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rplU rplU rpmA rpmA rplM rplM rpsI rpsI rplY rplY rpsF rpsF rpsR rpsR rplI rplI rpmB rpmB rpsO rpsO APF19277.1 APF19277.1 rplT rplT rpmI rpmI infC infC efp efp rpmH rpmH rpmE rpmE rpsP rpsP rpsT rpsT tuf-2 tuf-2 rplK rplK rplA rplA rplJ rplJ rplL rplL rpoB rpoB rpoC rpoC rpsL rpsL rpsG rpsG fusA fusA tuf tuf rpsJ rpsJ rplC rplC rplD rplD rplW rplW rplB rplB rpsS rpsS rplV rplV rpsC rpsC rplP rplP rpmC rpmC s17P s17P rplN rplN rplX rplX rplE rplE rpsZ rpsZ rpsH rpsH rplF rplF rplR rplR rpsE rpsE l30P l30P rplO rplO secY secY infA infA rpsM rpsM rpsK rpsK rpsD rpsD rpoA rpoA rplQ rplQ
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:
rplUrplU large subunit ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family. (125 aa)
rpmArpmA large subunit ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family. (87 aa)
rplMrplM LSU ribosomal protein L13P; 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. (146 aa)
rpsIrpsI SSU ribosomal protein S9P; Belongs to the universal ribosomal protein uS9 family. (111 aa)
rplYrplY large subunit 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. (213 aa)
rpsFrpsF SSU ribosomal protein S6P; Binds together with S18 to 16S ribosomal RNA. (170 aa)
rpsRrpsR SSU ribosomal protein S18P; 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. (75 aa)
rplIrplI LSU ribosomal protein L9P; Binds to the 23S rRNA. (147 aa)
rpmBrpmB LSU ribosomal protein L28P; Belongs to the bacterial ribosomal protein bL28 family. (65 aa)
rpsOrpsO SSU ribosomal protein S15P; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome. (89 aa)
APF19277.1SSU ribosomal protein S1P. (688 aa)
rplTrplT LSU ribosomal protein L20P; 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. (115 aa)
rpmIrpmI LSU ribosomal protein L35P; Belongs to the bacterial ribosomal protein bL35 family. (64 aa)
infCinfC translation 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. (168 aa)
efpEfp translation elongation factor P (EF-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. (188 aa)
rpmHrpmH large subunit ribosomal protein L34; Belongs to the bacterial ribosomal protein bL34 family. (52 aa)
rpmErpmE LSU ribosomal protein L31P; Binds the 23S rRNA. (66 aa)
rpsPrpsP small subunit ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family. (124 aa)
rpsTrpsT SSU ribosomal protein S20P; Binds directly to 16S ribosomal RNA. (85 aa)
tuf-2Tuf translation elongation factor 1A (EF-1A/EF-Tu); This protein promotes the GTP-dependent binding of aminoacyl- tRNA to the A-site of ribosomes during protein biosynthesis. (396 aa)
rplKrplK LSU ribosomal protein L11P; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (140 aa)
rplArplA LSU ribosomal protein L1P; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release. (232 aa)
rplJrplJ LSU ribosomal protein L10P; 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)
rplLLarge subunit ribosomal protein L7/L12; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. Is thus essential for accurate translation; Belongs to the bacterial ribosomal protein bL12 family. (81 aa)
rpoBrpoB DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1258 aa)
rpoCrpoC DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1429 aa)
rpsLSmall subunit 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. (44 aa)
rpsGrpsG SSU ribosomal protein S7P; 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. (155 aa)
fusAfusA translation elongation factor 2 (EF-2/EF-G); Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase fa [...] (693 aa)
tufTranslation elongation factor 1A (EF-1A/EF-Tu). (396 aa)
rpsJrpsJ SSU ribosomal protein S10P; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (102 aa)
rplCrplC LSU ribosomal protein L3P; 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. (206 aa)
rplDrplD LSU ribosomal protein L4P; Forms part of the polypeptide exit tunnel. (209 aa)
rplWrplW LSU ribosomal protein L23P; 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)
rplBrplB LSU ribosomal protein L2P; 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)
rpsSrpsS SSU ribosomal protein S19P; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (95 aa)
rplVrplV large subunit 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. (114 aa)
rpsCrpsC SSU ribosomal protein S3P; 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. (211 aa)
rplPrplP LSU ribosomal protein L16P; 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. (135 aa)
rpmCrpmC LSU ribosomal protein L29P; Belongs to the universal ribosomal protein uL29 family. (69 aa)
s17PSSU ribosomal protein S17P; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (67 aa)
rplNrplN LSU ribosomal protein L14P; Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome; Belongs to the universal ribosomal protein uL14 family. (103 aa)
rplXrplX LSU ribosomal protein L24P; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (111 aa)
rplErplE LSU ribosomal protein L5P; 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. (184 aa)
rpsZrpsZ SSU ribosomal protein S14P; 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. (61 aa)
rpsHrpsH SSU ribosomal protein S8P; 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)
rplFrplF LSU ribosomal protein L6P; 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)
rplRrplR LSU ribosomal protein L18P; 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. (112 aa)
rpsErpsE SSU ribosomal protein S5P; 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. (168 aa)
l30PLSU ribosomal protein L30P. (71 aa)
rplOrplO LSU ribosomal protein L15P; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (146 aa)
secYsecY protein translocase subunit secY/sec61 alpha; The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently. (442 aa)
infAinfA bacterial translation initiation factor 1 (bIF-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. (73 aa)
rpsMrpsM SSU ribosomal protein S13P; 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. (123 aa)
rpsKSmall subunit 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. (89 aa)
rpsDrpsD small subunit 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. (204 aa)
rpoArpoA DNA-directed RNA polymerase subunit alpha; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (330 aa)
rplQrplQ large subunit ribosomal protein L17. (199 aa)
Your Current Organism:
Caldithrix abyssi
NCBI taxonomy Id: 880073
Other names: C. abyssi DSM 13497, Caldithrix abyssi DSM 13497, Caldithrix abyssi LF13, Caldithrix abyssi str. DSM 13497, Caldithrix abyssi strain DSM 13497
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