STRINGSTRING
GM21_0109 GM21_0109 GM21_0142 GM21_0142 GM21_0191 GM21_0191 rimO rimO GM21_0658 GM21_0658 rne rne ruvA ruvA GM21_0995 GM21_0995 GM21_1077 GM21_1077 GM21_1169 GM21_1169 GM21_1223 GM21_1223 aspS aspS GM21_1332 GM21_1332 recO recO GM21_1502 GM21_1502 rnr rnr GM21_2005 GM21_2005 GM21_2080 GM21_2080 GM21_2158 GM21_2158 infA infA efp-2 efp-2 pheT pheT recG recG GM21_2891 GM21_2891 ligA ligA pnp pnp GM21_0296 GM21_0296 efp efp GM21_0582 GM21_0582 nusA nusA GM21_3060 GM21_3060 GM21_3269 GM21_3269 rpsQ rpsQ rplB rplB rpsL rpsL asnS asnS lysS lysS rho rho GM21_4062 GM21_4062
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:
GM21_0109TIGRFAM: DNA ligase D; DNA polymerase LigD, ligase domain protein; DNA ligase D, 3'-phosphoesterase domain protein; DNA polymerase LigD, polymerase domain protein; PFAM: ATP dependent DNA ligase; DNA primase small subunit; ATP dependent DNA ligase domain protein; mRNA capping enzyme; KEGG: gbm:Gbem_0128 DNA ligase D. (872 aa)
GM21_0142KEGG: gbm:Gbem_0159 ribonuclease, Rne/Rng family; TIGRFAM: ribonuclease, Rne/Rng family; PFAM: RNA binding S1 domain protein; SMART: RNA binding S1 domain protein. (496 aa)
GM21_0191PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: gbm:Gbem_0208 cold-shock DNA-binding domain protein. (66 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. (448 aa)
GM21_0658PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: gbm:Gbem_0645 cold-shock DNA-binding domain protein. (66 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. (919 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. (199 aa)
GM21_0995Ribosomal 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. (584 aa)
GM21_1077PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: gbm:Gbem_3185 cold-shock DNA-binding domain protein. (66 aa)
GM21_1169KEGG: gbm:Gbem_3092 DNA polymerase III, alpha subunit; TIGRFAM: DNA polymerase III, alpha subunit; PFAM: DNA polymerase III alpha subunit; PHP domain protein; nucleic acid binding OB-fold tRNA/helicase-type; SMART: phosphoesterase PHP domain protein. (1155 aa)
GM21_1223PFAM: RNA binding S1 domain protein; SMART: RNA binding S1 domain protein; Resolvase RNase H domain protein fold; KEGG: gbm:Gbem_3028 RNA binding S1 domain protein. (756 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. (593 aa)
GM21_1332TIGRFAM: RNA methyltransferase, TrmA family; PFAM: (Uracil-5)-methyltransferase; KEGG: gbm:Gbem_2893 RNA methyltransferase, TrmA family; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (447 aa)
recODNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (217 aa)
GM21_1502PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: gbm:Gbem_2739 cold-shock DNA-binding domain protein. (68 aa)
rnrRibonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs. (737 aa)
GM21_2005PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: gbm:Gbem_2222 cold-shock DNA-binding domain protein. (66 aa)
GM21_2080SMART: RNA binding S1 domain protein; KEGG: gbm:Gbem_2136 RNA binding S1 domain protein; Belongs to the CvfB family. (274 aa)
GM21_2158KEGG: gbm:Gbem_2058 RNA methyltransferase, TrmA family; TIGRFAM: RNA methyltransferase, TrmA family; PFAM: (Uracil-5)-methyltransferase; deoxyribonuclease/rho motif-related TRAM; methyltransferase small; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (438 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)
efp-2Translation 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. (187 aa)
pheTTIGRFAM: phenylalanyl-tRNA synthetase, beta subunit; KEGG: gbm:Gbem_1995 phenylalanyl-tRNA synthetase, beta subunit. (801 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. (772 aa)
GM21_2891PFAM: Cold-shock protein DNA-binding; SMART: Cold shock protein; KEGG: gbm:Gbem_1391 cold-shock DNA-binding domain protein. (66 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; Belongs to the NAD-dependent DNA ligase family. LigA subfamily. (668 aa)
pnpPolyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (696 aa)
GM21_0296PFAM: protein of unknown function DUF107; KEGG: gbm:Gbem_0323 protein of unknown function DUF107. (152 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. (187 aa)
GM21_0582KEGG: gbm:Gbem_0569 nucleic acid binding, OB-fold, tRNA/helicase-type. (270 aa)
nusANusA antitermination factor; Participates in both transcription termination and antitermination. (382 aa)
GM21_3060PFAM: protein of unknown function DUF107; KEGG: gbm:Gbem_1213 protein of unknown function DUF107. (430 aa)
GM21_3269PFAM: RNA binding S1 domain protein; SMART: RNA binding S1 domain protein; KEGG: gbm:Gbem_0991 RNA binding S1 domain protein. (400 aa)
rpsQRibosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (85 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. (274 aa)
rpsLRibosomal protein S12; With S4 and S5 plays an important role in translational accuracy. (123 aa)
asnSTIGRFAM: asparaginyl-tRNA synthetase; PFAM: tRNA synthetase class II (D K and N); nucleic acid binding OB-fold tRNA/helicase-type; KEGG: gbm:Gbem_0882 asparaginyl-tRNA synthetase. (461 aa)
lysSTIGRFAM: lysyl-tRNA synthetase; PFAM: tRNA synthetase class II (D K and N); tRNA synthetase class II (G H P and S); nucleic acid binding OB-fold tRNA/helicase-type; KEGG: gbm:Gbem_0836 lysyl-tRNA synthetase; Belongs to the class-II aminoacyl-tRNA synthetase family. (492 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. (415 aa)
GM21_4062Single-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. (148 aa)
Your Current Organism:
Geobacter sp. M21
NCBI taxonomy Id: 443144
Other names: G. sp. M21
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