PaperBLAST

Full List of Papers Linked to Q56ZZ7

pGlcT / Q56ZZ7 glucose transporter from Arabidopsis thaliana (see 4 papers)
PLST4_ARATH / Q56ZZ7 Plastidic glucose transporter 4; AtpGlcT from Arabidopsis thaliana (Mouse-ear cress) (see paper)
TC 2.A.1.1.102 / Q56ZZ7 Plastidic glucose transporter 4 (AtpGlcT) from Arabidopsis thaliana (see 5 papers)
NP_850828 plastidic GLC translocator from Arabidopsis thaliana
AT5G16150 PGLCT (PLASTIDIC GLC TRANSLOCATOR); carbohydrate transmembrane transporter/ sugar:hydrogen symporter from Arabidopsis thaliana

• function: May be involved in the efflux of glucose towards the cytosol.
• substrates: glucose
• Do mitochondria use efflux pumps to protect their ribosomes from antibiotics?
  Islam, Microbiology (Reading, England) 2023
  • “...9E^121** Q9SYQ1, 0.00014 A0A286YF51, 0.0019 [ 73 ] TPO1 Polyamine transporter 1 MFS G1UAY0, 1.9E^141# Q56ZZ7, 0.00017 Q6ZMD2, 9.2E^6 [ 40 ] TPO3 Polyamine transporter 3 MFS Q9C0R8, 6.1E^98# A0A1I9LP99, 7.5E^5 Q7L0J3, 0.0047 [ 40, 73 ] *Information adapted from the Saccharomyces Genome Database (SGD). https://www.yeastgenome.org/....”
  • “...MFS T2AWG3, 0.0014 Q8GYF4, 1.4E^24 B3KT41, 0.0022 [ 79 ] NCU09551 Q7S2B0 MFS G1UAY0, 2.3E^6 Q56ZZ7, 2.3E^7 Q8NBP5, 8.4E^9 [ 78 ] NCU10021 Q7S0I5 MFS Q8J2J7, 8.1E^102 Q9FMX3, 2.3E^55 Q96QE2, 2.8E^41 [ 78 ] *Information gathered from NCBI Protein BLAST, algorithm: PSI-BLAST ( https://www.ncbi.nlm.nih.gov/ ) and...”
• Microsome-associated proteome modifications of Arabidopsis seedlings grown on board the International Space Station reveal the possible effect on plants of space stresses other than microgravity
  Mazars, Plant signaling & behavior 2014
  • “...protein Transporters P23586 AT1G11260 0.370 sugar transporter 1 Q8LGU1 AT3G21250 0.456 multidrug resistance-associated protein 6 Q56ZZ7 AT5G16150 0.523 Plastidic glucose transporter 4 Q53XH7 AT5G62670 0.553 H(+)-ATPase 11 Q94FB9 AT4G39850 0.559 ABC transporter D family member 1 Q9SE45 AT2G38760 0.587 annexin D3 Aquaporins Q41975 AT4G17340 0.219 putative...”
• The novel chloroplast glucose transporter pGlcT2 affects adaptation to extended light periods.
  Valifard, The Journal of biological chemistry 2023
  • GeneRIF: The novel chloroplast glucose transporter pGlcT2 affects adaptation to extended light periods.
• Role of the plastidic glucose translocator in the export of starch degradation products from the chloroplasts in Arabidopsis thaliana.
  Cho, The New phytologist 2011 (PubMed)
  • GeneRIF: pGlcT, together with MEX1, contributes significantly to the export of starch degradation products from chloroplasts in A. thaliana leaves and and that this starch-mediated pathway for photoassimilate export via pGlcT and MEX1 is essential for the growth and development of A. thaliana. [pGlcT]
• The novel chloroplast glucose transporter pGlcT2 affects adaptation to extended light periods
  Valifard, The Journal of biological chemistry 2023
  • “...of the MST-type sugar transporter family in Arabidopsis revealed that pGlcT (encoded by the gene At5g16150 ) is one of four closely related carrier isoforms representing an independent MST subgroup ( 3 ). The next homolog to pGlcT is the protein encoded by the gene At1g05030...”
  • “...Alignment of pGlcT2 with other sugar transporters (VGT1: At3g03090 , pSUT: At5g59250 , and pGLCT: At5g16150 ) was done using MEGA11 software ( 74 ) based on ClustalW ( 75 ) alignment of the corresponding amino acid sequences. The alignment was visualized using GeneDoc ( 76...”
• Nucleotide Imbalance, Provoked by Downregulation of Aspartate Transcarbamoylase Impairs Cold Acclimation in Arabidopsis
  Bellin, Molecules (Basel, Switzerland) 2023
  • “...1.97 2.05 1.48 1.49 Mt, P adenine nucleotide AT5G66380 FOLT1 0.76 1.05 0.65 PL folate AT5G16150 pGlcT 0.44 0.87 1.03 1.20 0.34 PL hexose AT1G68570 NPF3.1 2.69 2.35 0.66 0.72 PL nitrite AT4G32400 BT1-like 2.01 1.58 0.70 0.72 PL nucleotide AT1G61800 GPT2 5.90 7.61 0.39 1.65...”
• Genome-Wide Association Study to Identify Possible Candidate Genes of Snap Bean Leaf and Pod Color
  Celebioglu, Genes 2023
  • “...706,796 11.61 0.36 31.60 10.9 7.76 10 9 Phvul.008G006600 AT5G65560 Phvul.008G006700 AT5G38720 Phvul.008G006800 AT2G19540 Phvul.008G007500 AT5G16150 Phvul.008G007600 AT2G39060 Phvul.008G007700 AT5G16180 Phvul.008G008400 AT1G66840 5-593 1 G/T H.2020 50,939,307 27.26 0.08 75.89 29.3 1.47 10 23 Pv5-593.01G220900 AT5G26600 Pv5-593.01G221300 AT1G56720 Pv5-593.01G221400 Pv5-593.01G221500 AT1G09430 Pv5-593.01G221600 AT3G07100 Pv5-593.01G221800 AT1G56700 Pv5-593.01G221900...”
• An expanded role for the transcription factor WRINKLED1 in the biosynthesis of triacylglycerols during seed development
  Kuczynski, Frontiers in plant science 2022
  • “...PGI 1 (phosphoglucose isomerase, AT4G24620) (p) +20(+) 2.90.6 0.92 0.94 ** PGLCT (plastidic glucose translocator, AT5G16150) +45() 23.94.7 1.00 0.82 * PGLM 1 (phosphoglyceromutase, AT1G22170) (p) +104(+) 1.91.3 0.67 1.00 ** PGLM 2 (phosphoglyceromutase, AT1G78050) (p) +78(+) 6.74.1 1.00 0.97 ** PK p PK- (Pyruvate kinase...”
• Genome-wide identification, expression, and association analysis of the monosaccharide transporter (MST) gene family in peanut (Arachis hypogaea L.)
  Wan, 3 Biotech 2020
  • “...Regulate arsenic accumulation AhMST76 AhMST43 AhMST57 PGLCT (AT5G16150) Affecting chloroplast AtPLT6/AtPMT6 (AT4G36670) Effect pollen and young xylem cells INT1...”
• Transcriptional Plasticity of Autophagy-Related Genes Correlates with the Genetic Response to Nitrate Starvation in Arabidopsis Thaliana
  Bedu, Cells 2020
  • “...0.079 0.022 19.4% 0.005 ** GLU1 At5g04140 6.208 1.835 6.972 2.141 12.3% 0.026 * GLT At5g16150 0.284 0.110 0.372 0.139 31.0% 0.000 *** * p < 0.05, ** p < 0.01, *** p < 0.001, ns = not statistically significant. cells-09-01021-t002_Table 2 Table 2 Averages of...”
• Pan- and core- gene association networks: Integrative approaches to understanding biological regulation
  Wirojsirasak, PloS one 2019
  • “...a-Glucosidase-like 3 At5g11720 AGL4 a-Glucosidase-like 4 At1g68560 AGL5 a-Glucosidase-like 5 At5g46110 TPT1 Triose phosphate translocator At5g16150 GLT1 Glucose transporter At5g17520 MEX1 Maltose exporter The consensus-based network, proposed herein as core -GAN, is generally considered a reliable network because the constituents are supported by more than one...”
• Dynamics of metabolic responses to periods of combined heat and drought in Arabidopsis thaliana under ambient and elevated atmospheric CO2
  Zinta, Journal of experimental botany 2018
  • “...at4g10120; ADP glucose pyrophosphorylase, EC 2.7.7.27, at5g19220), and sugar transporters (sucrose-proton symporter 1/plastidic GLC translocator, at5g16150; glucose-6-phosphate translocator, at5g46110). Elevated CO 2 dampened this effect (see Supplementary Fig. S1a ). Glycolysis-related genes were generally down-regulated under stress ( Fig. S1b ). Transcripts of raffinose synthesis genes...”
• Dissecting the subcellular membrane proteome reveals enrichment of H+ (co-)transporters and vesicle trafficking proteins in acidic zones of Chara internodal cells
  Pertl-Obermeyer, PloS one 2018
  • “...oligosaccharyltransferase/magnesium transporter protein 10 6 4 at1g61790 ER plastidic glucose translocator (PGLCT) 85 38 47 at5g16150 P sucrose transporter 2 (SUT2) 12 8 4 at2g02860 Golgi, V, PM 34.3 transport.H + transporting pyrophosphatase 573 315 258 vacuolar H + - pyrophosphatase 1 (AVP1) 570 313 257...”
• Genome-Wide Transcriptome Analysis Reveals Conserved and Distinct Molecular Mechanisms of Al Resistance in Buckwheat (Fagopyrum esculentum Moench) Leaves
  Chen, International journal of molecular sciences 2017
  • “...comp96590_c0_seq1 1.764 comp88250_c0_seq1 1.705 comp81877_c0_seq1 1.967 AT3G21090 ABCG15 Cutin comp56152_c0_seq1 2.033 comp96281_c0_seq1 2.336 comp22596_c0_seq2 1.350 AT5G16150 Putative plastidic glucose transporter Glucose comp22596_c0_seq1 1.314 comp25276_c0_seq1 1.121 comp49196_c0_seq1 2.598 AT3G47960 NRT1/ PTR family 2.10 Glucosinolate comp26699_c0_seq1 2.651 comp28002_c0_seq1 2.654 comp91186_c0_seq1 3.385 comp24147_c0_seq1 1.022 AT4G24120 Yellow stripe-like 1 Iron-nicotianamine;...”
• Genome-wide analysis of starch metabolism genes in potato (Solanum tuberosum L.)
  Van, BMC genomics 2017
  • “...water dikinase (GWD) PGSC0003DMG400007677 PGSC0003DMT400019845 Sotub05g014130.1.1 NM_001288123.1 At1g10760 Glucose transporter (GLT1) PGSC0003DMG400026402 PGSC0003DMT400067884 Sotub02g029320.1.1 AF215853.1 At5g16150 Glucose-6-phosphate translocator 1.1 (GPT1.1) PGSC0003DMG400001041 PGSC0003DMG400005602 PGSC0003DMT400002701 PGSC0003DMT400014284 Sotub07g025910.1.1 At5g54800 Glucose-6-phosphate translocator 1.2 (GPT1.2) Sotub03g008220.1.1 At1g61800 Glucose-6-phosphate translocator 2.1 (GPT2.1) PGSC0003DMG400005269 PGSC0003DMT400013500 Sotub05g021450.1.1 AF020816.1 At1g61800 Glucose-6-phosphate translocator 2.2 (GPT2.2) PGSC0003DMG400025495...”
• Genetic variants associated with the root system architecture of oilseed rape (Brassica napus L.) under contrasting phosphate supply
  Wang, DNA research : an international journal for rapid publication of reports on genes and genomes 2017
  • “...homologous to AT5G16110 , which regulates lateral root development. 43 Along with MEX1 , the AT5G16150- plastidic GLC translocator ( PGLCT ) is essential for the growth and development of starch degradation products from chloroplasts and starch-mediated pathway for photoassimilate export in Arabidopsis . BnaA03g05800D ,...”
• Potato tuber expression of Arabidopsis WRINKLED1 increase triacylglycerol and membrane lipids while affecting central carbohydrate metabolism
  Hofvander, Plant biotechnology journal 2016
  • “...181.64 AT1G61800 c22725_g1_i1 Glucose transporter Plastid 36.32 18.40 10.85 47.97 85.58 50.57 1.32 4.65 4.66 AT5G16150 c28098_g1_i1 Phosphoenolpyruvate transporter Plastid 23.74 14.67 9.84 65.31 105.47 70.35 2.75 7.19 7.15 AT5G33320 c24279_g1_i1 Triosephosphate transporter Plastid 0.01 0.07 0.14 4.91 11.49 4.16 737.10 159.58 29.51 AT5G46110 c30397_g1_i1 Dicarboxylate...”
• Redirecting the Cyanobacterial Bicarbonate Transporters BicA and SbtA to the Chloroplast Envelope: Soluble and Membrane Cargos Need Different Chloroplast Targeting Signals in Plants
  Rolland, Frontiers in plant science 2016
  • “...references are as follows: At PLGG1 (AT1G32080), At HP59 (AT5G59250), At NTT1 (AT1G80300), At GLT1 (AT5G16150), At NTT2 (AT1G15500), At DIT2;2 (AT5G64280), At CLT2 (AT4G24460), At NHD1 (AT3G19490) and Cr NAR1.2 (AAT39454). Envelope or Thylakoid Targeting: Putative Role of TMDs in BicA and SbtA In our...”
• Microsome-associated proteome modifications of Arabidopsis seedlings grown on board the International Space Station reveal the possible effect on plants of space stresses other than microgravity
  Mazars, Plant signaling & behavior 2014
  • “...Transporters P23586 AT1G11260 0.370 sugar transporter 1 Q8LGU1 AT3G21250 0.456 multidrug resistance-associated protein 6 Q56ZZ7 AT5G16150 0.523 Plastidic glucose transporter 4 Q53XH7 AT5G62670 0.553 H(+)-ATPase 11 Q94FB9 AT4G39850 0.559 ABC transporter D family member 1 Q9SE45 AT2G38760 0.587 annexin D3 Aquaporins Q41975 AT4G17340 0.219 putative aquaporin...”
• EXO modifies sucrose and trehalose responses and connects the extracellular carbon status to growth
  Lisso, Frontiers in plant science 2013
  • “...TGG TAC GGC AAA TTC AAA CC GTG GCA ACA GAT GGT TGG TG GLT1 At5g16150 AGC AGC CGC TAC TGG AAA GTT G TCT GAT TGG ATT CCC GCA CTA CG KIN10 At3g01090 CAA CCG AAC CCA GAA TGA TGG C ATA ACC ACT AGA...”
• SUT Sucrose and MST Monosaccharide Transporter Inventory of the Selaginella Genome
  Lalonde, Frontiers in plant science 2012
  • “...None Polyol transport PLT AtSTP1 (AT1G11260) 6 14 3 1 3 Monosaccharide transport pGLT AtGLT1 (AT5G16150) 4 3 4 3 (6) 3 Monosaccharide transport ERD6 AtSTP1 (AT1G11260) 19 4 6 1 None Inositol transport INT AtSTP1 (AT1G11260) 4 3 2 None Monosaccharide transport TMT AtTMT1 (AT1G20840)...”
• Protonophore- and pH-insensitive glucose and sucrose accumulation detected by FRET nanosensors in Arabidopsis root tips
  Chaudhuri, The Plant journal : for cell and molecular biology 2008
  • “...in the lateral root cap and columella. Two clade VI plastidic glucose transporters, At1g79820 and At5g16150 , are more widely expressed in the root, excluding trichoblasts, although the same caveat regarding trichoblasts still applies. Four members of the aquaporin gene family ( PIP1;2, PIP1;3, PIP2;8 and...”
• Host origin of plastid solute transporters in the first photosynthetic eukaryotes
  Tyra, Genome biology 2007
  • “...At5g04770 Amino acid permease At5g05630 Amino acid permease At5g13550 Sulfate transporter At5g14040 Mitochondrial phosphate transporter At5g16150 Hexose transporter At5g17630 Glucose-6-phosphate transporter 1 (XPT) At5g19410 ABC transporter (White) At5g19600 Sulfate transporter At5g22830 CorA-like magnesium transporter At5g26820 Ferroportin-related protein At5g33320 Phosphoenolpyruvate/phosphate translocator (PPT1) At5g42130 Mitochondrial substrate carrier family...”
• A Golgi-localized hexose transporter is involved in heterotrimeric G protein-mediated early development in Arabidopsis
  Wang, Molecular biology of the cell 2006
  • “...(At1g79820), a putative plastidic glucose transporter (pGlcT, At5g16150), and a rat glucose transporter 4 (GLUT4, NP_036883), and full-length sequences of human...”
  • “...et al., 2000). Only one member of pGlcT (At5g16150) has a predicted chloroplast transit peptide (ChloroP 0.83). SGB1 has a higher probability for mitochondrial...”

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How It Works

PaperBLAST builds a database of protein sequences that are linked to scientific articles. These links come from automated text searches against the articles in EuropePMC and from manually-curated information from GeneRIF, UniProtKB/Swiss-Prot, BRENDA, CAZy (as made available by dbCAN), BioLiP, CharProtDB, MetaCyc, EcoCyc, TCDB, REBASE, the Fitness Browser, and a subset of the European Nucleotide Archive with the /experiment tag. Given this database and a protein sequence query, PaperBLAST uses protein-protein BLAST to find similar sequences with E < 0.001.

To build the database, we query EuropePMC with locus tags, with RefSeq protein identifiers, and with UniProt accessions. We obtain the locus tags from RefSeq or from MicrobesOnline. We use queries of the form "locus_tag AND genus_name" to try to ensure that the paper is actually discussing that gene. Because EuropePMC indexes most recent biomedical papers, even if they are not open access, some of the links may be to papers that you cannot read or that our computers cannot read. We query each of these identifiers that appears in the open access part of EuropePMC, as well as every locus tag that appears in the 500 most-referenced genomes, so that a gene may appear in the PaperBLAST results even though none of the papers that mention it are open access. We also incorporate text-mined links from EuropePMC that link open access articles to UniProt or RefSeq identifiers. (This yields some additional links because EuropePMC uses different heuristics for their text mining than we do.)

For every article that mentions a locus tag, a RefSeq protein identifier, or a UniProt accession, we try to select one or two snippets of text that refer to the protein. If we cannot get access to the full text, we try to select a snippet from the abstract, but unfortunately, unique identifiers such as locus tags are rarely provided in abstracts.

PaperBLAST also incorporates manually-curated protein functions:

• Proteins from NCBI's RefSeq are included if a GeneRIF entry links the gene to an article in PubMed^®. GeneRIF also provides a short summary of the article's claim about the protein, which is shown instead of a snippet.
• Proteins from Swiss-Prot (the curated part of UniProt) are included if the curators identified experimental evidence for the protein's function (evidence code ECO:0000269). For these proteins, the fields of the Swiss-Prot entry that describe the protein's function are shown (with bold headings).
• Proteins from BRENDA, a curated database of enzymes, are included if they are linked to a paper in PubMed and their full sequence is known.
• Every protein from the non-redundant subset of BioLiP, a database of ligand-binding sites and catalytic residues in protein structures, is included. Since BioLiP itself does not include descriptions of the proteins, those are taken from the Protein Data Bank. Descriptions from PDB rely on the original submitter of the structure and cannot be updated by others, so they may be less reliable. (For SitesBLAST and Sites on a Tree, we use a larger subset of BioLiP so that every ligand is represented among a group of structures with similar sequences, but for PaperBLAST, we use the non-redundant set provided by BioLiP.)
• Every protein from EcoCyc, a curated database of the proteins in Escherichia coli K-12, is included, regardless of whether they are characterized or not.
• Proteins from the MetaCyc metabolic pathway database are included if they are linked to a paper in PubMed and their full sequence is known.
• Proteins from the Transport Classification Database (TCDB) are included if they have known substrate(s), have reference(s), and are not described as uncharacterized or putative. (Some of the references are not visible on the PaperBLAST web site.)
• Every protein from CharProtDB, a database of experimentally characterized protein annotations, is included.
• Proteins from the CAZy database of carbohydrate-active enzymes are included if they are associated with an Enzyme Classification number. Even though CAZy does not provide links from individual protein sequences to papers, these should all be experimentally-characterized proteins.
• Proteins from the REBASE database of restriction enzymes are included if they have known specificity.
• Every protein with an evidence-based reannotation (based on mutant phenotypes) in the Fitness Browser is included.
• Sequence-specific transcription factors (including sigma factors and DNA-binding response regulators) with experimentally-determined DNA binding sites from the PRODORIC database of gene regulation in prokaryotes.
• Putative transcription factors from RegPrecise that have manually-curated predictions for their binding sites. These predictions are based on conserved putative regulatory sites across genomes that contain similar transcription factors, so PaperBLAST clusters the TFs at 70% identity and retains just one member of each cluster.
• Coding sequence (CDS) features from the European Nucleotide Archive (ENA) are included if the /experiment tag is set (implying that there is experimental evidence for the annotation), the nucleotide entry links to paper(s) in PubMed, and the nucleotide entry is from the STD data class (implying that these are targeted annotated sequences, not from shotgun sequencing). Also, to filter out genes whose transcription or translation was detected, but whose function was not studied, nucleotide entries or papers with more than 25 such proteins are excluded. Descriptions from ENA rely on the original submitter of the sequence and cannot be updated by others, so they may be less reliable.

Except for GeneRIF and ENA, the curated entries include a short curated description of the protein's function. For entries from BioLiP, the protein's function may not be known beyond binding to the ligand. Many of these entries also link to articles in PubMed.

For more information see the PaperBLAST paper (mSystems 2017) or the code. You can download PaperBLAST's database here.

Changes to PaperBLAST since the paper was written:

• November 2023: incorporated PRODORIC and RegPrecise. Many PRODORIC entries were not linked to a protein sequence (no UniProt identifier), so we added this information.
• February 2023: BioLiP changed their download format. PaperBLAST now includes their non-redundant subset. SitesBLAST and Sites on a Tree use a larger non-redundant subset that ensures that every ligand is represented within each cluster. This should ensure that every binding site is represented.
• June 2022: incorporated some coding sequences from ENA with the /experiment tag.
• March 2022: incorporated BioLiP.
• April 2020: incorporated TCDB.
• April 2019: EuropePMC now returns table entries in their search results. This has expanded PaperBLAST's database, but most of the new entries are of low relevance, and the resulting snippets are often just lists of locus tags with annotations.
• February 2018: the alignment page reports the conservation of the hit's functional sites (if available from from Swiss-Prot or UniProt)
• January 2018: incorporated BRENDA.
• December 2017: incorporated MetaCyc, CharProtDB, CAZy, REBASE, and the reannotations from the Fitness Browser.
• September 2017: EuropePMC no longer returns some table entries in their search results. This has shrunk PaperBLAST's database, but has also reduced the number of low-relevance hits.

Many of these changes are described in Interactive tools for functional annotation of bacterial genomes.

Secrets

PaperBLAST cannot provide snippets for many of the papers that are published in non-open-access journals. This limitation applies even if the paper is marked as "free" on the publisher's web site and is available in PubmedCentral or EuropePMC. If a journal that you publish in is marked as "secret," please consider publishing elsewhere.

Omissions from the PaperBLAST Database

Many important articles are missing from PaperBLAST, either because the article's full text is not in EuropePMC (as for many older articles), or because the paper does not mention a protein identifier such as a locus tag, or because of PaperBLAST's heuristics. If you notice an article that characterizes a protein's function but is missing from PaperBLAST, please notify the curators at UniProt or add an entry to GeneRIF. Entries in either of these databases will eventually be incorporated into PaperBLAST. Note that to add an entry to UniProt, you will need to find the UniProt identifier for the protein. If the protein is not already in UniProt, you can ask them to create an entry. To add an entry to GeneRIF, you will need an NCBI Gene identifier, but unfortunately many prokaryotic proteins in RefSeq do not have corresponding Gene identifers.

References

PaperBLAST: Text-mining papers for information about homologs.
M. N. Price and A. P. Arkin (2017). mSystems, 10.1128/mSystems.00039-17.

Europe PMC in 2017.
M. Levchenko et al (2017). Nucleic Acids Research, 10.1093/nar/gkx1005.

Gene indexing: characterization and analysis of NLM's GeneRIFs.
J. A. Mitchell et al (2003). AMIA Annu Symp Proc 2003:460-464.

UniProt: the universal protein knowledgebase.
The UniProt Consortium (2016). Nucleic Acids Research, 10.1093/nar/gkw1099.

BRENDA in 2017: new perspectives and new tools in BRENDA.
S. Placzek et al (2017). Nucleic Acids Research, 10.1093/nar/gkw952.

The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
I. M. Keeseler et al (2016). Nucleic Acids Research, 10.1093/nar/gkw1003.

The MetaCyc database of metabolic pathways and enzymes.
R. Caspi et al (2018). Nucleic Acids Research, 10.1093/nar/gkx935.

CharProtDB: a database of experimentally characterized protein annotations.
R. Madupu et al (2012). Nucleic Acids Research, 10.1093/nar/gkr1133.

The carbohydrate-active enzymes database (CAZy) in 2013.
V. Lombard et al (2014). Nucleic Acids Research, 10.1093/nar/gkt1178.

The Transporter Classification Database (TCDB): recent advances
M. H. Saier, Jr. et al (2016). Nucleic Acids Research, 10.1093/nar/gkv1103.

REBASE - a database for DNA restriction and modification: enzymes, genes and genomes.
R. J. Roberts et al (2015). Nucleic Acids Research, 10.1093/nar/gku1046.

Deep annotation of protein function across diverse bacteria from mutant phenotypes.
M. N. Price et al (2016). bioRxiv, 10.1101/072470.