SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 (561) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 40,972 97,838 26
Proteins 34,367 81,418 26


Functional annotation
General category Information
Detailed category DNA replication/repair

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) biological regulation 0 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.00000000006851 Least Informative Direct
Biological Process (BP) primary metabolic process 0.00000000007714 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.9079 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) organelle organization 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.000000000125 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.00000001254 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.000002571 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.00001396 Moderately Informative Direct
Biological Process (BP) reproduction 0.00003547 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.0000372 Moderately Informative Direct
Biological Process (BP) cellular localization 0.00007203 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.0004076 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.8829 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.5677 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 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 developmental process 1 Moderately Informative Inherited
Biological Process (BP) single organism signaling 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.2726 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.7509 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.0219 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 0.01342 Moderately Informative Inherited
Biological Process (BP) immune system process 0.5758 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.001765 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.2758 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.6045 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.8468 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) system development 0.3561 Moderately Informative Inherited
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.00000000000006584 Informative Direct
Biological Process (BP) regulation of organelle organization 0.0000000000002696 Informative Direct
Biological Process (BP) peptidyl-amino acid modification 0.000000000004537 Informative Direct
Biological Process (BP) multi-organism reproductive process 0.0000002959 Informative Direct
Biological Process (BP) regulation of transcription, DNA-templated 0.00000032 Informative Direct
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.0001337 Informative Direct
Biological Process (BP) transcription, DNA-templated 0.0002069 Informative Direct
Biological Process (BP) secretion by cell 0.0002427 Informative Direct
Biological Process (BP) organelle localization 0.0004529 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.0006473 Informative Direct
Biological Process (BP) single organism reproductive process 0.0006788 Informative Direct
Biological Process (BP) DNA metabolic process 0.0008885 Informative Direct
Biological Process (BP) positive regulation of signal transduction 1 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.4035 Informative Inherited
Biological Process (BP) regulation of proteolysis 1 Informative Inherited
Biological Process (BP) regulation of catabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of cellular biosynthetic process 0.00166 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.9361 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 1 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 1 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.9809 Informative Inherited
Biological Process (BP) actin filament-based process 1 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) cell-cell signaling 0.003167 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.2242 Informative Inherited
Biological Process (BP) cellular response to inorganic substance 0.2783 Informative Inherited
Biological Process (BP) response to nitrogen compound 1 Informative Inherited
Biological Process (BP) supramolecular fiber organization 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.3695 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.1053 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.08107 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.01615 Informative Inherited
Biological Process (BP) microtubule-based process 0.773 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.1655 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 1 Informative Inherited
Biological Process (BP) glycerolipid metabolic process 0.01075 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.01933 Informative Inherited
Biological Process (BP) generation of neurons 1 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.7508 Informative Inherited
Biological Process (BP) regulation of cell differentiation 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) negative regulation of cell death 1 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.3009 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.8759 Informative Inherited
Biological Process (BP) cellular response to DNA damage stimulus 0.07174 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.04115 Informative Inherited
Biological Process (BP) membrane organization 1 Informative Inherited
Biological Process (BP) cell cycle process 0.06145 Informative Inherited
Biological Process (BP) cell activation 0.8692 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) regulation of protein modification process 0.001248 Informative Inherited
Biological Process (BP) central nervous system development 0.8303 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.7888 Informative Inherited
Biological Process (BP) system process 1 Informative Inherited
Biological Process (BP) cell development 0.7755 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.002011 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.00705 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.01536 Informative Inherited
Biological Process (BP) regulation of cell cycle 1 Informative Inherited
Biological Process (BP) post-embryonic development 0.1534 Informative Inherited
Biological Process (BP) tissue development 1 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.04716 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.9816 Informative Inherited
Biological Process (BP) reproductive system development 0.1286 Informative Inherited
Biological Process (BP) embryo development 0.8895 Informative Inherited
Biological Process (BP) peptidyl-lysine modification 0 Highly Informative Direct
Biological Process (BP) regulation of chromosome organization 0 Highly Informative Direct
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) DNA methylation or demethylation 0 Highly Informative Direct
Biological Process (BP) protein-DNA complex subunit organization 0.00000000000001783 Highly Informative Direct
Biological Process (BP) protein alkylation 0.000000000001246 Highly Informative Direct
Biological Process (BP) gene silencing 0.000000002326 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.000000004368 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 0.0000004696 Highly Informative Direct
Biological Process (BP) negative regulation of transcription, DNA-templated 0.000001865 Highly Informative Direct
Biological Process (BP) phosphatidylinositol metabolic process 0.000007929 Highly Informative Direct
Biological Process (BP) vesicle localization 0.00003833 Highly Informative Direct
Biological Process (BP) protein modification by small protein conjugation 0.00003913 Highly Informative Direct
Biological Process (BP) negative regulation of endopeptidase activity 0.00009257 Highly Informative Direct
Biological Process (BP) regulation of autophagy 0.0002359 Highly Informative Direct
Biological Process (BP) nuclear division 0.0004197 Highly Informative Direct
Biological Process (BP) myeloid cell homeostasis 0.0009722 Highly Informative Direct
Biological Process (BP) trans-synaptic signaling 0.0009781 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity 0.007554 Highly Informative Inherited
Biological Process (BP) regulation of protein modification by small protein conjugation or removal 0.1395 Highly Informative Inherited
Biological Process (BP) regulation of apoptotic signaling pathway 0.003095 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.04949 Highly Informative Inherited
Biological Process (BP) regulation of membrane potential 0.08299 Highly Informative Inherited
Biological Process (BP) endomembrane system organization 1 Highly Informative Inherited
Biological Process (BP) digestion 0.01671 Highly Informative Inherited
Biological Process (BP) multicellular organismal homeostasis 0.5968 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.2485 Highly Informative Inherited
Biological Process (BP) neuron development 0.176 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.2761 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-templated 0.5658 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.3419 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.5533 Highly Informative Inherited
Biological Process (BP) positive regulation of nervous system development 0.01507 Highly Informative Inherited
Biological Process (BP) positive regulation of cell development 0.01849 Highly Informative Inherited
Biological Process (BP) myeloid cell differentiation 0.03277 Highly Informative Inherited
Biological Process (BP) modification-dependent macromolecule catabolic process 0.001827 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.9296 Highly Informative Inherited
Biological Process (BP) cell division 0.001969 Highly Informative Inherited
Biological Process (BP) meiotic cell cycle 0.1584 Highly Informative Inherited
Biological Process (BP) chromatin assembly or disassembly 0.8904 Highly Informative Inherited
Biological Process (BP) DNA replication 0.03621 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.002733 Highly Informative Inherited
Biological Process (BP) brain development 0.305 Highly Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.7749 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.4955 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to growth factor stimulus 0.5632 Highly Informative Inherited
Biological Process (BP) anatomical structure homeostasis 0.5611 Highly Informative Inherited
Biological Process (BP) lymphocyte activation 0.09024 Highly Informative Inherited
Biological Process (BP) leukocyte differentiation 0.4217 Highly Informative Inherited
Biological Process (BP) actin filament organization 0.3149 Highly Informative Inherited
Biological Process (BP) DNA recombination 1 Highly Informative Inherited
Biological Process (BP) plasma membrane bounded cell projection organization 0.003386 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.1853 Highly Informative Inherited
Biological Process (BP) negative regulation of catabolic process 0.4188 Highly Informative Inherited
Biological Process (BP) muscle structure development 0.9748 Highly Informative Inherited
Biological Process (BP) appendage development 0.5779 Highly Informative Inherited
Biological Process (BP) germ cell development 0.2187 Highly Informative Inherited
Biological Process (BP) spermatogenesis 0.3009 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.9259 Highly Informative Inherited
Biological Process (BP) signal release 0.002228 Highly Informative Inherited
Biological Process (BP) proteolysis involved in cellular protein catabolic process 0.002169 Highly Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.007737 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 0.0000000001841 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) metal ion binding 0.00000000000001773 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.00001355 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 1 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.2263 Moderately Informative Inherited
Molecular Function (MF) oxidoreductase activity 1 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) phospholipid binding 0 Informative Direct
Molecular Function (MF) zinc ion binding 0.000000000000001646 Informative Direct
Molecular Function (MF) DNA binding 0.00000000001538 Informative Direct
Molecular Function (MF) transferase activity, transferring acyl groups 0.00000000001739 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.000002162 Informative Direct
Molecular Function (MF) ATPase activity 0.3708 Informative Inherited
Molecular Function (MF) receptor binding 1 Informative Inherited
Molecular Function (MF) phosphatase activity 0.2568 Informative Inherited
Molecular Function (MF) enzyme binding 0.273 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 1 Informative Inherited
Molecular Function (MF) kinase activity 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 0.0000000001132 Highly Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.0000000003265 Highly Informative Direct
Molecular Function (MF) small GTPase binding 0.0000000007885 Highly Informative Direct
Molecular Function (MF) dioxygenase activity 0.000001428 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxyge 0.0001841 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.0005306 Highly Informative Direct
Molecular Function (MF) double-stranded DNA binding 0.8674 Highly Informative Inherited
Molecular Function (MF) phosphatidylinositol bisphosphate binding 1 Highly Informative Inherited
Molecular Function (MF) S-adenosylmethionine-dependent methyltransferase activity 0.0243 Highly Informative Inherited
Molecular Function (MF) sequence-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) phosphoprotein phosphatase activity 0.1159 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) macromolecular complex 0 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0677 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.08205 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) transferase complex 0.000006157 Moderately Informative Direct
Cellular Component (CC) whole membrane 0.00001189 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) bounding membrane of organelle 0.04075 Moderately Informative Inherited
Cellular Component (CC) cell projection 1 Moderately Informative Inherited
Cellular Component (CC) endoplasmic reticulum 1 Moderately Informative Inherited
Cellular Component (CC) vesicle 0.03419 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 1 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0 Informative Direct
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) endosome 0 Informative Direct
Cellular Component (CC) extrinsic component of membrane 0.000000007693 Informative Direct
Cellular Component (CC) cytoplasmic vesicle part 0.00000001238 Informative Direct
Cellular Component (CC) synapse 0.00004175 Informative Direct
Cellular Component (CC) cell surface 1 Informative Inherited
Cellular Component (CC) plasma membrane bounded cell projection part 0.6748 Informative Inherited
Cellular Component (CC) neuron projection 0.9387 Informative Inherited
Cellular Component (CC) cytoplasmic region 0.001031 Informative Inherited
Cellular Component (CC) histone deacetylase complex 0 Highly Informative Direct
Cellular Component (CC) protein acetyltransferase complex 0 Highly Informative Direct
Cellular Component (CC) endosome membrane 0.00000000000954 Highly Informative Direct
Cellular Component (CC) chromatin 0.0000001775 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.000001629 Highly Informative Direct
Cellular Component (CC) cytoplasmic vesicle membrane 1 Highly Informative Inherited
Cellular Component (CC) growth cone 0.05107 Highly Informative Inherited
Cellular Component (CC) cell division site part 0.006305 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 variant0.0002989Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.001254Least InformativeInherited
Worm Phenotype (WP)cell development variant0.003838Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.04606Least InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.03819Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.06575Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant0.1005Moderately InformativeInherited
Worm Phenotype (WP)protein expression variant0.1891Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant0.5191Moderately InformativeInherited
Worm Phenotype (WP)apoptosis variant0.9118Moderately InformativeInherited
Worm Phenotype (WP)endocytic transport defect0.000001875InformativeDirect
Worm Phenotype (WP)tail morphology variant0.0003116InformativeDirect
Worm Phenotype (WP)protein modification variant0.0008181InformativeDirect
Worm Phenotype (WP)vulva cell fate specification variant0.2401InformativeInherited
Worm Phenotype (WP)alimentary system development variant0.4759InformativeInherited
Worm Phenotype (WP)coelomocyte uptake defective0.00000008783Highly InformativeDirect
Worm Phenotype (WP)ectopic expression transgene0.0000004681Highly InformativeDirect
Worm Phenotype (WP)organism UV hypersensitive0.0000006557Highly InformativeDirect
Worm Phenotype (WP)transgenerational loss of fertility0.000001574Highly InformativeDirect
Worm Phenotype (WP)vulvaless0.0007059Highly InformativeDirect
Worm Phenotype (WP)gut granule development variant0.002494Highly InformativeInherited
Worm Phenotype (WP)lysosome organization biogenesis variant0.003014Highly 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 variegation0.00000002076InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)somatic cell0.5576Least InformativeInherited
Fly Anatomy (FA)larva0.5622Least InformativeInherited
Fly Anatomy (FA)late embryo0.7112Moderately InformativeInherited
Fly Anatomy (FA)circulatory system0.47InformativeInherited
Fly Anatomy (FA)embryonic/larval garland cell0.0005661Highly InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)male organism0.00007476Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0.0002471Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0.0051Least InformativeInherited
Xenopus ANatomical entity (XAN)egg0.0004238Moderately 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)Oxidoreductases0.7403Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorus-containing groups1Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Acyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups0.0001706Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.002021Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.04042Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.1157Moderately 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 helicase0.000000001966InformativeDirect
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0.00000004287InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.0000005812InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.0001706InformativeDirect
Enzyme Commission (EC)With 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors0Highly InformativeDirect
Enzyme Commission (EC)Non-specific protein-tyrosine kinase0.000002899Highly 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 cycle0.000000509Moderately InformativeDirect
Biological processProtein transport0.000006498Moderately InformativeDirect
Biological processNeurogenesis0InformativeDirect
Biological processBiological rhythms0.00000000264InformativeDirect
Biological processAutophagy0.000000003385InformativeDirect
Biological processMeiosis0.0000001027InformativeDirect
Biological processEndocytosis0.000004687InformativeDirect
Biological processExocytosis0.0000000000001382Highly InformativeDirect
Biological processGrowth regulation0.000000000001581Highly InformativeDirect
Biological processNeurotransmitter transport0.0000008678Highly InformativeDirect
Biological processFlowering0.000001134Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0.000000000002787Moderately InformativeDirect
Cellular componentCytoskeleton0.00000000003405Moderately InformativeDirect
Cellular componentCell junction0.000000000453Moderately InformativeDirect
Cellular componentChromosome0.000000000001646InformativeDirect
Cellular componentCentromere0.0009173Highly InformativeDirect
Coding sequence diversityAlternative splicing0.000000000000004647Least InformativeDirect
Coding sequence diversityChromosomal rearrangement0.0000001716InformativeDirect
DiseaseTumor suppressor0.000006714Moderately InformativeDirect
DiseaseMental retardation0.0004412InformativeDirect
DomainRepeat0.000000000000004288Least InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainCoiled coil0.000000000000002465Moderately InformativeDirect
DomainBromodomain0Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionLipid-binding0.0007173Moderately InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDNA-binding0.000000000000005197Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.00000863Moderately InformativeDirect
Post-translational modificationOxidoreductase0.3359Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationActin-binding0.000004837InformativeDirect
Post-translational modificationMethyltransferase0.0001157InformativeDirect
Post-translational modificationHelicase0.000177InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0.0002793InformativeDirect
Post-translational modificationDioxygenase0Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.0000000000001225Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately InformativeDirect
Post-translational modificationCitrullination0.00000001015Highly 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 ubiquitination0.0000001775Moderately InformativeDirect
UniPathway (UP)protein sumoylation0.00004443Highly 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-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · 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-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]