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
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.
Knowledge-based Evidence
from curated databases
textmining
Assay-based Predictions
experimentally determined
co-expression
Genomic Predictions
gene neighborhood
gene co-occurrence
gene fusions
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[Homology]
Score
kduI4-deoxy-L-threo-5-hexosulose-uronate; Catalyzes the isomerization of 5-dehydro-4-deoxy-D- glucuronate to 3-deoxy-D-glycero-2,5-hexodiulosonate. Belongs to the KduI family. (274 aa)    
Predicted Functional Partners:
kduD
2-deoxy-D-gluconate 3-dehydrogenase.
 
 
 0.998
kdgF
Pectin degradation protein.
 
  
 0.982
yteR
Probable di-trans,poly-cis-decaprenylcistransferase; Seems to regulate the surface properties of the bacterium in the presence of plant cells or plant cell extracts. Mutations in this protein are responsible for an increased aggregation of the bacteria in the presence of pea root cap cells (By similarity); Belongs to the glycosyl hydrolase 88 family.
 
   
 0.829
picA
Polygalacturonase-like protein; Belongs to the glycosyl hydrolase 28 family.
 
   
 0.780
Atu3140
5-dehydro-4-deoxyglucarate dehydratase; Belongs to the DapA family.
     
 0.753
udh
Conserved hypothetical protein; Catalyzes the oxidation of D-galacturonate and D-glucuronate to galactarate and D-glucarate, respectively. In fact, in water solution the substrate D-galacturonate is predominantly in pyranosic form whose beta anomer is converted by the enzyme to D-galactaro-1,5- lactone; in solution, this reaction product rearranges to the more stable D-galactaro-1,4-lactone. Makes part of the oxidative degradation pathway of D-galacturonate, which allows A.tumefaciens to utilize D- galacturonate as a sole carbon source. Cannot use NADP(+) instead of NAD(+) as cosubstra [...]
     
 0.745
Atu3817
Dehydratase.
 
  
 0.741
Atu4560
Polygalacturonase; Belongs to the glycosyl hydrolase 28 family.
 
   
 0.733
Atu4561
Conserved hypothetical protein.
 
   
 0.726
gci
Conserved hypothetical protein; Catalyzes the ring opening of D-galactaro-1,4-lactone to yield 5-keto-4-deoxy-D-glucarate (KDG) via a beta-elimination reaction. This is a step in the oxidative degradation pathway of D-galacturonate, which allows A.tumefaciens to utilize D-galacturonate as a sole carbon source. To a lesser extent, can also use D-glucaro-1,4-lactone as substrate to produce KDG, but cannot use D-galactaro-1,5-lactone, D- glucaro-6,3-lactone and linear D-glucarate.
     
 0.713
Your Current Organism:
Agrobacterium fabrum
NCBI taxonomy Id: 176299
Other names: A. fabrum str. C58, Agrobacterium fabrum str. C58, Agrobacterium tumefaciens (strain C58 / ATCC 33970), Agrobacterium tumefaciens (strain C58), Agrobacterium tumefaciens str. C58, Agrobacterium tumefaciens str. C58 (Cereon), Agrobacterium tumefaciens str. C58 (Dupont), Agrobacterium tumefaciens str. C58 (U. Washington), Rhizobium radiobacter str. C58 (Cereon), Rhizobium radiobacter str. C58 (Dupont), Rhizobium radiobacter str. C58 (U. Washington)
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