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Table 2 Summary of all co-distribution analyses. Abbreviations for species names: S6803, Synechocystis PCC 6803; Agrtu, Agrobacterium tumefaciens; Deira, Deinococcus radiodurans; Pseae, Pseudomonas aeruginosa. In cases where the results are given by two numbers separated by "/", the first number stands for the number of proteins that are listed among the first 100 of the co-distribution tables, while the second number stands for the total of all proteins in this organisms. The numbers in parentheses are the corresponding % values.

From: A computational approach to discovering the functions of bacterial phytochromes by analysis of homolog distributions

Query protein; species   global BLAST with E value of 0.000001 global BLAST with E value of 10
D1 (photosynthesis); S6803 number of proteins in analysis 3153 3166
  BLAST homologs in number of species 6 16
  Remarks 142 proteins have the same distribution as D1, for details see text see text
Agp1 (phytochrome 1); Agrtu number of proteins in analysis 5091 5096
  BLAST homologs in number of species 65 65
  co-distributed "two component sensors" 20/55 (20%/1.08%) 18/55 (18%/1.08%)
  co-distributed "two component response regulators" 8/48 (8%/0.94%) 7/48 (7%/0.94%)
  co-distributed "transcriptional regulators" 13/312 (13%/6.12%) 32/312 (32%/6.12%)
Agp2 (phytochrome 2); Agrtu number of proteins in analysis 5091 5096
  BLAST homologs in number of species 15 61
  co-distributed "two component sensors" 9/55 (9%/1.08%) 15/55 (15%/1.08%)
  co-distributed "two component response regulators" 1/48 (1%/0.94%) 12/48 (12%/0.94%)
  co-distributed "transcriptional regulators" 4/312(4%/6.12%) 15/312(15%/6.12%)
AgR (response regulator); Agrtu number of proteins in analysis 5091 5096
  BLAST homologs in number of species 19 72
  co-distributed "two component sensors" 20/55 (20/1.08) 24/55 (24/1.08)
  co-distributed "two component response regulators" 4/48 (4%/0.94%) 5/48 (7%/0.94%)
  co-distributed "transcriptional regulators" 1/312 (1%/6.12%) 10/312 (10%/6.12%)
ExsF (response regulator); Agrtu number of proteins in analysis 5091 5096
  BLAST homologs in number of species 7 10
  co-distributed "two component sensors" 6/55 (6/1.08) 13/55 (13/1.08)
  co-distributed "two component response regulators" 2/48 (2%/0.94%) 9/48 (13%/0.94%)
  co-distributed "transcriptional regulators" 5/312 (5%/6.12%) 37/312 (37%/6.12%)
Query protein; species   global BLAST with E value of 0.000001 global BLAST with E value of 10
ExsG (histidine kinase); Agrtu number of proteins in analysis 5091 5096
  BLAST homologs in number of species 17 80
  co-distributed "two component sensors" 10/55 (10/1.08) 20/55 (20/1.08)
  co-distributed "two component response regulators" 3/48 (3%/0.94%) 6/48 (6%/0.94%)
  co-distributed "transcriptional regulators" 5/312 (5%/6.12%) 22/312 (22%/6.12%)
BhpP (phytochrome); Deira number of proteins in analysis 3176 3182
  BLAST homologs in number of species 30 57
  co-distributed "histidine kinases" 13/19 (13%/0.60%) 12/19 (13%/0.60%)
  co-distributed "response regulators" 11/26(11%/0.82%) 6/26(6%/0.82%)
BhpP (phytochrome); Pseae number of proteins in analysis 5549 5566
  BLAST homologs in number of species 63 69
  co-distributed "two-component sensors" 20/51 (20%/0.92%) 24/51 (24%/0.92%)
  co-distributed "two-component response regulators" 19/56 (19%/1.01%) 16/56 (16%/1.01%)
Cph1 (phytochrome); S6803 number of proteins in analysis 3153 3166
  BLAST homologs in number of species 62 62
  co-distributed "histidine kinase" 15/28 (15%/0.80%) 13/28 (13%/0.80%)
  co-distributed "AraC/PatA/CheY/NarL/OmpR subfamily" 16/31 (16%/0.89%) 17/31 (17%/0.89%)
Rcp1 (response regulator); S6803 number of proteins in analysis 3153 3166
  BLAST homologs in number of species 21 62
  co-distributed "histidine kinase" 8/27 (8%/0.77%) 17/27 (17%/0.77%)
  co-distributed "AraC/PatA/CheY/NarL/OmpR subfamily" 1/31 (1%/0.89%) 22/31 (22%/0.89%)