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AJR02475.1 AJR02475.1 rnhB rnhB AJR02321.1 AJR02321.1 alaS alaS AJR02346.1 AJR02346.1 era era rplJ rplJ rplA rplA rplK rplK AJR02392.1 AJR02392.1 AJR02411.1 AJR02411.1 AJR02419.1 AJR02419.1 rpsD rpsD rpsK rpsK rpsM rpsM infA infA rplO rplO rpsE rpsE rplR rplR rplF rplF rpsH rpsH rpsN rpsN rplE rplE rplX rplX rplN rplN rpsQ rpsQ rplP rplP rpsC rpsC rplV rplV rpsS rpsS rplB rplB rplW rplW rplD rplD rplC rplC rpsJ rpsJ rpsG rpsG rpsL rpsL AJR02567.1 AJR02567.1 AJR02579.1 AJR02579.1 tyrS tyrS truB truB rplU rplU AJR02681.1 AJR02681.1 ileS ileS metG metG AJR02791.1 AJR02791.1 gltX gltX rnr rnr rnpA rnpA rsmA rsmA rplY rplY AJR03013.1 AJR03013.1 pheS pheS rnc rnc AJR03143.1 AJR03143.1 nusA nusA AJR03217.1 AJR03217.1 AJR03234.1 AJR03234.1 proB proB rsgA rsgA dtd dtd rlmN rlmN AJR03374.1 AJR03374.1 AJR03394.1 AJR03394.1 AJR03468.1 AJR03468.1 trmH trmH AJR03518.1 AJR03518.1 rpsT rpsT rho rho truA truA pnp pnp rpsO rpsO AJR03594.1 AJR03594.1 ffh ffh AJR03667.1 AJR03667.1 AJR03766.1 AJR03766.1 AJR03813.1 AJR03813.1 AJR03816.1 AJR03816.1 proB-2 proB-2 AJR03842.1 AJR03842.1 rpsF rpsF rpsR rpsR rplI rplI AJR03959.1 AJR03959.1 rny rny mnmA mnmA smpB smpB AJR04115.1 AJR04115.1 AJR04187.1 AJR04187.1 AJR04251.1 AJR04251.1 AJR04252.1 AJR04252.1 pheT pheT AJR04377.1 AJR04377.1 AJR04382.1 AJR04382.1 AJR04418.1 AJR04418.1 thrS thrS rplT rplT AJR04602.1 AJR04602.1 AJR04621.1 AJR04621.1
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
Others
textmining
co-expression
protein homology
Your Input:
AJR02475.1RNA methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (244 aa)
rnhBRibonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (199 aa)
AJR02321.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (349 aa)
alaSalanyl-tRNA synthetase; Catalyzes the attachment of alanine to tRNA(Ala) in a two- step reaction: alanine is first activated by ATP to form Ala-AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain. (870 aa)
AJR02346.1Methanol dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology. (284 aa)
eraGTPase Era; An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism. (293 aa)
rplJ50S ribosomal protein L10; Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors. Belongs to the universal ribosomal protein uL10 family. (173 aa)
rplA50S ribosomal protein L1; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release. (229 aa)
rplK50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (145 aa)
AJR02392.1GTP-binding protein TypA; Derived by automated computational analysis using gene prediction method: Protein Homology. (598 aa)
AJR02411.1tRNA methyltransferase; Could methylate the ribose at the nucleotide 34 wobble position in tRNA; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. TrmL subfamily. (149 aa)
AJR02419.1Pseudouridine synthase; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (347 aa)
rpsD30S ribosomal protein S4; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit. (201 aa)
rpsK30S ribosomal protein S11; Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine- Dalgarno cleft in the 70S ribosome; Belongs to the universal ribosomal protein uS11 family. (130 aa)
rpsM30S ribosomal protein S13; Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits; these bridges are implicated in subunit movement. Contacts the tRNAs in the A and P-sites. Belongs to the universal ribosomal protein uS13 family. (124 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. (71 aa)
rplO50S ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (150 aa)
rpsE30S ribosomal protein S5; Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body. Belongs to the universal ribosomal protein uS5 family. (174 aa)
rplR50S ribosomal protein L18; This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. (118 aa)
rplF50S ribosomal protein L6; This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center; Belongs to the universal ribosomal protein uL6 family. (180 aa)
rpsH30S ribosomal protein S8; One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit; Belongs to the universal ribosomal protein uS8 family. (132 aa)
rpsN30S ribosomal protein S14; Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site; Belongs to the universal ribosomal protein uS14 family. (89 aa)
rplE50S ribosomal protein L5; This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. (183 aa)
rplX50S ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (103 aa)
rplN50S ribosomal protein L14; Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome; Belongs to the universal ribosomal protein uL14 family. (122 aa)
rpsQ30S ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (85 aa)
rplP50S ribosomal protein L16; Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs; Belongs to the universal ribosomal protein uL16 family. (139 aa)
rpsC30S ribosomal protein S3; Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation; Belongs to the universal ribosomal protein uS3 family. (241 aa)
rplV50S ribosomal protein L22; The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. (135 aa)
rpsSHypothetical protein; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (92 aa)
rplB50S ribosomal 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)
rplW50S ribosomal protein L23; One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome; Belongs to the universal ribosomal protein uL23 family. (96 aa)
rplD50S ribosomal protein L4; Forms part of the polypeptide exit tunnel. (209 aa)
rplC50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family. (205 aa)
rpsJ30S ribosomal protein S10; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (101 aa)
rpsG30S ribosomal protein S7; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit. Is located at the subunit interface close to the decoding center, probably blocks exit of the E-site tRNA; Belongs to the universal ribosomal protein uS7 family. (158 aa)
rpsL30S ribosomal protein S12; Interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone. Located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit. (124 aa)
AJR02567.1Pseudouridylate synthase; Derived by automated computational analysis using gene prediction method: Protein Homology. (290 aa)
AJR02579.1Phosphohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology. (425 aa)
tyrStyrosyl-tRNA synthetase; Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two- step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr); Belongs to the class-I aminoacyl-tRNA synthetase family. TyrS type 1 subfamily. (431 aa)
truBPseudouridine synthase; Responsible for synthesis of pseudouridine from uracil-55 in the psi GC loop of transfer RNAs; Belongs to the pseudouridine synthase TruB family. Type 1 subfamily. (233 aa)
rplU50S ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family. (209 aa)
AJR02681.1Ribonuclease G; Derived by automated computational analysis using gene prediction method: Protein Homology. (515 aa)
ileSisoleucyl-tRNA synthase; Catalyzes the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile). Belongs to the class-I aminoacyl-tRNA synthetase family. IleS type 2 subfamily. (1134 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. (688 aa)
AJR02791.1Phosphohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology. (217 aa)
gltXglutamyl-tRNA synthetase; Catalyzes the attachment of glutamate to tRNA(Glu) in a two- step reaction: glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu); Belongs to the class-I aminoacyl-tRNA synthetase family. Glutamate--tRNA ligase type 1 subfamily. (502 aa)
rnrRibonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs. (729 aa)
rnpARibonuclease P; RNaseP catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. The protein component plays an auxiliary but essential role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme. (127 aa)
rsmA16S rRNA methyltransferase; Specifically dimethylates two adjacent adenosines (A1518 and A1519) in the loop of a conserved hairpin near the 3'-end of 16S rRNA in the 30S particle. May play a critical role in biogenesis of 30S subunits. (264 aa)
rplY50S ribosomal protein L25; This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. Belongs to the bacterial ribosomal protein bL25 family. CTC subfamily. (203 aa)
AJR03013.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (285 aa)
pheSphenylalanyl-tRNA synthetase subunit alpha; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily. (339 aa)
rncRibonuclease III; Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism. (246 aa)
AJR03143.1Translation 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. (320 aa)
nusATranscription elongation factor NusA; Participates in both transcription termination and antitermination. (410 aa)
AJR03217.1RNA methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (179 aa)
AJR03234.1Lipoprotein; Derived by automated computational analysis using gene prediction method: Protein Homology. (139 aa)
proBGlutamate 5-kinase; Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate. (253 aa)
rsgAGTPase RsgA; 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. (316 aa)
dtdD-tyrosyl-tRNA(Tyr) deacylase; An aminoacyl-tRNA editing enzyme that deacylates mischarged D-aminoacyl-tRNAs. Also deacylates mischarged glycyl-tRNA(Ala), protecting cells against glycine mischarging by AlaRS. Acts via tRNA- based rather than protein-based catalysis; rejects L-amino acids rather than detecting D-amino acids in the active site. By recycling D- aminoacyl-tRNA to D-amino acids and free tRNA molecules, this enzyme counteracts the toxicity associated with the formation of D-aminoacyl- tRNA entities in vivo and helps enforce protein L-homochirality. Belongs to the DTD family. (150 aa)
rlmN50S rRNA methyltransferase; Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs; Belongs to the radical SAM superfamily. RlmN family. (346 aa)
AJR03374.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (97 aa)
AJR03394.1DNA polymerase; Derived by automated computational analysis using gene prediction method: Protein Homology. (426 aa)
AJR03468.1RNA methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family. (404 aa)
trmHrRNA methyltransferase; Catalyzes the 2'-O methylation of guanosine at position 18 in tRNA; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (222 aa)
AJR03518.1rRNA methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (264 aa)
rpsT30S ribosomal protein S20; Binds directly to 16S ribosomal RNA. (83 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. (558 aa)
truAPseudouridine synthase; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (247 aa)
pnpPolynucleotide phosphorylase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (751 aa)
rpsO30S ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome. (89 aa)
AJR03594.1RNA methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (239 aa)
ffhSignal recognition particle; 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. Belongs to the GTP-binding SRP family. SRP54 subfamily. (442 aa)
AJR03667.1Pseudouridine synthase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the pseudouridine synthase RsuA family. (256 aa)
AJR03766.1Ribulose-phosphate 3-epimerase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the pseudouridine synthase RsuA family. (198 aa)
AJR03813.1tRNA-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (111 aa)
AJR03816.1Antitermination protein NusB; Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons. (303 aa)
proB-2Gamma-glutamyl kinase; Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate. (256 aa)
AJR03842.1Aconitate hydratase; Derived by automated computational analysis using gene prediction method: Protein Homology. (925 aa)
rpsF30S ribosomal protein S6; Binds together with S18 to 16S ribosomal RNA. (112 aa)
rpsR30S ribosomal protein S18; Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit; Belongs to the bacterial ribosomal protein bS18 family. (98 aa)
rplI50S ribosomal protein L9; Binds to the 23S rRNA. (148 aa)
AJR03959.1DNA methylase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the methyltransferase superfamily. (385 aa)
rnyRibonuclease; Endoribonuclease that initiates mRNA decay. Belongs to the RNase Y family. (523 aa)
mnmAThiouridylase; Catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34. (395 aa)
smpBSingle-stranded DNA-binding protein; Required for rescue of stalled ribosomes mediated by trans- translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene; the 2 termini fold to resemble tRNA(Ala) and it encodes a 'tag peptide', a short internal open reading frame. During trans-translation Ala-aminoacylated tmRNA acts like a tRNA, entering the A-site of stalled ribosomes, displacing the stalled mRNA. The ribosome t [...] (152 aa)
AJR04115.1Pseudouridine synthase; Derived by automated computational analysis using gene prediction method: Protein Homology. (561 aa)
AJR04187.1Translation factor Sua5; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the SUA5 family. (206 aa)
AJR04251.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (68 aa)
AJR04252.1Pseudouridine synthase; Derived by automated computational analysis using gene prediction method: Protein Homology. (258 aa)
pheTphenylalanyl-tRNA synthetase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the phenylalanyl-tRNA synthetase beta subunit family. Type 1 subfamily. (808 aa)
AJR04377.1SAM-dependent methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (394 aa)
AJR04382.1Pseudouridine synthase; Derived by automated computational analysis using gene prediction method: Protein Homology. (232 aa)
AJR04418.1RNA methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (166 aa)
thrSthreonyl-tRNA synthetase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the class-II aminoacyl-tRNA synthetase family. (644 aa)
rplTHypothetical protein; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. (114 aa)
AJR04602.1RNA-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (127 aa)
AJR04621.1Translation factor Sua5; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the SUA5 family. (185 aa)
Your Current Organism:
Siansivirga zeaxanthinifaciens
NCBI taxonomy Id: 1454006
Other names: S. zeaxanthinifaciens CC-SAMT-1, Siansivirga zeaxanthinifaciens CC-SAMT-1
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