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Ferritin-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Ferritin-like [ 47239] (6)
Superfamily:   Ferritin-like [ 47240] (9)
Families:   Ferritin [ 47241] (9)
  Ribonucleotide reductase-like [ 47253] (8)
  Manganese catalase (T-catalase) [ 100951]
  YciF-like [ 140445] (2)
  half-ferritin [ 140450]
  PMT1231-like [ 158402]
  MiaE-like [ 158405]
  AMB4284-like [ 158408]
  Rv2844-like [ 158411]


Superfamily statistics
Genomes (3,220) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 21,983 126,399 108
Proteins 21,798 125,413 108


Functional annotation
General category Processes_IC
Detailed category Ion metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)response to stimulus0.0000000047470.0007363Least InformativeDirect
Biological Process (BP)biosynthetic process0.67480.0004066Least InformativeInherited
Biological Process (BP)biological regulation0.0000020080.4788Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.94460.0003762Least InformativeInherited
Biological Process (BP)multicellular organismal process0.1831Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.068570.0000985Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process0.59240.03144Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.38330.008997Least InformativeInherited
Biological Process (BP)primary metabolic process11Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.14920.0004308Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0059420.006229Least InformativeInherited
Biological Process (BP)ion transport0.0000040680.00002883Moderately InformativeDirect
Biological Process (BP)regulation of biological quality0.00000050890.00000245Moderately InformativeDirect
Biological Process (BP)small molecule biosynthetic process0.10830.1413Moderately InformativeInherited
Biological Process (BP)response to external stimulus0.39590.658Moderately InformativeInherited
Biological Process (BP)response to biotic stimulus0.051220.01687Moderately InformativeInherited
Biological Process (BP)multi-organism process0.016310.3303Moderately InformativeInherited
Biological Process (BP)cellular localization0.09260.2762Moderately InformativeInherited
Biological Process (BP)nucleoside phosphate metabolic process0.0090180.00000000001586Moderately InformativeInherited
Biological Process (BP)carbohydrate derivative metabolic process0.17250.000001186Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.57440.0005334Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.55870.001599Moderately InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.093130.00000007939Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.82230.009441Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.0014970.532Moderately InformativeInherited
Biological Process (BP)immune system process0.000010510.00129Moderately InformativeInherited
Biological Process (BP)cofactor metabolic process0.017830.004444Moderately InformativeInherited
Biological Process (BP)oxidoreduction coenzyme metabolic process0.000010030.00001726InformativeDirect
Biological Process (BP)immune response0.000013190.000009016InformativeDirect
Biological Process (BP)metal ion transport00.0000000004369InformativeDirect
Biological Process (BP)regulation of cell proliferation0.00000016110.0004403InformativeDirect
Biological Process (BP)cellular ketone metabolic process0.00013540.000006497InformativeDirect
Biological Process (BP)cellular chemical homeostasis0.000017990.00008903InformativeDirect
Biological Process (BP)transmembrane transport0.000016460.00004864InformativeDirect
Biological Process (BP)response to metal ion00.01077InformativeInherited
Biological Process (BP)nucleotide biosynthetic process0.12180.00003537InformativeInherited
Biological Process (BP)cation homeostasis00.3164InformativeInherited
Biological Process (BP)inorganic ion homeostasis00.4588InformativeInherited
Biological Process (BP)coenzyme biosynthetic process0.0028440.004788InformativeInherited
Biological Process (BP)transition metal ion transport00Highly InformativeDirect
Biological Process (BP)negative regulation of cell proliferation0.00000000088560.000001171Highly InformativeDirect
Biological Process (BP)deoxyribonucleotide metabolic process0.000035450Highly InformativeDirect
Biological Process (BP)response to fungus0.0000025960.000002344Highly InformativeDirect
Biological Process (BP)response to iron ion0.00000000018320.00000000000001254Highly InformativeDirect
Biological Process (BP)ketone biosynthetic process0.000000024390.0000004731Highly InformativeDirect
Biological Process (BP)maintenance of location0.0000000000000031440.0000000000005412Highly InformativeDirect
Biological Process (BP)transition metal ion homeostasis00Highly InformativeDirect
Biological Process (BP)import into cell00Highly InformativeDirect
Biological Process (BP)inorganic cation transmembrane transport0.00000000000021760.000000009399Highly InformativeDirect
Biological Process (BP)detoxification0.0000000000015980.00000000000006985Highly InformativeDirect
Biological Process (BP)quinone metabolic process0.000000017090.0000000263Highly InformativeDirect
Molecular Function (MF)binding0.000058150.3662Least InformativeInherited
Molecular Function (MF)oxidoreductase activity0.000041470Moderately InformativeDirect
Molecular Function (MF)metal ion binding00Moderately InformativeDirect
Molecular Function (MF)iron ion binding00Highly InformativeDirect
Cellular Component (CC)protein complex0.018650.3337Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.23890.05174Least InformativeInherited
Cellular Component (CC)cytosolic part0.024360.000003324Moderately InformativeInherited
Cellular Component (CC)oxidoreductase complex0.00011480.000000000002857InformativeDirect

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) cellular aromatic compound metabolic process 0.0000985 Least Informative Direct
Biological Process (BP) biosynthetic process 0.0004066 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0003762 Least Informative Direct
Biological Process (BP) response to stimulus 0.0007363 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0004308 Least Informative Direct
Biological Process (BP) biological regulation 0.4788 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.008997 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.03144 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.006229 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.00000000001586 Moderately Informative Direct
Biological Process (BP) ion transport 0.00002883 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.0005334 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.00000245 Moderately Informative Direct
Biological Process (BP) organophosphate biosynthetic process 0.00000007939 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.000001186 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 0.1413 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.658 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.3303 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.2762 Moderately Informative Inherited
Biological Process (BP) response to biotic stimulus 0.01687 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.001599 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.009441 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.532 Moderately Informative Inherited
Biological Process (BP) immune system process 0.00129 Moderately Informative Inherited
Biological Process (BP) cofactor metabolic process 0.004444 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) oxidoreduction coenzyme metabolic process 0.00001726 Informative Direct
Biological Process (BP) immune response 0.000009016 Informative Direct
Biological Process (BP) response to oxidative stress 0.00007711 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 0.00003537 Informative Direct
Biological Process (BP) metal ion transport 0.0000000004369 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.0004403 Informative Direct
Biological Process (BP) cellular ketone metabolic process 0.000006497 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.00008903 Informative Direct
Biological Process (BP) transmembrane transport 0.00004864 Informative Direct
Biological Process (BP) response to metal ion 0.01077 Informative Inherited
Biological Process (BP) cation homeostasis 0.3164 Informative Inherited
Biological Process (BP) inorganic ion homeostasis 0.4588 Informative Inherited
Biological Process (BP) coenzyme biosynthetic process 0.004788 Informative Inherited
Biological Process (BP) transition metal ion transport 0 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 0.000001171 Highly Informative Direct
Biological Process (BP) deoxyribonucleotide metabolic process 0 Highly Informative Direct
Biological Process (BP) response to fungus 0.000002344 Highly Informative Direct
Biological Process (BP) response to iron ion 0.00000000000001254 Highly Informative Direct
Biological Process (BP) ketone biosynthetic process 0.0000004731 Highly Informative Direct
Biological Process (BP) maintenance of location 0.0000000000005412 Highly Informative Direct
Biological Process (BP) transition metal ion homeostasis 0 Highly Informative Direct
Biological Process (BP) import into cell 0 Highly Informative Direct
Biological Process (BP) inorganic cation transmembrane transport 0.000000009399 Highly Informative Direct
Biological Process (BP) detoxification 0.00000000000006985 Highly Informative Direct
Biological Process (BP) quinone metabolic process 0.0000000263 Highly Informative Direct
Molecular Function (MF) binding 0.3662 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) metal ion binding 0 Moderately Informative Direct
Molecular Function (MF) iron ion binding 0 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxyge 0.008119 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 0.05174 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.3337 Least Informative Inherited
Cellular Component (CC) cytosolic part 0.000003324 Moderately Informative Direct
Cellular Component (CC) oxidoreductase complex 0.000000000002857 Informative Direct
Cellular Component (CC) plastid 0.01088 Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0Moderately InformativeDirect
Enzyme Commission (EC)Oxidizing metal ions0InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0InformativeDirect
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation0.000000003244InformativeDirect
Enzyme Commission (EC)Peroxidases0.0003203InformativeDirect
Enzyme Commission (EC)With a disulfide as acceptor0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism0.000002562Moderately InformativeDirect
Biological processFatty acid metabolism0InformativeDirect
Biological processPhotosynthesis0InformativeDirect
Biological processDNA replication0InformativeDirect
Biological processLipid biosynthesis0.000000000000004038InformativeDirect
Biological processChlorophyll biosynthesis0Highly InformativeDirect
Biological processDNA condensation0Highly InformativeDirect
Cellular componentMembrane0.0000002392Least InformativeDirect
Cellular componentPlastid0Moderately InformativeDirect
Cellular componentCell membrane0.000000003055Moderately InformativeDirect
Cellular componentHost membrane0.000001642InformativeDirect
Developmental stageEarly protein0.0003004Least InformativeDirect
DomainTransit peptide0Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionNADP0.00000009363Moderately InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationMonooxygenase0Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009078 SSF47240 Protein matches
Abstract

Ferritin is one of the major non-haem iron storage proteins in animals, plants, and microorganisms. Ferritin is a multisubunit protein with a hollow interior, which contains a mineral core of hydrated ferric oxide, thereby ensuring its solubility in an aqueous environment [PubMed9668036]. Each subunit consists of a closed, four-helical bundle with a left-handed twist and one crossover connection.

This family contains ferritin and other ferritin-like proteins such as bacterioferritin (cytochrome b1) that binds haem between two subunits, non-haem ferritin, dodecameric ferritin homologue (DPS) that binds to and protects DNA, and the N-terminal domain of rubrerythrin that is found in many air-sensitive bacteria and archaea [PubMed12175244]. In addition, ribonucleotide reductase-like proteins show a similar structure to the ferritin-like fold; these di-iron carboxylate proteins constitute a diverse class of non-haem iron enzymes performing a multitude of redox reactions [PubMed11315567]. This family includes the alpha and beta subunits of methane monooxygenase hydrolase, delta 9-stearoyl-acyl carrier protein desaturase and manganese catalase (T-catalase).


InterPro database


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

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

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 62 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 Ferritin-like 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 62 hidden Markov models representing the Ferritin-like 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) · UniProtKB KeyWords (KW) · Internal database links ]