SUPERFAMILY 1.75 HMM library and genome assignments server

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 (555) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 40,386 42,588 26
Proteins 33,906 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) protein metabolic process 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.00000000000004226 Least Informative Direct
Biological Process (BP) developmental process 0.0000001167 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.00003563 Least Informative Direct
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 0.8757 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.002245 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.001007 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.9061 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.8021 Least Informative Inherited
Biological Process (BP) localization 0.7122 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.004792 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0 Moderately Informative Direct
Biological Process (BP) single-organism organelle organization 0 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.0000000000125 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.00000000002329 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.0000000002034 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.0000000002257 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0000000003818 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.00000001358 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.000006157 Moderately Informative Direct
Biological Process (BP) reproductive process 0.0006345 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.9068 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.3829 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.05957 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.2386 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphorus metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.1074 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.1766 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.9379 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) organ development 0.1794 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.8064 Moderately Informative Inherited
Biological Process (BP) tissue development 1 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) chromosome organization 0 Informative Direct
Biological Process (BP) secretion by cell 0.000000000008853 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.000000001349 Informative Direct
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.0000003573 Informative Direct
Biological Process (BP) negative regulation of biosynthetic process 0.00000915 Informative Direct
Biological Process (BP) glycerolipid metabolic process 0.0002862 Informative Direct
Biological Process (BP) synaptic transmission 0.0005923 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.002311 Informative Inherited
Biological Process (BP) negative regulation of cell death 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.5817 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.3529 Informative Inherited
Biological Process (BP) regulation of peptidase activity 0.1889 Informative Inherited
Biological Process (BP) regulation of secretion 0.001298 Informative Inherited
Biological Process (BP) regulation of purine nucleotide metabolic process 0.7026 Informative Inherited
Biological Process (BP) regulation of nucleoside metabolic process 1 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.5947 Informative Inherited
Biological Process (BP) response to inorganic substance 1 Informative Inherited
Biological Process (BP) reproductive structure development 0.05016 Informative Inherited
Biological Process (BP) tube development 1 Informative Inherited
Biological Process (BP) actin filament-based process 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.2683 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.1923 Informative Inherited
Biological Process (BP) epithelium development 0.435 Informative Inherited
Biological Process (BP) organelle localization 0.0697 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.9111 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) single-organism cellular localization 0.007178 Informative Inherited
Biological Process (BP) microtubule-based process 1 Informative Inherited
Biological Process (BP) generation of neurons 0.9182 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.3791 Informative Inherited
Biological Process (BP) positive regulation of RNA metabolic process 0.1212 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.2485 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.003699 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 1 Informative Inherited
Biological Process (BP) apoptotic process 0.2478 Informative Inherited
Biological Process (BP) negative regulation of protein processing 0.05525 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) protein catabolic process 0.8096 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) protein modification by small protein conjugation or removal 1 Informative Inherited
Biological Process (BP) organelle fission 1 Informative Inherited
Biological Process (BP) growth 0.9395 Informative Inherited
Biological Process (BP) cell cycle process 0.349 Informative Inherited
Biological Process (BP) cell division 0.2707 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.1773 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.001577 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) central nervous system development 0.5027 Informative Inherited
Biological Process (BP) leukocyte activation 0.2103 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.08699 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.4153 Informative Inherited
Biological Process (BP) nitrogen compound transport 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) regulation of vesicle-mediated transport 0.06444 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.005594 Informative Inherited
Biological Process (BP) cell projection organization 0.5274 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.1528 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.1954 Informative Inherited
Biological Process (BP) single organism reproductive process 0.02406 Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.02476 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.04042 Informative Inherited
Biological Process (BP) sexual reproduction 0.06542 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.1265 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 1 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.3935 Informative Inherited
Biological Process (BP) embryonic organ development 0.01345 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.7256 Informative Inherited
Biological Process (BP) internal protein amino acid acetylation 0 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 0 Highly Informative Direct
Biological Process (BP) histone modification 0 Highly Informative Direct
Biological Process (BP) gene silencing 0.0000000000006223 Highly Informative Direct
Biological Process (BP) neurotransmitter transport 0.0000000000009442 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 0.00000000000267 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.000000000003934 Highly Informative Direct
Biological Process (BP) exocytosis 0.0000000009381 Highly Informative Direct
Biological Process (BP) phosphatidylinositol metabolic process 0.00000002544 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic signaling pathway 0.0000003157 Highly Informative Direct
Biological Process (BP) signal release 0.0000006165 Highly Informative Direct
Biological Process (BP) DNA modification 0.000001865 Highly Informative Direct
Biological Process (BP) negative regulation of transcription, DNA-templated 0.000002436 Highly Informative Direct
Biological Process (BP) multi-organism behavior 0.00000915 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 0.00004457 Highly Informative Direct
Biological Process (BP) lipid modification 0.00005802 Highly Informative Direct
Biological Process (BP) B cell activation 0.0004743 Highly Informative Direct
Biological Process (BP) regulation of exocytosis 0.0004816 Highly Informative Direct
Biological Process (BP) ubiquitin-dependent protein catabolic process 0.0006487 Highly Informative Direct
Biological Process (BP) hormone transport 0.0006625 Highly Informative Direct
Biological Process (BP) positive regulation of organelle organization 0.0009394 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity involved in apoptotic process 0.07768 Highly Informative Inherited
Biological Process (BP) negative regulation of endopeptidase activity 0.001921 Highly Informative Inherited
Biological Process (BP) negative regulation of chromosome organization 0.2982 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.006447 Highly Informative Inherited
Biological Process (BP) actin filament organization 0.293 Highly Informative Inherited
Biological Process (BP) regulation of response to nutrient levels 1 Highly Informative Inherited
Biological Process (BP) gonad development 0.01675 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.08923 Highly Informative Inherited
Biological Process (BP) protein methylation 0.001707 Highly Informative Inherited
Biological Process (BP) neuron projection development 0.02028 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.4747 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 0.99 Highly Informative Inherited
Biological Process (BP) establishment of synaptic vesicle localization 0.6648 Highly Informative Inherited
Biological Process (BP) regulation of synaptic transmission 0.0268 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.05976 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.6681 Highly Informative Inherited
Biological Process (BP) protein ubiquitination 0.292 Highly Informative Inherited
Biological Process (BP) meiotic cell cycle 0.5903 Highly Informative Inherited
Biological Process (BP) cytokinesis 0.01043 Highly Informative Inherited
Biological Process (BP) nuclear division 0.04902 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.1157 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.004185 Highly Informative Inherited
Biological Process (BP) positive regulation of homeostatic process 0.187 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-templated 0.9514 Highly Informative Inherited
Biological Process (BP) DNA replication 0.06165 Highly Informative Inherited
Biological Process (BP) amide transport 0.0241 Highly Informative Inherited
Biological Process (BP) DNA recombination 1 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.499 Highly Informative Inherited
Biological Process (BP) germ cell development 0.1968 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.7092 Highly Informative Inherited
Biological Process (BP) spermatogenesis 0.8035 Highly Informative Inherited
Biological Process (BP) protein deacylation 0.08015 Highly Informative Inherited
Biological Process (BP) placenta development 0.002879 Highly Informative Inherited
Biological Process (BP) in utero embryonic development 0.01202 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 0.000000001538 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.0000007197 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity 1 Moderately Informative Inherited
Molecular Function (MF) cation binding 0.7741 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) anion binding 0.06961 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) lipid binding 0 Informative Direct
Molecular Function (MF) chromatin binding 0 Informative Direct
Molecular Function (MF) zinc ion binding 0.0000000000001378 Informative Direct
Molecular Function (MF) DNA binding 0.00000000000768 Informative Direct
Molecular Function (MF) transferase activity, transferring acyl groups 0.000000005512 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 0.00000001387 Informative Direct
Molecular Function (MF) enzyme binding 0.07188 Informative Inherited
Molecular Function (MF) receptor binding 1 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) nucleotide binding 1 Informative Inherited
Molecular Function (MF) phosphatase activity 0.3022 Informative Inherited
Molecular Function (MF) acetyltransferase activity 0 Highly Informative Direct
Molecular Function (MF) methyltransferase activity 0.000000000000005438 Highly Informative Direct
Molecular Function (MF) ubiquitin-protein transferase activity 0.0000000008504 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0.000000001027 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.0000001707 Highly Informative Direct
Molecular Function (MF) dioxygenase activity 0.0001423 Highly Informative Direct
Molecular Function (MF) phosphatidylinositol binding 0.0008184 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) structure-specific DNA binding 0.1587 Highly Informative Inherited
Molecular Function (MF) Ras GTPase binding 1 Highly Informative Inherited
Molecular Function (MF) oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxyge 0.00799 Highly Informative Inherited
Molecular Function (MF) phosphoprotein phosphatase activity 0.1542 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.00000000001802 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.00006258 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.9933 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) transferase complex 0.4953 Moderately Informative Inherited
Cellular Component (CC) cell projection 1 Moderately Informative Inherited
Cellular Component (CC) plasma membrane part 1 Moderately Informative Inherited
Cellular Component (CC) bounding membrane of organelle 0.03803 Moderately Informative Inherited
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) nucleoplasm part 0.00000000000000158 Informative Direct
Cellular Component (CC) endosome 0.000000001613 Informative Direct
Cellular Component (CC) synapse 0.00001937 Informative Direct
Cellular Component (CC) neuron projection 1 Informative Inherited
Cellular Component (CC) cell surface 1 Informative Inherited
Cellular Component (CC) chromatin 0 Highly Informative Direct
Cellular Component (CC) protein acetyltransferase complex 0 Highly Informative Direct
Cellular Component (CC) endosomal part 0.00000000000754 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.00000007314 Highly Informative Direct
Cellular Component (CC) growth cone 0.03358 Highly Informative Inherited
Cellular Component (CC) cell division site part 0.005571 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

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.7594Least InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.004516Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the immune system0.006038Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.02433Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hand0.2013Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by anatomical site0.002426InformativeInherited
Phenotypic Abnormality (PA)Abnormality of leukocytes0.07787InformativeInherited
Phenotypic Abnormality (PA)Acute leukemia0.0002662Highly InformativeDirect
Phenotypic Abnormality (PA)Large hands0.0003221Highly InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.0001886Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.002052Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.1148Least InformativeInherited
Worm Phenotype (WP)cell death variant0.0000005095Moderately InformativeDirect
Worm Phenotype (WP)endocytic transport defect0.000006061Moderately InformativeDirect
Worm Phenotype (WP)organ system development variant0.00001633Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.5187Moderately InformativeInherited
Worm Phenotype (WP)vulva development variant0.0005254InformativeDirect
Worm Phenotype (WP)organism stress response variant0.006342InformativeInherited
Worm Phenotype (WP)VPC competence variant0.05791InformativeInherited
Worm Phenotype (WP)protein expression variant0.1307InformativeInherited
Worm Phenotype (WP)alimentary system development variant0.5396InformativeInherited
Worm Phenotype (WP)coelomocyte uptake defective0.00000001592Highly InformativeDirect
Worm Phenotype (WP)ectopic expression transgene0.00000005227Highly InformativeDirect
Worm Phenotype (WP)organism UV hypersensitive0.0000002368Highly InformativeDirect
Worm Phenotype (WP)gut granule biogenesis reduced0.0001195Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)metabolism and growth0.3008Least InformativeInherited
Yeast Phenotype (YP)protein/peptide modification0.000599Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)modifier of variegation0.000004281InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0.004395Least InformativeInherited
Xenopus ANatomical entity (XAN)cell0.004402Least InformativeInherited
Xenopus ANatomical entity (XAN)gamete0.0004886Moderately 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 tissue0.4616Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.6522Least InformativeInherited
Plant ANatomical entity (PAN)shoot apical meristem0.000005447Highly InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0.107Least InformativeInherited
Enzyme Commission (EC)Hydrolases0.5396Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.0000000007288Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.0002528Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.0007056Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.001421Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.01639Moderately InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen0InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)DNA helicase0.000000000009505InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.00000000102InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.00002825InformativeDirect
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)Non-specific protein-tyrosine kinase0.0000004343Highly 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 processCell cycle0.00000009752Moderately InformativeDirect
Biological processProtein transport0.000008002Moderately InformativeDirect
Biological processNeurogenesis0InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processMeiosis0.00000001855InformativeDirect
Biological processExocytosis0.00000000000003034Highly InformativeDirect
Biological processGrowth regulation0.0000000000001775Highly InformativeDirect
Biological processNeurotransmitter transport0.0000006558Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0.00000000000007393Moderately InformativeDirect
Cellular componentCell junction0.0000000000078Moderately InformativeDirect
Cellular componentCytoskeleton0.0000000001665Moderately InformativeDirect
Cellular componentChromosome0.0000000001451InformativeDirect
Coding sequence diversityAlternative splicing0.000000000000002276Least InformativeDirect
Coding sequence diversityChromosomal rearrangement0.0000001611InformativeDirect
DiseaseTumor suppressor0.00000473Moderately InformativeDirect
DomainRepeat0.000000000001281Least InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainCoiled coil0.00000000000002921Moderately InformativeDirect
DomainBromodomain0Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionDNA-binding0.0002525Least InformativeDirect
Molecular functionLipid-binding0.00003347InformativeDirect
Molecular functionActin-binding0.0002945InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.00002284Moderately InformativeDirect
Post-translational modificationOxidoreductase0.2044Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0.0002104InformativeDirect
Post-translational modificationHelicase0.0002979InformativeDirect
Post-translational modificationMethyltransferase0.0006861InformativeDirect
Post-translational modificationDioxygenase0Highly InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation0.00000003009Moderately InformativeDirect
Post-translational modificationIsopeptide bond0.0001034Moderately InformativeDirect
Post-translational modificationCitrullination0.000000005429Highly 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 ubiquitination0.000000374Moderately InformativeDirect
UniPathway (UP)protein sumoylation0.0000397Highly 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

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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) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · 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 ]