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polA polA Shew_2040 Shew_2040 Shew_1871 Shew_1871 kdsB kdsB Shew_1795 Shew_1795 Shew_1681 Shew_1681 Shew_1580 Shew_1580 Shew_1469 Shew_1469 Shew_1434 Shew_1434 cysN cysN cysD cysD Shew_1418 Shew_1418 Shew_1402 Shew_1402 fliA fliA Shew_1328 Shew_1328 Shew_1282 Shew_1282 Shew_1274 Shew_1274 ispD ispD glgC glgC Shew_1098 Shew_1098 cca cca dnaG dnaG Shew_0981 Shew_0981 Shew_0924 Shew_0924 Shew_0884 Shew_0884 Shew_0794 Shew_0794 Shew_0747 Shew_0747 Shew_0746 Shew_0746 Shew_0716 Shew_0716 hldE hldE glnE glnE Shew_0452 Shew_0452 selO selO rpoA rpoA rpoC rpoC rpoB rpoB Shew_0088 Shew_0088 Shew_0054 Shew_0054 Shew_0051 Shew_0051 Shew_0002 Shew_0002 dnaE2 dnaE2 Shew_2101 Shew_2101 dnaQ dnaQ Shew_2235 Shew_2235 Shew_2267 Shew_2267 Shew_2288 Shew_2288 Shew_2369 Shew_2369 Shew_2472 Shew_2472 Shew_2482 Shew_2482 Shew_2545 Shew_2545 Shew_2618 Shew_2618 Shew_2620 Shew_2620 Shew_2630 Shew_2630 glnD glnD Shew_2753 Shew_2753 Shew_2754 Shew_2754 thiI thiI pnp pnp dinB dinB Shew_2931 Shew_2931 nadD nadD Shew_2944 Shew_2944 Shew_2953 Shew_2953 Shew_2977 Shew_2977 Shew_3000 Shew_3000 Shew_3023 Shew_3023 Shew_3034 Shew_3034 pcnB pcnB Shew_3311 Shew_3311 Shew_3330 Shew_3330 Shew_3341 Shew_3341 Shew_3473 Shew_3473 rph rph Shew_3489 Shew_3489 Shew_3495 Shew_3495 rpoZ rpoZ mobA mobA coaD coaD tsaC tsaC Shew_3787 Shew_3787 glmU glmU
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
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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
Your Input:
polADNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family. (930 aa)
Shew_2040TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: shm:Shewmr7_1872 diguanylate cyclase. (347 aa)
Shew_1871KEGG: vfi:VFA0016 DNA polymerase III epsilon subunit (3'-5' exonuclease); TIGRFAM: DNA polymerase III, epsilon subunit; PFAM: Exonuclease, RNase T and DNA polymerase III; SMART: Exonuclease. (204 aa)
kdsB3-deoxy-D-manno-octulosonate cytidylyltransferase; Activates KDO8N (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in the Shewanella genus. Belongs to the KdsB family. (245 aa)
Shew_1795TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: she:Shewmr4_2198 diguanylate cyclase. (339 aa)
Shew_1681KEGG: tcx:Tcr_0379 diguanylate cyclase (GGDEF domain) with PAS/PAC sensor; TIGRFAM: PAS sensor protein; diguanylate cyclase; PFAM: GGDEF domain containing protein; PAS fold domain protein; SMART: PAS domain containing protein. (496 aa)
Shew_1580TIGRFAM: DNA polymerase III, delta prime subunit; KEGG: son:SO2612 DNA polymerase III, delta prime subunit. (304 aa)
Shew_1469KEGG: gsu:GSU0552 hypothetical protein. (543 aa)
Shew_1434UDP-glucose pyrophosphorylase; KEGG: son:SO1665 UTP--glucose-1-phosphate uridylyltransferase; TIGRFAM: UTP-glucose-1-phosphate uridylyltransferase; PFAM: Nucleotidyl transferase. (306 aa)
cysNSulfate adenylyltransferase subunit 1; May be the GTPase, regulating ATP sulfurylase activity. Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. CysN/NodQ subfamily. (485 aa)
cysDTIGRFAM: sulfate adenylyltransferase, small subunit; PFAM: phosphoadenosine phosphosulfate reductase; KEGG: sde:Sde_2145 sulfate adenylyltransferase, subunit 2. (301 aa)
Shew_1418UDP-glucose pyrophosphorylase; TIGRFAM: UTP-glucose-1-phosphate uridylyltransferase; PFAM: Nucleotidyl transferase; KEGG: sfr:Sfri_2823 UTP-glucose-1-phosphate uridylyltransferase. (306 aa)
Shew_1402Glucose-1-phosphate thymidylyltransferase; Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis. Belongs to the glucose-1-phosphate thymidylyltransferase family. (291 aa)
fliARNA polymerase, sigma 28 subunit, FliA/WhiG family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor controls the expression of flagella-related genes; Belongs to the sigma-70 factor family. FliA subfamily. (239 aa)
Shew_1328PFAM: acylneuraminate cytidylyltransferase; KEGG: sdn:Sden_3112 acylneuraminate cytidylyltransferase. (245 aa)
Shew_1282KEGG: shm:Shewmr7_1287 hypothetical protein. (74 aa)
Shew_1274Diguanylate cyclase; KEGG: son:SO1480 GGDEF family protein; TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; SMART: Tetratricopeptide domain protein. (593 aa)
ispD2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase; Catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D- erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate (MEP). (242 aa)
glgCGlucose-1-phosphate adenylyltransferase; Involved in the biosynthesis of ADP-glucose, a building block required for the elongation reactions to produce glycogen. Catalyzes the reaction between ATP and alpha-D-glucose 1-phosphate (G1P) to produce pyrophosphate and ADP-Glc; Belongs to the bacterial/plant glucose-1-phosphate adenylyltransferase family. (424 aa)
Shew_1098TIGRFAM: riboflavin biosynthesis protein RibF; PFAM: Riboflavin kinase / FAD synthetase; KEGG: she:Shewmr4_2958 riboflavin biosynthesis protein RibF; Belongs to the ribF family. (311 aa)
ccaMetal dependent phosphohydrolase; Catalyzes the addition and repair of the essential 3'- terminal CCA sequence in tRNAs without using a nucleic acid template. Adds these three nucleotides in the order of C, C, and A to the tRNA nucleotide-73, using CTP and ATP as substrates and producing inorganic pyrophosphate. Also shows phosphatase, 2'-nucleotidase and 2',3'-cyclic phosphodiesterase activities. These phosphohydrolase activities are probably involved in the repair of the tRNA 3'-CCA terminus degraded by intracellular RNases. (413 aa)
dnaGDNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (601 aa)
Shew_0981PFAM: response regulator receiver; KEGG: sdn:Sden_1684 GGDEF domain. (155 aa)
Shew_0924PFAM: DNA polymerase III chi subunit, HolC; KEGG: shm:Shewmr7_1202 DNA polymerase III chi subunit, HolC. (153 aa)
Shew_0884PFAM: Nucleotidyl transferase; KEGG: shm:Shewmr7_3110 nucleotidyl transferase. (249 aa)
Shew_0794TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: spt:SPA1005 hypothetical protein. (394 aa)
Shew_0747KEGG: shm:Shewmr7_3256 GGDEF domain protein. (318 aa)
Shew_0746Diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: shm:Shewmr7_3256 GGDEF domain protein. (314 aa)
Shew_0716Adenosylcobinamide kinase; Catalyzes ATP-dependent phosphorylation of adenosylcobinamide and addition of GMP to adenosylcobinamide phosphate. (182 aa)
hldED-beta-D-heptose 1-phosphate adenylyltransferase; Catalyzes the phosphorylation of D-glycero-D-manno-heptose 7- phosphate at the C-1 position to selectively form D-glycero-beta-D- manno-heptose-1,7-bisphosphate; In the C-terminal section; belongs to the cytidylyltransferase family. (476 aa)
glnE(Glutamate--ammonia-ligase) adenylyltransferase; Involved in the regulation of glutamine synthetase GlnA, a key enzyme in the process to assimilate ammonia. When cellular nitrogen levels are high, the C-terminal adenylyl transferase (AT) inactivates GlnA by covalent transfer of an adenylyl group from ATP to specific tyrosine residue of GlnA, thus reducing its activity. Conversely, when nitrogen levels are low, the N-terminal adenylyl removase (AR) activates GlnA by removing the adenylyl group by phosphorolysis, increasing its activity. The regulatory region of GlnE binds the signal tra [...] (956 aa)
Shew_0452TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: sfr:Sfri_3512 diguanylate cyclase. (323 aa)
selOProtein of unknown function UPF0061; Catalyzes the transfer of adenosine 5'-monophosphate (AMP) to Ser, Thr or Tyr residues of target proteins (AMPylation). (484 aa)
rpoADNA-directed RNA polymerase, alpha subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (329 aa)
rpoCDNA-directed RNA polymerase, beta' subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1404 aa)
rpoBDNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1343 aa)
Shew_0088Molybdenum cofactor biosynthesis protein B; May be involved in the biosynthesis of molybdopterin. Belongs to the MoaB/Mog family. (176 aa)
Shew_0054KEGG: sfr:Sfri_0052 hypothetical protein. (156 aa)
Shew_0051PFAM: cyclic nucleotide-binding; CBS domain containing protein; protein of unknown function DUF294, nucleotidyltransferase putative; KEGG: vpa:VP1902 CBS domain-containing protein. (629 aa)
Shew_0002DNA polymerase III, beta subunit; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...] (366 aa)
dnaE2DNA polymerase III, alpha subunit; DNA polymerase involved in damage-induced mutagenesis and translesion synthesis (TLS). It is not the major replicative DNA polymerase. (1078 aa)
Shew_2101KEGG: bxe:Bxe_A3165 hypothetical protein. (684 aa)
dnaQDNA polymerase III, epsilon subunit; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'- 5' exonuclease. (242 aa)
Shew_2235KEGG: shm:Shewmr7_2326 DNA polymerase III, subunits gamma and tau; TIGRFAM: DNA polymerase III, subunits gamma and tau; PFAM: AAA ATPase, central domain protein; SMART: AAA ATPase. (1113 aa)
Shew_2267KEGG: sdn:Sden_2225 hypothetical protein. (248 aa)
Shew_2288UDP-glucose-hexose-1-phosphate uridylyltransferase / UTP-hexose-1-phosphate uridylyltransferase; KEGG: pha:PSHAa1770 galactose-1-phosphate uridylyltransferase; TIGRFAM: galactose-1-phosphate uridylyltransferase; PFAM: galactose-1-phosphate uridyl transferase domain protein. (363 aa)
Shew_2369PFAM: cyclic nucleotide-binding; CBS domain containing protein; protein of unknown function DUF294, nucleotidyltransferase putative; KEGG: son:SO2856 CBS domain protein. (615 aa)
Shew_2472TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: shm:Shewmr7_2528 diguanylate cyclase. (169 aa)
Shew_2482PFAM: DNA polymerase B, exonuclease; DNA polymerase B region; SMART: DNA-directed DNA polymerase B; KEGG: she:Shewmr4_2469 DNA polymerase B region. (795 aa)
Shew_2545TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: she:Shewmr4_3320 diguanylate cyclase. (301 aa)
Shew_2618TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: shm:Shewmr7_2691 diguanylate cyclase. (295 aa)
Shew_2620KEGG: shm:Shewmr7_2693 DNA polymerase III, alpha subunit; TIGRFAM: DNA polymerase III, alpha subunit; PFAM: PHP C-terminal domain protein; nucleic acid binding, OB-fold, tRNA/helicase-type; SMART: phosphoesterase PHP domain protein. (1157 aa)
Shew_2630PFAM: phosphatidate cytidylyltransferase; KEGG: shm:Shewmr7_2703 phosphatidate cytidylyltransferase; Belongs to the CDS family. (261 aa)
glnDUTP-GlnB uridylyltransferase, GlnD; Modifies, by uridylylation and deuridylylation, the PII regulatory proteins (GlnB and homologs), in response to the nitrogen status of the cell that GlnD senses through the glutamine level. Under low glutamine levels, catalyzes the conversion of the PII proteins and UTP to PII-UMP and PPi, while under higher glutamine levels, GlnD hydrolyzes PII-UMP to PII and UMP (deuridylylation). Thus, controls uridylylation state and activity of the PII proteins, and plays an important role in the regulation of nitrogen assimilation and metabolism. (857 aa)
Shew_2753PFAM: TPR repeat-containing protein; Tetratricopeptide TPR_2 repeat protein; SMART: Tetratricopeptide domain protein; KEGG: she:Shewmr4_2713 TPR repeat-containing protein. (718 aa)
Shew_2754TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: shm:Shewmr7_2782 diguanylate cyclase. (518 aa)
thiIThiamine biosynthesis/tRNA modification protein ThiI; Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS. (485 aa)
pnpPolyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (700 aa)
dinBDNA-directed DNA polymerase; Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII. (359 aa)
Shew_2931KEGG: son:SO1172 DNA polymerase III delta subunit; TIGRFAM: DNA polymerase III, delta subunit; PFAM: DNA polymerase III, delta. (343 aa)
nadDNicotinate-nucleotide adenylyltransferase; Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD). (213 aa)
Shew_2944Hypothetical protein. (107 aa)
Shew_2953TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; histidine kinase, HAMP region domain protein; CHASE4 domain protein; KEGG: sfr:Sfri_3981 diguanylate cyclase. (526 aa)
Shew_2977Diguanylate cyclase; KEGG: son:SO3859 cyclic nucleotide phosphodiesterase, putative; TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; SMART: Tetratricopeptide domain protein. (650 aa)
Shew_3000TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: cps:CPS_0546 GGDEF domain protein. (585 aa)
Shew_3023TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: sfr:Sfri_0758 diguanylate cyclase. (362 aa)
Shew_3034TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: tcx:Tcr_0397 diguanylate cyclase (GGDEF domain). (522 aa)
pcnBpoly(A) polymerase; Adds poly(A) tail to the 3' end of many RNAs, which usually targets these RNAs for decay. Plays a significant role in the global control of gene expression, through influencing the rate of transcript degradation, and in the general RNA quality control. Belongs to the tRNA nucleotidyltransferase/poly(A) polymerase family. (480 aa)
Shew_3311RNA polymerase, sigma 54 subunit, RpoN; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (495 aa)
Shew_3330TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; KEGG: son:SO4425 GGDEF family protein. (401 aa)
Shew_3341Diguanylate cyclase with GAF sensor; TIGRFAM: diguanylate cyclase; PFAM: GGDEF domain containing protein; GAF domain protein; KEGG: vfi:VF2362 GGDEF family protein. (326 aa)
Shew_3473Response regulator receiver protein; KEGG: shm:Shewmr7_0367 tetratricopeptide domain protein. (582 aa)
rphRNAse PH; Phosphorolytic 3'-5' exoribonuclease that plays an important role in tRNA 3'-end maturation. Removes nucleotide residues following the 3'-CCA terminus of tRNAs; can also add nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates, but this may not be physiologically important. Probably plays a role in initiation of 16S rRNA degradation (leading to ribosome degradation) during starvation. (237 aa)
Shew_3489PFAM: YicC N-terminal domain protein; domain of unknown function DUF1732; KEGG: she:Shewmr4_3605 hypothetical protein. (287 aa)
Shew_3495KEGG: son:SO0363 hypothetical protein. (314 aa)
rpoZDNA-directed RNA polymerase, omega subunit; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits. (93 aa)
mobAMolybdenum cofactor guanylyltransferase; Transfers a GMP moiety from GTP to Mo-molybdopterin (Mo-MPT) cofactor (Moco or molybdenum cofactor) to form Mo-molybdopterin guanine dinucleotide (Mo-MGD) cofactor; Belongs to the MobA family. (196 aa)
coaDPantetheine-phosphate adenylyltransferase; Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate. Belongs to the bacterial CoaD family. (158 aa)
tsaCTranslation factor SUA5; Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Catalyzes the conversion of L-threonine, HCO(3)(-)/CO(2) and ATP to give threonylcarbamoyl-AMP (TC-AMP) as the acyladenylate intermediate, with the release of diphosphate. (185 aa)
Shew_3787TIGRFAM: molybdenum cofactor synthesis domain; PFAM: molybdopterin binding domain; KEGG: shm:Shewmr7_0066 molybdenum cofactor synthesis domain. (177 aa)
glmUGlucosamine-1-phosphate N-acetyltransferase / UDP-N-acetylglucosamine pyrophosphorylase; Catalyzes the last two sequential reactions in the de novo biosynthetic pathway for UDP-N-acetylglucosamine (UDP-GlcNAc). The C- terminal domain catalyzes the transfer of acetyl group from acetyl coenzyme A to glucosamine-1-phosphate (GlcN-1-P) to produce N- acetylglucosamine-1-phosphate (GlcNAc-1-P), which is converted into UDP-GlcNAc by the transfer of uridine 5-monophosphate (from uridine 5- triphosphate), a reaction catalyzed by the N-terminal domain. In the C-terminal section; belongs to the t [...] (454 aa)
Your Current Organism:
Shewanella loihica
NCBI taxonomy Id: 323850
Other names: S. loihica PV-4, Shewanella loihica PV-4, Shewanella loihica str. PV-4, Shewanella loihica strain PV-4, Shewanella sp. PV-4
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