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.
Knowledge-based Evidence
from curated databases
textmining
Assay-based Predictions
experimentally determined
co-expression
Genomic Predictions
gene neighborhood
gene co-occurrence
gene fusions
Your Input:
Neighborhood
Gene fusion
Co-occurrence
Co-expression
Experiments
Databases
Textmining
[Homology]
Score
RB12372RNA polymerase ECF-type sigma factor; PMID: 7889934 best DB hits: BLAST: ddbj:BAB03982.1; (AP001507) RNA polymerase ECF-type sigma factor; E=4e-15 swissprot:Q45585; SIGW_BACSU RNA POLYMERASE SIGMA FACTOR SIGW; E=3e-13 swissprot:Q06198; RPSH_PSEAE RNA POLYMERASE SIGMA-H FACTOR; E=1e-11 COG: BH0263; COG1595 DNA-directed RNA polymerase specialized sigma; E=4e-16 PFAM: PF00776; Sigma-70 factor (ECF subfamily); E=5.4e-10 PF00140; Sigma-70 factor; E=0.53. (242 aa)    
Predicted Functional Partners:
RB12251
RNA polymerase ECF-type sigma factor; PMID: 7768826 best DB hits: BLAST: swissprot:P46358; RFAY_XANCP PROBABLE RNA POLYMERASE SIGMA FACTOR; E=2e-22 ddbj:BAB03982.1; (AP001507) RNA polymerase ECF-type sigma factor; E=7e-15 swissprot:Q45585; SIGW_BACSU RNA POLYMERASE SIGMA FACTOR SIGW; E=4e-14 COG: BH0263; COG1595 DNA-directed RNA polymerase specialized sigma; E=6e-16 PFAM: PF00776; Sigma-70 factor (ECF subfamily); E=6.8e-12.
  
     0.773
RB6643
Probable RNA polymerase ECF-type sigma factor; PMID: 7961421 best DB hits: BLAST: gb:AAF01335.1; AF190580_1 (AF190580) alternate sigma factor AlgT; E=2e-09 pir:A69872; RNA polymerase ECF-type sigma factor homolog ylaC -; E=2e-09 swissprot:Q06198; RPSH_PSEAE RNA POLYMERASE SIGMA-H FACTOR; E=2e-09 COG: BS_ylaC; COG1595 DNA-directed RNA polymerase specialized sigma; E=2e-10 PFAM: PF00776; Sigma-70 factor (ECF subfamily); E=5.5e-14.
  
     0.764
algU
RNA polymerase sigma-H factor; PMID: 8432708 PMID: 7961421 best DB hits: BLAST: gb:AAC45219.1; (U87308) extracytoplasmic function alternative; E=4e-10 gb:AAC45221.1; (U87307) extracytoplasmic function alternative; E=5e-10 pir:H70507; probable sigE protein - Mycobacterium tuberculosis; E=8e-10 COG: Rv1221; COG1595 DNA-directed RNA polymerase specialized sigma; E=7e-11 PFAM: PF00776; Sigma-70 factor (ECF subfamily); E=0.065.
  
     0.763
sigG
Probable RNA-polymerase sigma-E factor; Best DB hits: BLAST: gb:AAD42769.1; AF121849_1 (AF121849) SigG [Synechococcus sp. PCC; E=9e-12 pir:S77368; transcription initiation factor sigma E slr1545 -; E=1e-11 pir:C82583; RNA polymerase sigma-H factor XF2239 [imported] -; E=1e-08 COG: slr1545; COG1595 DNA-directed RNA polymerase specialized sigma; E=1e-12 PFAM: PF00776; Sigma-70 factor (ECF subfamily); E=0.00072 PF00140; Sigma-70 factor; E=0.028.
  
     0.760
RB6034
Probable RNA polymerase sigma-E factor; PMID: 7751307 best DB hits: BLAST: swissprot:P44790; RPOE_HAEIN RNA POLYMERASE SIGMA-E FACTOR; E=1e-11 gb:AAK03873.1; (AE006215) RpoE [Pasteurella multocida]; E=3e-11 pir:C82583; RNA polymerase sigma-H factor XF2239 [imported] -; E=4e-10 COG: HI0628; COG1595 DNA-directed RNA polymerase specialized sigma; E=1e-12 PFAM: PF00776; Sigma-70 factor (ECF subfamily); E=0.0021.
  
     0.734
rpoE
Probable RNA polymerase sigma-E factor; PMID: 7768826 PMID: 7889934 PMID: 7889935 best DB hits: BLAST: pir:H82073; RNA polymerase sigma-E factor VC2467 [imported] - Vibrio; E=1e-05 swissprot:P44790; RPOE_HAEIN RNA POLYMERASE SIGMA-E FACTOR; E=9e-05 pir:C82583; RNA polymerase sigma-H factor XF2239 [imported] -; E=3e-04 COG: VC2467; COG1595 DNA-directed RNA polymerase specialized sigma; E=1e-06 PFAM: PF00776; Sigma-70 factor (ECF subfamily); E=0.0054 PF00140; Sigma-70 factor; E=2.7e-05.
  
     0.696
cnrH
PMID: 8052622 best DB hits: BLAST: swissprot:P37978; CNRH_ALCEU RNA POLYMERASE SIGMA FACTOR CNRH; E=5e-04 pir:G83282; probable sigma-70 factor, ECF subfamily PA2896; E=0.008 pir:S74832; transcription initiation factor sigma E sll0856 -; E=0.055 COG: PA2896; COG1595 DNA-directed RNA polymerase specialized sigma; E=8e-04 PFAM: PF00776; Sigma-70 factor (ECF subfamily); E=0.028 PF00140; Sigma-70 factor; E=0.028.
  
     0.693
cysK
Cysteine synthase (O-acetylserine sulfhydrylase); PMID: 10930739 best DB hits: BLAST: gb:AAG01804.1; AF276772_3 (AF276772) O-acetylserine sulfhydrylase; E=3e-83 swissprot:P95230; CYSK_MYCTU CYSTEINE SYNTHASE A (O-ACETYLSERINE; E=1e-82 pir:H81161; probable cysteine synthase (EC 4.2.99.8) NMA0974; E=1e-81 COG: Rv2334; COG0031 Cysteine synthase; E=1e-83 PFAM: PF00291; Pyridoxal-phosphate dependent enzym; E=1.3e-119.
   
  
 0.623
rpdD
RNA polymerase sigma factor rpoD; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.
   
  
 0.621
RB10096
Putative transposase; Best DB hits: BLAST: gb:AAC09305.1; (AF047044) putative transposase [Nostoc sp. PCC; E=2e-41 pir:A32816; hypothetical protein, 33K - Pseudomonas atlantica; E=7e-35 pir:B81886; probable transposase NMA1185 [imported] - Neisseria; E=1e-30 PFAM: PF01548; Transposase; E=2.2e-05 PF02371; Transposase IS116/IS110/IS902; E=1.3e-25.
      
 0.618
Your Current Organism:
Rhodopirellula baltica
NCBI taxonomy Id: 243090
Other names: Pirellula sp. 1, R. baltica SH 1, Rhodopirellula baltica SH 1, Rhodopirellula baltica str. SH 1, Rhodopirellula baltica strain SH 1
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