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rpsO rpsO rpsU rpsU rpmI rpmI rplT rplT rplY rplY SFL39774.1 SFL39774.1 rpsD rpsD clpS clpS rpsP rpsP rimM rimM rplS rplS SFL51433.1 SFL51433.1 rpmG rpmG SFL92182.1 SFL92182.1 SFL90317.1 SFL90317.1 rpmF rpmF rplM rplM rpsI rpsI rpsF rpsF rpsR rpsR rplI rplI 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 rpmD rpmD rplO rplO rpsM rpsM rpsK rpsK rplQ rplQ rpsJ rpsJ rpmH rpmH rplC rplC rplD rplD rplW rplW rpmB rpmB rpmJ rpmJ rpsT rpsT rplU rplU rpmA rpmA rpsB rpsB hpf hpf rplK rplK rplA rplA rplJ rplJ rplL rplL rpsL rpsL rpsG rpsG
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:
rpsOSSU ribosomal protein S15P; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome. (89 aa)
rpsUSSU ribosomal protein S21P; Belongs to the bacterial ribosomal protein bS21 family. (68 aa)
rpmILSU ribosomal protein L35P; Belongs to the bacterial ribosomal protein bL35 family. (66 aa)
rplTLSU 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. (121 aa)
rplYLarge 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. (211 aa)
SFL39774.1SSU ribosomal protein S1P; Binds mRNA; thus facilitating recognition of the initiation point. It is needed to translate mRNA with a short Shine-Dalgarno (SD) purine-rich sequence. (559 aa)
rpsDSSU ribosomal protein S4P; 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)
clpSATP-dependent Clp protease adaptor protein ClpS; Involved in the modulation of the specificity of the ClpAP- mediated ATP-dependent protein degradation; Belongs to the ClpS family. (113 aa)
rpsPSmall subunit ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family. (122 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. (167 aa)
rplSLSU ribosomal protein L19P; 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. (124 aa)
SFL51433.1Large subunit ribosomal protein L31; Belongs to the bacterial ribosomal protein bL31 family. (73 aa)
rpmGLSU ribosomal protein L33P; Belongs to the bacterial ribosomal protein bL33 family. (55 aa)
SFL92182.1NADH dehydrogenase subunit E. (420 aa)
SFL90317.1Hypothetical protein. (174 aa)
rpmFLarge subunit ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family. (68 aa)
rplMLSU 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. (152 aa)
rpsISSU ribosomal protein S9P; Belongs to the universal ribosomal protein uS9 family. (161 aa)
rpsFSSU ribosomal protein S6P; Binds together with S18 to 16S ribosomal RNA. (117 aa)
rpsRSSU 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)
rplILSU ribosomal protein L9P; Binds to the 23S rRNA. (206 aa)
rplBLSU 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. (280 aa)
rpsSSSU ribosomal protein S19P; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (92 aa)
rplVLSU ribosomal protein L22P; 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. (126 aa)
rpsCSSU 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. (235 aa)
rplPLSU 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. (137 aa)
rpmCLSU ribosomal protein L29P; Belongs to the universal ribosomal protein uL29 family. (65 aa)
rpsQSSU ribosomal protein S17P; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (76 aa)
rplNLSU 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. (122 aa)
rplXLSU ribosomal protein L24P; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (103 aa)
rplELarge subunit 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. (186 aa)
rpsNSSU 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; Belongs to the universal ribosomal protein uS14 family. (101 aa)
rpsHSSU 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. (129 aa)
rplFLarge subunit 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)
rplRLSU 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. (119 aa)
rpsESSU 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. (189 aa)
rpmDLarge subunit ribosomal protein L30. (62 aa)
rplOLSU ribosomal protein L15P; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (157 aa)
rpsMSSU 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. (122 aa)
rpsKSSU ribosomal protein S11P; 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)
rplQLSU ribosomal protein L17P. (141 aa)
rpsJSSU ribosomal protein S10P; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (119 aa)
rpmHLSU ribosomal protein L34P; Belongs to the bacterial ribosomal protein bL34 family. (44 aa)
rplCLSU 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. (241 aa)
rplDLSU ribosomal protein L4P; Forms part of the polypeptide exit tunnel. (205 aa)
rplWLSU 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. (98 aa)
rpmBLSU ribosomal protein L28P; Belongs to the bacterial ribosomal protein bL28 family. (96 aa)
rpmJLSU ribosomal protein L36P; Belongs to the bacterial ribosomal protein bL36 family. (41 aa)
rpsTSSU ribosomal protein S20P; Binds directly to 16S ribosomal RNA. (87 aa)
rplULSU ribosomal protein L21P; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family. (198 aa)
rpmALSU ribosomal protein L27P; Belongs to the bacterial ribosomal protein bL27 family. (89 aa)
rpsBSSU ribosomal protein S2P; Belongs to the universal ribosomal protein uS2 family. (260 aa)
hpfSSU ribosomal protein S30P/sigma 54 modulation protein; Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase; 100S ribosomes are translationally inactive and sometimes present during exponential growth. (189 aa)
rplKLSU ribosomal protein L11P; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (141 aa)
rplALSU 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)
rplJLSU 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. (172 aa)
rplLLSU ribosomal protein L12P; 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. (126 aa)
rpsLSSU ribosomal protein S12P; 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. (123 aa)
rpsGSSU 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. (156 aa)
Your Current Organism:
Shimia aestuarii
NCBI taxonomy Id: 254406
Other names: DSM 15283, IMSNU 14011, JCM 14332, KCTC 12049, Rhodobacteraceae bacterium JC2049, S. aestuarii, Thalassobius aestuarii, Thalassobius aestuarii Yi and Chun 2007, strain JC2049
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