STRINGSTRING
rpmG rpmG rho rho rpsU rpsU tuf tuf rpsJ rpsJ rplC rplC rplD rplD rplW rplW rplB rplB rpsS rpsS rplV rplV rpsC rpsC rplP rplP rpmC rpmC rpsQ rpsQ rplN rplN rplX rplX rplE rplE rpsN rpsN rpsH rpsH rplF rplF rplR rplR rpsE rpsE rplO rplO rpmJ rpmJ rpsM rpsM rpsK rpsK rpsD rpsD rplQ rplQ arfA arfA rplU rplU rpmA rpmA rpsT rpsT rplY rplY rplM rplM rpsI rpsI rpmE2 rpmE2 AKA23320.1 AKA23320.1 tig tig infA infA rplT rplT rpmI rpmI infC infC AKA25746.1 AKA25746.1 AKA25951.1 AKA25951.1 rpsB rpsB map-2 map-2 lysS lysS AKA26413.1 AKA26413.1 rplS rplS trmD trmD rimM rimM rpsP rpsP AKA26556.1 AKA26556.1 pnp pnp rpsO rpsO truB truB rbfA rbfA infB infB nusA nusA rimP rimP smpB smpB rplI rplI rpsR rpsR rpsF rpsF rpmE rpmE
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.
Node Color
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:
rpmGTIGRFAM: rpmG_bact: ribosomal protein L33; Pfam: Ribosomal protein L33; Belongs to the bacterial ribosomal protein bL33 family. (51 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. (419 aa)
rpsUPRINTS: Ribosomal protein S21 family signature; TIGRFAM: S21p: ribosomal protein S21; Pfam: Ribosomal protein S21; Belongs to the bacterial ribosomal protein bS21 family. (71 aa)
tufElongation factor Tu; This protein promotes the GTP-dependent binding of aminoacyl- tRNA to the A-site of ribosomes during protein biosynthesis. (285 aa)
rpsJ30S ribosomal protein S10; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (103 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. (211 aa)
rplD50S ribosomal protein L4; Forms part of the polypeptide exit tunnel. (200 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. (99 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)
rpsS30S ribosomal protein S19; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (91 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. (82 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. (228 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. (55 aa)
rpmCPfam: Ribosomal L29 protein; TIGRFAM: L29: ribosomal protein L29; Belongs to the universal ribosomal protein uL29 family. (63 aa)
rpsQ30S ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (88 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)
rplX50S ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (104 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. (142 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. (101 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. (97 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. (177 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. (116 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. (166 aa)
rplO50S ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (118 aa)
rpmJPfam: Ribosomal protein L36; TIGRFAM: rpmJ_bact: ribosomal protein L36; Belongs to the bacterial ribosomal protein bL36 family. (38 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. (118 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. (129 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. (206 aa)
rplQPfam: Ribosomal protein L17; TIGRFAM: L17: ribosomal protein L17. (128 aa)
arfALipoyl synthase; Pfam: Domain of unknown function. (53 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. (103 aa)
rpmATIGRFAM: L27: ribosomal protein L27; Pfam: Ribosomal L27 protein; PRINTS: Ribosomal protein L27 signature; Belongs to the bacterial ribosomal protein bL27 family. (85 aa)
rpsT30S ribosomal protein S20; Binds directly to 16S ribosomal RNA. (92 aa)
rplY50S ribosomal protein L25/general stress protein Ctc; 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. (198 aa)
rplM50S ribosomal protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. (142 aa)
rpsIPfam: Ribosomal protein S9/S16; Belongs to the universal ribosomal protein uS9 family. (130 aa)
rpmE2TIGRFAM: L31: ribosomal protein L31; PRINTS: Ribosomal protein L31 signature; Pfam: Ribosomal protein L31. (89 aa)
AKA23320.130S ribosomal 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. (564 aa)
tigTrigger factor; Involved in protein export. Acts as a chaperone by maintaining the newly synthesized protein in an open conformation. Functions as a peptidyl-prolyl cis-trans isomerase; Belongs to the FKBP-type PPIase family. Tig subfamily. (436 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)
rplT50S ribosomal protein L20; 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. (118 aa)
rpmIPRINTS: Ribosomal protein L35 signature; TIGRFAM: rpmI_bact: ribosomal protein L35; Pfam: Ribosomal protein L35; Belongs to the bacterial ribosomal protein bL35 family. (64 aa)
infCTranslation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins. (112 aa)
AKA25746.1Hypothetical protein; Pfam: Uncharacterized ACR, COG1399. (175 aa)
AKA25951.1Protein chain release factor B; Pfam: RF-1 domain. (137 aa)
rpsBPRINTS: Ribosomal protein S2 signature; Pfam: Ribosomal protein S2; TIGRFAM: rpsB_bact: ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family. (246 aa)
map-2Methionine aminopeptidase; Removes the N-terminal methionine from nascent proteins. The N-terminal methionine is often cleaved when the second residue in the primary sequence is small and uncharged (Met-Ala-, Cys, Gly, Pro, Ser, Thr, or Val). Requires deformylation of the N(alpha)-formylated initiator methionine before it can be hydrolyzed; Belongs to the peptidase M24A family. Methionine aminopeptidase type 1 subfamily. (260 aa)
lysSPRINTS: Lysyl-tRNA synthetase signature; Pfam: OB-fold nucleic acid binding domain; Pfam: tRNA synthetases class II (D, K and N); TIGRFAM: lysS_bact: lysine--tRNA ligase; Belongs to the class-II aminoacyl-tRNA synthetase family. (508 aa)
AKA26413.1Peptide chain release factor 2; SMART:; Pfam: PCRF domain; Pfam: RF-1 domain; TIGRFAM: prfB: peptide chain release factor 2. (280 aa)
rplS50S ribosomal protein L19; This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. (116 aa)
trmDtRNA (guanine-N1)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (199 aa)
rimM16S rRNA-processing protein RimM; An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes; Belongs to the RimM family. (178 aa)
rpsPTIGRFAM: S16: ribosomal protein S16; Pfam: Ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family. (83 aa)
AKA26556.1Pfam: Sigma 54 modulation protein / S30EA ribosomal protein. (119 aa)
pnpPolynucleotide phosphorylase/polyadenylase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (701 aa)
rpsO30S ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome. (89 aa)
truBtRNA pseudouridine synthase B; 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. (305 aa)
rbfARibosome-binding factor A; One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Required for efficient processing of 16S rRNA. May interact with the 5'-terminal helix region of 16S rRNA. (131 aa)
infBTranslation initiation factor IF-2; One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. IF-2 subfamily. (839 aa)
nusAPeptidase M54; Participates in both transcription termination and antitermination. (493 aa)
rimPRibosome maturation protein RimP; Required for maturation of 30S ribosomal subunits. Belongs to the RimP family. (152 aa)
smpBssrA-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 then switches to [...] (160 aa)
rplI50S ribosomal protein L9; Binds to the 23S rRNA. (148 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. (76 aa)
rpsF30S ribosomal protein S6; Binds together with S18 to 16S ribosomal RNA. (141 aa)
rpmE50S ribosomal protein L31; Binds the 23S rRNA. (72 aa)
Your Current Organism:
Pseudomonas chlororaphis
NCBI taxonomy Id: 587753
Other names: ATCC 9446, Bacillus chlororaphis, CCUG 552 B, CFBP 2132, CIP 63.22, DSM 50083, HAMBI 2011, IFO 3904, JCM 2778, LMG 5004, LMG:5004, NBRC 3904, NCCB 76041, NCIB 9392, NCIMB 9392, NCTC 13002, P. chlororaphis, Pseudomonas sp. UFB2
Server load: medium (42%) [HD]
STRING is a Core Data Resource as designated by Global Biodata Coalition and ELIXIR.