Table 3.

Molecular Function

Gene ontology term	Drosophila genesa	Apis assembled sequencesb	Drosophila genes representedc
All molecular function terms	6260	1958	1509
nucleic acid binding	1052	353	269
DNA binding	696	186	144
transcription factor	495	132	104
RNA binding	265	125	92
translation factor	72	40	32
transcription factor binding	37	18	12
cell-cycle regulator	17	6	6
chaperone	114	50	35
motor	74	31	22
microtubule binding	83	41	28
defense/immunity protein	46	8	6
enzyme	2916	949	752
GTPase	92	51	42
kinase	355	133	108
phosphatase	171	52	41
peptidase	491	110	93
enzyme activator	61	21	20
enzyme inhibitor	74	7	7
apoptosis activator	3	1	1
apoptosis inhibitor	10	3	3
signal transducer	677	193	141
receptor	443	107	70
ligand-dependent nuclear receptor	22	9	7
transmembrane receptor	400	79	55
G-protein coupled receptor	207	21	17
olfactory receptor	58	1	1
receptor signaling protein	161	76	61
ligand	71	9	9
cell adhesion	53	27	17
storage protein	7	0	0
structural protein	354	106	92
transporter	792	296	195
ion channel	141	72	46
voltage-gated ion channel	43	29	16
neurotransmitter transporter	13	14	6
ligand binding or carrier	1095	451	335
protein tagging	6	5	3
antioxidant	8	7	5

Classification is hierarchical: indented terms are children of parent terms listed above. 

Genes may be assigned to more than one term. Also note that child terms may have more than one parent term (e.g., “ligand-dependent nuclear receptor” is a child of both “receptor” and “transcription factor”) (see The Gene Ontology Consortium 2001). 

^aTotal number of Drosophila genes assigned to each Gene Ontology term (from databases listed in Table 8). 

^bNumber of Apis assembled sequences that match Drosophila genes assigned to each term in (a). Match means that the Drosophila gene was “best hit” for the Apis sequence (and e-value ≤10⁻⁵). 

^cNumber of different Drosophila genes matched by Apis sequences.