing the FYVE/PHD zinc finger superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]