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Bphy_1406 Bphy_1406 Bphy_0341 Bphy_0341 aspS aspS Bphy_0494 Bphy_0494 Bphy_0567 Bphy_0567 Bphy_0631 Bphy_0631 Bphy_0676 Bphy_0676 Bphy_0746 Bphy_0746 rsgA rsgA rne rne recO recO efp efp priB priB rho rho rlmD rlmD rimO rimO Bphy_0981 Bphy_0981 ligA ligA nusA nusA pnp pnp Bphy_2071 Bphy_2071 Bphy_2079 Bphy_2079 metG metG Bphy_2353 Bphy_2353 recG recG ruvA ruvA Bphy_2623 Bphy_2623 ugpC ugpC Bphy_2727 Bphy_2727 infA infA rpsQ rpsQ rplB rplB rpsL rpsL infA-2 infA-2 Bphy_4055 Bphy_4055 Bphy_4444 Bphy_4444 Bphy_4680 Bphy_4680 Bphy_4772 Bphy_4772 Bphy_4995 Bphy_4995 Bphy_5124 Bphy_5124 Bphy_5169 Bphy_5169 Bphy_5269 Bphy_5269 Bphy_5367 Bphy_5367 Bphy_5368 Bphy_5368 Bphy_5438 Bphy_5438 lysS lysS pheT pheT rnr rnr
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
Edges:
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
Others
textmining
co-expression
protein homology
Your Input:
Bphy_1406PFAM: RNA binding S1 domain protein; SMART: Resolvase RNase H domain protein fold; KEGG: bxe:Bxe_A1609 S1 RNA binding domain protein. (780 aa)
Bphy_0341Single-strand binding protein; Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism. (172 aa)
aspSaspartyl-tRNA synthetase; Aspartyl-tRNA synthetase with relaxed tRNA specificity since it is able to aspartylate not only its cognate tRNA(Asp) but also tRNA(Asn). Reaction proceeds in two steps: L-aspartate is first activated by ATP to form Asp-AMP and then transferred to the acceptor end of tRNA(Asp/Asn); Belongs to the class-II aminoacyl-tRNA synthetase family. Type 1 subfamily. (599 aa)
Bphy_0494PFAM: ABC transporter related; TOBE domain protein; Transport-associated OB domain protein; SMART: AAA ATPase; KEGG: bxe:Bxe_A0724 ABC sugar transporter, ATPase subunit. (369 aa)
Bphy_0567KEGG: bxe:Bxe_A0798 cold-shock DNA-binding domain protein; TIGRFAM: cold shock domain protein CspD; PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein. (68 aa)
Bphy_0631PFAM: ABC transporter related; TOBE domain protein; Transport-associated OB domain protein; SMART: AAA ATPase; KEGG: bxe:Bxe_A3448 ABC sugar transporter, ATPase subunit. (371 aa)
Bphy_0676PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: bxe:Bxe_A0913 putative cold-shock DNA-binding domain protein. (67 aa)
Bphy_0746Ribosomal protein S1; Binds mRNA; thus facilitating recognition of the initiation point. It is needed to translate mRNA with a short Shine-Dalgarno (SD) purine-rich sequence. (589 aa)
rsgARibosome small subunit-dependent GTPase A; One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Helps release RbfA from mature subunits. May play a role in the assembly of ribosomal proteins into the subunit. Circularly permuted GTPase that catalyzes slow GTP hydrolysis, GTPase activity is stimulated by the 30S ribosomal subunit; Belongs to the TRAFAC class YlqF/YawG GTPase family. RsgA subfamily. (317 aa)
rneRibonuclease, Rne/Rng family; Endoribonuclease that plays a central role in RNA processing and decay. Required for the maturation of 5S and 16S rRNAs and the majority of tRNAs. Also involved in the degradation of most mRNAs. Belongs to the RNase E/G family. RNase E subfamily. (1092 aa)
recODNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (336 aa)
efpTranslation elongation factor P; Involved in peptide bond synthesis. Stimulates efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase. (185 aa)
priBPutative primosomal replication protein N, PriB; Binds single-stranded DNA at the primosome assembly site (PAS); Belongs to the PriB family. (99 aa)
rhoTranscription termination factor Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template. (420 aa)
rlmDRNA methyltransferase, TrmA family; Catalyzes the formation of 5-methyl-uridine at position 1939 (m5U1939) in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmD subfamily. (473 aa)
rimOMiaB-like tRNA modifying enzyme YliG; Catalyzes the methylthiolation of an aspartic acid residue of ribosomal protein S12; Belongs to the methylthiotransferase family. RimO subfamily. (463 aa)
Bphy_0981TIGRFAM: DNA ligase D; DNA ligase D, 3'-phosphoesterase domain protein; DNA polymerase LigD, polymerase domain protein; DNA polymerase LigD, ligase domain protein; PFAM: DNA primase small subunit; ATP dependent DNA ligase domain protein; ATP dependent DNA ligase; KEGG: bxe:Bxe_A2328 putative ATP-dependent DNA ligase. (954 aa)
ligADNA ligase, NAD-dependent; DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double- stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA. (683 aa)
nusANusA antitermination factor; Participates in both transcription termination and antitermination. (491 aa)
pnpPolyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (712 aa)
Bphy_2071TIGRFAM: ribonuclease, Rne/Rng family; PFAM: RNA binding S1 domain protein; KEGG: bxe:Bxe_A3267 ribonuclease E and G. (489 aa)
Bphy_2079KEGG: bxe:Bxe_A3292 DNA polymerase III alpha subunit; TIGRFAM: DNA polymerase III, alpha subunit; PFAM: PHP domain protein; nucleic acid binding OB-fold tRNA/helicase-type; DNA polymerase III alpha subunit; SMART: phosphoesterase PHP domain protein. (1187 aa)
metGmethionyl-tRNA synthetase; Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation. (726 aa)
Bphy_2353PFAM: ABC transporter related; TOBE domain protein; Transport-associated OB domain protein; SMART: AAA ATPase; KEGG: bam:Bamb_4930 ABC transporter related. (383 aa)
recGATP-dependent DNA helicase RecG; Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y- DNA); Belongs to the helicase family. RecG subfamily. (740 aa)
ruvAHolliday junction DNA helicase RuvA; The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. RuvA stimulates, in the presence of DNA, the weak ATPase activity of RuvB. (193 aa)
Bphy_2623PFAM: ribonuclease II; KEGG: bxe:Bxe_A0538 putative ribonuclease II. (701 aa)
ugpCABC transporter related; Part of the ABC transporter complex UgpABCE involved in sn- glycerol-3-phosphate import. Responsible for energy coupling to the transport system; Belongs to the ABC transporter superfamily. sn-glycerol-3- phosphate importer (TC 3.A.1.1.3) family. (363 aa)
Bphy_2727PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: bxe:Bxe_A0430 cold-shock DNA-binding domain protein. (67 aa)
infATranslation initiation factor IF-1; One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre-initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initiation complex. (72 aa)
rpsQRibosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (90 aa)
rplBRibosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family. (275 aa)
rpsLRibosomal protein S12; With S4 and S5 plays an important role in translational accuracy. (126 aa)
infA-2Translation initiation factor IF-1; One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre-initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initiation complex. (87 aa)
Bphy_4055PFAM: ABC transporter related; TOBE domain protein; Transport-associated OB domain protein; SMART: AAA ATPase; KEGG: bxe:Bxe_B0422 ABC sugar transporter, ATPase subunit. (354 aa)
Bphy_4444PFAM: ABC transporter related; TOBE domain protein; Transport-associated OB domain protein; SMART: AAA ATPase; KEGG: bur:Bcep18194_A4846 ABC transporter, ATPase subunit. (359 aa)
Bphy_4680PFAM: ATP dependent DNA ligase domain protein; ATP dependent DNA ligase; KEGG: bxe:Bxe_B1315 DNA ligase (ATP). (561 aa)
Bphy_4772TIGRFAM: DNA ligase D; DNA polymerase LigD, polymerase domain protein; DNA polymerase LigD, ligase domain protein; PFAM: DNA primase small subunit; ATP dependent DNA ligase; KEGG: bvi:Bcep1808_6891 ATP dependent DNA ligase. (651 aa)
Bphy_4995PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: bxe:Bxe_B2780 cold-shock DNA-binding domain protein. (67 aa)
Bphy_5124PFAM: protein of unknown function DUF107; KEGG: bxe:Bxe_B1082 hypothetical protein. (508 aa)
Bphy_5169PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: bxe:Bxe_A2061 putative cold shock transcriptional regulator, CspD. (67 aa)
Bphy_5269PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: bxe:Bxe_B2951 cold-shock DNA-binding domain protein. (67 aa)
Bphy_5367PFAM: ABC transporter related; Transport-associated OB domain protein; SMART: AAA ATPase; KEGG: rso:RSc3046 putative sugar-phosphate ATP-binding ABC transporter protein; Belongs to the ABC transporter superfamily. (370 aa)
Bphy_5368PFAM: ABC transporter related; Transport-associated OB domain protein; SMART: AAA ATPase; KEGG: rso:RSc3047 probable ATP-binding ABC transporter protein; Belongs to the ABC transporter superfamily. (370 aa)
Bphy_5438PFAM: ABC transporter related; Transport-associated OB domain protein; SMART: AAA ATPase; KEGG: bxe:Bxe_B2080 ABC sugar transporter, ATPase subunit; Belongs to the ABC transporter superfamily. (365 aa)
lysSTIGRFAM: lysyl-tRNA synthetase; PFAM: tRNA synthetase class II (D K and N); nucleic acid binding OB-fold tRNA/helicase-type; KEGG: bxe:Bxe_A1561 lysyl-tRNA synthetase, class-2; Belongs to the class-II aminoacyl-tRNA synthetase family. (512 aa)
pheTKEGG: bxe:Bxe_A1376 phenylalanyl-tRNA synthetase, beta subunit; TIGRFAM: phenylalanyl-tRNA synthetase, beta subunit. (810 aa)
rnrRibonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs. (817 aa)
Your Current Organism:
Paraburkholderia phymatum
NCBI taxonomy Id: 391038
Other names: Burkholderia phymatum STM815, Burkholderia sp. STM815, P. phymatum STM815, Paraburkholderia phymatum STM815
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