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kdgM kdgM kdgF kdgF pelI pelI slyB slyB glpA glpA gntR gntR ompR ompR kdgN kdgN cysB cysB araF araF araH araH araC araC hrpL hrpL rpoN rpoN hydN hydN ADN00604.1 ADN00604.1 arnB arnB togT togT nrdD nrdD polB polB rsmB rsmB rimJ rimJ gyrA gyrA hypF hypF mgtA mgtA dctA dctA phoP phoP phoQ phoQ ganA ganA ganL ganL ygaW ygaW maeN maeN dcuB dcuB citW citW sftR sftR atsR atsR sftR-2 sftR-2 atsR-2 atsR-2 araD araD ytfQ ytfQ expI expI glnK glnK focA focA paeX paeX pelA pelA glnB glnB ADM96804.1 ADM96804.1 kdgR kdgR yeiU yeiU arbF arbF ung ung yfiD yfiD ffh ffh uvrY uvrY pgpB pgpB hns hns pnlH pnlH cbl cbl pehN pehN pelZ pelZ pelC pelC pelB pelB
Nodes:
Network nodes represent proteins
splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.
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colored nodes:
query proteins and first shell of interactors
white nodes:
second shell of interactors
Node Content
empty nodes:
proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
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Edges represent protein-protein associations
associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.
Known Interactions
from curated databases
experimentally determined
Predicted Interactions
gene neighborhood
gene fusions
gene co-occurrence
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textmining
co-expression
protein homology
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kdgMOligogalacturonate specific porin; Porin specific for oligogalacturonides. Also required for full virulence; Belongs to the oligogalacturonate-specific porin KdgM (TC 1.B.35) family. (236 aa)
kdgFPectin degradation protein kdgF; May have a role in pathogenicity. (110 aa)
pelIEndo-pectate lyase; PelI is secreted by the Out secretion system; Protein involved in pectate lyase activity, interaction with host via protein secreted by type II secretion system, metabolism by symbiont of substance in host, pathogenesis and pectin catabolic process. (344 aa)
slyBOuter membrane lipoprotein. (155 aa)
glpASn-glycerol-3-phosphate dehydrogenase (anaerobic), large subunit, FAD/NAD(P)-binding protein; Protein involved in (DEPRECATED) electron donor activity, glycerol-3-phosphate dehydrogenase activity, oxidoreductase activity, anaerobic respiration, glycerol metabolic process, glycerol-3-phosphate metabolic process and (OBSOLETE) electron transport; Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family. (547 aa)
gntRDNA-binding transcriptional repressor; GlnR belongs to the lacI family of transcriptional regulators; Protein involved in transcription repressor activity, transcription factor activity, Entner-Doudoroff pathway, transcription and regulation of transcription, DNA-dependent. (332 aa)
ompRDNA-binding response regulator in two-component regulatory system with EnvZ; OmpR is phosphorylated by the sensor-histidine kinase EnvZ in response to variations of the osmolarity of the growth medium; Protein involved in transcription activator activity, transcription repressor activity, two-component response regulator activity, transcription, positive regulation of transcription and negative regulation of transcription. (239 aa)
kdgNOligogalacturonate specific porin; Protein involved in channel activity, voltage-gated ion channel activity, metabolism by symbiont of host cell wall pectin, interaction with host via protein secreted by type II secretion system and pectin metabolic process. (243 aa)
cysBDNA-binding protein transcriptional dual regulator, O-acetyl-L-serine-binding protein; CysB belongs to the LysR family of transcriptional regulators; The inducer for CysB is N-acetylserine; Protein involved in transcription activator activity, transcription repressor activity, transcription factor activity, cysteine biosynthetic process, transcription, response to acid and regulation of transcription, DNA-dependent. (324 aa)
araFPeriplasmic-binding component of an ABC superfamily L-arabinose transporter; Protein involved in (OBSOLETE) ATP-binding cassette (ABC) transporter activity and carbohydrate catabolic process. (327 aa)
araHMembrane component of an ABC superfamily L-arabinose transporter; Protein involved in (OBSOLETE) ATP-binding cassette (ABC) transporter activity, transporter activity, carbohydrate catabolic process and transport; Belongs to the binding-protein-dependent transport system permease family. (328 aa)
araCDNA-binding transcriptional dual regulator; Interacts with L-arabinose which is an inducer; interacts with D-fucose which is an anti-inducer; Protein involved in transcription activator activity, transcription repressor activity, transcription factor activity, sequence-specific DNA binding, DNA binding, carbohydrate catabolic process, transcription, regulation of transcription, DNA-dependent and regulation of transcription. (316 aa)
hrpLRNA polymerase sigma-54 factor rpoN; E. coli containing D. dadantii hrp cluster is capable of secreting an exogenous effector into tobacco, eliciting a hypersensitive response; Protein involved in DNA binding, transcription factor activity, sigma factor activity, transcription activator activity, pellicle formation, transcription initiation, regulation of transcription, DNA-dependent, pathogenesis, positive regulation of transcription and interaction with host via protein secreted by type III secretion system; Belongs to the sigma-70 factor family. ECF subfamily. (184 aa)
rpoNRNA polymerase, sigma 54 (sigma N) factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (477 aa)
hydNFormate dehydrogenase-H, [4Fe-4S] ferredoxin subunit; Protein involved in electron carrier activity, iron-sulfur cluster binding, anaerobic respiration and (OBSOLETE) electron transport. (180 aa)
ADN00604.1Sensor histidine kinase; Protein involved in ATP binding, transferase activity, transferring phosphorus-containing groups, two-component sensor activity, protein histidine kinase activity, protein modification process, phosphorylation, signal transduction and peptidyl-histidine phosphorylation. (439 aa)
arnBUDP-4-amino-4-deoxy-L-arabinose alpha-ketoglutarate aminotransferase; Catalyzes the conversion of UDP-4-keto-arabinose (UDP-Ara4O) to UDP-4-amino-4-deoxy-L-arabinose (UDP-L-Ara4N). The modified arabinose is attached to lipid A and is required for resistance to polymyxin and cationic antimicrobial peptides; Belongs to the DegT/DnrJ/EryC1 family. ArnB subfamily. (412 aa)
togTOligogalacturonide transporter; Protein involved in carbohydrate catabolic process and pathogenesis. (508 aa)
nrdDProtein involved in catalytic activity, ribonucleoside-triphosphate reductase activity, oxidoreductase activity, 2'-deoxyribonucleotide biosynthetic process and metabolic process. (712 aa)
polBDNA polymerase II; Protein involved in nucleotide binding, nucleic acid binding, DNA-directed DNA polymerase activity, DNA binding, response to radiation, DNA-dependent DNA replication, DNA repair, SOS response, nucleobase, nucleoside, nucleotide and nucleic acid metabolic process and DNA replication. (790 aa)
rsmBRibosomal RNA small subunit methyltransferase B; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA. (431 aa)
rimJProtein involved in N-acetyltransferase activity, protein modification process and metabolic process. (194 aa)
gyrADNA gyrase subunit A; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner. (877 aa)
hypF[NiFe] hydrogenase metallocenter assembly protein HypF; Involved in the maturation of [NiFe] hydrogenases. Along with HypE, it catalyzes the synthesis of the CN ligands of the active site iron of [NiFe]-hydrogenases. HypF functions as a carbamoyl transferase using carbamoylphosphate as a substrate and transferring the carboxamido moiety in an ATP-dependent reaction to the thiolate of the C-terminal cysteine of HypE yielding a protein-S-carboxamide. (770 aa)
mgtAMagnesium transporter; Protein involved in ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism, ATP binding, magnesium-importing ATPase activity, hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, catalytic activity, ATP synthesis coupled proton transport, transport, magnesium ion transport, cation transport, metabolic process and proton transport. (901 aa)
dctAC4-dicarboxylic acid, orotate and citrate transporter; Responsible for the transport of dicarboxylates such as succinate, fumarate, and malate from the periplasm across the membrane. Belongs to the dicarboxylate/amino acid:cation symporter (DAACS) (TC 2.A.23) family. (428 aa)
phoPDNA-binding response regulator in two-component regulatory system with PhoQ; PhoP is phosphorylated by the sensor-histidine kinase PhoQ in response to the extracellular Mg2+ concentration; Protein involved in transcription activator activity, two-component response regulator activity and transcription. (222 aa)
phoQSensory histidine kinase in two-compoent regulatory system with PhoP; Protein involved in ATP binding, signal transducer activity, two-component sensor activity, transferase activity, transferring phosphorus-containing groups, protein histidine kinase activity, protein modification process, signal transduction, phosphorylation and peptidyl-histidine phosphorylation. (483 aa)
ganAPeriplasmic 1,4-beta-endogalactanase; Protein involved in (DEPRECATED) molecular function unknown, glucosidase activity, catalytic activity, cation binding, (DEPRECATED) biological process unknown and carbohydrate metabolic process. (399 aa)
ganLGalactan outer membrane porin; Involved in the transport of maltose and maltodextrins. Belongs to the porin LamB (TC 1.B.3) family. (423 aa)
ygaWPredicted inner membrane protein; Exports L-alanine; Belongs to the AlaE exporter family. (153 aa)
maeNMalate Na(+) symporter; Protein involved in organic anion transmembrane transporter activity, gluconeogenesis, anaerobic respiration, fermentation and organic anion transport. (476 aa)
dcuBC4-dicarboxylate transporter DcuB; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family. (446 aa)
citWMalate Na(+) symporter; Protein involved in organic anion transmembrane transporter activity, carbohydrate catabolic process and organic anion transport. (455 aa)
sftRTranscriptional regulator, LysR family; Protein involved in transcription factor activity, transcription and regulation of transcription, DNA-dependent; Belongs to the LysR transcriptional regulatory family. (308 aa)
atsRProtein involved in sulfur metabolic process. (343 aa)
sftR-2Transcriptional regulator, LysR family; Protein involved in transcription factor activity, transcription and regulation of transcription, DNA-dependent; Belongs to the LysR transcriptional regulatory family. (313 aa)
atsR-2Protein involved in (OBSOLETE) ATP-binding cassette (ABC) transporter activity. (345 aa)
araDL-ribulose-5-phosphate 4-epimerase; Protein involved in metal ion binding, zinc ion binding, L-ribulose-phosphate 4-epimerase activity, carbohydrate catabolic process and L-arabinose catabolic process. (231 aa)
ytfQProtein involved in (OBSOLETE) ATP-binding cassette (ABC) transporter activity. (318 aa)
expIHomoserine lactone synthase YpeI; Required for the synthesis of OHHL (N-(3-oxohexanoyl)-L- homoserine lactone), an autoinducer molecule which binds to ExpR and thus acts in virulence (soft rot disease) through the activation of genes for plant tissue macerating enzymes. (212 aa)
glnKNitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB; Protein involved in enzyme regulator activity, nitrogen compound metabolic process and regulation of nitrogen utilization; Belongs to the P(II) protein family. (112 aa)
focAProtein involved in transporter activity, carbohydrate catabolic process and transport. (285 aa)
paeXProtein involved in acetylesterase activity, metabolism by symbiont of host cell wall pectin, interaction with host via protein secreted by type II secretion system, pathogenesis and pectin catabolic process. (322 aa)
pelAPectate lyase, Pla; Involved in maceration and soft-rotting of plant tissue. (392 aa)
glnBRegulatory protein P-II for glutamine synthetase; Protein involved in enzyme regulator activity, glutamine biosynthetic process, transcription and regulation of nitrogen utilization. (112 aa)
ADM96804.1Pectate lyase; Homologous to type III helper protein HopPmaH. However, this protein has cysteines, while HopPmaH lacks cysteines - a characteristic of type III helper proteins. Therefore, this is not likely to be a type III helper; Protein involved in polysaccharide catabolic process, protein secretion by the type II secretion system, interaction with host via protein secreted by type II secretion system and metabolism by symbiont of host cell wall pectin. (315 aa)
kdgRDNA-binding transcriptional regulatory protein KdgR; KdgR interacts with 2-keto-3-deoxygluconate which is an inducer; The consensus KdgR-binding site is ATRAAAYRNYRTTTYAT; KdgR belongs to the IclR family of transcriptional regulator; Protein involved in DNA binding, transcription repressor activity, metabolism by symbiont of host cell wall pectin, regulation of transcription, DNA-dependent, negative regulation of transcription and pathogenesis. (263 aa)
yeiUUndecaprenyl pyrophosphate phosphatase; Involved in the modification of the lipid A domain of lipopolysaccharides (LPS). Transfers a phosphate group from undecaprenyl pyrophosphate (C55-PP) to lipid A to form lipid A 1- diphosphate. Contributes to the recycling of undecaprenyl phosphate (C55-P); Belongs to the LpxT phosphotransferase family. (247 aa)
arbFBeta-glucoside PTS system EIICBA component; Protein involved in sugar:hydrogen symporter activity, transport and phosphoenolpyruvate-dependent sugar phosphotransferase system. (631 aa)
unguracil-DNA-glycosylase; Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine. (228 aa)
yfiDPyruvate formate lyase subunit; Acts as a radical domain for damaged PFL and possibly other radical proteins. (127 aa)
ffhSignal Recognition Particle (SRP) component with 4.5S RNA (ffs); Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex [...] (453 aa)
uvrYTwo-component system, NarL family, invasion response regulator UvrY; This protein belongs to the LuxR family of transcriptional regulators; This protein is phosphorylated by the sensor-histidine kinase BarA; The BarA sensor could monitor some metabolic product that is representative of the prevalent energy status in the medium; Protein involved in transcription activator activity, two-component response regulator activity, transcription factor activity, sequence-specific DNA binding, transcription, regulation of transcription, DNA-dependent, biofilm formation and pathogenesis. (218 aa)
pgpBProtein involved in phospholipid biosynthetic process. (256 aa)
hnsGlobal DNA-binding transcriptional dual regulator H-NS; Protein involved in DNA binding, transcription and regulation of transcription, DNA-dependent; Belongs to the histone-like protein H-NS family. (135 aa)
pnlHPectate lyase; Protein involved in carbohydrate catabolic process, polysaccharide catabolic process, protein secretion by the type II secretion system, interaction with host via protein secreted by type II secretion system and metabolism by symbiont of substance in host. (310 aa)
cblTranscriptional regulator of cysteine biosynthesis (LysR family); Cbl belongs to the LysR family of transcriptional regulators; Cbl belongs to the Cys regulon; Adenosine 5'-phosphosulphate is probably a negative cofactor of Cbl, a sulfur starvation regulator; Protein involved in transcription factor activity, regulation of transcription, DNA-dependent, cysteine biosynthetic process, sulfur metabolic process and transcription. (317 aa)
pehNExo-poly-alpha-D-galacturonosidase; Protein involved in polygalacturonase activity, carbohydrate catabolic process, polysaccharide catabolic process, metabolism by symbiont of host cell wall pectin and carbohydrate metabolic process; Belongs to the glycosyl hydrolase 28 family. (467 aa)
pelZPectate lyase; PelZ is secreted by the Out secretion system; Protein involved in pectate lyase activity, interaction with host via protein secreted by type II secretion system, metabolism by symbiont of substance in host, pectin catabolic process and pathogenesis. (425 aa)
pelCPectate lyase C; PelC is secretd by the Out secretion system; Protein involved in polysaccharide catabolic process, carbohydrate catabolic process and pathogenesis. (374 aa)
pelBPectate lyase B; PelB is secreted by the Out secretion system; Protein involved in pectate lyase activity, polysaccharide catabolic process, interaction with host via protein secreted by type II secretion system, metabolism by symbiont of substance in host and pathogenesis. (375 aa)
Your Current Organism:
Dickeya dadantii
NCBI taxonomy Id: 198628
Other names: D. dadantii 3937, Dickeya dadantii 3937, Dickeya dadantii str. 3937, Dickeya dadantii strain 3937, Erwinia chrysanthemi str. 3937, Pectobacterium chrysanthemi str. 3937
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