Table 5

Example with Q88869_MIDDV

Rating

Symbol

UniProt

χ²

Common terms

Pfam

Organism

Local alignment

Hit length

Identity %

1

Q88869_MIDDV

Q88869

20080,7

54

No

Middelburg virus

37

100.0

2

O75901

O75901

19332,8

54

RA, RasGTP effectors

Homo sapiens

28

25.0

3

Pamci

O88869

17455,7

54

RA, RasGTP effectors

Rattus norvegicus

6

66.7

4

Tb09.244.2760

Q38CZ1

12733,8

44

-, Golgi dynamics

Trypanosoma brucei

36

27.8

5

Tb11.01.6880

Q381R2

12733,8

44

GP25L, Golgi dynamics

Trypanosoma brucei

44

22.7

6

TOM1_HUMAN

O60784

11529,8

35

VHS; membrane targeting

Homo sapiens

42

23.8

7

Vps28

Q9D1C8

11486,0

32

VPS28, Vacuolar protein sorting

Mus musculus

40

32.5

8

AT1G28490.1

Q946Y7

11360,8

32

SNARE, vesicular fusion

Arabidopsis thaliana

33

21.2

9

AT1G28490.2

11360,8

32

SNARE, vesicular fusion

Arabidopsisthaliana

21

23.8

10

AT5G16830

Q39233

11011,1

35

SNARE, vesicular fusion

Arabidopsis thaliana

27

29.6

11

AT5G46860.1

P93654

11011,1

35

SNARE, vesicular fusion

Arabidopsis thaliana

30

30.0

12

CG9308

Q9W2A6

11007,0

36

GP25L, Golgi dynamics

Drosophila melanogaster

14

28.6

13

AT5G26980.1

O65359

10926,6

34

SNARE, vesicular fusion

Arabidopsis thaliana

24

29.2

14

AT4G02195.1

Q9SWH4

10926,6

34

SNARE, vesicular fusion

Arabidopsis thaliana

24

33.3

15

AT5G26980.2

10926,6

34

SNARE, vesicular fusion

Arabidopsis thaliana

24

29.2

16

SPBC4F6.05c

O42707

10881,4

35

Lectin_leg-like

Schizosaccharomyces pombe

31

25.8

17

COPB_HUMAN

P53618

10873,7

39

No

Homo sapiens

23

30.4

18

VPS27

P40343

10803,4

33

VHS; membrane targeting

Saccharomyces cerevisiae

32

31.2

19

tlg1

Q9HGN3

10758,7

32

SNARE, vesicular fusion

Schizosaccharomyces pombe

38

18.4

20

ENT5

Q03769

10505,4

38

ENTH, membrane interacting

Saccharomyces cerevisiae

27

14.8

21

sft2

Q9P6K1

10398,2

33

SFT2, vesicular transport

Schizosaccharomyces pombe

11

36.4

22

Cope

O89079

10365,0

32

Coatomer_E, Golgi to ER transport

Mus musculus

29

27.6

23

Copb1

P23514

10363,2

37

Adaptin_N; coated vesicles

Rattus norvegicus

23

30.4

24

Tgoln2

Q4G0B6

10255,5

34

No

Rattus norvegicus

14

28.6

25

Vps26

P40336

10182,5

29

Vps26, Vacuolar protein sorting

Mus musculus

7

57.1

26

SPAC630.11

Q9UUH1

10182,0

30

Vps55, Vacuolar protein sorting

Schizosaccharomyces pombe

9

44.4

27

apl4

Q9UU81

10141,8

37

Adaptin_N; coated vesicles

Schizosaccharomyces pombe

17

35.3

28

apm1

Q9HFE5

10141,8

37

-, Clathrin coated vesicles

Schizosaccharomyces pombe

24

25

29

apl2

O43079

10141,8

37

Adaptin_N; coated vesicles

Schizosaccharomyces pombe

16

37.5

30

Q6DE70_XENLA

Q6DE70

10135,7

33

C2, Ca2+-dependent membrane-targeting

Xenopus laevis

8

50.0

The table contains the following information: The ranking of the potential functional analogues of Q88869_MIDDV according the χ² - value, the gene name and the UniProt accession number, the χ² - value, the number of common terms between a hit and Q88869_MIDDV, the Pfam name with short domain description the gene product belongs to, the organism the gene products is from, and the local alignment characteristics, such as hit length and the % identity of the hit, of the alignment between Q88869_MIDDV and the hit sequence.

Tulipano et al. BMC Bioinformatics 2007 8:329   doi:10.1186/1471-2105-8-329