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 (543) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 38,688 0 26
Proteins 32,527 0 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) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) protein metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 5.638e-13 Least Informative Direct
Biological Process (BP) developmental process 1.028e-07 Least Informative Direct
Biological Process (BP) multicellular organismal process 4.752e-07 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.002178 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 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 0.9293 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) localization 0.5336 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.8295 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) regulation of biosynthetic process 4.461e-11 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1.315e-10 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 2.454e-09 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 1.068e-06 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 7.714e-05 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organ development 0.2071 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.7281 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.1024 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.07433 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.06461 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.00223 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.2167 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 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) positive regulation of cellular process 0.1982 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.8332 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.2145 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.07184 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.01006 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) vesicle-mediated transport 2.54e-09 Informative Direct
Biological Process (BP) DNA metabolic process 2.67e-09 Informative Direct
Biological Process (BP) secretion by cell 8.047e-09 Informative Direct
Biological Process (BP) negative regulation of nitrogen compound metabolic process 4.402e-06 Informative Direct
Biological Process (BP) glycerolipid metabolic process 6.843e-05 Informative Direct
Biological Process (BP) negative regulation of biosynthetic process 0.0005058 Informative Direct
Biological Process (BP) regulation of organelle organization 0.0007356 Informative Direct
Biological Process (BP) regulation of peptidase activity 0.2806 Informative Inherited
Biological Process (BP) programmed cell death 0.4493 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.03978 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.1562 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.002337 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.06311 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.1296 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.5435 Informative Inherited
Biological Process (BP) response to inorganic substance 1 Informative Inherited
Biological Process (BP) cellular membrane organization 0.6033 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) actin filament-based process 1 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.04555 Informative Inherited
Biological Process (BP) reproductive system development 0.3655 Informative Inherited
Biological Process (BP) organelle localization 0.07165 Informative Inherited
Biological Process (BP) cell cycle process 0.8987 Informative Inherited
Biological Process (BP) microtubule-based process 1 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) transmission of nerve impulse 0.006976 Informative Inherited
Biological Process (BP) cell-cell signaling 0.02027 Informative Inherited
Biological Process (BP) regulation of system process 0.2908 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.06024 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.04442 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.3957 Informative Inherited
Biological Process (BP) phosphorylation 0.6896 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.001255 Informative Inherited
Biological Process (BP) regulation of purine nucleotide metabolic process 0.6347 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 1 Informative Inherited
Biological Process (BP) regulation of nucleoside metabolic process 1 Informative Inherited
Biological Process (BP) leukocyte activation 0.1919 Informative Inherited
Biological Process (BP) growth 0.5917 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.03588 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.1067 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.9089 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.2844 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.07706 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) response to DNA damage stimulus 0.2892 Informative Inherited
Biological Process (BP) positive regulation of protein modification process 1 Informative Inherited
Biological Process (BP) central nervous system development 0.4453 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 1 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.004232 Informative Inherited
Biological Process (BP) regulation of secretion 0.01165 Informative Inherited
Biological Process (BP) cell projection organization 0.8492 Informative Inherited
Biological Process (BP) generation of neurons 0.9562 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.1559 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.2613 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.005589 Informative Inherited
Biological Process (BP) epithelium development 0.2508 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.002978 Informative Inherited
Biological Process (BP) sexual reproduction 0.03789 Informative Inherited
Biological Process (BP) single organism reproductive process 0.2009 Informative Inherited
Biological Process (BP) protein catabolic process 0.7396 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) histone modification 0 Highly Informative Direct
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) chromatin assembly 3.722e-15 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 7.281e-15 Highly Informative Direct
Biological Process (BP) neurotransmitter transport 3.402e-11 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 7.642e-11 Highly Informative Direct
Biological Process (BP) DNA modification 3.362e-10 Highly Informative Direct
Biological Process (BP) phosphatidylinositol metabolic process 2.878e-09 Highly Informative Direct
Biological Process (BP) exocytosis 7.632e-09 Highly Informative Direct
Biological Process (BP) protein-DNA complex assembly 2.703e-07 Highly Informative Direct
Biological Process (BP) multi-organism behavior 3.716e-06 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic signaling pathway 4.358e-06 Highly Informative Direct
Biological Process (BP) lipid modification 1.038e-05 Highly Informative Direct
Biological Process (BP) epithelial cell development 8.393e-05 Highly Informative Direct
Biological Process (BP) positive regulation of organelle organization 0.0001361 Highly Informative Direct
Biological Process (BP) negative regulation of transcription, DNA-dependent 0.0002939 Highly Informative Direct
Biological Process (BP) ubiquitin-dependent protein catabolic process 0.0003786 Highly Informative Direct
Biological Process (BP) B cell activation 0.000386 Highly Informative Direct
Biological Process (BP) regulation of synaptic transmission 0.0008132 Highly Informative Direct
Biological Process (BP) regulation of cysteine-type endopeptidase activity 0.01044 Highly Informative Inherited
Biological Process (BP) plasma membrane organization 0.02309 Highly Informative Inherited
Biological Process (BP) actin filament organization 0.1792 Highly Informative Inherited
Biological Process (BP) regulation of response to nutrient levels 1 Highly Informative Inherited
Biological Process (BP) gonad development 0.008695 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.6851 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in neuron differentiation 0.871 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 0.9905 Highly Informative Inherited
Biological Process (BP) signal release 0.1205 Highly Informative Inherited
Biological Process (BP) establishment of vesicle localization 0.03849 Highly Informative Inherited
Biological Process (BP) synaptic vesicle localization 0.9596 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.289 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.3794 Highly Informative Inherited
Biological Process (BP) negative regulation of endopeptidase activity 0.001656 Highly Informative Inherited
Biological Process (BP) cell division 0.1282 Highly Informative Inherited
Biological Process (BP) meiosis 0.3648 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.07279 Highly Informative Inherited
Biological Process (BP) protein methylation 0.08913 Highly Informative Inherited
Biological Process (BP) DNA recombination 1 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.003631 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.09157 Highly Informative Inherited
Biological Process (BP) positive regulation of homeostatic process 0.03633 Highly Informative Inherited
Biological Process (BP) DNA replication 0.08847 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.5221 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.05526 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.6258 Highly Informative Inherited
Biological Process (BP) spermatogenesis 0.7949 Highly Informative Inherited
Biological Process (BP) protein deacylation 0.07354 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 5.158e-06 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity 1 Moderately Informative Inherited
Molecular Function (MF) cation binding 0.6842 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.09473 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) transferase activity, transferring acyl groups 1.433e-12 Informative Direct
Molecular Function (MF) ligase activity, forming carbon-nitrogen bonds 1.305e-10 Informative Direct
Molecular Function (MF) DNA binding 2.338e-10 Informative Direct
Molecular Function (MF) transferase activity, transferring one-carbon groups 2.116e-08 Informative Direct
Molecular Function (MF) transition metal ion binding 1.68e-06 Informative Direct
Molecular Function (MF) phosphoric ester hydrolase activity 0.6138 Informative Inherited
Molecular Function (MF) enzyme binding 0.1307 Informative Inherited
Molecular Function (MF) receptor binding 1 Informative Inherited
Molecular Function (MF) nucleotide binding 1 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.9869 Informative Inherited
Molecular Function (MF) kinase activity 1 Informative Inherited
Molecular Function (MF) acetyltransferase activity 0 Highly Informative Direct
Molecular Function (MF) small conjugating protein ligase activity 8.257e-14 Highly Informative Direct
Molecular Function (MF) methyltransferase activity 9.382e-12 Highly Informative Direct
Molecular Function (MF) protein binding transcription factor activity 2.469e-08 Highly Informative Direct
Molecular Function (MF) transcription factor binding 9.383e-08 Highly Informative Direct
Molecular Function (MF) dioxygenase activity 0.0001137 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0.5496 Highly Informative Inherited
Molecular Function (MF) phosphatidylinositol binding 0.004261 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 0.01101 Highly Informative Inherited
Molecular Function (MF) phosphoprotein phosphatase activity 0.1644 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 9.113e-15 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) protein complex 3.19e-13 Least Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.000149 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 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) cell projection 1 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 1 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 1 Moderately Informative Inherited
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) endosome 3.036e-10 Informative Direct
Cellular Component (CC) nucleoplasm part 7.188e-07 Informative Direct
Cellular Component (CC) synapse part 0.00517 Informative Inherited
Cellular Component (CC) neuron projection 1 Informative Inherited
Cellular Component (CC) microtubule cytoskeleton 0.116 Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 1 Informative Inherited
Cellular Component (CC) SWI/SNF superfamily-type complex 0 Highly Informative Direct
Cellular Component (CC) histone deacetylase complex 0 Highly Informative Direct
Cellular Component (CC) endosomal part 2.458e-12 Highly Informative Direct
Cellular Component (CC) chromatin 3.163e-09 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 6.212e-09 Highly Informative Direct
Cellular Component (CC) growth cone 0.01703 Highly Informative Inherited
Cellular Component (CC) cell division site part 0.004598 Highly Informative Inherited
Cellular Component (CC) transcription factor complex 1 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 groups6.577e-10Least 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 groups2.68e-08Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an3.973e-07Moderately 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-phosphatase8.157e-10InformativeDirect
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 morphology0.761Least InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.004769Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the immune system0.005987Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.0259Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hand0.206Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by anatomical site0.002513InformativeInherited
Phenotypic Abnormality (PA)Abnormality of leukocytes0.07951InformativeInherited
Phenotypic Abnormality (PA)Acute leukemia0.0002972Highly InformativeDirect
Phenotypic Abnormality (PA)Large hands0.000511Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal preimplantation embryo development0.2183InformativeInherited
Mammalian Phenotype (MP)abnormal blastocyst morphology0.3489Highly InformativeInherited

Document: MP 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 variant5.095e-07Moderately InformativeDirect
Worm Phenotype (WP)endocytic transport defect6.061e-06Moderately InformativeDirect
Worm Phenotype (WP)organ system development variant1.633e-05Moderately 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 defective1.592e-08Highly InformativeDirect
Worm Phenotype (WP)ectopic expression transgene5.227e-08Highly InformativeDirect
Worm Phenotype (WP)organism UV hypersensitive2.368e-07Highly 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 growth0.2896Least InformativeInherited
Yeast Phenotype (YP)protein/peptide modification0.0005446Highly 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 variegation3.057e-06InformativeDirect

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)cell0.004233Least InformativeInherited
Xenopus ANatomical entity (XAN)genital system0.00439Least InformativeInherited
Xenopus ANatomical entity (XAN)gamete0.0004831Moderately 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 meristem5.447e-06Highly InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0.1057Least InformativeInherited
Enzyme Commission (EC)Hydrolases0.5313Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups7.749e-10Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.0002484Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.0007093Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.00144Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.01653Moderately 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 helicase9.796e-12InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase1.049e-09InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases2.868e-05InformativeDirect
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 kinase4.411e-07Highly 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 cycle1.325e-07Moderately InformativeDirect
Biological processProtein transport8.12e-06Moderately InformativeDirect
Biological processNeurogenesis0InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processMeiosis1.843e-08InformativeDirect
Biological processExocytosis3.116e-14Highly InformativeDirect
Biological processGrowth regulation1.825e-13Highly InformativeDirect
Biological processNeurotransmitter transport6.653e-07Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle6.696e-14Moderately InformativeDirect
Cellular componentCell junction7.903e-12Moderately InformativeDirect
Cellular componentCytoskeleton1.66e-10Moderately InformativeDirect
Cellular componentChromosome1.483e-10InformativeDirect
Coding sequence diversityAlternative splicing4.421e-15Least InformativeDirect
Coding sequence diversityChromosomal rearrangement1.612e-07InformativeDirect
DiseaseTumor suppressor4.894e-06Moderately InformativeDirect
DomainRepeat1.206e-12Least InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainCoiled coil2.734e-14Moderately InformativeDirect
DomainBromodomain0Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionDNA-binding0.000264Moderately InformativeDirect
Molecular functionLipid-binding3.44e-05InformativeDirect
Molecular functionActin-binding0.0002976InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein2.385e-05Moderately InformativeDirect
Post-translational modificationOxidoreductase0.1996Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0.0002129InformativeDirect
Post-translational modificationHelicase0.0002889InformativeDirect
Post-translational modificationMethyltransferase0.0006909InformativeDirect
Post-translational modificationDioxygenase0Highly InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation2.059e-08Moderately InformativeDirect
Post-translational modificationIsopeptide bond7.153e-05Moderately InformativeDirect
Post-translational modificationCitrullination5.645e-09Highly 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 ubiquitination3.596e-07Moderately InformativeDirect
UniPathway (UP)protein sumoylation4.009e-05Highly 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) · Mouse Phenotype (MP) · 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 ]