match no.	target id	target length	alignment length	probability	E-value	coverage	match description
1	COG0531	466	340	99.8	3.1E-20	[     ---------------------------------------     ]	PotE	Amino acid transporter
2	TIGR00909	429	320	99.6	5E-15	[      --------------------------------------     ]	2A0306	amino acid transporter.
3	COG1757	485	377	99.4	4.4E-15	[      ----------------------------------------   ]	NhaC	Na+/H+ antiporter NhaC
4	pfam13520	425	284	99.3	1.3E-11	[      ---------------------------------          ]	AA_permease_2	Amino acid permease.
5	pfam00324	472	341	99.2	1.1E-11	[      --------------------------------------     ]	AA_permease	Amino acid permease.
6	TIGR00905	473	293	98.2	3.9E-07	[     ----------------------------------          ]	2A0302	transporter, basic amino acid/polyamine antiporter (APA) family. This family includes several families of antiporters that, rather commonly, are encoded next to decarboxylases that convert one of the antiporter substrates into the other. This arrangement allows a cycle that can remove proteins from the cytoplasm and thereby protect against acidic conditions.
7	COG1113	462	290	98.0	8.8E-06	[      -----------------------------------        ]	AnsP	L-asparagine transporter and related permeases
8	COG0833	541	334	97.2	0.00028	[     ---------------------------------------     ]	LysP	Amino acid permease
9	TIGR00911	501	350	97.0	0.015	[      -------------------------------------------]	2A0308	L-type amino acid transporter.
10	TIGR00906	557	307	96.8	0.0081	[      ------------------------------------       ]	2A0303	cationic amino acid transport permease.
11	TIGR00913	478	303	96.7	0.0078	[   ------------------------------------          ]	2A0310	amino acid permease (yeast).
12	TIGR00908	442	250	96.6	0.0012	[      -------------------------------            ]	2A0305	ethanolamine permease. The three genes used as the seed for this model (from Burkholderia pseudomallei, Pseudomonas aeruginosa and Clostridium acetobutylicum are all adjacent to genes for the catabolism of ethanolamine. Most if not all of the hits to this model have a similar arrangement of genes. This group is a member of the Amino Acid-Polyamine-Organocation (APC) Superfamily.
13	TIGR00931	454	274	96.5	0.0025	[     ------------------------------              ]	antiport_nhaC	Na+/H+ antiporter NhaC. A single member of the NhaC family, a protein from Bacillus firmus, has been functionally characterized.It is involved in pH homeostasis and sodium extrusion. Members of the NhaC family are found in both Gram-negative bacteria and Gram-positive bacteria. Intriguingly, archaeal homolog ArcD (just outside boundaries of family) has been identified as an arginine/ornithine antiporter.
14	TIGR03428	475	278	95.6	0.017	[      ---------------------------------          ]	ureacarb_perm	permease, urea carboxylase system. A number of bacteria obtain nitrogen by biotin- and ATP-dependent urea degradation system distinct from urease. The two characterized proteins of this system are the enzymes urea carboxylase and allophanate hydrolase, but other, uncharacterized proteins co-occur as genes encoded nearby in multiple organisms. This family includes predicted permeases of the amino acid permease family, likely to transport either urea or a compound from which urea is derived. It is found so far only Actinobacteria, whereas a number of other species with the urea carboxylase have an adjacent ABC transporter operon.
15	TIGR03810	468	261	95.4	0.016	[      ---------------------------------          ]	arg_ornith_anti	arginine-ornithine antiporter. Members of this protein family are the arginine/ornithine antiporter, ArcD. This exchanger of ornithine for arginine occurs in a system with arginine deiminase, ornithine carbamoyltransferase, and carbamate kinase, with together turn arginine to ornithine with the generation of ATP and release of CO2.
16	TIGR00907	482	325	94.4	0.11	[       --------------------------------------    ]	2A0304	amino acid permease (GABA permease).
17	PRK11357	445	265	88.8	0.89	[    --------------------------------             ]	frlA	putative fructoselysine transporter; Provisional
18	PRK10249	458	104	85.3	5.3	[                                ------------     ]	PRK10249	phenylalanine transporter; Provisional
19	PRK11021	410	256	78.2	7.4	[      ---------------------------------          ]	PRK11021	putative transporter; Provisional
20	TIGR04298	429	257	75.1	1.1	[      --------------------------------           ]	his_histam_anti	histidine-histamine antiporter. Members of this protein family are antiporters that exchange histidine with histamine, product of histidine decarboxylation. A system consisting of this protein, and a histidine decarboxylase encoded by an adjacent gene, creates decarboxylation/antiport proton-motive cycle that provides a transient resistance to acidic conditions.
21	PRK10238	456	303	68.4	15	[       ------------------------------------      ]	PRK10238	aromatic amino acid transporter; Provisional
22	pfam03553	302	132	67.9	5.1	[      --------------                             ]	Na_H_antiporter	Na+/H+ antiporter family. This family includes integral membrane proteins, some of which are NA+/H+ antiporters.
23	pfam03553	302	123	67.7	0.34	[                               -------------     ]	Na_H_antiporter	Na+/H+ antiporter family. This family includes integral membrane proteins, some of which are NA+/H+ antiporters.
24	TIGR01773	452	257	55.1	35	[      --------------------------------           ]	GABAperm	gamma-aminobutyrate permease. GABA permease (gabP) catalyzes the translocation of 4-aminobutyrate (GABA) across the plasma membrane, with homologues expressed in Gram-negative and Gram-positive organisms. This permease is a highly hydrophobic transmembrane protein consisting of 12 transmembrane domains with hydrophilic N- and C-terminal ends. Induced by nitrogen-limited culture conditions in both Escherichia coli and Bacillus subtilis, gabP is an energy dependent transport system stimulated by membrane potential and has been observed adjacent and distant from other GABA degradation proteins. GabP is highly homologous to amino acid permeases from B. subtilis, E. coli, as well as to other members of the amino acid permease family (pfam00324). A member of the APC (amine-polyamine-choline) transporter superfamily, GABA permease possesses a "consensus amphiphatic region" (CAR) found to be evolutionarily conserved within this transport family. This amphiphatic region is located between helix 8 and cytoplasmic loop 8-9, forming a potential channel domain and suggested to play a significant role in ligand recognition and translocation. Unique to GABA permeases, a conserved cysteine residue (CYS-300, E.coli) located at the beginning of the amphiphatic domain, has been determined to be critical for catalytic specificity.
25	PRK15049	499	122	43.1	21	[      --------------                             ]	PRK15049	L-asparagine permease; Provisional
26	PRK11049	469	306	43.0	8.6	[      -------------------------------------      ]	PRK11049	D-alanine/D-serine/glycine permease; Provisional
27	PRK10644	445	290	42.3	3E+02	[      -----------------------------------        ]	PRK10644	arginine:agmatin antiporter; Provisional
28	COG0814	415	178	37.5	3.2E+02	[ -----------------------                         ]	SdaC	Amino acid permease
29	PRK10655	438	164	34.5	55	[                   --------------------          ]	potE	putrescine transporter; Provisional
30	COG3117	188	40	30.4	27	[                     ----                        ]	YrbK	Lipopolysaccharide export system protein LptC
31	PRK10836	489	214	29.4	33	[           --------------------------            ]	PRK10836	lysine transporter; Provisional
32	pfam06724	73	25	23.1	1.1E+02	[                         --                      ]	DUF1206	Domain of Unknown Function (DUF1206). This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
33	pfam03845	320	145	20.4	1.1E+02	[    ----------------                             ]	Spore_permease	Spore germination protein.