STRINGSTRING
STRING protein interaction network
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:
Neighborhood
Gene Fusion
Cooccurrence
Coexpression
Experiments
Databases
Textmining
[Homology]
Score
PE_PGRS3PE-PGRS family protein PE_PGRS3; Rv0278c, (MTV035.06c), len: 957 aa. PE_PGRS3, Member of the Mycobacterium tuberculosis PE family (see citation below), PGRS subfamily of gly-rich proteins, similar to many e.g. Z95890|MTCY28_25|Rv1759c from Mycobacterium tuberculosis (914 aa), FASTA scores: opt: 3849, E(): 0,(67.8% identity in 903 aa overlap). Contains PS00583 pfkB family of carbohydrate kinases signature 1. (957 aa)    
Predicted Functional Partners:
lppD
Possible lipoprotein LppD; Rv1899c, (MTCY180.19), len: 343 aa. Possible lipoprotein; contains appropriately localized lipoprotein lipid attachment site (PS00013). Some similarity to C-terminal part of AE000717|AE000717_4 hypothetical protein from Aquifex aeolicus section 49 (165 aa), FASTA results: opt: 372, E(): 2.3e-14, (43.5% identity in 147 aa overlap); and Q44020 4-hydroxybutyrate dehydrogenase (173 aa), FASTA results: opt: 272, E(): 4.7e-09, (35.8% identity in 165 aa overlap).
     
 0.803
PPE58
Rv3426, (MTCY78.03c), len: 232 aa. PPE58, Member of the M. tuberculosis PPE family, similar to many e.g. the downstream O06246|Rv3429|MTCY77.01 (178 aa), FASTA scores: opt: 555, E(): 6.5e-26, (72.0% identity in 125 aa overlap); and upstream Q50703|YY25_MYCTU|Rv3425|MTCY78.04c (176 aa),FASTA scores: opt: 517, E(): 1.1e-23, (68.0% identity in 125 aa overlap); MTV049_30, MTCY3C7_24, MTCY428_16,MTCY3A2_22; etc.
      
 0.803
vapB25
Rv0277A, len: 85 aa. Possible vapB25, antitoxin,part of toxin-antitoxin (TA) operon with Rv0277c, see Arcus et al. 2005. Has in-frame stop codon so may not be expressed. Very similar to others in Mycobacterium tuberculosis e.g. Rv0748 (85 aa). Fasta score E(): 4e-24; 88.2% identity in 85 aa overlap.
       0.723
vapC25
Possible toxin VapC25. Contains PIN domain; Toxic component of a type II toxin-antitoxin (TA) system. An RNase (By similarity). Upon expression in M.smegmatis inhibits colony formation. Its toxic effect is neutralized by coexpression with cognate antitoxin VapB25.; Belongs to the PINc/VapC protein family.
       0.660
PE_PGRS49
PE-PGRS family protein PE_PGRS49; Rv3344c, (MTV016.44c), len: 484 aa. PE_PGRS49,Member of the Mycobacterium tuberculosis PE family, PGRS subfamily of gly-, ala-rich proteins (see Brennan and Delogu, 2002). Appears to be a gene fragment, should be in-frame with following ORF, MTV016.45c, frameshift required around 49595 but could not be found on checking BAC and cosmid clones. Similar to many from Mycobacterium tuberculosis strains H37Rv and CDC1551 e.g. O53557|Rv3512|MTV023.19 (1079 aa), FASTA scores: opt: 1595,E(): 1.8e-54, (52.0% identity in 544 aa overlap).
      
 0.656
PPE53
Rv3159c, (MTV014.03c), len: 590 aa. PPE53, Member of the Mycobacterium tuberculosis PPE_family of Gly-, Asn-rich proteins. Highly similar to P71868|Rv3533c|MTCY03C7.23 (582 aa), FASTA scores: opt: 2289, E(): 3.2e-98, (63.5% identity in 600 aa overlap); and also similar to MTCY48_17,MTV041_29, MTCY6G11_5, MTCY98_24, etc. Predicted to be an outer membrane protein (See Song et al., 2008).
      
 0.652
Rv0311
Unknown protein; Rv0311, (MTCY63.16), len: 409 aa. Unknown protein. Contains PS00881 Protein splicing signature.
     
 0.579
cpdA
Class III cyclic nucleotide phosphodiesterase (cNMP PDE); Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes. Can also hydrolyze cGMP, p- nitrophenyl phosphate (pNPP), bis-(p-nitrophenyl phosphate) (bis(pNPP)), p-nitrophenyl phenylphosphonate (pNPPP) and 2',3'-cAMP. May play a role in pathogenicity, not only by hydrolyzing cAMP, but also by altering properties of the cell wall.
     
 0.512
galTb
Rv0619, (MTCY19H5.02c), len: 181 aa (probable partial CDS). Probable galTb, second part of galactose-1-phosphate uridylyltransferase, highly similar to C-terminal half of other galT proteins e.g. P13212|GAL7_STRLI galactose-1-phosphate uridylyltransferase from Streptomyces lividans (354 aa), FASTA scores: opt: 416, E(): 5.2e-22, (43.0% identity in 186 aa overlap), etc. Cosmid sequence is correct but there may be a frameshift mutation in this region which would allow the two ORFS to be joined. Belongs to the galactose-1-phosphate uridylyltransferase family 1. Note that previously known [...]
      
 0.510
embR
Probable transcriptional regulatory protein EmbR; Positively regulates the transcription of the embCAB operon. Exhibits ATPase and GTPase activities; Belongs to the AfsR/DnrI/RedD regulatory family.
      
 0.439
Your Current Organism:
Mycobacterium tuberculosis H37Rv
NCBI taxonomy Id: 83332
Other names: M. tuberculosis H37Rv, Mycobacterium sp. H37Rv, Mycobacterium tuberculosis str. H37Rv, Mycobacterium tuberculosis strain H37Rv
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