Query psy11889
Match_columns 123
No_of_seqs 151 out of 1261
Neff 8.0
Searched_HMMs 46136
Date Fri Aug 16 21:30:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11889.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11889hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3713|consensus 99.8 6.3E-21 1.4E-25 150.2 6.2 85 3-87 369-453 (477)
2 KOG1419|consensus 99.8 1.2E-19 2.5E-24 144.6 4.9 77 4-80 262-338 (654)
3 PF07885 Ion_trans_2: Ion chan 99.7 2.2E-17 4.7E-22 102.6 7.8 59 7-65 20-78 (79)
4 KOG1545|consensus 99.6 2.4E-18 5.1E-23 132.0 -4.6 70 3-72 385-454 (507)
5 PLN03192 Voltage-dependent pot 99.6 5.6E-15 1.2E-19 124.9 6.5 61 10-70 249-309 (823)
6 KOG1418|consensus 99.5 5.9E-14 1.3E-18 108.7 7.5 67 6-72 110-176 (433)
7 KOG4390|consensus 99.5 9.5E-16 2.1E-20 119.0 -3.0 70 5-74 350-419 (632)
8 PRK10537 voltage-gated potassi 99.5 1E-13 2.2E-18 109.0 8.4 62 3-64 160-221 (393)
9 KOG4404|consensus 99.3 1E-12 2.2E-17 99.6 4.8 62 10-71 185-254 (350)
10 KOG0498|consensus 99.3 6.4E-12 1.4E-16 104.5 7.3 64 11-74 294-357 (727)
11 KOG4404|consensus 99.2 5.4E-12 1.2E-16 95.7 2.2 61 10-70 79-139 (350)
12 KOG0501|consensus 99.1 2E-10 4.3E-15 93.3 6.0 84 9-92 421-504 (971)
13 KOG3684|consensus 99.0 1.1E-09 2.4E-14 86.5 7.0 59 10-68 286-344 (489)
14 KOG1420|consensus 99.0 3.5E-10 7.5E-15 92.0 2.7 57 10-66 287-343 (1103)
15 KOG1418|consensus 98.7 6E-09 1.3E-13 80.7 1.9 50 10-59 241-298 (433)
16 PF01007 IRK: Inward rectifier 98.7 3.2E-08 7E-13 76.6 5.7 59 8-66 81-141 (336)
17 KOG3193|consensus 98.3 3.8E-07 8.2E-12 74.3 1.7 50 11-60 217-266 (1087)
18 PF00520 Ion_trans: Ion transp 98.1 4.5E-06 9.7E-11 57.9 3.8 56 5-60 139-200 (200)
19 KOG0500|consensus 97.9 2.3E-05 5E-10 62.9 5.6 61 12-73 184-244 (536)
20 KOG0499|consensus 97.4 0.00042 9E-09 57.3 5.6 57 10-67 402-458 (815)
21 KOG3827|consensus 96.7 0.0015 3.3E-08 51.2 3.5 60 8-67 109-170 (400)
22 PF00060 Lig_chan: Ligand-gate 95.9 0.011 2.3E-07 39.7 3.7 57 10-67 43-99 (148)
23 KOG1054|consensus 93.7 0.092 2E-06 43.9 3.9 55 11-66 595-649 (897)
24 KOG3676|consensus 91.1 1.4 3E-05 38.0 7.8 64 10-73 585-656 (782)
25 COG1226 Kch Kef-type K+ transp 84.7 0.72 1.6E-05 31.5 2.0 46 10-55 116-161 (212)
26 KOG1052|consensus 84.5 1.9 4.2E-05 36.1 4.8 57 9-66 379-435 (656)
27 TIGR00933 2a38 potassium uptak 83.9 0.91 2E-05 35.9 2.5 43 10-52 230-274 (390)
28 PRK05482 potassium-transportin 83.2 5.7 0.00012 33.2 6.8 51 6-56 446-498 (559)
29 KOG4440|consensus 82.6 1.2 2.7E-05 37.7 2.9 56 10-65 612-667 (993)
30 PF07077 DUF1345: Protein of u 82.3 5.6 0.00012 28.3 5.8 51 8-58 129-179 (180)
31 TIGR00870 trp transient-recept 80.6 12 0.00026 31.9 8.2 65 7-73 554-624 (743)
32 PF10011 DUF2254: Predicted me 80.0 20 0.00043 28.3 8.7 52 10-61 99-150 (371)
33 KOG1053|consensus 67.4 20 0.00044 32.0 6.2 51 11-65 609-663 (1258)
34 TIGR01710 typeII_sec_gspG gene 67.0 14 0.00031 24.6 4.4 27 41-67 3-29 (134)
35 COG2165 PulG Type II secretory 63.4 16 0.00035 23.7 4.1 33 39-71 8-40 (149)
36 KOG3533|consensus 63.1 28 0.00061 32.8 6.4 71 11-81 2502-2586(2706)
37 COG4325 Predicted membrane pro 62.6 83 0.0018 25.5 9.1 51 9-61 130-185 (464)
38 PF07787 DUF1625: Protein of u 61.5 13 0.00028 27.5 3.7 30 35-64 183-212 (248)
39 TIGR00933 2a38 potassium uptak 60.6 21 0.00045 28.2 4.9 47 10-56 127-179 (390)
40 PF07379 DUF1494: Protein of u 60.5 20 0.00044 25.2 4.2 31 39-69 3-33 (170)
41 PF06305 DUF1049: Protein of u 60.4 31 0.00067 19.9 5.8 9 53-61 30-38 (68)
42 PF02386 TrkH: Cation transpor 58.1 11 0.00024 29.3 2.9 51 10-60 52-108 (354)
43 PF00558 Vpu: Vpu protein; In 57.1 25 0.00054 21.9 3.8 22 65-86 27-48 (81)
44 PF11167 DUF2953: Protein of u 56.7 17 0.00036 20.2 2.8 23 24-49 1-23 (53)
45 KOG1608|consensus 53.1 1.1E+02 0.0024 24.0 9.2 16 19-34 265-280 (374)
46 PF02386 TrkH: Cation transpor 51.3 23 0.0005 27.5 3.7 39 12-50 295-339 (354)
47 PRK10750 potassium transporter 51.0 12 0.00025 30.8 2.1 47 10-56 303-351 (483)
48 TIGR01711 gspJ general secreti 45.9 54 0.0012 23.3 4.7 28 40-67 2-29 (192)
49 PRK10506 hypothetical protein; 45.6 51 0.0011 22.7 4.4 30 39-68 9-38 (162)
50 PF11087 DUF2881: Protein of u 45.0 20 0.00043 20.1 1.7 21 37-57 5-25 (54)
51 KOG2302|consensus 44.5 39 0.00085 30.9 4.3 64 7-70 1315-1394(1956)
52 PRK10750 potassium transporter 44.5 72 0.0016 26.2 5.7 49 10-58 205-258 (483)
53 PF09125 COX2-transmemb: Cytoc 44.4 49 0.0011 17.4 3.6 18 45-62 16-33 (38)
54 PRK07375 putative monovalent c 40.2 87 0.0019 20.4 4.6 31 34-64 67-97 (112)
55 COG0168 TrkG Trk-type K+ trans 38.0 48 0.001 27.4 3.8 41 11-51 424-472 (499)
56 PF07245 Phlebovirus_G2: Phleb 37.8 1.4E+02 0.0031 24.8 6.5 7 49-55 480-486 (507)
57 TIGR01708 typeII_sec_gspH gene 37.2 62 0.0013 21.5 3.7 28 39-66 4-31 (143)
58 PF08016 PKD_channel: Polycyst 36.8 1.6E+02 0.0035 23.4 6.5 42 6-47 361-404 (425)
59 PF09835 DUF2062: Uncharacteri 36.4 1.3E+02 0.0029 20.2 5.5 28 44-71 118-145 (154)
60 PF10958 DUF2759: Protein of u 35.3 21 0.00045 20.3 0.9 14 16-29 36-49 (52)
61 TIGR00934 2a38euk potassium up 34.7 47 0.001 29.2 3.3 39 11-49 737-784 (800)
62 PRK08389 putative monovalent c 34.5 1.3E+02 0.0029 19.6 5.0 32 34-65 68-99 (114)
63 PF02038 ATP1G1_PLM_MAT8: ATP1 34.5 62 0.0013 18.2 2.7 15 38-52 18-32 (50)
64 COG1615 Uncharacterized conser 34.3 51 0.0011 28.9 3.4 34 22-55 221-254 (885)
65 PF11391 DUF2798: Protein of u 34.3 93 0.002 17.7 3.9 21 20-40 14-34 (60)
66 KOG3012|consensus 34.0 1E+02 0.0022 23.1 4.5 47 19-65 90-137 (259)
67 PRK08808 general secretion pat 34.0 75 0.0016 23.2 3.9 31 38-68 6-36 (211)
68 COG4795 PulJ Type II secretory 33.9 1.3E+02 0.0027 21.8 5.0 31 40-70 8-38 (194)
69 PF02060 ISK_Channel: Slow vol 33.8 99 0.0021 20.9 4.1 18 41-58 47-64 (129)
70 PHA02513 V1 structural protein 33.4 74 0.0016 21.1 3.4 22 40-61 71-92 (135)
71 KOG4550|consensus 32.9 54 0.0012 27.0 3.2 30 26-55 539-576 (606)
72 PF04547 Anoctamin: Calcium-ac 32.4 1.6E+02 0.0035 23.5 5.9 58 14-74 9-73 (452)
73 TIGR01707 gspI general secreti 32.2 1.4E+02 0.003 19.0 5.1 27 41-67 2-28 (101)
74 PRK10574 putative major pilin 32.2 1.2E+02 0.0026 20.8 4.4 32 39-70 5-36 (146)
75 PF03579 SHP: Small hydrophobi 32.1 1.1E+02 0.0024 17.8 5.1 24 41-64 18-41 (64)
76 COG0168 TrkG Trk-type K+ trans 32.0 1.2E+02 0.0026 25.1 5.1 51 10-61 197-254 (499)
77 PRK10557 hypothetical protein; 31.6 1.1E+02 0.0024 21.8 4.4 28 39-66 7-34 (192)
78 PF06472 ABC_membrane_2: ABC t 31.4 1.3E+02 0.0028 22.5 4.9 38 10-55 152-189 (281)
79 PLN03223 Polycystin cation cha 31.2 1.8E+02 0.004 27.6 6.4 61 6-68 1356-1426(1634)
80 PRK08388 putative monovalent c 30.9 87 0.0019 20.7 3.5 30 36-65 75-104 (119)
81 KOG3643|consensus 30.6 2.9E+02 0.0063 22.8 6.9 31 27-57 291-321 (459)
82 PF15018 InaF-motif: TRP-inter 30.5 82 0.0018 16.7 2.7 24 38-61 5-28 (38)
83 PRK00523 hypothetical protein; 29.9 1.3E+02 0.0029 18.2 4.6 19 47-65 7-25 (72)
84 PF11359 gpUL132: Glycoprotein 29.8 74 0.0016 23.5 3.2 33 35-67 45-78 (235)
85 PRK01844 hypothetical protein; 29.3 1.4E+02 0.003 18.2 4.5 18 48-65 7-24 (72)
86 KOG4220|consensus 28.8 3.4E+02 0.0073 22.5 7.2 16 57-72 206-221 (503)
87 PF12046 DUF3529: Protein of u 28.7 88 0.0019 22.3 3.4 23 39-61 83-105 (173)
88 PF14163 SieB: Superinfection 28.6 1.9E+02 0.0041 19.5 5.6 9 56-64 47-55 (151)
89 PRK13718 conjugal transfer pro 28.6 1.5E+02 0.0033 18.4 4.3 15 33-47 36-50 (84)
90 COG4968 PilE Tfp pilus assembl 28.5 87 0.0019 21.5 3.2 35 39-73 6-40 (139)
91 PF09578 Spore_YabQ: Spore cor 28.5 35 0.00075 20.8 1.2 47 7-55 29-76 (80)
92 PF15048 OSTbeta: Organic solu 28.3 78 0.0017 21.3 2.9 6 30-35 31-36 (125)
93 COG1584 Predicted membrane pro 28.1 2.4E+02 0.0053 20.6 6.7 52 9-61 84-138 (207)
94 COG4792 EscU Type III secretor 27.1 1.7E+02 0.0037 23.0 4.9 11 19-29 164-174 (349)
95 COG4970 FimT Tfp pilus assembl 27.0 1.1E+02 0.0025 21.8 3.7 34 39-72 8-41 (181)
96 PF03988 DUF347: Repeat of Unk 26.3 1.2E+02 0.0027 17.0 3.2 19 16-34 3-23 (55)
97 PHA00739 V3 structural protein 26.2 69 0.0015 20.1 2.2 22 39-60 8-29 (92)
98 TIGR02596 Verrucomicrobium spi 25.8 1.6E+02 0.0035 21.3 4.4 15 46-60 6-20 (195)
99 PF03669 UPF0139: Uncharacteri 25.8 1.9E+02 0.0041 18.6 4.3 23 14-41 57-79 (103)
100 COG3817 Predicted membrane pro 25.7 1E+02 0.0023 23.6 3.4 30 9-39 30-59 (313)
101 PF15065 NCU-G1: Lysosomal tra 25.6 1.1E+02 0.0025 24.1 3.8 36 25-61 304-340 (350)
102 PF05624 LSR: Lipolysis stimul 25.1 32 0.0007 19.1 0.5 17 43-59 5-21 (49)
103 TIGR02893 spore_yabQ spore cor 25.0 2.2E+02 0.0048 19.1 5.9 58 9-68 39-97 (130)
104 PF07245 Phlebovirus_G2: Phleb 24.8 2.3E+02 0.005 23.6 5.6 32 36-67 462-493 (507)
105 PF04917 Shufflon_N: Bacterial 24.8 2.6E+02 0.0055 22.2 5.7 32 39-70 6-37 (356)
106 PF12650 DUF3784: Domain of un 24.6 52 0.0011 20.5 1.5 32 42-73 4-35 (97)
107 PF00959 Phage_lysozyme: Phage 24.3 41 0.00089 21.2 1.0 13 24-36 2-15 (110)
108 KOG1054|consensus 23.9 1.5E+02 0.0032 25.7 4.3 35 27-61 799-836 (897)
109 smart00786 SHR3_chaperone ER m 23.9 2.6E+02 0.0056 20.3 5.1 31 39-69 131-161 (196)
110 PRK12721 secretion system appa 23.9 57 0.0012 25.7 1.9 27 42-68 181-207 (349)
111 PRK09108 type III secretion sy 23.6 47 0.001 26.2 1.4 25 43-67 184-208 (353)
112 PRK12772 bifunctional flagella 23.6 56 0.0012 27.7 1.9 14 85-98 481-494 (609)
113 PF15330 SIT: SHP2-interacting 23.5 1.3E+02 0.0028 19.6 3.2 16 49-64 5-20 (107)
114 PF06166 DUF979: Protein of un 23.5 1.1E+02 0.0023 23.8 3.2 32 10-42 27-58 (308)
115 PF13140 DUF3980: Domain of un 23.5 1.9E+02 0.0041 17.8 4.5 27 36-62 57-83 (87)
116 PRK10417 nikC nickel transport 23.3 3E+02 0.0064 20.5 5.6 23 20-42 202-224 (272)
117 TIGR00328 flhB flagellar biosy 23.2 56 0.0012 25.7 1.7 27 42-68 181-207 (347)
118 PRK05702 flhB flagellar biosyn 23.2 49 0.0011 26.2 1.4 26 42-67 188-213 (359)
119 PF02932 Neur_chan_memb: Neuro 22.9 75 0.0016 21.2 2.2 20 28-47 44-63 (237)
120 PRK10714 undecaprenyl phosphat 22.9 3.5E+02 0.0076 20.6 6.2 29 40-70 271-299 (325)
121 PF11812 DUF3333: Domain of un 22.8 1.7E+02 0.0036 20.3 3.9 23 39-61 16-38 (155)
122 PF11803 UXS1_N: UDP-glucurona 22.8 1E+02 0.0022 18.9 2.4 22 45-66 19-40 (78)
123 TIGR00774 NhaB Na+/H+ antiport 22.6 2.4E+02 0.0053 23.6 5.2 21 13-34 432-452 (515)
124 PRK13109 flhB flagellar biosyn 22.6 62 0.0013 25.6 1.9 27 42-68 190-216 (358)
125 PF11100 TrbE: Conjugal transf 22.5 1.8E+02 0.0039 17.2 5.0 36 30-65 25-60 (66)
126 KOG3462|consensus 22.2 2.3E+02 0.0049 18.2 4.0 9 15-23 59-67 (105)
127 PF13623 SurA_N_2: SurA N-term 22.1 1.1E+02 0.0024 20.8 2.9 18 43-60 10-27 (145)
128 PF02175 7TM_GPCR_Srb: Serpent 21.9 3.5E+02 0.0076 20.3 5.6 30 32-61 162-191 (236)
129 PF11872 DUF3392: Protein of u 21.8 60 0.0013 21.2 1.4 11 21-31 58-68 (106)
130 PRK08156 type III secretion sy 21.5 56 0.0012 25.9 1.4 18 50-67 184-201 (361)
131 PF02656 DUF202: Domain of unk 21.3 1.8E+02 0.004 16.8 5.4 20 36-55 43-62 (73)
132 PRK12468 flhB flagellar biosyn 21.0 56 0.0012 26.1 1.3 13 54-66 200-212 (386)
133 PF07963 N_methyl: Prokaryotic 20.7 91 0.002 14.0 1.5 15 41-55 3-17 (20)
134 COG3167 PilO Tfp pilus assembl 20.7 46 0.00099 24.2 0.7 21 38-58 23-43 (211)
135 PF03904 DUF334: Domain of unk 20.5 3.7E+02 0.008 20.0 5.8 13 19-32 163-175 (230)
136 PF13150 DUF3989: Protein of u 20.1 2.1E+02 0.0046 17.8 3.6 9 39-47 27-35 (85)
137 CHL00066 psbH photosystem II p 20.1 2.2E+02 0.0048 17.3 3.5 8 27-34 29-36 (73)
138 COG2885 OmpA Outer membrane pr 20.1 42 0.0009 23.5 0.4 15 21-35 155-169 (190)
139 PF05753 TRAP_beta: Translocon 20.1 2E+02 0.0044 20.4 3.9 26 24-49 127-152 (181)
140 PF11773 PulG: Type II secreto 20.1 2.4E+02 0.0051 17.6 5.4 27 44-70 3-29 (82)
No 1
>KOG3713|consensus
Probab=99.83 E-value=6.3e-21 Score=150.20 Aligned_cols=85 Identities=56% Similarity=1.066 Sum_probs=76.5
Q ss_pred CCCCCCCCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhh
Q psy11889 3 ANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQARSKLPKKRR 82 (123)
Q Consensus 3 ~~~~~~f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~ 82 (123)
+.++++|+|.+.++||++||||||||||++|.|..||+++.+.++.|+.++|+++.+|.+.|...+++.+.+++..+.++
T Consensus 369 ~~~~~~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlAlPItiIv~nF~~~y~~~k~~~~~~~~~~ 448 (477)
T KOG3713|consen 369 DEPDTKFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLALPITIIVNNFSMYYSELKAREKAPKRRE 448 (477)
T ss_pred cCCCCCCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhhcchHhHhhhHHHHHHHHHHHHHhhhhhc
Confidence 34566799999999999999999999999999999999999999999999999999999999999999888877766666
Q ss_pred ccccc
Q psy11889 83 RVLPV 87 (123)
Q Consensus 83 ~~~~~ 87 (123)
.....
T Consensus 449 ~~~~~ 453 (477)
T KOG3713|consen 449 ALEPA 453 (477)
T ss_pred ccccc
Confidence 55544
No 2
>KOG1419|consensus
Probab=99.78 E-value=1.2e-19 Score=144.58 Aligned_cols=77 Identities=29% Similarity=0.658 Sum_probs=71.8
Q ss_pred CCCCCCCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhh
Q psy11889 4 NPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQARSKLPKK 80 (123)
Q Consensus 4 ~~~~~f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 80 (123)
.-+.+|.+|.||+||.++|+|||||||.+|.||.||+++..+.++|+..|++..+++++.|....++++++++..++
T Consensus 262 ~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFALPAGILGSGfALKVQeq~RQKHf~rr 338 (654)
T KOG1419|consen 262 GTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFALPAGILGSGFALKVQEQHRQKHFNRR 338 (654)
T ss_pred cccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhcccccccchhhhhhHHHHHHHHHHhh
Confidence 36789999999999999999999999999999999999999999999999999999999999999998887665554
No 3
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=99.73 E-value=2.2e-17 Score=102.60 Aligned_cols=59 Identities=36% Similarity=0.568 Sum_probs=52.1
Q ss_pred CCCCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 7 NDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFS 65 (123)
Q Consensus 7 ~~f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~ 65 (123)
+.-.+|.||+||+++|+|||||||++|.++.||+++++++++|++++++.++.+.+.+.
T Consensus 20 ~~~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 20 SEKWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp SSTTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 44689999999999999999999999999999999999999999999999998887764
No 4
>KOG1545|consensus
Probab=99.65 E-value=2.4e-18 Score=132.04 Aligned_cols=70 Identities=69% Similarity=1.169 Sum_probs=65.6
Q ss_pred CCCCCCCCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 3 ANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQ 72 (123)
Q Consensus 3 ~~~~~~f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~ 72 (123)
+++++.|++..|||||++||||||||||.+|.|..||++..++++.|+.-+|+.+.+|.+.|..++.++.
T Consensus 385 de~~S~F~SIPdaFWwavVTMTTVGYGDm~P~TvgGKIVGslCAiaGVLTiALPVPVIVsNFnyFYhrEt 454 (507)
T KOG1545|consen 385 DEPESHFSSIPDAFWWAVVTMTTVGYGDMVPVTVGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRET 454 (507)
T ss_pred CCCccCCCcCcccceEEEEEEEeeccccceecccCceehhhHHhhhhheEecccccEEEecccceeeccc
Confidence 5778999999999999999999999999999999999999999999999999999999999988875543
No 5
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=99.55 E-value=5.6e-15 Score=124.90 Aligned_cols=61 Identities=21% Similarity=0.271 Sum_probs=55.7
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSH 70 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~ 70 (123)
..|..|+||+++|+|||||||++|.|..|++++++++++|+++++++++.+.+.+....++
T Consensus 249 ~~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~~~~~ 309 (823)
T PLN03192 249 IRYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVEGTRR 309 (823)
T ss_pred HHHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4588899999999999999999999999999999999999999999999999877665443
No 6
>KOG1418|consensus
Probab=99.50 E-value=5.9e-14 Score=108.69 Aligned_cols=67 Identities=24% Similarity=0.377 Sum_probs=61.1
Q ss_pred CCCCCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 6 ENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQ 72 (123)
Q Consensus 6 ~~~f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~ 72 (123)
....++|.+|+||+++++||||||+++|.|..||+++++|+++|++++.++++.++..+........
T Consensus 110 ~~~~W~f~~al~fs~tv~TTIGYG~i~P~T~~Gr~~~i~YaliGIPl~li~l~~~g~~l~~~~~~~~ 176 (433)
T KOG1418|consen 110 DTQQWSFSSALLFSITVITTIGYGNIAPRTDAGRLFTILYALVGIPLMLLILADIGKFLADSLRKLY 176 (433)
T ss_pred CCcceecchhHhhhhheeeeccCCcccCCcCcchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445899999999999999999999999999999999999999999999999999998888776644
No 7
>KOG4390|consensus
Probab=99.49 E-value=9.5e-16 Score=119.00 Aligned_cols=70 Identities=59% Similarity=1.070 Sum_probs=64.9
Q ss_pred CCCCCCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 5 PENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQAR 74 (123)
Q Consensus 5 ~~~~f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~~~ 74 (123)
+...|++...||||++|||||+||||.+|.|.+||+|..++.+.|+.++++.+.+|.+.|.+.+.+.++.
T Consensus 350 ~at~FTsIPaaFWYTIVTmTTLGYGDMVp~TIaGKIfGsiCSLSGVLVIALPVPvIVSNFSRIYHQNQRA 419 (632)
T KOG4390|consen 350 SATKFTSIPAAFWYTIVTMTTLGYGDMVPSTIAGKIFGSICSLSGVLVIALPVPVIVSNFSRIYHQNQRA 419 (632)
T ss_pred cccccccCcHhHhhheeeeeeccccccchHHHHHHHhhhhhcccceEEEeccccEEEechhHHHhhhhhh
Confidence 4578999999999999999999999999999999999999999999999999999999999988665543
No 8
>PRK10537 voltage-gated potassium channel; Provisional
Probab=99.49 E-value=1e-13 Score=108.95 Aligned_cols=62 Identities=24% Similarity=0.452 Sum_probs=55.3
Q ss_pred CCCCCCCCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 3 ANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNF 64 (123)
Q Consensus 3 ~~~~~~f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~ 64 (123)
+..++.+.++.||+||+++|+|||||||++|.|..||+++++++++|++++++.++.+..-+
T Consensus 160 ~~f~~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 160 DGFSPPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred cccCcCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33456789999999999999999999999999999999999999999999999888776533
No 9
>KOG4404|consensus
Probab=99.34 E-value=1e-12 Score=99.60 Aligned_cols=62 Identities=23% Similarity=0.354 Sum_probs=54.4
Q ss_pred CchhhHHHHHhhhhhccccccccccC--------chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKT--------YVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHA 71 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t--------~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~ 71 (123)
|+|+||+|||++|+|||||||.++.. +..+.+.++++++|+++++.+++.+.-.+.....+.
T Consensus 185 Wsyfds~YyCFITltTIGFGDyValQ~~~alq~qplYv~~sf~fIL~Gl~vi~a~~NllvLrf~t~~~~~ 254 (350)
T KOG4404|consen 185 WSYFDSYYYCFITLTTIGFGDYVALQQDAALQSQPLYVFFSFVFILLGLCVIYALLNLLVLRFMTMNAED 254 (350)
T ss_pred cchhhhhheeeeeeeeccccchhhhcchhhhhCCCceehHhHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence 78999999999999999999999854 456789999999999999999999988777765543
No 10
>KOG0498|consensus
Probab=99.30 E-value=6.4e-12 Score=104.53 Aligned_cols=64 Identities=22% Similarity=0.362 Sum_probs=57.9
Q ss_pred chhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 11 SIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQAR 74 (123)
Q Consensus 11 s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~~~ 74 (123)
-|..|+||+++|+|||||||.+|.+..+++|++++|++|+.++|++++.+...+.....+..+.
T Consensus 294 kY~~aLyw~l~tLstvG~g~~~s~~~~E~iFsi~~mi~GllL~A~lIGNmt~~iqs~tsR~~~~ 357 (727)
T KOG0498|consen 294 KYVYALYWGLSTLSTVGYGLVHANNMGEKIFSIFIMLFGLLLFAYLIGNMTALLQSLTSRTEEM 357 (727)
T ss_pred HHHHHHHHHhhHhhhccCCccCCCCcHHHHHHHHHHHHhHHHHHHHHhhHHHhHHHHhHHHHHH
Confidence 5889999999999999999999999999999999999999999999999998887776654443
No 11
>KOG4404|consensus
Probab=99.20 E-value=5.4e-12 Score=95.74 Aligned_cols=61 Identities=23% Similarity=0.324 Sum_probs=56.5
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSH 70 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~ 70 (123)
+.|..||||+.+.+||||||..+|.|.+||+|+++|.++|+++..+++++++..+......
T Consensus 79 WkF~GaFYFa~TVItTIGyGhstP~T~~GK~Fcm~Yal~Gipl~lvmFqs~gERlnt~~ay 139 (350)
T KOG4404|consen 79 WKFAGAFYFATTVITTIGYGHSTPSTDGGKAFCMFYALVGIPLTLVMFQSIGERLNTFVAY 139 (350)
T ss_pred cccCcceEEEEEEEeeeccCCCCCCCcCceehhhhHHHhcCchHHHHHHHHHHHHHHHHHH
Confidence 6788999999999999999999999999999999999999999999999999888776543
No 12
>KOG0501|consensus
Probab=99.08 E-value=2e-10 Score=93.33 Aligned_cols=84 Identities=19% Similarity=0.291 Sum_probs=71.3
Q ss_pred CCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhcccccc
Q psy11889 9 FNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQARSKLPKKRRRVLPVE 88 (123)
Q Consensus 9 f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (123)
=+-|..|+||++++|||||||++.|.|..+|+|++.+|++|..+.+.+++-+...+.++.....++..+....++++++.
T Consensus 421 ~S~YissLYfTMt~mttvGFGNiA~~TD~EKiF~v~mMii~aLLYAtIFG~vTTI~QQM~s~T~rYHeMlnnVReFlKL~ 500 (971)
T KOG0501|consen 421 TSAYISSLYFTMTCMTTVGFGNIAPNTDNEKIFGVCMMIIGALLYATIFGHVTTIIQQMTSNTNRYHEMLNNVREFLKLY 500 (971)
T ss_pred cceehhhhhhhhhhhhcccccccCCCccHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 36689999999999999999999999999999999999999999999999999888888877777666666555555555
Q ss_pred CCCC
Q psy11889 89 QPRP 92 (123)
Q Consensus 89 ~~~~ 92 (123)
+..+
T Consensus 501 evPK 504 (971)
T KOG0501|consen 501 EVPK 504 (971)
T ss_pred hccH
Confidence 4443
No 13
>KOG3684|consensus
Probab=99.00 E-value=1.1e-09 Score=86.50 Aligned_cols=59 Identities=31% Similarity=0.493 Sum_probs=54.9
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFY 68 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~ 68 (123)
..|.+++|+..+|+.+|||||++|.|.+||.++++..++|.++.++++++|...+...-
T Consensus 286 ~~~~nsmWli~iTFlsiGYGDiVP~TycGr~v~l~tGivGa~~sallvAvisRKLeLt~ 344 (489)
T KOG3684|consen 286 INYLNSMWLIAITFLSIGYGDIVPNTYCGRGVALLTGIVGAGCSSLLVAVIARKLELTK 344 (489)
T ss_pred HHHHhhHHHHHHHHhhcccCcccCCccccchHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 56899999999999999999999999999999999999999999999999988776643
No 14
>KOG1420|consensus
Probab=98.95 E-value=3.5e-10 Score=91.97 Aligned_cols=57 Identities=32% Similarity=0.433 Sum_probs=52.0
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSR 66 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~ 66 (123)
-+|+++.||.+|||+||||||++..|.+||+|.+++++.|+++|+..+..|...+..
T Consensus 287 ltyw~cvyfl~vtmstvgygdvyc~t~lgrlfmvffil~glamfasyvpeiielign 343 (1103)
T KOG1420|consen 287 LTYWECVYFLMVTMSTVGYGDVYCKTTLGRLFMVFFILGGLAMFASYVPEIIELIGN 343 (1103)
T ss_pred chhhheeeeeEEEeeeccccceeehhhhhHHHHHHHHHHHHHHHHhhhHHHHHHHcc
Confidence 479999999999999999999999999999999999999999999988888765543
No 15
>KOG1418|consensus
Probab=98.70 E-value=6e-09 Score=80.73 Aligned_cols=50 Identities=28% Similarity=0.571 Sum_probs=45.5
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhH--------HHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGM--------FVGALCALAGVLTIALPVPV 59 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr--------~~~~~~~l~Gi~~~~~~i~~ 59 (123)
++|++|+||+++++|||||||++|.+..++ .+..+++++|..+++.....
T Consensus 241 w~f~~~~Yf~fisltTIG~GD~vp~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 298 (433)
T KOG1418|consen 241 WSFIEAFYFSFISLTTIGFGDIVPRTLLGRFRREELVDPLASVWILSGLALLALVLLG 298 (433)
T ss_pred eeeEeeeeEEEEEeeeecCCccccCCCcceeeccccccchhHHHHHhhhhHHHHHhhc
Confidence 889999999999999999999999999877 68889999999999997743
No 16
>PF01007 IRK: Inward rectifier potassium channel; InterPro: IPR013521 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Inwardly-rectifying potassium channels (Kir) are the principal class of two-TM domain potassium channels. They are characterised by the property of inward-rectification, which is described as the ability to allow large inward currents and smaller outward currents. Inwardly rectifying potassium channels (Kir) are responsible for regulating diverse processes including: cellular excitability, vascular tone, heart rate, renal salt flow, and insulin release []. To date, around twenty members of this superfamily have been cloned, which can be grouped into six families by sequence similarity, and these are designated Kir1.x-6.x [, ]. Cloned Kir channel cDNAs encode proteins of between ~370-500 residues, both N- and C-termini are thought to be cytoplasmic, and the N terminus lacks a signal sequence. Kir channel alpha subunits possess only 2TM domains linked with a P-domain. Thus, Kir channels share similarity with the fifth and sixth domains, and P-domain of the other families. It is thought that four Kir subunits assemble to form a tetrameric channel complex, which may be hetero- or homomeric [].; PDB: 3AT9_A 3AUW_D 3SYA_A 3ATE_A 3SYQ_A 3SYO_A 3ATB_A 3SYC_A 3AT8_A 3ATA_A ....
Probab=98.69 E-value=3.2e-08 Score=76.58 Aligned_cols=59 Identities=29% Similarity=0.505 Sum_probs=49.0
Q ss_pred CCCchhhHHHHHhhhhhcccccc--ccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 8 DFNSIPLGLWWALVTMTTVGYGD--MVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSR 66 (123)
Q Consensus 8 ~f~s~~~aly~~~vt~tTVGyGD--i~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~ 66 (123)
...+|.+||+|++-|+||||||. +.|..+.+-++..+-+++|+++.+++++++..++.+
T Consensus 81 ~~~~f~~aF~FSveT~tTIGYG~~~~~~~c~~a~~l~~~q~~~g~l~~a~~~Glvfar~sr 141 (336)
T PF01007_consen 81 NVNSFTSAFLFSVETQTTIGYGSRYPTPECPYAIFLVTIQSLVGLLLDAFMTGLVFARFSR 141 (336)
T ss_dssp T-TTHHHHHHHHHHHHTT---SSSEB-CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred cccchhhheeEEEEEEEEeccCCcccCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 45799999999999999999999 567888889999999999999999999998887764
No 17
>KOG3193|consensus
Probab=98.25 E-value=3.8e-07 Score=74.31 Aligned_cols=50 Identities=20% Similarity=0.388 Sum_probs=41.1
Q ss_pred chhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 11 SIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVI 60 (123)
Q Consensus 11 s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i 60 (123)
+.+.++||.++|++||||||.+|.-|+.++..++++.+.++++.--+--+
T Consensus 217 ~lf~s~y~v~vtfstvgygd~~pd~w~sql~~vi~icval~~ip~q~~~l 266 (1087)
T KOG3193|consen 217 DLFTSFYFVMVTFSTVGYGDWYPDYWASQLCVVILICVALGLIPKQLDEL 266 (1087)
T ss_pred eeeeeEEEEEEEEeeccccccccccchhhHHHHHHHHHHHhccHHHHHHH
Confidence 45689999999999999999999999999998888777766666544433
No 18
>PF00520 Ion_trans: Ion transport protein calcium channel signature potassium channel signature sodium channel signature; InterPro: IPR005821 This group of proteins is found in sodium, potassium, and calcium ion channels proteins. The proteins have 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some Na channels proteins the domain is repeated four times, whereas in others (e.g. K channels) the protein forms a tetramer in the membrane. A bacterial structure of the protein is known for the last two helices but is not included in the Pfam family due to it lacking the first four helices. ; GO: 0005216 ion channel activity, 0006811 ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 3VMX_B 1QG9_A 1UJL_A 2LE7_A 2LCM_A 3A2A_A 3RW0_A 4EKW_A 3RVY_B 3RVZ_B ....
Probab=98.06 E-value=4.5e-06 Score=57.95 Aligned_cols=56 Identities=27% Similarity=0.588 Sum_probs=46.9
Q ss_pred CCCCCCchhhHHHHHhhhhhcccccccccc-----CchhHHHH-HHHHHHHHHHHHHHHHHH
Q psy11889 5 PENDFNSIPLGLWWALVTMTTVGYGDMVPK-----TYVGMFVG-ALCALAGVLTIALPVPVI 60 (123)
Q Consensus 5 ~~~~f~s~~~aly~~~vt~tTVGyGDi~P~-----t~~gr~~~-~~~~l~Gi~~~~~~i~~i 60 (123)
....|++|..|+||.+.++|+.|+||..|. +..+.++. ++..+.++.+++++++++
T Consensus 139 ~~~~f~~~~~s~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~l~nlliavi 200 (200)
T PF00520_consen 139 GYENFDSFGESLYWLFQTMTGEGWGDVMPSCMSARSWLAVIFFISFIIIVSILLLNLLIAVI 200 (200)
T ss_dssp THHHHSSHHHHHHHHHHHHTTTTCCCCHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccccccccccccccccccCCccccccccccccchhHhHHhhhhhhhHHHHHHHHHHhcC
Confidence 346789999999999999999999999997 88888888 566666778888877754
No 19
>KOG0500|consensus
Probab=97.91 E-value=2.3e-05 Score=62.94 Aligned_cols=61 Identities=25% Similarity=0.285 Sum_probs=53.8
Q ss_pred hhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 12 IPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQA 73 (123)
Q Consensus 12 ~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~~ 73 (123)
|.-|+||+.-|+||+| --..|.|...-.|.++=.++|+.+||.+++.+++.+++....+..
T Consensus 184 Y~~S~YWStLTlTTiG-e~P~P~t~~ey~F~I~d~LiGvliFAtIvG~VGsmVtnmna~r~E 244 (536)
T KOG0500|consen 184 YLYSLYWSTLTLTTIG-EQPPPVTSSEYAFVIVDTLIGVLIFATIVGNVGSMVTNMNAARTE 244 (536)
T ss_pred HHHHHHHHhhhhhhcc-CCCCCCcCchhhHHHHHHHHHHHHHhhhhccHhHHHHhhhHHHHH
Confidence 7889999999999998 456899999999999999999999999999999988887654433
No 20
>KOG0499|consensus
Probab=97.35 E-value=0.00042 Score=57.26 Aligned_cols=57 Identities=21% Similarity=0.272 Sum_probs=50.5
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
+.|..++||++-|++||| |.-.|.|..+-+|-.+-.+.|+++|+++++-+-..+...
T Consensus 402 n~YiRCyyfa~kt~~tiG-~~P~P~~~~E~Vf~~~~w~mGVFvFslliGQmRDvi~aA 458 (815)
T KOG0499|consen 402 NEYIRCYYFAVKTLITIG-GLPEPQTLFEIVFQLLNWFMGVFVFSLLIGQMRDVIGAA 458 (815)
T ss_pred CceeeehhhHHHHHHHhc-CCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 678999999999999999 999999999988888888899999999998877665543
No 21
>KOG3827|consensus
Probab=96.75 E-value=0.0015 Score=51.23 Aligned_cols=60 Identities=25% Similarity=0.350 Sum_probs=50.7
Q ss_pred CCCchhhHHHHHhhhhhccccccccccC--chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 8 DFNSIPLGLWWALVTMTTVGYGDMVPKT--YVGMFVGALCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 8 ~f~s~~~aly~~~vt~tTVGyGDi~P~t--~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
..++|..||-|++=|-||||||--+++. +.+-++.++.+++|+++=+++++.+...+.+-
T Consensus 109 nV~sf~sAFLFSiETQtTIGYG~R~vTeeCP~aI~ll~~Q~I~g~ii~afm~G~i~aKiarP 170 (400)
T KOG3827|consen 109 NVHSFTSAFLFSIETQTTIGYGFRYVTEECPEAIFLLVLQSILGVIINAFMVGAIFAKIARP 170 (400)
T ss_pred eccchhhhheeeeeeeeeeeccccccCccChHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 4678999999999999999999998876 45566778888999999999998888777643
No 22
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=95.95 E-value=0.011 Score=39.66 Aligned_cols=57 Identities=18% Similarity=0.247 Sum_probs=43.0
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
.++.+++|+++.+++. +-++..|.+..+|++.++|.++.+.+.+...+.+.+.+..-
T Consensus 43 ~~~~~~~~~~~~~~~~-q~~~~~~~s~s~Ril~~~w~l~~lil~~~Yta~L~s~Lt~~ 99 (148)
T PF00060_consen 43 FSLSNSFWYTFGTLLQ-QGSSIRPRSWSGRILLAFWWLFSLILIASYTANLTSFLTVP 99 (148)
T ss_dssp HHHHHHHHHCCCCCHH-HHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred ccHHHHHHHHHHhhcc-ccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 4577899998888776 55789999999999999999999999999888888877644
No 23
>KOG1054|consensus
Probab=93.66 E-value=0.092 Score=43.94 Aligned_cols=55 Identities=20% Similarity=0.364 Sum_probs=47.8
Q ss_pred chhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 11 SIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSR 66 (123)
Q Consensus 11 s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~ 66 (123)
+.+++|||++-.+.--| -||.|.+.-||++...|-++-+++++.-.+.++..++.
T Consensus 595 gifNsLWFsLgAFMQQG-~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTv 649 (897)
T KOG1054|consen 595 GIFNSLWFSLGAFMQQG-CDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTV 649 (897)
T ss_pred hhhHHHHHHHHHHHhcC-CCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhH
Confidence 57799999999999988 69999999999999999999988888878777765543
No 24
>KOG3676|consensus
Probab=91.12 E-value=1.4 Score=37.95 Aligned_cols=64 Identities=14% Similarity=0.151 Sum_probs=43.3
Q ss_pred CchhhHHHHHhhhh--hcccccccccc--C---chhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTM--TTVGYGDMVPK--T---YVGMFVGALCA-LAGVLTIALPVPVIVSNFSRFYSHAQA 73 (123)
Q Consensus 10 ~s~~~aly~~~vt~--tTVGyGDi~P~--t---~~gr~~~~~~~-l~Gi~~~~~~i~~i~~~~~~~~~~~~~ 73 (123)
.+..|++.-.+.++ .||||||..-. + ..++++.++++ +.-+.++=++|+..++......++.+.
T Consensus 585 ~~~~ds~~~~~l~lf~ftig~~dl~~~~~~~~~~~~kilfv~y~ilv~ILllNMLIAMMg~Ty~~Va~~s~~ 656 (782)
T KOG3676|consen 585 CNPYDSFSTFLLTLFEFTIGMGDLEACENTDYPVLFKILFVAYMILVTILLLNMLIAMMGNTYETVAQESEK 656 (782)
T ss_pred CChhhHHHHHHHHHHHHhhhhhhhhhcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHHH
Confidence 34445555555555 79999999654 3 45676655554 467778888888888888877666533
No 25
>COG1226 Kch Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]
Probab=84.72 E-value=0.72 Score=31.52 Aligned_cols=46 Identities=30% Similarity=0.274 Sum_probs=35.3
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIAL 55 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~ 55 (123)
-...+..||...+++++||+++.|.+..+.......++.+......
T Consensus 116 ~~~~~~~~~~~~~l~~~G~~~vi~~~~~~~~~~~~~~~~~~~~~~~ 161 (212)
T COG1226 116 LARARDLDEAVETLTTVGADEVVPPTFESALLLARAALVGLGGDSV 161 (212)
T ss_pred EEEeccchHHHHHHHHcCCCeeecHHHHHHHHHHHHHhcccCCchh
Confidence 4566778898899999999999999888877776666655444444
No 26
>KOG1052|consensus
Probab=84.46 E-value=1.9 Score=36.07 Aligned_cols=57 Identities=14% Similarity=0.187 Sum_probs=46.9
Q ss_pred CCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 9 FNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSR 66 (123)
Q Consensus 9 f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~ 66 (123)
+.+...++|+++.++..-| ++..|.+..+|++..+|.++++.+.+...+.+.+.++.
T Consensus 379 ~~~~~~~~~~~~~~~~~q~-~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~ 435 (656)
T KOG1052|consen 379 LFSLLNCLWLTVGSLLQQG-SDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTV 435 (656)
T ss_pred EeecccchhhhhHHHhccC-CCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3445567888888888887 45999999999999999999999988888888776654
No 27
>TIGR00933 2a38 potassium uptake protein, TrkH family. The proteins of the Trk family are derived from Gram-negative and Gram-positive bacteria, yeast and wheat. The proteins of E. coli K12 TrkH and TrkG as well as several yeast proteins have been functionally characterized.The E. coli TrkH and TrkG proteins are complexed to two peripheral membrane proteins, TrkA, an NAD-binding protein, and TrkE, an ATP-binding protein. This complex forms the potassium uptake system.
Probab=83.92 E-value=0.91 Score=35.86 Aligned_cols=43 Identities=16% Similarity=0.281 Sum_probs=34.4
Q ss_pred CchhhHHHHHhhhhhccccc--cccccCchhHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYG--DMVPKTYVGMFVGALCALAGVLT 52 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyG--Di~P~t~~gr~~~~~~~l~Gi~~ 52 (123)
..+.+++++..++++|.||. |+.--++..+++.++.|++|-+.
T Consensus 230 ~~~~~~~f~~~s~~~T~Gfst~d~~~~~~~~~lll~~lMfIGg~~ 274 (390)
T TIGR00933 230 GALLLSAFFQSSTLRTAGFSTIDFAALPTATLVLLLLLMFIGGCS 274 (390)
T ss_pred HHHHHHHHHHHhhccCCCccccChhhcCHHHHHHHHHHHHHcCCC
Confidence 45788999999999999984 54555677889999888888554
No 28
>PRK05482 potassium-transporting ATPase subunit A; Provisional
Probab=83.17 E-value=5.7 Score=33.22 Aligned_cols=51 Identities=12% Similarity=0.094 Sum_probs=41.4
Q ss_pred CCCCCchhhHHHHHhhhhhccc--cccccccCchhHHHHHHHHHHHHHHHHHH
Q psy11889 6 ENDFNSIPLGLWWALVTMTTVG--YGDMVPKTYVGMFVGALCALAGVLTIALP 56 (123)
Q Consensus 6 ~~~f~s~~~aly~~~vt~tTVG--yGDi~P~t~~gr~~~~~~~l~Gi~~~~~~ 56 (123)
++....|.+.+|=....+.|+| +|++.+.|+.++++.++.|++|=...-.+
T Consensus 446 n~g~hgfseiLyE~~SA~~tnGss~gGLt~~t~~~niil~~~M~iGR~Gpit~ 498 (559)
T PRK05482 446 NPGPHGFSEVLYAYTSAAANNGSAFAGLGANTPFWNLTLGIAMLLGRFLPIIP 498 (559)
T ss_pred CCCCCCHHHHHHHHHhhccccccccccCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4445688899998899999999 56789999999999999999886544443
No 29
>KOG4440|consensus
Probab=82.65 E-value=1.2 Score=37.74 Aligned_cols=56 Identities=13% Similarity=0.320 Sum_probs=47.5
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFS 65 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~ 65 (123)
-++..|+||+.-.+..-|-|.-+|.+.-.|++.++|+-+.+++.|...+.++..+.
T Consensus 612 lnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLV 667 (993)
T KOG4440|consen 612 LNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLV 667 (993)
T ss_pred cchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhhee
Confidence 45678999999999999999999999999999999988888887777777765543
No 30
>PF07077 DUF1345: Protein of unknown function (DUF1345); InterPro: IPR009781 This family consists of several hypothetical bacterial proteins of around 230 residues in length. The function of this family is unknown.
Probab=82.33 E-value=5.6 Score=28.31 Aligned_cols=51 Identities=10% Similarity=-0.123 Sum_probs=41.1
Q ss_pred CCCchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHH
Q psy11889 8 DFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVP 58 (123)
Q Consensus 8 ~f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~ 58 (123)
+-.+|.|=+||+++.=+|-.=.|..+.+..-|-+...-.+++..+-+.+++
T Consensus 129 ~~P~y~DFlYfsftiG~t~q~SDv~v~s~~~Rr~vl~hsllSF~Fnt~ilA 179 (180)
T PF07077_consen 129 WEPDYWDFLYFSFTIGMTFQTSDVNVTSRRMRRLVLLHSLLSFFFNTVILA 179 (180)
T ss_pred CCCCchhhhHHHHHHHhhccccCCCcCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345778999999999999888999999998898888887777666555443
No 31
>TIGR00870 trp transient-receptor-potential calcium channel protein. after chronic exposure to capsaicin. (McCleskey and Gold, 1999).
Probab=80.64 E-value=12 Score=31.86 Aligned_cols=65 Identities=12% Similarity=0.277 Sum_probs=37.7
Q ss_pred CCCCchhhHHHHHhhhhhccccccccc-----cCchhHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 7 NDFNSIPLGLWWALVTMTTVGYGDMVP-----KTYVGMFVGALCAL-AGVLTIALPVPVIVSNFSRFYSHAQA 73 (123)
Q Consensus 7 ~~f~s~~~aly~~~vt~tTVGyGDi~P-----~t~~gr~~~~~~~l-~Gi~~~~~~i~~i~~~~~~~~~~~~~ 73 (123)
..|.++..++.-.+.+ ++|.+|... ..+.|.++.++|++ .-+.++=++++++.+.+.....+.+.
T Consensus 554 ~~f~~~~~s~~~lf~~--~~G~~~~~~~~~~~~~~~~~il~~~y~~i~~ilLlNlLIAmm~~t~~~v~~~~~~ 624 (743)
T TIGR00870 554 NAYSTLFETSQELFWA--IIGLGDLLANEHKFTEFVGLLLFGAYNVIMYILLLNMLIAMMGNTYQLIADDADE 624 (743)
T ss_pred ccccCHHHHHHHHHHH--HcCCcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhHH
Confidence 4566676666544433 477777622 23456665555544 45666667777777777766544333
No 32
>PF10011 DUF2254: Predicted membrane protein (DUF2254); InterPro: IPR018723 Members of this family of proteins comprises various hypothetical and putative membrane proteins. Their exact function, has not, as yet, been defined.
Probab=80.03 E-value=20 Score=28.28 Aligned_cols=52 Identities=13% Similarity=0.220 Sum_probs=31.2
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
..|..+|=|+++.+.+++-++.......+-.+++++.++.++.+-+.+.-+.
T Consensus 99 g~Figtfvy~l~~l~~i~~~~~~~~p~~~~~~a~~l~i~~v~~li~fI~~i~ 150 (371)
T PF10011_consen 99 GTFIGTFVYSLLVLIAIRSGDYGSVPRLSVFIALALAILSVVLLIYFIHHIA 150 (371)
T ss_pred HHHHHHHHHHHHHHHHccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577888899999988886665333333334444555555555555444443
No 33
>KOG1053|consensus
Probab=67.42 E-value=20 Score=32.04 Aligned_cols=51 Identities=16% Similarity=0.249 Sum_probs=40.0
Q ss_pred chhhHHHHHhhhhhccccccccc----cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 11 SIPLGLWWALVTMTTVGYGDMVP----KTYVGMFVGALCALAGVLTIALPVPVIVSNFS 65 (123)
Q Consensus 11 s~~~aly~~~vt~tTVGyGDi~P----~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~ 65 (123)
++.-|+|.+...+ |+..+| +.+.+|++..+|+++++++++.-.+.++..+.
T Consensus 609 tigkaiwllwaLv----FnnsVpv~nPKgtTskiMv~VWAfFavifLAsYTANLAAfMI 663 (1258)
T KOG1053|consen 609 TIGKAIWLLWALV----FNNSVPVENPKGTTSKIMVLVWAFFAVIFLASYTANLAAFMI 663 (1258)
T ss_pred ehhhHHHHHHHHH----hCCCcCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5778888554443 567665 56678999999999999999998888887665
No 34
>TIGR01710 typeII_sec_gspG general secretion pathway protein G. This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=66.99 E-value=14 Score=24.63 Aligned_cols=27 Identities=7% Similarity=0.108 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 41 VGALCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 41 ~~~~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
|+.+-+++-+++++++++++.-.+...
T Consensus 3 FTLiEllivlaIigil~~i~~p~~~~~ 29 (134)
T TIGR01710 3 FTLLEIMVVLVILGLLAALVAPKLFSQ 29 (134)
T ss_pred eeHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555556666666666665555444443
No 35
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=63.42 E-value=16 Score=23.65 Aligned_cols=33 Identities=9% Similarity=0.013 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSRFYSHA 71 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~ 71 (123)
|.|+.+-+++.+++++++.+.+.-.+.....+.
T Consensus 8 rGFTLiElLVvl~Iigil~~~~~p~~~~~~~~~ 40 (149)
T COG2165 8 RGFTLIELLVVLAIIGILAALALPSLQGSIDKA 40 (149)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence 567888888888888888887776666654443
No 36
>KOG3533|consensus
Probab=63.05 E-value=28 Score=32.76 Aligned_cols=71 Identities=20% Similarity=0.267 Sum_probs=45.1
Q ss_pred chhhHHHHHhhhhhccc------cccc--cccCchh----HHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy11889 11 SIPLGLWWALVTMTTVG------YGDM--VPKTYVG----MFV--GALCALAGVLTIALPVPVIVSNFSRFYSHAQARSK 76 (123)
Q Consensus 11 s~~~aly~~~vt~tTVG------yGDi--~P~t~~g----r~~--~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~~~~~ 76 (123)
.--+.+|+|++|...-| -||+ .|..+-+ |++ ..++.++-++++-+++++|...|..+.++.++.+.
T Consensus 2502 rsCdtLlMCIvt~lnqGLRnGGGiGDvLR~Psk~E~lF~aRV~YDllFffivIiIVLNLIFGVIIDTFaDLRsEKqkKEe 2581 (2706)
T KOG3533|consen 2502 RSCETLLMCIVTTLNQGLRNGGGIGDVLRNPSKWEDLFIARVAYDLLFFFIVIIIVLNLIFGVIIDTFADLRSEKQKKEE 2581 (2706)
T ss_pred hhhhHHHHHHHHHHhhhcccCCChhhhhcCCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhhhhHHHH
Confidence 34578999998875544 3676 4555433 332 12333445667778889999999988877666655
Q ss_pred chhhh
Q psy11889 77 LPKKR 81 (123)
Q Consensus 77 ~~~~~ 81 (123)
..+..
T Consensus 2582 ILKtt 2586 (2706)
T KOG3533|consen 2582 ILKTT 2586 (2706)
T ss_pred HHhcc
Confidence 44443
No 37
>COG4325 Predicted membrane protein [Function unknown]
Probab=62.60 E-value=83 Score=25.54 Aligned_cols=51 Identities=20% Similarity=0.290 Sum_probs=30.7
Q ss_pred CCchhhHHHHHhhhhhccc-----cccccccCchhHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 9 FNSIPLGLWWALVTMTTVG-----YGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 9 f~s~~~aly~~~vt~tTVG-----yGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
...|.-+|-|++..++||| ||.+.|.-. -.+++++.++.++.+-+++.-+.
T Consensus 130 La~FlctFvysl~vlrtvg~e~d~~g~FIp~~a--vtv~lLlaiisig~~iyfl~~l~ 185 (464)
T COG4325 130 LAIFLCTFVYSLGVLRTVGEERDGQGAFIPKVA--VTVSLLLAIISIGALIYFLHHLM 185 (464)
T ss_pred HHHHHHHHHHHHHHHHHhhhccCccccceehHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 4568888999999999997 345555432 23344444444444445444333
No 38
>PF07787 DUF1625: Protein of unknown function (DUF1625); InterPro: IPR012430 Sequences making up this family are derived from hypothetical proteins expressed by both prokaryotic and eukaryotic species. The region in question is approximately 250 residues long.
Probab=61.54 E-value=13 Score=27.50 Aligned_cols=30 Identities=23% Similarity=0.400 Sum_probs=23.4
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 35 TYVGMFVGALCALAGVLTIALPVPVIVSNF 64 (123)
Q Consensus 35 t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~ 64 (123)
||.-|+++++++++|+.++.-++..+.+.+
T Consensus 183 tW~lR~~G~llmf~G~~~~~~~l~~l~~~~ 212 (248)
T PF07787_consen 183 TWILRFIGWLLMFIGFFLLFSPLYTLVDWI 212 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 567788899999999888888777765544
No 39
>TIGR00933 2a38 potassium uptake protein, TrkH family. The proteins of the Trk family are derived from Gram-negative and Gram-positive bacteria, yeast and wheat. The proteins of E. coli K12 TrkH and TrkG as well as several yeast proteins have been functionally characterized.The E. coli TrkH and TrkG proteins are complexed to two peripheral membrane proteins, TrkA, an NAD-binding protein, and TrkE, an ATP-binding protein. This complex forms the potassium uptake system.
Probab=60.59 E-value=21 Score=28.19 Aligned_cols=47 Identities=11% Similarity=0.111 Sum_probs=32.2
Q ss_pred CchhhHHHHHhhhhhccccccccc------cCchhHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVP------KTYVGMFVGALCALAGVLTIALP 56 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P------~t~~gr~~~~~~~l~Gi~~~~~~ 56 (123)
.+++||++.++.+++|-||.-.-. .++...++.++++++|-.-+...
T Consensus 127 ~~~~~Aif~avSa~~taGFs~~~~~~~~~~~~~~i~~v~~~lm~iGg~gF~v~ 179 (390)
T TIGR00933 127 MPLFDAIFHSISAFNNGGFSTHSDSSIGYFHDPSVNLVIAFLIILGGLGFTVH 179 (390)
T ss_pred hHHHHHHHHHHHHHhcCCcCCCCCcchhhccChHHHHHHHHHHHHHhcCHHHH
Confidence 578999999999999999743322 23335666777777765555553
No 40
>PF07379 DUF1494: Protein of unknown function (DUF1494); InterPro: IPR009968 This family consists of several bacterial proteins of around 175 residues in length. Members of this family seem to be found exclusively in Chlamydia species. The function of this family is unknown.
Probab=60.54 E-value=20 Score=25.19 Aligned_cols=31 Identities=16% Similarity=0.079 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSRFYS 69 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~ 69 (123)
|-|..+-.++.+.++++++++++-++.+.+.
T Consensus 3 R~FlL~EllIs~tL~alLlgvLg~w~R~~~~ 33 (170)
T PF07379_consen 3 RPFLLMELLISMTLIALLLGVLGFWYREMFC 33 (170)
T ss_pred cceeHHHHHHHHHHHHHHHHhhhHHHHHhhh
Confidence 4466777889999999999999988877653
No 41
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=60.36 E-value=31 Score=19.86 Aligned_cols=9 Identities=0% Similarity=0.076 Sum_probs=3.4
Q ss_pred HHHHHHHHH
Q psy11889 53 IALPVPVIV 61 (123)
Q Consensus 53 ~~~~i~~i~ 61 (123)
++.+++.+.
T Consensus 30 ~G~llg~l~ 38 (68)
T PF06305_consen 30 LGALLGWLL 38 (68)
T ss_pred HHHHHHHHH
Confidence 333333333
No 42
>PF02386 TrkH: Cation transport protein; InterPro: IPR003445 This family consists of various potassium transport proteins (Trk) and V-type sodium ATP synthase subunit J or translocating ATPase J (3.6.1.34 from EC). These proteins are involved in active sodium up-take utilizing ATP in the process. TrkH from Escherichia coli is a hydrophobic membrane protein and determines the specificity and kinetics of cation transport by the TrK system in this organism []. This protein interacts with TrkA and requires TrkE for transport activity.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport; PDB: 3PJZ_A.
Probab=58.14 E-value=11 Score=29.29 Aligned_cols=51 Identities=12% Similarity=0.185 Sum_probs=30.0
Q ss_pred CchhhHHHHHhhhhhcccccc----ccccC--chhHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGD----MVPKT--YVGMFVGALCALAGVLTIALPVPVI 60 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGD----i~P~t--~~gr~~~~~~~l~Gi~~~~~~i~~i 60 (123)
.++++|++.++.+++|-||.- +.|.. +.-.++.++++++|-.-+.+....+
T Consensus 52 ~~~~~aifhs~Sa~~t~GFs~~~~sl~~f~~~~~i~~i~~~lmi~Gg~~F~~~~~~~ 108 (354)
T PF02386_consen 52 MPLFDAIFHSMSAFSTGGFSPFSDSLAPFNSNPFIEIIIIILMILGGLGFPLYYRIL 108 (354)
T ss_dssp --SHHHHTTTHHHHTT----SSTTGGGSS---TTHHHHHHHHHHHHTS-HHHHHHHT
T ss_pred CcHHHHHHHHHHHHhcCCceecCCceecccccHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence 457899999999999999822 23333 3557777777777766666644444
No 43
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=57.14 E-value=25 Score=21.88 Aligned_cols=22 Identities=14% Similarity=0.159 Sum_probs=4.4
Q ss_pred HHHHHHHHHHHhchhhhhcccc
Q psy11889 65 SRFYSHAQARSKLPKKRRRVLP 86 (123)
Q Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~ 86 (123)
...+++.+++++..+..++..+
T Consensus 27 ~ieYrk~~rqrkId~li~RIre 48 (81)
T PF00558_consen 27 YIEYRKIKRQRKIDRLIERIRE 48 (81)
T ss_dssp ------------CHHHHHHHHC
T ss_pred HHHHHHHHHHHhHHHHHHHHHc
Confidence 3344555555444444444333
No 44
>PF11167 DUF2953: Protein of unknown function (DUF2953); InterPro: IPR021338 This family of proteins has no known function.
Probab=56.71 E-value=17 Score=20.22 Aligned_cols=23 Identities=43% Similarity=0.759 Sum_probs=14.2
Q ss_pred hccccccccccCchhHHHHHHHHHHH
Q psy11889 24 TTVGYGDMVPKTYVGMFVGALCALAG 49 (123)
Q Consensus 24 tTVGyGDi~P~t~~gr~~~~~~~l~G 49 (123)
+++|.||.. .-|.+..++|++.|
T Consensus 1 ~~~G~~Daa---~Tgi~~G~l~~~~~ 23 (53)
T PF11167_consen 1 TTIGLGDAA---DTGILYGLLWAIKG 23 (53)
T ss_pred CeeeccCHH---HHHHHHHHHHHHHH
Confidence 467888866 44566666665544
No 45
>KOG1608|consensus
Probab=53.12 E-value=1.1e+02 Score=23.98 Aligned_cols=16 Identities=25% Similarity=0.486 Sum_probs=11.5
Q ss_pred Hhhhhhcccccccccc
Q psy11889 19 ALVTMTTVGYGDMVPK 34 (123)
Q Consensus 19 ~~vt~tTVGyGDi~P~ 34 (123)
.++.+.|+|||=-...
T Consensus 265 liiaVlt~gfgla~~e 280 (374)
T KOG1608|consen 265 LIIAVLTVGFGLAGAE 280 (374)
T ss_pred HHHHHHHHHhhhcccc
Confidence 4667889999865543
No 46
>PF02386 TrkH: Cation transport protein; InterPro: IPR003445 This family consists of various potassium transport proteins (Trk) and V-type sodium ATP synthase subunit J or translocating ATPase J (3.6.1.34 from EC). These proteins are involved in active sodium up-take utilizing ATP in the process. TrkH from Escherichia coli is a hydrophobic membrane protein and determines the specificity and kinetics of cation transport by the TrK system in this organism []. This protein interacts with TrkA and requires TrkE for transport activity.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport; PDB: 3PJZ_A.
Probab=51.26 E-value=23 Score=27.48 Aligned_cols=39 Identities=23% Similarity=0.277 Sum_probs=26.5
Q ss_pred hhhHHHHHhhhhhcccc--ccccc-cCch---hHHHHHHHHHHHH
Q psy11889 12 IPLGLWWALVTMTTVGY--GDMVP-KTYV---GMFVGALCALAGV 50 (123)
Q Consensus 12 ~~~aly~~~vt~tTVGy--GDi~P-~t~~---gr~~~~~~~l~Gi 50 (123)
+.++++=++..+.|||. |...| .+.. +|++.++.|++|=
T Consensus 295 ~~~~lfe~~Sa~gtvGls~G~~~~~~s~~~~~~K~vli~~M~~GR 339 (354)
T PF02386_consen 295 FFDALFEVISAFGTVGLSLGITTPNLSFSGPFSKLVLIFLMLLGR 339 (354)
T ss_dssp -HHHHHHHHHHCTT--S--SSS----SSS-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCcCCCCCCCCCCccchhhHHHHHHHHHHHHhC
Confidence 68899889999999986 44222 3444 9999999999874
No 47
>PRK10750 potassium transporter; Provisional
Probab=50.95 E-value=12 Score=30.76 Aligned_cols=47 Identities=11% Similarity=0.038 Sum_probs=29.5
Q ss_pred CchhhHHHHHhhhhhccccc--cccccCchhHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYG--DMVPKTYVGMFVGALCALAGVLTIALP 56 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyG--Di~P~t~~gr~~~~~~~l~Gi~~~~~~ 56 (123)
..+.++++-++..+||.||. |+.--+...+++.++.|++|-+.-+..
T Consensus 303 ~~l~~s~Fq~vS~~tTtGF~t~d~~~w~~~~~~ll~~lMfIGG~~GSTa 351 (483)
T PRK10750 303 MTLNQAFFQVVSMATTAGFTTDSIARWPLFLPVLLLCSAFIGGCAGSTG 351 (483)
T ss_pred HHHHHHHHeeeecccCCCCCCCChhhccHHHHHHHHHHHHHcCCcccCc
Confidence 34555665555557999995 333344556777788888776554443
No 48
>TIGR01711 gspJ general secretion pathway protein J. Both GspI and GspJ are proteins of the type II secretion pathway, or main terminal branch of the general secretion pathway. This pathway carries proteins across the outer membrane. Note that proteins of type II secretion are cryptic in E. coli K-12 - present but not yet demonstrated to act on any target.
Probab=45.87 E-value=54 Score=23.30 Aligned_cols=28 Identities=11% Similarity=-0.126 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 40 FVGALCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 40 ~~~~~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
.|+.+-+++.+++++++.......+...
T Consensus 2 GFTLiEllval~I~ail~~~~~~~~~~~ 29 (192)
T TIGR01711 2 GFTLLELLVAIAIFASLSLGAYQVLDSV 29 (192)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566666777777777666655555443
No 49
>PRK10506 hypothetical protein; Provisional
Probab=45.57 E-value=51 Score=22.70 Aligned_cols=30 Identities=7% Similarity=-0.037 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSRFY 68 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~ 68 (123)
+.|+.+-+++.+.++++++++..-.+....
T Consensus 9 ~GFTLiEllvvl~Ii~il~~~a~p~~~~~~ 38 (162)
T PRK10506 9 RGYTLIELLVVMTIVSILSAWGLYGWQRWQ 38 (162)
T ss_pred CCeeHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777777777777777776665555543
No 50
>PF11087 DUF2881: Protein of unknown function (DUF2881); InterPro: IPR020085 This entry represents the DNA delivery proteins P32 and P34 that are found in the virion membrane. It is responsible for DNA delivery and viral infectivity []. It is also required for DNA injection in the membrane transformation event. In Enterobacteria phage PRD1 virions, which are composed of a tail-less icosahedral capsid, an inner protein-lipid membrane, and a dsDNA genome which is located inside the lipid vesicle; the DNA is packaged into a preformed procapsid. The internal membrane plays an active role in DNA delivery to the host cell by forming a tubular structure used for injecting the DNA into the host cytoplasm.
Probab=45.00 E-value=20 Score=20.05 Aligned_cols=21 Identities=33% Similarity=0.398 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q psy11889 37 VGMFVGALCALAGVLTIALPV 57 (123)
Q Consensus 37 ~gr~~~~~~~l~Gi~~~~~~i 57 (123)
.+-+++++.+++|+++++.++
T Consensus 5 ~~~~iti~taiigvai~av~v 25 (54)
T PF11087_consen 5 VKPIITIVTAIIGVAIIAVIV 25 (54)
T ss_pred cchHHHHHHHHHHHHHHhhee
Confidence 466788999999999888754
No 51
>KOG2302|consensus
Probab=44.54 E-value=39 Score=30.93 Aligned_cols=64 Identities=19% Similarity=0.287 Sum_probs=32.5
Q ss_pred CCCCchhhHHHHHhhhhhccccc------------cccccC---ch-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 7 NDFNSIPLGLWWALVTMTTVGYG------------DMVPKT---YV-GMFVGALCALAGVLTIALPVPVIVSNFSRFYSH 70 (123)
Q Consensus 7 ~~f~s~~~aly~~~vt~tTVGyG------------Di~P~t---~~-gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~ 70 (123)
.+|.+...|+.=-++-.|-=|.- |+.|.. ++ =-.|.+++.++...++.++++++...|..-.++
T Consensus 1315 yNfdnlgqalmSLFvLaSkDgWv~ImyDgldavavdqqPI~nhnpwmllYfIsfllIvsffVlnmfVgvvvenfhKcrqh 1394 (1956)
T KOG2302|consen 1315 YNFDNLGQALMSLFVLASKDGWVNIMYDGLDAVAVDQQPILNHNPWMLLYFISFLLIVSFFVLNMFVGVVVENFHKCRQH 1394 (1956)
T ss_pred cccchHHHHHHHHHHHhcccchhhhhccchhhceeeeeccccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34666666664444444333433 334543 22 123444555566666667677666665554333
No 52
>PRK10750 potassium transporter; Provisional
Probab=44.50 E-value=72 Score=26.23 Aligned_cols=49 Identities=10% Similarity=-0.008 Sum_probs=30.5
Q ss_pred CchhhHHHHHhhhhhcccccc---ccc--cCchhHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGD---MVP--KTYVGMFVGALCALAGVLTIALPVP 58 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGD---i~P--~t~~gr~~~~~~~l~Gi~~~~~~i~ 58 (123)
.+++||+..++.+++|=||.- -.+ .++.-.+++++++++|-.-+.+...
T Consensus 205 m~~fdAi~ha~saisTgGFs~~~~si~~~~~~~i~~v~~~~milgg~~F~l~~~ 258 (483)
T PRK10750 205 MDAFDAIGHSFSTIAIGGFSTHDASIGYFDSPTINTIIAIFLLISGCNYGLHFS 258 (483)
T ss_pred CcHHHHHHHHHHHHhccCcCCCccccccccCHHHHHHHHHHHHHHHhhHHHHHH
Confidence 357899999999999988722 211 1333355666666666555554333
No 53
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=44.44 E-value=49 Score=17.42 Aligned_cols=18 Identities=11% Similarity=0.002 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy11889 45 CALAGVLTIALPVPVIVS 62 (123)
Q Consensus 45 ~~l~Gi~~~~~~i~~i~~ 62 (123)
|+++|+.++..++..++-
T Consensus 16 Wi~F~l~mi~vFi~li~y 33 (38)
T PF09125_consen 16 WIAFALAMILVFIALIGY 33 (38)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445555555555555543
No 54
>PRK07375 putative monovalent cation/H+ antiporter subunit C; Reviewed
Probab=40.23 E-value=87 Score=20.36 Aligned_cols=31 Identities=16% Similarity=0.140 Sum_probs=25.8
Q ss_pred cCchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 34 KTYVGMFVGALCALAGVLTIALPVPVIVSNF 64 (123)
Q Consensus 34 ~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~ 64 (123)
..+.++.++...+.+|.+..++.++.+...+
T Consensus 67 ~dplpQalvLtaIVI~~a~~A~~Lal~i~~y 97 (112)
T PRK07375 67 ADPLPQALVLTAIVIGFATTAVMLALIVKLY 97 (112)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678899999999999999999888766544
No 55
>COG0168 TrkG Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]
Probab=37.96 E-value=48 Score=27.37 Aligned_cols=41 Identities=20% Similarity=0.015 Sum_probs=31.4
Q ss_pred chhhHHHHHhhhhhccccc--cccccCchh------HHHHHHHHHHHHH
Q psy11889 11 SIPLGLWWALVTMTTVGYG--DMVPKTYVG------MFVGALCALAGVL 51 (123)
Q Consensus 11 s~~~aly~~~vt~tTVGyG--Di~P~t~~g------r~~~~~~~l~Gi~ 51 (123)
++.++++=++.++.|||-| -..+-+..+ |++.++.|++|=.
T Consensus 424 ~~~~~lfEv~SA~gtVGlSlG~t~~~~~~~~~~~~~K~vli~~M~~GRl 472 (499)
T COG0168 424 PFIDALFEVVSAFGTVGLSLGITGDLASNFALPPLAKLVLIALMLIGRL 472 (499)
T ss_pred cHHHHHHHHHHHhhcCCCCCCCCCCCccccccCchHHHHHHHHHHhhcc
Confidence 6889998899999999974 443334445 9999999987744
No 56
>PF07245 Phlebovirus_G2: Phlebovirus glycoprotein G2; InterPro: IPR009878 This domain is found in several Phlebovirus glycoprotein G2 sequences. Members of the Bunyaviridae family acquire an envelope by budding through the lipid bilayer of the Golgi complex. The budding compartment is thought to be determined by the accumulation of the two heterodimeric membrane glycoproteins G1 and G2 in the Golgi [].
Probab=37.84 E-value=1.4e+02 Score=24.79 Aligned_cols=7 Identities=43% Similarity=0.866 Sum_probs=2.5
Q ss_pred HHHHHHH
Q psy11889 49 GVLTIAL 55 (123)
Q Consensus 49 Gi~~~~~ 55 (123)
|++++.+
T Consensus 480 ~~~~~~~ 486 (507)
T PF07245_consen 480 GILIFVL 486 (507)
T ss_pred HHHHHHH
Confidence 3333333
No 57
>TIGR01708 typeII_sec_gspH general secretion pathway protein H. This model represents GspH, protein H of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=37.21 E-value=62 Score=21.46 Aligned_cols=28 Identities=7% Similarity=-0.054 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSR 66 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~ 66 (123)
+.|+.+-+++-+++++++.+...-.+..
T Consensus 4 ~GFTLiEllvvlaIiail~~~~~~~~~~ 31 (143)
T TIGR01708 4 SGFTLIELLVVLAIMGLVAAAAALSLVS 31 (143)
T ss_pred CcEEHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4466666666666666666555544443
No 58
>PF08016 PKD_channel: Polycystin cation channel; InterPro: IPR013122 Polycystic kidney diseases (PKD) are disorders characterised by large numbers of cysts distributed throughout grossly-enlarged kidneys. Cyst development is associated with impairment of kidney function, and ultimately kidney failure and death []. Most cases of autosomal dominant PKD result from mutations in the PKD1 gene that cause premature protein termination. A second gene for autosomal dominant polycystic kidney disease has been identified by positional cloning []. The predicted 968-amino acid sequence of the PKD2 gene product (polycystin-2) contains 6 transmembrane domains, with intracellular N- and C-termini. Polycystin-2 shares some similarity with the family of voltage-activated calcium (and sodium) channels, and contains a potential calcium-binding domain. Polycystin-2 is strongly expressed in ovary, foetal and adult kidney, testis, and small intestine. Polycystin-1 requires the presence of this protein for stable expression and is believed to interact with it via its C terminus. All mutations between exons 1 and 11 result in a truncated polycystin-2 that lacks a calcium-binding EF-hand domain and the cytoplasmic domains required for the interaction of polycystin-2 with polycystin-1 []. PKD2, although clinically milder than PKD1, has a deleterious impact on life expectancy. This entry contains proteins belonging to the polycystin family including Mucolipin and Polycystin-1 and -2 (PKD1 and PKD2). The domain contains the cation channel region of PKD1 and PKD2 proteins. PKD1 and PKD2 may function through a common signalling pathway that is necessary for normal tubulogenesis. The PKD2 gene product has six transmembrane spans with intracellular amino- and carboxyl-termini []. Mucolipin is a cationic channel which probably plays a role in the endocytic pathway and in the control of membrane trafficking of proteins and lipids. It could play a major role in the calcium ion transport regulating lysosomal exocytosis [, , ].
Probab=36.79 E-value=1.6e+02 Score=23.36 Aligned_cols=42 Identities=14% Similarity=0.200 Sum_probs=23.2
Q ss_pred CCCCCchhhHHHHHhhhh-hcccccccc-ccCchhHHHHHHHHH
Q psy11889 6 ENDFNSIPLGLWWALVTM-TTVGYGDMV-PKTYVGMFVGALCAL 47 (123)
Q Consensus 6 ~~~f~s~~~aly~~~vt~-tTVGyGDi~-P~t~~gr~~~~~~~l 47 (123)
.+.|.++..|+.-.+..+ -..+|.|+. +....|.++.+.+++
T Consensus 361 ~~~f~s~~~s~~tl~~~l~g~~~~~~~~~~~~~lg~l~~~~~~~ 404 (425)
T PF08016_consen 361 SEDFSSFSSSLVTLFRMLLGDFDYDELYQANPVLGPLFFFSFMF 404 (425)
T ss_pred ccccCCHHHHHHHHHHHhcCCCchhhhhcccccHHHHHHHHHHH
Confidence 457999999986554443 223344442 334555555544444
No 59
>PF09835 DUF2062: Uncharacterized protein conserved in bacteria (DUF2062); InterPro: IPR018639 This domain, found in various prokaryotic proteins, has no known function. It is found at the C-terminal of family 2 glycosyltransferase proteins, in addition to proteins of unknown function.
Probab=36.43 E-value=1.3e+02 Score=20.18 Aligned_cols=28 Identities=21% Similarity=0.256 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 44 LCALAGVLTIALPVPVIVSNFSRFYSHA 71 (123)
Q Consensus 44 ~~~l~Gi~~~~~~i~~i~~~~~~~~~~~ 71 (123)
...++|..+.+.+.+.+.-.+....-+.
T Consensus 118 ~~~~~G~~i~~~v~~~i~Y~l~~~~~~~ 145 (154)
T PF09835_consen 118 LPFLLGSLILGIVLGIISYFLVYFLVRK 145 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456788888888877776666554443
No 60
>PF10958 DUF2759: Protein of unknown function (DUF2759); InterPro: IPR024490 This family of proteins with unknown function appear to be restricted to Bacillales.
Probab=35.34 E-value=21 Score=20.29 Aligned_cols=14 Identities=29% Similarity=0.816 Sum_probs=11.6
Q ss_pred HHHHhhhhhccccc
Q psy11889 16 LWWALVTMTTVGYG 29 (123)
Q Consensus 16 ly~~~vt~tTVGyG 29 (123)
-||+++|+-+.||-
T Consensus 36 GwFtimTii~~g~P 49 (52)
T PF10958_consen 36 GWFTIMTIIHSGYP 49 (52)
T ss_pred HHHHHHHHHHccCC
Confidence 38999999998874
No 61
>TIGR00934 2a38euk potassium uptake protein, Trk family. The proteins of the Trk family are derived from Gram-negative and Gram-positive bacteria, yeast and wheat. The proteins of E. coli K12 TrkH and TrkG as well as several yeast proteins have been functionally characterized.The E. coli TrkH and TrkG proteins are complexed to two peripheral membrane proteins, TrkA, an NAD-binding protein, and TrkE, an ATP-binding protein. This complex forms the potassium uptake system. This family is specific for the eukaryotic Trk system.
Probab=34.66 E-value=47 Score=29.15 Aligned_cols=39 Identities=18% Similarity=0.042 Sum_probs=30.2
Q ss_pred chhhHHHHHhhhhhccccccccc---------cCchhHHHHHHHHHHH
Q psy11889 11 SIPLGLWWALVTMTTVGYGDMVP---------KTYVGMFVGALCALAG 49 (123)
Q Consensus 11 s~~~aly~~~vt~tTVGyGDi~P---------~t~~gr~~~~~~~l~G 49 (123)
++++.++=++..+.|||.---+| -+..||++.+++|+.|
T Consensus 737 s~f~ILFEVVSAyGTVGLSlG~p~~~~SfSg~ls~~sKLVII~vM~~G 784 (800)
T TIGR00934 737 NVFNILFEVVSAYGTVGLSLGYSCSNYSFSGQFTTLSKLVIIAMLIRG 784 (800)
T ss_pred cHHHHHhhhhhhccceeecCCCCCcccccCCCCCcchHHHHhHHHHcc
Confidence 56777777888999998755443 3678999999999876
No 62
>PRK08389 putative monovalent cation/H+ antiporter subunit C; Reviewed
Probab=34.53 E-value=1.3e+02 Score=19.58 Aligned_cols=32 Identities=19% Similarity=0.178 Sum_probs=26.1
Q ss_pred cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 34 KTYVGMFVGALCALAGVLTIALPVPVIVSNFS 65 (123)
Q Consensus 34 ~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~ 65 (123)
..+.++.+....+.+|.+..++.++.+...+.
T Consensus 68 ~dplpQalvLtaIVI~~a~~A~~Lal~i~~yr 99 (114)
T PRK08389 68 VDPIPQALVLTAIVIGVSTTALALSVAIKLYE 99 (114)
T ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999999998887765543
No 63
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=34.52 E-value=62 Score=18.23 Aligned_cols=15 Identities=20% Similarity=0.538 Sum_probs=8.2
Q ss_pred hHHHHHHHHHHHHHH
Q psy11889 38 GMFVGALCALAGVLT 52 (123)
Q Consensus 38 gr~~~~~~~l~Gi~~ 52 (123)
|-+++.++.++|+++
T Consensus 18 GLi~A~vlfi~Gi~i 32 (50)
T PF02038_consen 18 GLIFAGVLFILGILI 32 (50)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHH
Confidence 455666655555533
No 64
>COG1615 Uncharacterized conserved protein [Function unknown]
Probab=34.32 E-value=51 Score=28.87 Aligned_cols=34 Identities=21% Similarity=0.310 Sum_probs=25.5
Q ss_pred hhhccccccccccCchhHHHHHHHHHHHHHHHHH
Q psy11889 22 TMTTVGYGDMVPKTYVGMFVGALCALAGVLTIAL 55 (123)
Q Consensus 22 t~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~ 55 (123)
++|.-||.|++..-+..-+++.+.++++++++..
T Consensus 221 ~~~GA~YTDI~~~lP~~~iL~aial~~aia~f~a 254 (885)
T COG1615 221 TFTGAGYTDINAQLPAKLILIAIALLCAIAFFSA 254 (885)
T ss_pred cccccCceeeeeeccHHHHHHHHHHHHHHHHHHH
Confidence 5788899999999988777777666666654443
No 65
>PF11391 DUF2798: Protein of unknown function (DUF2798); InterPro: IPR021529 This family of proteins has no known function.
Probab=34.32 E-value=93 Score=17.72 Aligned_cols=21 Identities=19% Similarity=0.453 Sum_probs=14.8
Q ss_pred hhhhhccccccccccCchhHH
Q psy11889 20 LVTMTTVGYGDMVPKTYVGMF 40 (123)
Q Consensus 20 ~vt~tTVGyGDi~P~t~~gr~ 40 (123)
++|+..+|++|-....+....
T Consensus 14 v~t~~n~G~~~~f~~~Wl~a~ 34 (60)
T PF11391_consen 14 VMTLLNVGFSDGFFSRWLKAW 34 (60)
T ss_pred HHHHHHhCCchhHHHHHHHHH
Confidence 567778899997766666433
No 66
>KOG3012|consensus
Probab=34.04 E-value=1e+02 Score=23.13 Aligned_cols=47 Identities=9% Similarity=0.301 Sum_probs=29.9
Q ss_pred HhhhhhccccccccccCchhHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Q psy11889 19 ALVTMTTVGYGDMVPKTYVGMFVGALCAL-AGVLTIALPVPVIVSNFS 65 (123)
Q Consensus 19 ~~vt~tTVGyGDi~P~t~~gr~~~~~~~l-~Gi~~~~~~i~~i~~~~~ 65 (123)
+...++||||+-..--+..|-+-.+++++ +-+..++.+++.+.=.+.
T Consensus 90 ~~l~vssi~~a~~~~ls~~g~v~~~~~vvfvdf~~vG~iiAT~~wfi~ 137 (259)
T KOG3012|consen 90 LLLVVSSIGWAYVLDLSFIGFVKFLVWVVFVDFIIVGVIIATLFWFIS 137 (259)
T ss_pred HHHHHHHHHHHHHhccchHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677889998887778877555555544 455555665555554333
No 67
>PRK08808 general secretion pathway protein J; Validated
Probab=34.02 E-value=75 Score=23.19 Aligned_cols=31 Identities=3% Similarity=-0.049 Sum_probs=21.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 38 GMFVGALCALAGVLTIALPVPVIVSNFSRFY 68 (123)
Q Consensus 38 gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~ 68 (123)
.+.|+.+-+++.+++++++..+....+....
T Consensus 6 ~~GFTLiEllia~ai~~il~~~a~~s~~~~~ 36 (211)
T PRK08808 6 AAGFTLIEVLLATVLLVGGLALAFATLRSAS 36 (211)
T ss_pred CCCeeHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567777777777777777766666665444
No 68
>COG4795 PulJ Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]
Probab=33.88 E-value=1.3e+02 Score=21.81 Aligned_cols=31 Identities=13% Similarity=-0.013 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 40 FVGALCALAGVLTIALPVPVIVSNFSRFYSH 70 (123)
Q Consensus 40 ~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~ 70 (123)
.|+.+-+++.+.+++++.......+....+.
T Consensus 8 GFTLLEvmvAl~i~All~l~a~~~L~s~~r~ 38 (194)
T COG4795 8 GFTLLEVLVALAIFALLLLLAFRFLDSAQRS 38 (194)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6777888888888888777666666554433
No 69
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=33.76 E-value=99 Score=20.91 Aligned_cols=18 Identities=11% Similarity=0.322 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy11889 41 VGALCALAGVLTIALPVP 58 (123)
Q Consensus 41 ~~~~~~l~Gi~~~~~~i~ 58 (123)
+.+++.++|+.+++++++
T Consensus 47 IL~vmgfFgff~~gImls 64 (129)
T PF02060_consen 47 ILVVMGFFGFFTVGIMLS 64 (129)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444455555555443
No 70
>PHA02513 V1 structural protein V1; Reviewed
Probab=33.39 E-value=74 Score=21.12 Aligned_cols=22 Identities=9% Similarity=0.134 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy11889 40 FVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 40 ~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
++..+++++|+.++..+++.+-
T Consensus 71 i~L~IFIliGivl~~pI~s~VN 92 (135)
T PHA02513 71 LGLFIFILIGIVLLPVITSQVN 92 (135)
T ss_pred HHHHHHHHHHHHHhhHHHHHHh
Confidence 4677788899988888665443
No 71
>KOG4550|consensus
Probab=32.87 E-value=54 Score=27.01 Aligned_cols=30 Identities=27% Similarity=0.423 Sum_probs=17.2
Q ss_pred cccccccccCchhHH--------HHHHHHHHHHHHHHH
Q psy11889 26 VGYGDMVPKTYVGMF--------VGALCALAGVLTIAL 55 (123)
Q Consensus 26 VGyGDi~P~t~~gr~--------~~~~~~l~Gi~~~~~ 55 (123)
|=|-+-+|.+|-.|+ +-.+.+++|++++-+
T Consensus 539 iP~p~n~P~hW~a~LyvTPS~lIl~s~~al~gvC~~il 576 (606)
T KOG4550|consen 539 IPYPHNVPRHWSAKLYVTPSNLILLSAIALIGVCVFIL 576 (606)
T ss_pred eCCCCCCCccceeeEEEChHHHHHHHHHHHHHHHHHHH
Confidence 457777887665554 344445555555443
No 72
>PF04547 Anoctamin: Calcium-activated chloride channel; InterPro: IPR007632 This family contains the anoctamin/TMEM16 proteins which are thought to be calcium-dependent chloride channel [].
Probab=32.44 E-value=1.6e+02 Score=23.52 Aligned_cols=58 Identities=16% Similarity=0.248 Sum_probs=33.5
Q ss_pred hHHHHHhhhhhccccccccccCchhHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 14 LGLWWALVTMTTVGYGDMVPKTYVGMFVGALCAL-------AGVLTIALPVPVIVSNFSRFYSHAQAR 74 (123)
Q Consensus 14 ~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l-------~Gi~~~~~~i~~i~~~~~~~~~~~~~~ 74 (123)
-|+||++..+-|- -..|-+..|-++.++... ...++++++....+..+.+.++++++.
T Consensus 9 ia~YFafl~~yt~---~L~~~ai~G~~~~~~~~~~~~~~~~~~~~~fai~~~~W~~~fle~Wkr~~~~ 73 (452)
T PF04547_consen 9 IAFYFAFLGFYTR---WLIPPAIFGLIVFLYGLSFSYLFDNPFTPFFAIFMSLWATLFLEFWKRKEAE 73 (452)
T ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4889988877662 334444444333332222 145566666666677777777766543
No 73
>TIGR01707 gspI general secretion pathway protein I. Both GspI and GspJ are proteins of the type II secretion pathway, or main terminal branch of the general secretion pathway. This pathway carries proteins across the outer membrane. Note that proteins of type II secretion are cryptic in E. coli K-12 - present but not yet demonstrated to act on any target.
Probab=32.22 E-value=1.4e+02 Score=19.03 Aligned_cols=27 Identities=15% Similarity=0.123 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 41 VGALCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 41 ~~~~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
|+.+-+++.+.++++....+...+...
T Consensus 2 FTLiEvlvAlaI~ai~~~~~~~~~~~~ 28 (101)
T TIGR01707 2 FTLLEVLVALAIFAAAALALISSVGGQ 28 (101)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666667777777666666555443
No 74
>PRK10574 putative major pilin subunit; Provisional
Probab=32.17 E-value=1.2e+02 Score=20.78 Aligned_cols=32 Identities=6% Similarity=0.105 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSRFYSH 70 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~ 70 (123)
|.|+.+-+++-+++++++.++..-.+..+..+
T Consensus 5 ~GFTLIELmIViaIigILaaiaiP~~~~~~~~ 36 (146)
T PRK10574 5 RGFTLIELMVVIAIIAILSAIGIPAYQNYLQK 36 (146)
T ss_pred CceeHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666666666666666665555555444
No 75
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=32.10 E-value=1.1e+02 Score=17.85 Aligned_cols=24 Identities=0% Similarity=0.033 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 41 VGALCALAGVLTIALPVPVIVSNF 64 (123)
Q Consensus 41 ~~~~~~l~Gi~~~~~~i~~i~~~~ 64 (123)
|+.++|+.-++.+.+++++++..+
T Consensus 18 FtLi~M~lti~~~~Iv~si~~AIL 41 (64)
T PF03579_consen 18 FTLIFMMLTIGFFFIVTSIMAAIL 41 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444333
No 76
>COG0168 TrkG Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]
Probab=32.04 E-value=1.2e+02 Score=25.13 Aligned_cols=51 Identities=4% Similarity=0.133 Sum_probs=33.6
Q ss_pred CchhhHHHHHhhhhhccccccccccC-------chhHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKT-------YVGMFVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t-------~~gr~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
.++.||++.++.+++|-||- .++.+ +.=.+++.+++++|-.-+......+.
T Consensus 197 m~~~dAi~hs~Sa~~ngGFS-~~~~Si~~f~~~~~i~~i~~~liI~GgigF~v~~~~~~ 254 (499)
T COG0168 197 MPLFDAIFHSMSAFNNGGFS-THDASIGYFNGSPLINLIITILIILGGIGFPVHYRLLI 254 (499)
T ss_pred CCHHHHHHHHHHHhhcCCCC-CCcchhhhcccChhHHHHHHHHHHHhcCChHHHHHHHH
Confidence 46788999999999999985 55432 23345666666666555555444333
No 77
>PRK10557 hypothetical protein; Provisional
Probab=31.61 E-value=1.1e+02 Score=21.83 Aligned_cols=28 Identities=7% Similarity=-0.155 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSR 66 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~ 66 (123)
|.|+.+-+++++.+.++++..+...+..
T Consensus 7 ~GfSLiElmIAm~Ig~illl~~~~~~~~ 34 (192)
T PRK10557 7 RGFSLLEVLLAMAIGSVLLLGAARFLPA 34 (192)
T ss_pred CCcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666666666656555543
No 78
>PF06472 ABC_membrane_2: ABC transporter transmembrane region 2; InterPro: IPR010509 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This region covers the N terminus and first two membrane regions of a small family of ABC transporters. Mutations in this domain in P28288 from SWISSPROT are believed responsible for Zellweger Syndrome-2 []; mutations in P33897 from SWISSPROT are responsible for recessive X-linked adrenoleukodystrophy []. A Saccharomyces cerevisiae protein containing this domain is involved in the import of long-chain fatty acids [].; GO: 0006810 transport, 0016020 membrane
Probab=31.40 E-value=1.3e+02 Score=22.52 Aligned_cols=38 Identities=13% Similarity=0.198 Sum_probs=21.7
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHHHHHHHHHHHHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIAL 55 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~~~~~l~Gi~~~~~ 55 (123)
..+.+.++|+.+.....|...+ +.++++.++|..++-.
T Consensus 152 ~~~~~l~~f~~~L~~~~g~~~~--------~~~~~y~~~~t~~~~~ 189 (281)
T PF06472_consen 152 KPILDLISFSVILWSISGWLGP--------WAALIYAILGTLITHW 189 (281)
T ss_pred HHHHHHHHHHHHHHhcCCchHH--------HHHHHHHHHHHHHHHH
Confidence 4456677777666555542222 5666666666555555
No 79
>PLN03223 Polycystin cation channel protein; Provisional
Probab=31.22 E-value=1.8e+02 Score=27.57 Aligned_cols=61 Identities=11% Similarity=0.091 Sum_probs=39.1
Q ss_pred CCCCCchhhHHHHHhhhhhcccccc-----cccc----CchhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Q psy11889 6 ENDFNSIPLGLWWALVTMTTVGYGD-----MVPK----TYVGMFVGALCA-LAGVLTIALPVPVIVSNFSRFY 68 (123)
Q Consensus 6 ~~~f~s~~~aly~~~vt~tTVGyGD-----i~P~----t~~gr~~~~~~~-l~Gi~~~~~~i~~i~~~~~~~~ 68 (123)
.+.|.++..|++-.+..++ |-.| +.+. ...|-++.+.++ ++.++++-+++++|.+.+...-
T Consensus 1356 ve~FSTf~sSL~TLFqMLL--GDfdYF~eDLk~l~e~nrVLGPIYFfSFILLV~FILLNMFIAII~DSFsEVK 1426 (1634)
T PLN03223 1356 SVHFSDMTDSINSLFENLL--GDITYFNEDLKNLTGLQFVVGMIYFYSYNIFVFMILFNFLLAIICDAFGEVK 1426 (1634)
T ss_pred chhhcCHHHHHHHHHHHHH--cCchHHHHHHHhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4579999999887666553 4222 1222 345666554444 4666788888888888887653
No 80
>PRK08388 putative monovalent cation/H+ antiporter subunit C; Reviewed
Probab=30.93 E-value=87 Score=20.67 Aligned_cols=30 Identities=10% Similarity=0.222 Sum_probs=24.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 36 YVGMFVGALCALAGVLTIALPVPVIVSNFS 65 (123)
Q Consensus 36 ~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~ 65 (123)
+.++.+....+.+|.+..++.++.+...+.
T Consensus 75 PlpQalvLTaIVI~~a~~A~~Lal~i~~yr 104 (119)
T PRK08388 75 PIPQALVLTSIVIGVCVLSLAMALTINAYR 104 (119)
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 458999999999999999998887765543
No 81
>KOG3643|consensus
Probab=30.56 E-value=2.9e+02 Score=22.75 Aligned_cols=31 Identities=6% Similarity=0.049 Sum_probs=18.0
Q ss_pred ccccccccCchhHHHHHHHHHHHHHHHHHHH
Q psy11889 27 GYGDMVPKTYVGMFVGALCALAGVLTIALPV 57 (123)
Q Consensus 27 GyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i 57 (123)
|+-+.-|.-..=|.+-+.+.++=+++|+.++
T Consensus 291 ~~n~slPrvSYVKAiDiYL~vCFvfVF~sLL 321 (459)
T KOG3643|consen 291 STNESLPRVSYVKAIDVYLGVCFVFVFLSLL 321 (459)
T ss_pred hhhccCCCccceeeehhhhhHHHHHHHHHHH
Confidence 6677778777667665555443344444433
No 82
>PF15018 InaF-motif: TRP-interacting helix
Probab=30.52 E-value=82 Score=16.68 Aligned_cols=24 Identities=13% Similarity=0.061 Sum_probs=17.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 38 GMFVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 38 gr~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
-|+++++.=++++.+.|+.+++-.
T Consensus 5 ~R~~tV~~Yl~~VSl~Ai~LsiYY 28 (38)
T PF15018_consen 5 VRVLTVVAYLFSVSLAAIVLSIYY 28 (38)
T ss_pred EeeHHHHHHHHHHHHHHHHHHHHH
Confidence 477777777788888888776543
No 83
>PRK00523 hypothetical protein; Provisional
Probab=29.88 E-value=1.3e+02 Score=18.21 Aligned_cols=19 Identities=26% Similarity=0.163 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy11889 47 LAGVLTIALPVPVIVSNFS 65 (123)
Q Consensus 47 l~Gi~~~~~~i~~i~~~~~ 65 (123)
.+++.+.+++++.++..|.
T Consensus 7 ~I~l~i~~li~G~~~Gffi 25 (72)
T PRK00523 7 ALGLGIPLLIVGGIIGYFV 25 (72)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3445555566666655443
No 84
>PF11359 gpUL132: Glycoprotein UL132; InterPro: IPR021023 Glycoprotein UL132 is a low-abundance structural component of Human herpesvirus 5 []. The function of this protein is not fully understood.
Probab=29.79 E-value=74 Score=23.51 Aligned_cols=33 Identities=12% Similarity=0.220 Sum_probs=22.1
Q ss_pred CchhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 35 TYVGMFVGA-LCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 35 t~~gr~~~~-~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
....|++++ ||++.|..++.+++..+...+...
T Consensus 45 ~~I~kvL~IliYcVTg~sllsli~VtvaalYsSC 78 (235)
T PF11359_consen 45 SEIMKVLAILIYCVTGFSLLSLIVVTVAALYSSC 78 (235)
T ss_pred cHHHHHHhhheeeehhHHHHHHHHHHHHHHHHHH
Confidence 446677754 667788888888777666555444
No 85
>PRK01844 hypothetical protein; Provisional
Probab=29.29 E-value=1.4e+02 Score=18.15 Aligned_cols=18 Identities=28% Similarity=0.130 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy11889 48 AGVLTIALPVPVIVSNFS 65 (123)
Q Consensus 48 ~Gi~~~~~~i~~i~~~~~ 65 (123)
+++++++++++.++..|.
T Consensus 7 I~l~I~~li~G~~~Gff~ 24 (72)
T PRK01844 7 ILVGVVALVAGVALGFFI 24 (72)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334555666666555443
No 86
>KOG4220|consensus
Probab=28.79 E-value=3.4e+02 Score=22.50 Aligned_cols=16 Identities=19% Similarity=0.457 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHH
Q psy11889 57 VPVIVSNFSRFYSHAQ 72 (123)
Q Consensus 57 i~~i~~~~~~~~~~~~ 72 (123)
+.++.-.+.+.+.+.+
T Consensus 206 VtiM~~LY~rIyret~ 221 (503)
T KOG4220|consen 206 VTIMTILYWRIYRETR 221 (503)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333344555555533
No 87
>PF12046 DUF3529: Protein of unknown function (DUF3529); InterPro: IPR021919 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 176 to 190 amino acids in length.
Probab=28.71 E-value=88 Score=22.27 Aligned_cols=23 Identities=13% Similarity=0.261 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
-+|..++..+|.+++++++.++.
T Consensus 83 A~fLt~l~~~Gl~cl~LVL~~l~ 105 (173)
T PF12046_consen 83 AIFLTFLAAIGLACLGLVLSILF 105 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 66777788889999999888774
No 88
>PF14163 SieB: Superinfection exclusion protein B
Probab=28.61 E-value=1.9e+02 Score=19.49 Aligned_cols=9 Identities=11% Similarity=0.161 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q psy11889 56 PVPVIVSNF 64 (123)
Q Consensus 56 ~i~~i~~~~ 64 (123)
+++.+.+.+
T Consensus 47 li~~~~~~~ 55 (151)
T PF14163_consen 47 LIAQLLSFI 55 (151)
T ss_pred HHHHHHHHH
Confidence 333333333
No 89
>PRK13718 conjugal transfer protein TrbE; Provisional
Probab=28.59 E-value=1.5e+02 Score=18.38 Aligned_cols=15 Identities=13% Similarity=0.193 Sum_probs=7.0
Q ss_pred ccCchhHHHHHHHHH
Q psy11889 33 PKTYVGMFVGALCAL 47 (123)
Q Consensus 33 P~t~~gr~~~~~~~l 47 (123)
-.|.++..+...+++
T Consensus 36 K~TTa~d~l~a~~iI 50 (84)
T PRK13718 36 KETTADDMLAAVFVI 50 (84)
T ss_pred cccchhHHHHHHHHH
Confidence 345555555444433
No 90
>COG4968 PilE Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=28.50 E-value=87 Score=21.49 Aligned_cols=35 Identities=3% Similarity=0.043 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQA 73 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~~ 73 (123)
|.|+.+-.++-+++++++..+..-.+..++.+.++
T Consensus 6 rGFTLIELmIvVaIv~ILa~IAyPSY~~yv~rs~R 40 (139)
T COG4968 6 RGFTLIELMIVVAIVGILALIAYPSYQNYVLRSRR 40 (139)
T ss_pred cCccHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence 56777776767777777666666556665554333
No 91
>PF09578 Spore_YabQ: Spore cortex protein YabQ (Spore_YabQ); InterPro: IPR019074 This protein is predicted to span the membrane several times. It is only found in genomes of species that perform sporulation, such as Bacillus subtilis, Clostridium tetani, and other members of the Firmicutes (low-GC Gram-positive bacteria). Mutation of this sigmaE-dependent gene blocks development of the spore cortex. The length of the C-terminal region, which includes some hydrophobic regions, is variable.
Probab=28.47 E-value=35 Score=20.75 Aligned_cols=47 Identities=19% Similarity=0.137 Sum_probs=28.2
Q ss_pred CCCCchhhHHHHHhhhhhccccccccccCchh-HHHHHHHHHHHHHHHHH
Q psy11889 7 NDFNSIPLGLWWALVTMTTVGYGDMVPKTYVG-MFVGALCALAGVLTIAL 55 (123)
Q Consensus 7 ~~f~s~~~aly~~~vt~tTVGyGDi~P~t~~g-r~~~~~~~l~Gi~~~~~ 55 (123)
+-+....|-+||...++.+-. -..-.+.++ |.+..+-+++|..+.-.
T Consensus 29 ~~~~~i~DllfWl~~~~~~F~--~l~~~N~G~iR~Y~~lg~~~G~~lY~~ 76 (80)
T PF09578_consen 29 RWLTGIEDLLFWLLAALIVFY--FLYWTNYGEIRFYIFLGILLGMILYFR 76 (80)
T ss_pred hHHHHHHHHHHHHHHHHHHHH--HHHHccceeeeHHHHHHHHHHHHHHHH
Confidence 445667889999877765532 222222222 66777777777766544
No 92
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=28.29 E-value=78 Score=21.30 Aligned_cols=6 Identities=33% Similarity=0.479 Sum_probs=2.2
Q ss_pred cccccC
Q psy11889 30 DMVPKT 35 (123)
Q Consensus 30 Di~P~t 35 (123)
|-.|-+
T Consensus 31 D~tpWN 36 (125)
T PF15048_consen 31 DATPWN 36 (125)
T ss_pred CCCCcc
Confidence 333333
No 93
>COG1584 Predicted membrane protein [Function unknown]
Probab=28.12 E-value=2.4e+02 Score=20.62 Aligned_cols=52 Identities=17% Similarity=0.249 Sum_probs=31.5
Q ss_pred CCchhhHHHHHhhhhhcc---ccccccccCchhHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 9 FNSIPLGLWWALVTMTTV---GYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 9 f~s~~~aly~~~vt~tTV---GyGDi~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
|+|| .+||++.+.+... |.-+..+.++....+....++.|+.-+.+.+..+-
T Consensus 84 F~Sy-G~FW~s~a~~~~~~~~g~~~~~~~~~~~~aig~yL~~WgiFT~~M~~~Tlk 138 (207)
T COG1584 84 FTSY-GLFWLSLALILLMPKLGILGYLDPAPLANALGWYLILWGIFTLLMFIGTLK 138 (207)
T ss_pred Hhhc-cHHHHHHHHHHHhhhcCccccccCCchHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444 4789887776554 43333333555566777777777777776665553
No 94
>COG4792 EscU Type III secretory pathway, component EscU [Intracellular trafficking and secretion]
Probab=27.08 E-value=1.7e+02 Score=22.97 Aligned_cols=11 Identities=9% Similarity=0.211 Sum_probs=4.8
Q ss_pred Hhhhhhccccc
Q psy11889 19 ALVTMTTVGYG 29 (123)
Q Consensus 19 ~~vt~tTVGyG 29 (123)
++.-+++-|-+
T Consensus 164 t~~~lp~CG~~ 174 (349)
T COG4792 164 TFLYLPGCGLY 174 (349)
T ss_pred HHhhccccccc
Confidence 34444444433
No 95
>COG4970 FimT Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.96 E-value=1.1e+02 Score=21.83 Aligned_cols=34 Identities=18% Similarity=0.156 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQ 72 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~ 72 (123)
+.|+.+-+++.+++++++..+..=.|....+.++
T Consensus 8 rGfTL~ELliviAIlAIla~~A~P~fs~~i~~~r 41 (181)
T COG4970 8 RGFTLLELLIVLAILAILAVIAAPNFSQWIRSQR 41 (181)
T ss_pred CceeHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence 5778888888888888877776666666554433
No 96
>PF03988 DUF347: Repeat of Unknown Function (DUF347) ; InterPro: IPR007136 This repeat is found as four tandem repeats in a family of bacterial membrane proteins. Each repeat contains two transmembrane regions and a conserved tryptophan.
Probab=26.28 E-value=1.2e+02 Score=16.99 Aligned_cols=19 Identities=42% Similarity=0.796 Sum_probs=11.9
Q ss_pred HHHHhhhhhccc--ccccccc
Q psy11889 16 LWWALVTMTTVG--YGDMVPK 34 (123)
Q Consensus 16 ly~~~vt~tTVG--yGDi~P~ 34 (123)
+|.+++..+++| .||..-.
T Consensus 3 fW~a~ilt~~lGt~~~D~l~~ 23 (55)
T PF03988_consen 3 FWIAKILTTTLGTTAGDFLSK 23 (55)
T ss_pred HHHHHHHHHHhHHHHHHHHHh
Confidence 455667777777 4666544
No 97
>PHA00739 V3 structural protein VP3
Probab=26.21 E-value=69 Score=20.07 Aligned_cols=22 Identities=9% Similarity=0.197 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVI 60 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i 60 (123)
-++..+++++|+.++.-.++.+
T Consensus 8 iifL~iFi~iGivlf~pIis~V 29 (92)
T PHA00739 8 IIFLFIFILIGIVLFQPIISYV 29 (92)
T ss_pred HHHHHHHHHHHHhhcchhhhhh
Confidence 3567788889998888755544
No 98
>TIGR02596 Verrucomicrobium spinosum paralogous family TIGR02596. This model describes a nearly twenty member protein family unique to Verrucomicrobium spinosum. All members share a type IV pilin-like N-terminal leader sequence (TIGR02532). Sequences are from 207 to 248 in length. The function is unknown.
Probab=25.84 E-value=1.6e+02 Score=21.27 Aligned_cols=15 Identities=20% Similarity=0.195 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHH
Q psy11889 46 ALAGVLTIALPVPVI 60 (123)
Q Consensus 46 ~l~Gi~~~~~~i~~i 60 (123)
+++-+++++++.++.
T Consensus 6 LLVVLaIiaILaaia 20 (195)
T TIGR02596 6 LLVVIAIIAVLMALS 20 (195)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333344444443333
No 99
>PF03669 UPF0139: Uncharacterised protein family (UPF0139); InterPro: IPR005351 This is a small family of proteins of unknown function which appear to be related to the hypothetical protein CG10674 from Drosophila melanogaster (Fruit fly)(Q9VRJ8 from SWISSPROT).
Probab=25.78 E-value=1.9e+02 Score=18.62 Aligned_cols=23 Identities=9% Similarity=0.169 Sum_probs=11.9
Q ss_pred hHHHHHhhhhhccccccccccCchhHHH
Q psy11889 14 LGLWWALVTMTTVGYGDMVPKTYVGMFV 41 (123)
Q Consensus 14 ~aly~~~vt~tTVGyGDi~P~t~~gr~~ 41 (123)
.|+||++.++.. .++.+..-.++
T Consensus 57 ~al~~s~~S~an-----~k~~~d~kq~~ 79 (103)
T PF03669_consen 57 AALFFSCQSFAN-----MKSSNDTKQIS 79 (103)
T ss_pred HHHHHHHHHHHc-----CCccccchHHH
Confidence 466666666644 34444444443
No 100
>COG3817 Predicted membrane protein [Function unknown]
Probab=25.66 E-value=1e+02 Score=23.58 Aligned_cols=30 Identities=33% Similarity=0.761 Sum_probs=21.3
Q ss_pred CCchhhHHHHHhhhhhccccccccccCchhH
Q psy11889 9 FNSIPLGLWWALVTMTTVGYGDMVPKTYVGM 39 (123)
Q Consensus 9 f~s~~~aly~~~vt~tTVGyGDi~P~t~~gr 39 (123)
...|..+++|..-.+|=+| ||..|.-..|-
T Consensus 30 p~r~~t~~FW~l~~~tFl~-g~~lp~~viG~ 59 (313)
T COG3817 30 PVRFGTGLFWGLFSLTFLG-GDRLPNIVIGL 59 (313)
T ss_pred CceecchHHHHHHHHHHhc-cccccchhHhH
Confidence 3567788999888887777 67777654443
No 101
>PF15065 NCU-G1: Lysosomal transcription factor, NCU-G1
Probab=25.63 E-value=1.1e+02 Score=24.12 Aligned_cols=36 Identities=19% Similarity=0.183 Sum_probs=18.8
Q ss_pred ccccccccccCchhHHHHH-HHHHHHHHHHHHHHHHHH
Q psy11889 25 TVGYGDMVPKTYVGMFVGA-LCALAGVLTIALPVPVIV 61 (123)
Q Consensus 25 TVGyGDi~P~t~~gr~~~~-~~~l~Gi~~~~~~i~~i~ 61 (123)
.+|||+-- .....-++.+ +.+-+|++++.++++.+.
T Consensus 304 ~~G~G~PP-~d~~S~lvi~i~~vgLG~P~l~li~Ggl~ 340 (350)
T PF15065_consen 304 LIGYGSPP-VDSFSPLVIMIMAVGLGVPLLLLILGGLY 340 (350)
T ss_pred ecccCCCC-ccchhHHHHHHHHHHhhHHHHHHHHhhhe
Confidence 47999863 3333333333 333356666666555443
No 102
>PF05624 LSR: Lipolysis stimulated receptor (LSR); InterPro: IPR008664 This domain consists of mammalian LISCH7 protein homologues. LISCH7 is a liver-specific BHLH-ZIP transcription factor.
Probab=25.14 E-value=32 Score=19.06 Aligned_cols=17 Identities=18% Similarity=0.364 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy11889 43 ALCALAGVLTIALPVPV 59 (123)
Q Consensus 43 ~~~~l~Gi~~~~~~i~~ 59 (123)
++++++|..++.+++++
T Consensus 5 V~~iilg~~ll~~Ligi 21 (49)
T PF05624_consen 5 VVLIILGALLLLLLIGI 21 (49)
T ss_pred EeHHHHHHHHHHHHHHH
Confidence 34455666666665553
No 103
>TIGR02893 spore_yabQ spore cortex biosynthesis protein YabQ. YabQ, a protein predicted to span the membrane several times, is found in exactly those genomes whose species perform sporulation in the style of Bacillus subtilis, Clostridium tetani, and others of the Firmicutes. Mutation of this sigma(E)-dependent gene blocks development of the spore cortex. The length of the C-terminal region, including some hydrophobic regions, is rather variable between members.
Probab=24.98 E-value=2.2e+02 Score=19.09 Aligned_cols=58 Identities=12% Similarity=0.018 Sum_probs=37.2
Q ss_pred CCchhhHHHHHhhhhhccccccccccCchh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 9 FNSIPLGLWWALVTMTTVGYGDMVPKTYVG-MFVGALCALAGVLTIALPVPVIVSNFSRFY 68 (123)
Q Consensus 9 f~s~~~aly~~~vt~tTVGyGDi~P~t~~g-r~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~ 68 (123)
.....|-+||...++.+- --..-.+.++ |.+..+-+++|..+.-..++.+...+.+..
T Consensus 39 ~~~ieDilFWi~~~~~vF--~~L~~~N~G~lR~Y~~lg~~~G~~lY~~lls~~~~~~l~~i 97 (130)
T TIGR02893 39 LVFIEDILFWIVQALIVF--YFLLYVNEGEIRFYVFLALLCGLAIYQALLSKYYVRILEKV 97 (130)
T ss_pred HHHHHHHHHHHHHHHHHH--HHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345679999987776442 2222233322 778888888888888887777766555443
No 104
>PF07245 Phlebovirus_G2: Phlebovirus glycoprotein G2; InterPro: IPR009878 This domain is found in several Phlebovirus glycoprotein G2 sequences. Members of the Bunyaviridae family acquire an envelope by budding through the lipid bilayer of the Golgi complex. The budding compartment is thought to be determined by the accumulation of the two heterodimeric membrane glycoproteins G1 and G2 in the Golgi [].
Probab=24.83 E-value=2.3e+02 Score=23.62 Aligned_cols=32 Identities=19% Similarity=0.259 Sum_probs=16.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 36 YVGMFVGALCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 36 ~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
+.|..+..++.++|++++++++-++.-.+.+.
T Consensus 462 ~l~g~~~~~~~Il~~l~i~~~~~~~~i~~~~~ 493 (507)
T PF07245_consen 462 WLGGPWKTILIILGFLIIGILIFVLLIFICRS 493 (507)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444455566666666555554444443
No 105
>PF04917 Shufflon_N: Bacterial shufflon protein, N-terminal constant region; InterPro: IPR007001 This domain represents the high-similarity N-terminal constant region shared by shufflon proteins. Shufflon proteins are created as a result of a clustered inversion region. The proteins retain a constant N-terminal domain, with different C-terminal domains.
Probab=24.81 E-value=2.6e+02 Score=22.19 Aligned_cols=32 Identities=16% Similarity=0.063 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSRFYSH 70 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~ 70 (123)
|-|+++-++++++++++++......+....++
T Consensus 6 rGf~llE~~~aL~I~~~~~~~~~~~~~~~~~~ 37 (356)
T PF04917_consen 6 RGFTLLELIIALAILALMAPGGAQWMSDYLED 37 (356)
T ss_pred ccHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66777778888888777777776666555443
No 106
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=24.56 E-value=52 Score=20.50 Aligned_cols=32 Identities=6% Similarity=0.207 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 42 GALCALAGVLTIALPVPVIVSNFSRFYSHAQA 73 (123)
Q Consensus 42 ~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~~~~ 73 (123)
+.++.++|+.+..---..+.+.+....+++++
T Consensus 4 ~~if~ilg~li~~~k~~~LIaGyntms~eEk~ 35 (97)
T PF12650_consen 4 ALIFFILGILILKGKGYFLIAGYNTMSKEEKE 35 (97)
T ss_pred HHHHHHHHHHHHhcCcccchhhcccCCHHHHH
Confidence 44455555554444444455555444444433
No 107
>PF00959 Phage_lysozyme: Phage lysozyme; InterPro: IPR002196 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 24 GH24 from CAZY comprises enzymes with only one known activity; lysozyme (3.2.1.17 from EC). This entry includes Bacteriophage lambda lysozyme and Escherichia coli endolysin []. Lysozyme helps to release mature phage particles from the cell wall by breaking down the peptidoglycan. The enzyme hydrolyses the 1,4-beta linkages between N-acetyl-D-glucosamine and N-acetylmuramic acid in peptidoglycan heteropolymers of prokaryotic cell walls. E. coli endolysin also functions in bacterial cell lysis and acts as a transglycosylase. The Bacteriophage T4 lysozyme structure contains 2 domains, the interface between which forms the active-site cleft. The N terminus of the 2 domains undergoes a 'hinge-bending' motion about an axis passing through the molecular waist [, ]. This mobility is thought to be important in allowing access of substrates to the enzyme active site.; GO: 0003796 lysozyme activity, 0009253 peptidoglycan catabolic process, 0016998 cell wall macromolecule catabolic process; PDB: 1XJT_A 1XJU_A 1K28_A 1WTH_A 2Z6B_A 1AM7_C 3D3D_B 1D9U_B 2ANX_A 2ANV_B ....
Probab=24.26 E-value=41 Score=21.20 Aligned_cols=13 Identities=31% Similarity=0.330 Sum_probs=8.4
Q ss_pred hccccc-cccccCc
Q psy11889 24 TTVGYG-DMVPKTY 36 (123)
Q Consensus 24 tTVGyG-Di~P~t~ 36 (123)
-||||| +..+...
T Consensus 2 ~TIG~G~~~~~v~~ 15 (110)
T PF00959_consen 2 WTIGYGHHGKDVDP 15 (110)
T ss_dssp EEEETTECSSSCCT
T ss_pred eEEEECCccCCCCC
Confidence 489999 5555433
No 108
>KOG1054|consensus
Probab=23.90 E-value=1.5e+02 Score=25.74 Aligned_cols=35 Identities=31% Similarity=0.395 Sum_probs=24.8
Q ss_pred cccccccc---CchhHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 27 GYGDMVPK---TYVGMFVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 27 GyGDi~P~---t~~gr~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
|-||-.-. -.+.++-.++|+|+|-..++++++.+=
T Consensus 799 g~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiE 836 (897)
T KOG1054|consen 799 GGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIE 836 (897)
T ss_pred CCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHH
Confidence 44555444 246788899999999888888776543
No 109
>smart00786 SHR3_chaperone ER membrane protein SH3. This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) PUBMED:15623581. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=23.87 E-value=2.6e+02 Score=20.35 Aligned_cols=31 Identities=6% Similarity=-0.069 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIVSNFSRFYS 69 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~ 69 (123)
|+++.--.++.+++.+.++--.+.++.+...
T Consensus 131 ~VlAASn~Il~~vLvGVL~LQaG~wYAer~~ 161 (196)
T smart00786 131 AVLAASNTILLFVLVGVLVLQAGLWYAERKD 161 (196)
T ss_pred HHHhccchhHHHHHHHHHHHHhhHHHHHHhH
Confidence 5666655566666666655555666555443
No 110
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=23.86 E-value=57 Score=25.68 Aligned_cols=27 Identities=22% Similarity=0.022 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 42 GALCALAGVLTIALPVPVIVSNFSRFY 68 (123)
Q Consensus 42 ~~~~~l~Gi~~~~~~i~~i~~~~~~~~ 68 (123)
..++.+++.+++.+++-.+.+.+.+.+
T Consensus 181 ~~~~~l~~~~~~~~~via~~D~~~qr~ 207 (349)
T PRK12721 181 TLIFWLWGGLLACYLVFGILDYSFQRY 207 (349)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444433
No 111
>PRK09108 type III secretion system protein HrcU; Validated
Probab=23.65 E-value=47 Score=26.19 Aligned_cols=25 Identities=12% Similarity=-0.126 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 43 ALCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 43 ~~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
.+..++..+.+.+++-.+.+.+.+.
T Consensus 184 ~~~~l~~~~~~~~~via~~D~~~qr 208 (353)
T PRK09108 184 VLMKLLAVAAGVFLLVGAADWKIQR 208 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333343333344444433
No 112
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=23.55 E-value=56 Score=27.73 Aligned_cols=14 Identities=7% Similarity=-0.007 Sum_probs=5.9
Q ss_pred ccccCCCCCCCCCC
Q psy11889 85 LPVEQPRPKRGESV 98 (123)
Q Consensus 85 ~~~~~~~~~~~~~~ 98 (123)
.++++..|..+..|
T Consensus 481 qEvK~E~Ke~EGdP 494 (609)
T PRK12772 481 QEVKEEYKQDEGDP 494 (609)
T ss_pred HHHHHHHHhccCCH
Confidence 33444444444444
No 113
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=23.53 E-value=1.3e+02 Score=19.56 Aligned_cols=16 Identities=25% Similarity=0.461 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHH
Q psy11889 49 GVLTIALPVPVIVSNF 64 (123)
Q Consensus 49 Gi~~~~~~i~~i~~~~ 64 (123)
+++.+.+++..+++.+
T Consensus 5 ~il~llLll~l~asl~ 20 (107)
T PF15330_consen 5 GILALLLLLSLAASLL 20 (107)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333344444444433
No 114
>PF06166 DUF979: Protein of unknown function (DUF979); InterPro: IPR009323 This family consists of several putative bacterial membrane proteins. The function of this family is unclear.
Probab=23.50 E-value=1.1e+02 Score=23.85 Aligned_cols=32 Identities=31% Similarity=0.648 Sum_probs=22.3
Q ss_pred CchhhHHHHHhhhhhccccccccccCchhHHHH
Q psy11889 10 NSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVG 42 (123)
Q Consensus 10 ~s~~~aly~~~vt~tTVGyGDi~P~t~~gr~~~ 42 (123)
..+..+++|..--++ ..+||.-|.-..|-++.
T Consensus 27 ~R~gt~lFW~llg~~-F~~G~~lp~~~~G~lvl 58 (308)
T PF06166_consen 27 KRIGTALFWGLLGLI-FIFGDYLPPFVVGILVL 58 (308)
T ss_pred cccchHHHHHHHHHH-HHcCccchhHHHHHHHH
Confidence 677789999877763 46799888765544433
No 115
>PF13140 DUF3980: Domain of unknown function (DUF3980)
Probab=23.49 E-value=1.9e+02 Score=17.76 Aligned_cols=27 Identities=15% Similarity=0.378 Sum_probs=20.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 36 YVGMFVGALCALAGVLTIALPVPVIVS 62 (123)
Q Consensus 36 ~~gr~~~~~~~l~Gi~~~~~~i~~i~~ 62 (123)
..|.+|-..+.+.|+.+|-+++-.+..
T Consensus 57 ~lgsifqsvlvf~giwvfillvetvik 83 (87)
T PF13140_consen 57 ILGSIFQSVLVFCGIWVFILLVETVIK 83 (87)
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356778888888999888887665543
No 116
>PRK10417 nikC nickel transporter permease NikC; Provisional
Probab=23.30 E-value=3e+02 Score=20.50 Aligned_cols=23 Identities=17% Similarity=0.447 Sum_probs=13.7
Q ss_pred hhhhhccccccccccCchhHHHH
Q psy11889 20 LVTMTTVGYGDMVPKTYVGMFVG 42 (123)
Q Consensus 20 ~vt~tTVGyGDi~P~t~~gr~~~ 42 (123)
..+++=+|.|..-|...+|.++.
T Consensus 202 ~a~LsflGlg~~~~~~~wG~mi~ 224 (272)
T PRK10417 202 VAGLSFLGLGVTAPTAEWGVMIN 224 (272)
T ss_pred HHHHHHccCCCCCCCCCHHHHHH
Confidence 34555567776666666675543
No 117
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=23.24 E-value=56 Score=25.72 Aligned_cols=27 Identities=15% Similarity=0.127 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 42 GALCALAGVLTIALPVPVIVSNFSRFY 68 (123)
Q Consensus 42 ~~~~~l~Gi~~~~~~i~~i~~~~~~~~ 68 (123)
..++.++..++.++++-.+.+...+.+
T Consensus 181 ~~~~~l~~~~~~~~~via~~D~~~qr~ 207 (347)
T TIGR00328 181 DIAKSLLILVLLLLLVIAVFDYFFQRW 207 (347)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444433
No 118
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=23.23 E-value=49 Score=26.18 Aligned_cols=26 Identities=15% Similarity=0.014 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 42 GALCALAGVLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 42 ~~~~~l~Gi~~~~~~i~~i~~~~~~~ 67 (123)
..++.++..+++.+++-.+.+.+.+.
T Consensus 188 ~~~~~l~~~~~~~~~via~~D~~~qr 213 (359)
T PRK05702 188 DLVLKLLLLVVLALLVIAAIDVPFQR 213 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333433444444333344444433
No 119
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....
Probab=22.90 E-value=75 Score=21.15 Aligned_cols=20 Identities=10% Similarity=0.089 Sum_probs=11.0
Q ss_pred cccccccCchhHHHHHHHHH
Q psy11889 28 YGDMVPKTYVGMFVGALCAL 47 (123)
Q Consensus 28 yGDi~P~t~~gr~~~~~~~l 47 (123)
..|.-|.+...+.+...+.+
T Consensus 44 ~~~~lP~~s~~~pl~~~~~~ 63 (237)
T PF02932_consen 44 VAENLPPTSYAKPLDGWYFI 63 (237)
T ss_dssp HHHHHHHHHHHSHHHHHHHH
T ss_pred hhhhhcccccccchhhhhcc
Confidence 45667776655555444433
No 120
>PRK10714 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional
Probab=22.87 E-value=3.5e+02 Score=20.65 Aligned_cols=29 Identities=14% Similarity=0.323 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 40 FVGALCALAGVLTIALPVPVIVSNFSRFYSH 70 (123)
Q Consensus 40 ~~~~~~~l~Gi~~~~~~i~~i~~~~~~~~~~ 70 (123)
++++++++.|+. .+++++++..+.+.+.+
T Consensus 271 ~~~~~l~~~g~~--l~~lG~igeyi~~i~~~ 299 (325)
T PRK10714 271 LFAVLFTFIGAQ--FIGMGLLGEYIGRIYND 299 (325)
T ss_pred HHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
Confidence 334444444433 44567777777766655
No 121
>PF11812 DUF3333: Domain of unknown function (DUF3333); InterPro: IPR024573 This N-terminal domain is functionally uncharacterised and it is found in proteins annotated as putative phosphate ABC transporter permease proteins. This presumed domain is typically between 116 to 159 amino acids in length.
Probab=22.82 E-value=1.7e+02 Score=20.34 Aligned_cols=23 Identities=13% Similarity=0.053 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 39 MFVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 39 r~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
|++++.-+++|+++..+++..|.
T Consensus 16 r~~g~~Ai~~~l~fL~~ll~sI~ 38 (155)
T PF11812_consen 16 RAYGLAAIAIALAFLVILLFSIV 38 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666677766666665554
No 122
>PF11803 UXS1_N: UDP-glucuronate decarboxylase N-terminal; InterPro: IPR021761 The N terminus of the UDP-glucuronate decarboxylases may be involved in localisation to the perinuclear Golgi membrane. ; GO: 0048040 UDP-glucuronate decarboxylase activity
Probab=22.76 E-value=1e+02 Score=18.92 Aligned_cols=22 Identities=23% Similarity=0.095 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy11889 45 CALAGVLTIALPVPVIVSNFSR 66 (123)
Q Consensus 45 ~~l~Gi~~~~~~i~~i~~~~~~ 66 (123)
-.++|+++++++.+..++.+..
T Consensus 19 kll~~lal~ayiasvwg~~vnm 40 (78)
T PF11803_consen 19 KLLLGLALIAYIASVWGNYVNM 40 (78)
T ss_pred HHHHHHHHHHHHHHHHHhhcCH
Confidence 3456777777766666554443
No 123
>TIGR00774 NhaB Na+/H+ antiporter NhaB. These proteins are members of the NhaB Na+:H+ Antiporter (NhaB) Family (TC 2.A.34). The only characterised member of this family is the Escherichia coli NhaB protein, which has 12 GES predicted transmembrane regions, and catalyses sodium/proton exchange. Unlike NhaA this activity is not pH dependent.
Probab=22.60 E-value=2.4e+02 Score=23.57 Aligned_cols=21 Identities=24% Similarity=-0.042 Sum_probs=18.3
Q ss_pred hhHHHHHhhhhhcccccccccc
Q psy11889 13 PLGLWWALVTMTTVGYGDMVPK 34 (123)
Q Consensus 13 ~~aly~~~vt~tTVGyGDi~P~ 34 (123)
.+.+||++.+-+|.| |+.+|.
T Consensus 432 ~~~LWWALALGA~LG-GNaTpi 452 (515)
T TIGR00774 432 FELLAVAINTGTNLP-SVATPN 452 (515)
T ss_pred ccHHHHHHHHhcccc-ccccHH
Confidence 478999999999999 888874
No 124
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=22.59 E-value=62 Score=25.60 Aligned_cols=27 Identities=19% Similarity=0.085 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 42 GALCALAGVLTIALPVPVIVSNFSRFY 68 (123)
Q Consensus 42 ~~~~~l~Gi~~~~~~i~~i~~~~~~~~ 68 (123)
..+..+++.++.++++-.+.+...+.+
T Consensus 190 ~~~~~l~~~~~~~~~via~~D~~~q~~ 216 (358)
T PRK13109 190 TVAIRLVSAVAIATIVLVALDLVWARF 216 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444433
No 125
>PF11100 TrbE: Conjugal transfer protein TrbE ; InterPro: IPR020150 TrbE is encoded by the F-plasmid and is located between traN and traF. The product of trbE is a small, integral, inner membrane protein. Mutation of trbE by insertional mutagenesis suggests that TrbE is not essential for F transfer from Escherichia coli (strain K12) under standard mating conditions [].
Probab=22.49 E-value=1.8e+02 Score=17.21 Aligned_cols=36 Identities=14% Similarity=0.091 Sum_probs=17.8
Q ss_pred cccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 30 DMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFS 65 (123)
Q Consensus 30 Di~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~~~~~ 65 (123)
|.+-.|.+|.++...+.+...+.+.+++-...+.+.
T Consensus 25 DaVk~Tt~~d~l~a~~~I~~~g~~~~~~y~ffs~Lt 60 (66)
T PF11100_consen 25 DAVKETTASDILEAVFFILASGFMLFILYCFFSALT 60 (66)
T ss_pred ccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455666666555555444444444444444443
No 126
>KOG3462|consensus
Probab=22.24 E-value=2.3e+02 Score=18.23 Aligned_cols=9 Identities=11% Similarity=0.497 Sum_probs=4.0
Q ss_pred HHHHHhhhh
Q psy11889 15 GLWWALVTM 23 (123)
Q Consensus 15 aly~~~vt~ 23 (123)
|+|++++++
T Consensus 59 Al~cs~iSf 67 (105)
T KOG3462|consen 59 ALYCSCISF 67 (105)
T ss_pred HHHHHHHHH
Confidence 444444444
No 127
>PF13623 SurA_N_2: SurA N-terminal domain
Probab=22.09 E-value=1.1e+02 Score=20.85 Aligned_cols=18 Identities=22% Similarity=0.196 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy11889 43 ALCALAGVLTIALPVPVI 60 (123)
Q Consensus 43 ~~~~l~Gi~~~~~~i~~i 60 (123)
++++++|+++++++++-+
T Consensus 10 lLi~vIglAL~aFIv~d~ 27 (145)
T PF13623_consen 10 LLIIVIGLALFAFIVGDF 27 (145)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455678899999877544
No 128
>PF02175 7TM_GPCR_Srb: Serpentine type 7TM GPCR chemoreceptor Srb; InterPro: IPR002184 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class b (Srb) from the Sra superfamily []. Srb receptors contain 6-8 hydrophobic, putative transmembrane, regions and can be distinguished from other 7TM GPCR receptors by their own characteristic TM signatures.; GO: 0004888 transmembrane signaling receptor activity, 0007606 sensory perception of chemical stimulus, 0016021 integral to membrane
Probab=21.92 E-value=3.5e+02 Score=20.27 Aligned_cols=30 Identities=20% Similarity=0.105 Sum_probs=23.7
Q ss_pred cccCchhHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 32 VPKTYVGMFVGALCALAGVLTIALPVPVIV 61 (123)
Q Consensus 32 ~P~t~~gr~~~~~~~l~Gi~~~~~~i~~i~ 61 (123)
.|.|.+-+....+|.++++=+.-++...+.
T Consensus 162 ~P~tsa~~~n~~~~~Ll~~~i~nl~~n~~L 191 (236)
T PF02175_consen 162 IPSTSAPKFNIFFWFLLYLNIFNLIFNCIL 191 (236)
T ss_pred ecCccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 599999999999999888777776555544
No 129
>PF11872 DUF3392: Protein of unknown function (DUF3392); InterPro: IPR021813 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 110 amino acids in length.
Probab=21.83 E-value=60 Score=21.23 Aligned_cols=11 Identities=27% Similarity=0.736 Sum_probs=4.6
Q ss_pred hhhhccccccc
Q psy11889 21 VTMTTVGYGDM 31 (123)
Q Consensus 21 vt~tTVGyGDi 31 (123)
+-+...|||-.
T Consensus 58 IlicAFGYGll 68 (106)
T PF11872_consen 58 ILICAFGYGLL 68 (106)
T ss_pred HHHHHHHHHHH
Confidence 33334444443
No 130
>PRK08156 type III secretion system protein SpaS; Validated
Probab=21.49 E-value=56 Score=25.92 Aligned_cols=18 Identities=6% Similarity=0.202 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy11889 50 VLTIALPVPVIVSNFSRF 67 (123)
Q Consensus 50 i~~~~~~i~~i~~~~~~~ 67 (123)
.++.++++-.+.+.+.+.
T Consensus 184 ~~~~~~lvia~~D~~~Qr 201 (361)
T PRK08156 184 TFLACALIVLILDFIAEY 201 (361)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333344444433
No 131
>PF02656 DUF202: Domain of unknown function (DUF202); InterPro: IPR003807 This entry describes proteins of unknown function.
Probab=21.32 E-value=1.8e+02 Score=16.81 Aligned_cols=20 Identities=30% Similarity=0.453 Sum_probs=9.6
Q ss_pred chhHHHHHHHHHHHHHHHHH
Q psy11889 36 YVGMFVGALCALAGVLTIAL 55 (123)
Q Consensus 36 ~~gr~~~~~~~l~Gi~~~~~ 55 (123)
...+.+..+++++|++++.+
T Consensus 43 ~~~~~~~~~~~~~~~~~~~~ 62 (73)
T PF02656_consen 43 RVSKVLGLLLIVLGLLTLIY 62 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455555555544444433
No 132
>PRK12468 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=21.02 E-value=56 Score=26.14 Aligned_cols=13 Identities=23% Similarity=0.120 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHHH
Q psy11889 54 ALPVPVIVSNFSR 66 (123)
Q Consensus 54 ~~~i~~i~~~~~~ 66 (123)
.+++-.+.+.+.+
T Consensus 200 ~~~via~~D~~~q 212 (386)
T PRK12468 200 GLSPMVGFDVFYQ 212 (386)
T ss_pred HHHHHHHHHHHHH
Confidence 3333334444443
No 133
>PF07963 N_methyl: Prokaryotic N-terminal methylation motif; InterPro: IPR012902 This short motif directs methylation of the conserved phenylalanine residue. It is most often found at the N terminus of pilins and other proteins involved in secretion, see IPR001082 from INTERPRO, IPR010271 from INTERPRO, IPR003413 from INTERPRO and IPR011453 from INTERPRO. This model describes many (but not all) examples of the N-terminal region of bacterial proteins that resemble type IV pilins at their N terminus []. This domain contains a cleavage site G^FxxxE followed by a hydrophobic stretch. The new N-terminal residue produced after cleavage, usually Phe, is methylated. Separate domains of the prepilin peptidase appear to be responsible for cleavage and methylation. Proteins with this N-terminal region include type IV pilins and other components of pilus biogenesis, competence proteins, and type II secretion proteins. Typically several proteins in a single operon have this region.
Probab=20.70 E-value=91 Score=14.02 Aligned_cols=15 Identities=20% Similarity=0.228 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHH
Q psy11889 41 VGALCALAGVLTIAL 55 (123)
Q Consensus 41 ~~~~~~l~Gi~~~~~ 55 (123)
|+.+-+++.+.+++.
T Consensus 3 FTLiE~~v~l~i~~i 17 (20)
T PF07963_consen 3 FTLIELLVALAIIAI 17 (20)
T ss_pred eeHHHHHHHHHHHHH
Confidence 444555555555544
No 134
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=20.66 E-value=46 Score=24.24 Aligned_cols=21 Identities=29% Similarity=0.222 Sum_probs=11.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q psy11889 38 GMFVGALCALAGVLTIALPVP 58 (123)
Q Consensus 38 gr~~~~~~~l~Gi~~~~~~i~ 58 (123)
-|++.++++.+-+..++|.+.
T Consensus 23 ~rlv~~lL~~~~V~~lGy~f~ 43 (211)
T COG3167 23 PRLVFCLLAVAAVLGLGYAFY 43 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 466666555555555555443
No 135
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=20.52 E-value=3.7e+02 Score=20.05 Aligned_cols=13 Identities=23% Similarity=0.542 Sum_probs=7.1
Q ss_pred Hhhhhhcccccccc
Q psy11889 19 ALVTMTTVGYGDMV 32 (123)
Q Consensus 19 ~~vt~tTVGyGDi~ 32 (123)
.++.+.|+| ||+-
T Consensus 163 LF~lvmt~g-~d~m 175 (230)
T PF03904_consen 163 LFALVMTIG-SDFM 175 (230)
T ss_pred HHHHHHHhc-ccch
Confidence 355566666 4543
No 136
>PF13150 DUF3989: Protein of unknown function (DUF3989)
Probab=20.12 E-value=2.1e+02 Score=17.77 Aligned_cols=9 Identities=22% Similarity=0.091 Sum_probs=4.5
Q ss_pred HHHHHHHHH
Q psy11889 39 MFVGALCAL 47 (123)
Q Consensus 39 r~~~~~~~l 47 (123)
|...++.++
T Consensus 27 R~~vvl~ml 35 (85)
T PF13150_consen 27 RLRVVLVML 35 (85)
T ss_pred HHHHHHHHH
Confidence 555554444
No 137
>CHL00066 psbH photosystem II protein H
Probab=20.10 E-value=2.2e+02 Score=17.29 Aligned_cols=8 Identities=38% Similarity=0.929 Sum_probs=5.5
Q ss_pred cccccccc
Q psy11889 27 GYGDMVPK 34 (123)
Q Consensus 27 GyGDi~P~ 34 (123)
-||...|.
T Consensus 29 eyGkvapg 36 (73)
T CHL00066 29 EYGKVAPG 36 (73)
T ss_pred ccCcccCC
Confidence 57777774
No 138
>COG2885 OmpA Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]
Probab=20.09 E-value=42 Score=23.52 Aligned_cols=15 Identities=40% Similarity=0.731 Sum_probs=12.5
Q ss_pred hhhhccccccccccC
Q psy11889 21 VTMTTVGYGDMVPKT 35 (123)
Q Consensus 21 vt~tTVGyGDi~P~t 35 (123)
--+.|+|||.-.|..
T Consensus 155 ~~i~~~G~G~~~Pia 169 (190)
T COG2885 155 DRISTVGYGEEKPIA 169 (190)
T ss_pred ccEEEEEcCcCCCCC
Confidence 367899999999964
No 139
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=20.06 E-value=2e+02 Score=20.36 Aligned_cols=26 Identities=15% Similarity=0.132 Sum_probs=20.1
Q ss_pred hccccccccccCchhHHHHHHHHHHH
Q psy11889 24 TTVGYGDMVPKTYVGMFVGALCALAG 49 (123)
Q Consensus 24 tTVGyGDi~P~t~~gr~~~~~~~l~G 49 (123)
++.|.|+|.+.....|-+...+.=++
T Consensus 127 s~~~~~~I~~~~~~~k~f~~~~~~w~ 152 (181)
T PF05753_consen 127 SPPGEGDILAERDYDKKFSSHVMDWG 152 (181)
T ss_pred cCCCcceEEeccccchhhhhhHHHHH
Confidence 68899999999888888876644433
No 140
>PF11773 PulG: Type II secretory pathway pseudopilin ; InterPro: IPR021749 The secreton (type II secretion) and type IV pilus biogenesis branches of the general secretory pathway in Gram-negative bacteria share many features that suggest a common evolutionary origin. Five components of the secreton, the pseudopilins, are similar to subunits of type IV pili. Pseudopilin PulG is one of the secreton pseudopilins, and is found to assemble into pilus-like bundles []. PulG interacts with proteins H, I and J within the multi-protein complex as well as blocking extracellular secretion and reducing the amount of PulE protein as well as the amounts of PulL, PulM, PulC and PulD when G is over-expressed []. In Klebsiella the pilus-like structure is composed largely of PulG [].
Probab=20.06 E-value=2.4e+02 Score=17.58 Aligned_cols=27 Identities=19% Similarity=0.219 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11889 44 LCALAGVLTIALPVPVIVSNFSRFYSH 70 (123)
Q Consensus 44 ~~~l~Gi~~~~~~i~~i~~~~~~~~~~ 70 (123)
+-++++++++++++..+.+.+.+..++
T Consensus 3 LEsLiAlall~~IvsLiL~~i~~sr~~ 29 (82)
T PF11773_consen 3 LESLIALALLATIVSLILGQIQQSRQE 29 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446778888888888887776655443
Done!