Query 041282
Match_columns 144
No_of_seqs 107 out of 190
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 05:37:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041282.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041282hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01277 Oleosin: Oleosin; In 100.0 1.3E-52 2.9E-57 317.4 16.2 117 19-135 1-117 (118)
2 PF01277 Oleosin: Oleosin; In 94.1 2 4.4E-05 33.0 12.3 98 35-137 10-112 (118)
3 PF11990 DUF3487: Protein of u 93.6 0.35 7.5E-06 36.9 6.8 49 44-103 31-80 (121)
4 PF08006 DUF1700: Protein of u 92.3 4.4 9.5E-05 31.5 11.6 24 42-66 101-124 (181)
5 PF04156 IncA: IncA protein; 90.5 3.6 7.8E-05 31.9 9.3 15 57-71 33-47 (191)
6 PRK09459 pspG phage shock prot 88.3 2.9 6.2E-05 30.2 6.7 26 35-60 12-37 (76)
7 PF07332 DUF1469: Protein of u 85.3 12 0.00025 27.0 10.3 35 87-125 84-118 (121)
8 PF07178 TraL: TraL protein; 84.8 3.6 7.9E-05 29.5 5.8 36 72-107 27-63 (95)
9 PRK10801 colicin uptake protei 84.4 12 0.00026 30.9 9.4 73 44-129 139-214 (227)
10 COG0811 TolQ Biopolymer transp 81.5 23 0.00051 28.8 9.9 72 44-127 134-207 (216)
11 TIGR02797 exbB tonB-system ene 80.6 16 0.00035 29.6 8.6 70 44-126 134-206 (211)
12 PRK10414 biopolymer transport 79.7 21 0.00046 30.0 9.3 71 44-127 145-218 (244)
13 TIGR02796 tolQ TolQ protein. T 78.8 28 0.00061 28.3 9.5 88 23-128 121-212 (215)
14 TIGR03750 conj_TIGR03750 conju 78.2 8.4 0.00018 29.3 5.9 32 45-76 29-61 (111)
15 PF01618 MotA_ExbB: MotA/TolQ/ 76.3 28 0.00061 25.9 8.3 53 44-102 70-125 (139)
16 PF12537 DUF3735: Protein of u 74.3 15 0.00032 25.2 5.9 56 71-132 15-71 (72)
17 PF09583 Phageshock_PspG: Phag 73.9 18 0.00038 25.5 6.1 26 35-60 12-37 (65)
18 TIGR01666 YCCS hypothetical me 72.7 37 0.00081 32.7 10.0 22 44-65 432-453 (704)
19 PRK15083 PTS system mannitol-s 71.9 16 0.00035 34.3 7.2 92 23-132 271-363 (639)
20 PF12732 YtxH: YtxH-like prote 71.0 19 0.00041 24.4 5.7 13 77-89 3-15 (74)
21 TIGR01667 YCCS_YHJK integral m 70.8 41 0.0009 32.2 9.8 19 44-62 434-452 (701)
22 PF06695 Sm_multidrug_ex: Puta 67.6 49 0.0011 24.7 8.4 42 87-133 32-73 (121)
23 TIGR02975 phageshock_pspG phag 67.5 29 0.00063 24.3 6.0 26 35-60 11-36 (64)
24 PRK13707 conjugal transfer pil 64.8 22 0.00048 26.3 5.4 31 76-106 37-68 (101)
25 COG4709 Predicted membrane pro 62.0 95 0.0021 26.0 10.1 22 78-99 152-173 (195)
26 PF12270 Cyt_c_ox_IV: Cytochro 61.8 17 0.00037 28.6 4.5 47 58-104 81-135 (137)
27 PRK11365 ssuC alkanesulfonate 61.5 65 0.0014 26.4 8.1 10 18-27 40-49 (263)
28 PF12597 DUF3767: Protein of u 58.6 31 0.00067 26.1 5.3 64 44-122 45-109 (118)
29 PF12153 CAP18_C: LPS binding 58.1 16 0.00035 21.8 3.0 24 110-133 3-26 (28)
30 PRK01345 heat shock protein Ht 57.9 1.2E+02 0.0026 26.1 9.5 32 94-125 49-80 (317)
31 PRK04897 heat shock protein Ht 57.1 94 0.002 26.4 8.6 37 89-125 57-93 (298)
32 PF05957 DUF883: Bacterial pro 56.0 12 0.00025 26.4 2.5 26 109-134 27-52 (94)
33 PF14017 DUF4233: Protein of u 55.5 85 0.0018 23.4 7.4 32 73-104 68-99 (107)
34 COG5393 Predicted membrane pro 55.4 1E+02 0.0022 24.3 10.3 22 36-57 50-71 (131)
35 PF10112 Halogen_Hydrol: 5-bro 54.9 1E+02 0.0022 24.2 8.3 11 113-123 72-82 (199)
36 PRK15100 amino acid ABC transp 53.5 1.1E+02 0.0024 24.2 8.7 9 108-116 116-124 (220)
37 PF04156 IncA: IncA protein; 53.5 1E+02 0.0022 23.7 11.5 15 61-75 33-47 (191)
38 COG4818 Predicted membrane pro 53.1 49 0.0011 25.2 5.5 49 56-104 37-86 (105)
39 PF08006 DUF1700: Protein of u 52.5 1.1E+02 0.0023 23.7 11.0 14 54-67 119-132 (181)
40 PF13829 DUF4191: Domain of un 52.2 41 0.00089 28.5 5.5 41 39-81 35-75 (224)
41 PF02987 LEA_4: Late embryogen 50.8 22 0.00048 22.1 2.9 23 111-133 8-30 (44)
42 PF04632 FUSC: Fusaric acid re 50.6 1.9E+02 0.0042 26.1 11.6 41 42-82 51-93 (650)
43 PF05957 DUF883: Bacterial pro 50.4 19 0.00042 25.3 2.9 28 108-135 37-64 (94)
44 PF06120 Phage_HK97_TLTM: Tail 48.3 42 0.00091 29.4 5.2 45 80-133 21-68 (301)
45 PF01970 TctA: Tripartite tric 46.7 25 0.00054 31.6 3.7 30 41-70 93-122 (419)
46 PF11286 DUF3087: Protein of u 46.3 1.3E+02 0.0028 24.5 7.4 44 88-132 58-106 (165)
47 COG4709 Predicted membrane pro 46.0 1.8E+02 0.0039 24.4 11.4 15 84-98 162-176 (195)
48 cd03513 CrtW_beta-carotene-ket 45.3 70 0.0015 26.4 5.9 23 41-63 1-23 (225)
49 COG0600 TauC ABC-type nitrate/ 45.1 1.9E+02 0.0041 24.5 8.7 63 54-116 98-161 (258)
50 PF14019 DUF4235: Protein of u 44.3 52 0.0011 23.0 4.3 27 88-114 15-42 (78)
51 TIGR02805 exbB2 tonB-system en 44.1 1.1E+02 0.0024 24.1 6.5 56 44-102 70-125 (138)
52 TIGR01478 STEVOR variant surfa 43.8 1.4E+02 0.003 26.5 7.7 18 31-48 180-197 (295)
53 TIGR01597 PYST-B Plasmodium yo 43.6 61 0.0013 28.1 5.3 11 91-101 234-244 (255)
54 PF01034 Syndecan: Syndecan do 43.3 3.2 6.8E-05 29.1 -2.0 25 90-116 27-51 (64)
55 COG4425 Predicted membrane pro 42.6 83 0.0018 30.1 6.4 62 39-105 46-107 (588)
56 PRK03072 heat shock protein Ht 42.3 2.1E+02 0.0046 24.2 9.1 34 91-124 49-82 (288)
57 TIGR01190 ccmB heme exporter p 41.7 1.8E+02 0.0038 24.0 7.7 43 40-82 133-181 (211)
58 PRK11026 ftsX cell division AB 41.3 1.8E+02 0.0039 24.9 7.9 25 81-105 284-308 (309)
59 PF13886 DUF4203: Domain of un 41.2 1.8E+02 0.0039 23.0 8.8 80 21-103 53-159 (210)
60 PRK05812 secD preprotein trans 41.1 1.3E+02 0.0028 27.9 7.5 33 44-76 435-467 (498)
61 PRK10404 hypothetical protein; 40.6 29 0.00064 25.6 2.7 26 109-134 45-70 (101)
62 PF12811 BaxI_1: Bax inhibitor 39.6 2.5E+02 0.0055 24.3 9.8 29 42-72 90-119 (274)
63 TIGR00439 ftsX putative protei 39.3 1.7E+02 0.0037 25.0 7.5 27 79-105 282-308 (309)
64 PF01618 MotA_ExbB: MotA/TolQ/ 39.3 34 0.00073 25.5 2.9 19 43-61 102-120 (139)
65 COG0811 TolQ Biopolymer transp 38.8 33 0.00072 27.9 3.0 19 43-61 166-184 (216)
66 PF12729 4HB_MCP_1: Four helix 38.1 1.4E+02 0.0031 20.9 6.0 25 109-133 75-99 (181)
67 PTZ00370 STEVOR; Provisional 38.0 1.6E+02 0.0034 26.2 7.1 18 31-48 180-197 (296)
68 TIGR03750 conj_TIGR03750 conju 37.7 1.8E+02 0.0039 22.1 7.6 9 94-102 68-76 (111)
69 PRK03982 heat shock protein Ht 37.7 2.4E+02 0.0053 23.5 8.7 34 93-126 49-82 (288)
70 PF15420 Abhydrolase_9_N: Alph 37.6 65 0.0014 26.4 4.5 43 61-105 1-43 (208)
71 COG2148 WcaJ Sugar transferase 36.2 31 0.00067 29.2 2.5 18 57-74 52-69 (226)
72 TIGR02762 TraL_TIGR type IV co 36.1 1.3E+02 0.0029 21.6 5.5 14 93-106 52-65 (95)
73 PF03379 CcmB: CcmB protein; 36.1 2.3E+02 0.005 22.8 7.5 47 36-82 132-184 (215)
74 PRK02391 heat shock protein Ht 35.9 2E+02 0.0044 24.5 7.4 37 90-126 54-90 (296)
75 PRK01315 putative inner membra 35.7 1.2E+02 0.0026 26.8 6.1 31 51-81 217-247 (329)
76 TIGR00930 2a30 K-Cl cotranspor 35.6 2.2E+02 0.0048 28.4 8.5 42 65-106 501-542 (953)
77 TIGR01097 PhnE phosphonate ABC 35.1 2.3E+02 0.0051 22.6 7.6 24 92-115 137-161 (250)
78 PF06796 NapE: Periplasmic nit 34.7 1.1E+02 0.0024 20.8 4.6 14 89-102 39-52 (56)
79 COG1289 Predicted membrane pro 34.6 3.2E+02 0.007 25.6 9.0 74 44-122 407-485 (674)
80 PRK10631 p-hydroxybenzoic acid 32.9 4.6E+02 0.01 25.3 11.6 85 33-121 58-151 (652)
81 PF12420 DUF3671: Protein of u 32.6 1.6E+02 0.0034 21.8 5.5 19 83-101 81-99 (104)
82 PRK13023 bifunctional preprote 32.3 2.4E+02 0.0052 27.8 8.0 54 45-101 381-435 (758)
83 PF07787 DUF1625: Protein of u 32.3 1.4E+02 0.0031 24.5 5.7 58 32-97 188-245 (248)
84 PF13072 DUF3936: Protein of u 32.2 14 0.00029 23.6 -0.2 21 117-137 11-31 (38)
85 TIGR02973 nitrate_rd_NapE peri 32.2 1.4E+02 0.003 19.3 4.4 14 89-102 26-39 (42)
86 PF03773 DUF318: Predicted per 32.2 2.9E+02 0.0064 23.2 7.7 47 57-103 88-137 (307)
87 PF05915 DUF872: Eukaryotic pr 32.1 1.2E+02 0.0026 22.9 4.9 10 95-104 96-105 (115)
88 PF05145 AmoA: Putative ammoni 31.9 3.1E+02 0.0067 23.6 7.9 81 39-135 28-108 (318)
89 PRK13022 secF preprotein trans 31.9 2.8E+02 0.006 23.6 7.6 37 47-86 235-271 (289)
90 PRK00523 hypothetical protein; 30.9 1.8E+02 0.0038 20.8 5.2 17 92-109 26-42 (72)
91 PF02397 Bac_transf: Bacterial 30.8 58 0.0013 26.3 3.2 24 51-74 6-29 (187)
92 PRK00247 putative inner membra 30.7 4.3E+02 0.0094 24.4 12.7 57 48-113 227-286 (429)
93 TIGR02976 phageshock_pspB phag 30.0 2E+02 0.0044 20.3 7.1 39 92-130 18-59 (75)
94 PRK09776 putative diguanylate 29.7 5E+02 0.011 24.7 9.6 18 44-61 141-158 (1092)
95 TIGR02972 TMAO_torE trimethyla 29.1 1.6E+02 0.0035 19.5 4.4 14 89-102 31-44 (47)
96 PRK10263 DNA translocase FtsK; 29.0 4.3E+02 0.0093 28.1 9.5 21 45-65 142-162 (1355)
97 COG1292 BetT Choline-glycine b 28.4 4.8E+02 0.01 25.0 9.0 91 14-129 438-533 (537)
98 TIGR01998 PTS-II-BC-nag PTS sy 28.3 1.9E+02 0.0042 26.5 6.4 42 48-89 152-193 (476)
99 PF01864 DUF46: Putative integ 28.1 2.2E+02 0.0047 23.0 6.0 23 93-115 104-130 (175)
100 PRK12933 secD preprotein trans 27.9 2.4E+02 0.0053 27.2 7.1 56 42-99 541-596 (604)
101 COG1422 Predicted membrane pro 27.6 3.7E+02 0.008 22.6 10.0 22 60-81 36-57 (201)
102 COG5346 Predicted membrane pro 26.9 1E+02 0.0022 24.5 3.8 19 72-90 105-123 (136)
103 TIGR02797 exbB tonB-system ene 26.9 55 0.0012 26.5 2.4 20 43-62 166-185 (211)
104 PRK01844 hypothetical protein; 26.8 2.4E+02 0.0051 20.2 5.3 18 91-109 24-41 (72)
105 COG2020 STE14 Putative protein 26.6 3.2E+02 0.007 21.5 8.3 86 38-133 70-179 (187)
106 PRK12652 putative monovalent c 26.4 88 0.0019 27.7 3.8 39 27-65 171-210 (357)
107 PRK14726 bifunctional preprote 25.9 3.1E+02 0.0066 27.5 7.6 37 42-78 472-508 (855)
108 TIGR02790 nickel_nikC nickel A 25.4 3.7E+02 0.0081 21.9 8.7 38 64-102 105-145 (258)
109 PF06081 DUF939: Bacterial pro 25.2 3E+02 0.0065 20.7 8.2 16 108-123 114-129 (141)
110 TIGR01104 V_PPase vacuolar-typ 25.2 1.5E+02 0.0033 29.1 5.3 39 85-124 10-48 (697)
111 PF12666 PrgI: PrgI family pro 25.1 2.4E+02 0.0051 19.5 6.1 19 17-35 16-34 (93)
112 PF05532 CsbD: CsbD-like; Int 25.0 79 0.0017 20.6 2.5 23 109-131 31-53 (53)
113 PF04341 DUF485: Protein of un 24.9 2.5E+02 0.0055 19.8 7.6 13 91-103 67-79 (91)
114 COG4537 ComGC Competence prote 24.9 59 0.0013 24.9 2.1 28 40-67 12-39 (107)
115 PRK15127 multidrug efflux syst 24.4 1.2E+02 0.0027 30.1 4.7 43 52-97 984-1029(1049)
116 PF05337 CSF-1: Macrophage col 24.2 26 0.00055 30.8 0.0 19 63-81 229-247 (285)
117 TIGR02865 spore_II_E stage II 23.8 6.8E+02 0.015 24.4 10.6 54 46-102 240-293 (764)
118 PF11990 DUF3487: Protein of u 23.6 3.3E+02 0.0072 20.7 6.6 7 94-100 83-89 (121)
119 TIGR02805 exbB2 tonB-system en 23.6 87 0.0019 24.7 2.9 21 42-62 101-121 (138)
120 PRK09946 hypothetical protein; 23.4 1.4E+02 0.0029 26.2 4.2 27 92-118 13-39 (270)
121 PRK14402 membrane protein; Pro 23.4 3.5E+02 0.0077 22.2 6.5 35 51-85 107-144 (198)
122 COG4459 NapE Periplasmic nitra 23.4 2.5E+02 0.0054 19.6 4.7 18 90-109 43-60 (62)
123 PRK06231 F0F1 ATP synthase sub 23.3 2.2E+02 0.0049 23.0 5.3 10 91-100 59-68 (205)
124 PF00873 ACR_tran: AcrB/AcrD/A 23.0 7.3E+02 0.016 24.4 9.8 79 41-125 433-515 (1021)
125 PF05283 MGC-24: Multi-glycosy 23.0 91 0.002 25.6 3.0 26 76-101 160-185 (186)
126 TIGR03003 ectoine_ehuD ectoine 22.8 3.6E+02 0.0078 20.8 8.9 31 86-116 89-122 (212)
127 PF05745 CRPA: Chlamydia 15 kD 22.8 2.3E+02 0.0049 22.8 5.1 39 30-73 68-106 (150)
128 PF07332 DUF1469: Protein of u 22.3 3E+02 0.0064 19.6 9.2 25 21-45 32-56 (121)
129 PRK08124 flagellar motor prote 22.3 2.8E+02 0.0061 23.3 5.9 31 44-76 159-189 (263)
130 PF14219 DUF4328: Domain of un 22.2 1.7E+02 0.0038 22.3 4.3 26 75-100 24-49 (171)
131 PLN02769 Probable galacturonos 21.8 30 0.00066 33.3 -0.0 29 54-83 22-50 (629)
132 PRK10720 uracil transporter; P 21.4 3.5E+02 0.0075 24.2 6.6 16 52-67 367-382 (428)
133 PRK15135 histidine/lysine/argi 21.3 4.1E+02 0.0088 20.8 8.8 32 85-116 95-129 (228)
134 COG4241 Predicted membrane pro 21.3 1.2E+02 0.0026 27.1 3.6 40 88-127 104-149 (314)
135 PRK12911 bifunctional preprote 21.3 4.3E+02 0.0094 28.2 7.9 34 43-76 1010-1043(1403)
136 PF12270 Cyt_c_ox_IV: Cytochro 21.3 1E+02 0.0022 24.3 2.9 15 112-126 68-82 (137)
137 PF02654 CobS: Cobalamin-5-pho 21.2 2.1E+02 0.0045 23.4 4.8 15 44-58 30-44 (235)
138 cd03395 PAP2_like_4 PAP2_like_ 20.9 3.8E+02 0.0083 20.4 7.2 20 80-99 157-176 (177)
139 TIGR03884 sel_bind_Methan sele 20.6 86 0.0019 22.5 2.1 18 108-125 24-41 (74)
140 TIGR02796 tolQ TolQ protein. T 20.5 1E+02 0.0023 25.0 2.9 20 43-62 170-189 (215)
141 PF04982 HPP: HPP family; Int 20.4 3.7E+02 0.008 20.0 9.2 81 23-103 28-116 (120)
142 PRK10555 aminoglycoside/multid 20.1 3.5E+02 0.0075 27.0 6.8 51 52-108 981-1034(1037)
No 1
>PF01277 Oleosin: Oleosin; InterPro: IPR000136 Oleosins [] are the proteinaceous components of plants' lipid storage bodies called oil bodies. Oil bodies are small droplets (0.2 to 1.5 mu-m in diameter) containing mostly triacylglycerol that are surrounded by a phospholipid/ oleosin annulus. Oleosins may have a structural role in stabilising the lipid body during dessication of the seed, by preventing coalescence of the oil. They may also provide recognition signals for specific lipase anchorage in lipolysis during seedling growth. Oleosins are found in the monolayer lipid/ water interface of oil bodies and probably interact with both the lipid and phospholipid moieties. Oleosins are proteins of 16 Kd to 24 Kd and are composed of three domains: an N-terminal hydrophilic region of variable length (from 30 to 60 residues); a central hydrophobic domain of about 70 residues and a C-terminal amphipathic region of variable length (from 60 to 100 residues). The central hydrophobic domain is proposed to be made up of beta-strand structure and to interact with the lipids []. It is the only domain whose sequence is conserved.; GO: 0012511 monolayer-surrounded lipid storage body, 0016021 integral to membrane
Probab=100.00 E-value=1.3e-52 Score=317.42 Aligned_cols=117 Identities=53% Similarity=0.923 Sum_probs=115.6
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 041282 19 RSHQVVKAATAVTAGGSLLVLSGLTMAGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYR 98 (144)
Q Consensus 19 ss~qvl~~~~~~~~g~~LL~LaGlTL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~ 98 (144)
|++|+++++++++++++||+|+|+||+||++||+++||||+||||||||++|+++|+++||+++|+||++++++++|+||
T Consensus 1 s~~qvl~~~~~~~~gg~LL~LaGlTL~gtvigL~vatPLfvifSPVlVPaai~~~l~~~Gfl~sg~~g~~~ls~lsW~~~ 80 (118)
T PF01277_consen 1 STSQVLAVVTLLPAGGTLLVLAGLTLAGTVIGLAVATPLFVIFSPVLVPAAIAIGLAVAGFLTSGAFGLTALSSLSWMYN 80 (118)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHHhchh
Q 041282 99 YVTGGHPPGADQLEQARMKLASKAREMRDRAEQFGQQ 135 (144)
Q Consensus 99 y~~g~~p~g~~~ld~Ar~ri~d~A~~v~~kake~G~q 135 (144)
|+||+||+++||+||||+|++|+|+|++||+|||||+
T Consensus 81 y~rg~~~~~~~q~d~Ak~ri~d~a~~v~~kake~gq~ 117 (118)
T PF01277_consen 81 YFRGRHPPGPDQLDYAKRRIADTASYVGQKAKEVGQK 117 (118)
T ss_pred HhccCCCCCCccHHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 9999999999999999999999999999999999975
No 2
>PF01277 Oleosin: Oleosin; InterPro: IPR000136 Oleosins [] are the proteinaceous components of plants' lipid storage bodies called oil bodies. Oil bodies are small droplets (0.2 to 1.5 mu-m in diameter) containing mostly triacylglycerol that are surrounded by a phospholipid/ oleosin annulus. Oleosins may have a structural role in stabilising the lipid body during dessication of the seed, by preventing coalescence of the oil. They may also provide recognition signals for specific lipase anchorage in lipolysis during seedling growth. Oleosins are found in the monolayer lipid/ water interface of oil bodies and probably interact with both the lipid and phospholipid moieties. Oleosins are proteins of 16 Kd to 24 Kd and are composed of three domains: an N-terminal hydrophilic region of variable length (from 30 to 60 residues); a central hydrophobic domain of about 70 residues and a C-terminal amphipathic region of variable length (from 60 to 100 residues). The central hydrophobic domain is proposed to be made up of beta-strand structure and to interact with the lipids []. It is the only domain whose sequence is conserved.; GO: 0012511 monolayer-surrounded lipid storage body, 0016021 integral to membrane
Probab=94.14 E-value=2 Score=33.01 Aligned_cols=98 Identities=20% Similarity=0.265 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHhhchhhh---HHHHHHHHHHHHHHHhhH--HHHHHHHHHHHHHHHHhcCCCCCCC
Q 041282 35 SLLVLSGLTMAGTVIALTIATPLLVICSPVLV---PAVITVSLLIMGFLASGG--FGVAAISVLSWIYRYVTGGHPPGAD 109 (144)
Q Consensus 35 ~LL~LaGlTL~gtvigL~vaTPLfvifSPVLV---PAai~~~L~~~Gfl~sg~--~Gltals~lsW~y~y~~g~~p~g~~ 109 (144)
+++...|..|.=+-+-|+-+.=-+++.+|++| |.-+-+++++ ++...|. .|.-+++.++|+-.-.+=-+-..+.
T Consensus 10 ~~~~~gg~LL~LaGlTL~gtvigL~vatPLfvifSPVlVPaai~~-~l~~~Gfl~sg~~g~~~ls~lsW~~~y~rg~~~~ 88 (118)
T PF01277_consen 10 TLLPAGGTLLVLAGLTLAGTVIGLAVATPLFVIFSPVLVPAAIAI-GLAVAGFLTSGAFGLTALSSLSWMYNYFRGRHPP 88 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHH-HHHHHHHHHhHHHHHHHHHHHHHHHHHhccCCCC
Confidence 33444444444333444433344788888776 5444444333 4444442 3455677888888887766655555
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHhchhcc
Q 041282 110 QLEQARMKLASKAREMRDRAEQFGQQQS 137 (144)
Q Consensus 110 ~ld~Ar~ri~d~A~~v~~kake~G~q~~ 137 (144)
..| |+...-+.+.|++++.+|+..
T Consensus 89 ~~~----q~d~Ak~ri~d~a~~v~~kak 112 (118)
T PF01277_consen 89 GPD----QLDYAKRRIADTASYVGQKAK 112 (118)
T ss_pred CCc----cHHHHHHHHHHHHHHHHHHHH
Confidence 543 445555667777777777654
No 3
>PF11990 DUF3487: Protein of unknown function (DUF3487); InterPro: IPR021877 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 121 to 136 amino acids in length. This protein has a conserved RLN sequence motif.
Probab=93.60 E-value=0.35 Score=36.91 Aligned_cols=49 Identities=18% Similarity=0.262 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHhhhHHhhchh-hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcC
Q 041282 44 MAGTVIALTIATPLLVICSPV-LVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGG 103 (144)
Q Consensus 44 L~gtvigL~vaTPLfvifSPV-LVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~ 103 (144)
..++++|+.++.|+.+++.++ .+|..+.++.+..-|+. -.|+-|+-|||
T Consensus 31 ~~~~~~g~~~gl~la~~~g~~a~~pt~~ll~~~~~v~~g-----------g~~l~rlKRGK 80 (121)
T PF11990_consen 31 GVGFVAGLVVGLPLALLTGWWAMIPTGALLGPILGVFVG-----------GKLLARLKRGK 80 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----------HHHHHHHHcCC
Confidence 357788889999998999988 67877666665544433 25677776664
No 4
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=92.28 E-value=4.4 Score=31.49 Aligned_cols=24 Identities=29% Similarity=0.343 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHhhhHHhhchhhh
Q 041282 42 LTMAGTVIALTIATPLLVICSPVLV 66 (144)
Q Consensus 42 lTL~gtvigL~vaTPLfvifSPVLV 66 (144)
+.+...++++.++.. .++++|++.
T Consensus 101 ~~~~~~~~~~~i~~~-~~i~~~~~l 124 (181)
T PF08006_consen 101 IVLILLVLALIIAVI-AFILSGIIL 124 (181)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHH
Confidence 334444555555444 334555444
No 5
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=90.52 E-value=3.6 Score=31.86 Aligned_cols=15 Identities=27% Similarity=0.193 Sum_probs=7.2
Q ss_pred hHHhhchhhhHHHHH
Q 041282 57 LLVICSPVLVPAVIT 71 (144)
Q Consensus 57 LfvifSPVLVPAai~ 71 (144)
+-.++|+++..+.++
T Consensus 33 l~~~~s~~lg~~~lA 47 (191)
T PF04156_consen 33 LGALISFILGIALLA 47 (191)
T ss_pred hHHHHHHHHHHHHHH
Confidence 445555555444443
No 6
>PRK09459 pspG phage shock protein G; Reviewed
Probab=88.34 E-value=2.9 Score=30.20 Aligned_cols=26 Identities=27% Similarity=0.644 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHh
Q 041282 35 SLLVLSGLTMAGTVIALTIATPLLVI 60 (144)
Q Consensus 35 ~LL~LaGlTL~gtvigL~vaTPLfvi 60 (144)
..|+++|+|+.|...++.+++-+..+
T Consensus 12 ~~LlvTGiSllgv~aAl~va~~vM~l 37 (76)
T PRK09459 12 VMLLVTGISLLGIIAALGVATLVMFL 37 (76)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 45788999999999999887765544
No 7
>PF07332 DUF1469: Protein of unknown function (DUF1469); InterPro: IPR009937 This entry represents proteins found in hypothetical bacterial proteins where is is annotated as ycf49 or ycf49-like. The function is not known.
Probab=85.29 E-value=12 Score=27.01 Aligned_cols=35 Identities=17% Similarity=0.208 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHH
Q 041282 87 VAAISVLSWIYRYVTGGHPPGADQLEQARMKLASKAREM 125 (144)
Q Consensus 87 ltals~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d~A~~v 125 (144)
+.++-.+.|..|.++++.| .++.-++.+.+..+-+
T Consensus 84 ~la~i~~~~~~~~l~~~~~----~~~~t~~~l~~d~~~l 118 (121)
T PF07332_consen 84 LLALILLLIGRRRLRRAPP----PFEETIAELKEDIAAL 118 (121)
T ss_pred HHHHHHHHHHHHHHhcCCC----CHHHHHHHHHHHHHHh
Confidence 4444556677777775332 2344444444443333
No 8
>PF07178 TraL: TraL protein; InterPro: IPR009838 This entry represents bacterial TraL proteins. TraL is a predicted peripheral membrane protein involved in bacterial sex pilus assembly []. TraL is part of the type IV secretion system for conjugative plasmid transfer []. The exact function of TraL is unknown.; GO: 0000746 conjugation, 0019867 outer membrane
Probab=84.82 E-value=3.6 Score=29.49 Aligned_cols=36 Identities=31% Similarity=0.506 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhh-HHHHHHHHHHHHHHHHHhcCCCCC
Q 041282 72 VSLLIMGFLASG-GFGVAAISVLSWIYRYVTGGHPPG 107 (144)
Q Consensus 72 ~~L~~~Gfl~sg-~~Gltals~lsW~y~y~~g~~p~g 107 (144)
+.+.+.|++.+. ..|+..-..+.|.||+++.++|.|
T Consensus 27 ~~~~~~gi~~~~~~~g~i~g~~~~~~~~k~K~~~~~g 63 (95)
T PF07178_consen 27 LILFVIGILSGHFLIGLILGIVLWWGYRKFKKGRGRG 63 (95)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHccCCcc
Confidence 334444566555 456666677899999999888754
No 9
>PRK10801 colicin uptake protein TolQ; Provisional
Probab=84.44 E-value=12 Score=30.91 Aligned_cols=73 Identities=16% Similarity=0.158 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHhhhHHhh---chhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH
Q 041282 44 MAGTVIALTIATPLLVIC---SPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHPPGADQLEQARMKLAS 120 (144)
Q Consensus 44 L~gtvigL~vaTPLfvif---SPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d 120 (144)
|.|||+|++-+.--+=.- +|-.+-.+|..+|.++. +|+..-=.-...|||+.. ++|.-..+|.+
T Consensus 139 LlGTV~Gmi~aF~~i~~~g~~~~~~~a~GI~~ALitTa------~GL~vAIPAli~yN~f~~-------ri~~i~~~le~ 205 (227)
T PRK10801 139 LFGTVWGIMHAFIALGAVKQATLQMVAPGIAEALIATA------IGLFAAIPAVMAYNRLNQ-------RVNKLELNYDN 205 (227)
T ss_pred HHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence 578999988754322111 35555555555555543 355444455578999964 46666677777
Q ss_pred HHHHHHHHH
Q 041282 121 KAREMRDRA 129 (144)
Q Consensus 121 ~A~~v~~ka 129 (144)
.+.++-+.-
T Consensus 206 ~a~~ll~~l 214 (227)
T PRK10801 206 FMEEFTAIL 214 (227)
T ss_pred HHHHHHHHH
Confidence 777666654
No 10
>COG0811 TolQ Biopolymer transport proteins [Intracellular trafficking and secretion]
Probab=81.49 E-value=23 Score=28.78 Aligned_cols=72 Identities=18% Similarity=0.107 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHhhhHHhhc--hhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH
Q 041282 44 MAGTVIALTIATPLLVICS--PVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHPPGADQLEQARMKLASK 121 (144)
Q Consensus 44 L~gtvigL~vaTPLfvifS--PVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d~ 121 (144)
|.|||+|+.-+ |.=.+ ==-=|++++-++..+=+ +-+.|+.+--.-...|||++++ .+.-..++.+.
T Consensus 134 L~GTV~GIm~a---F~~i~~~~~~~~a~vA~GIseAL~--aTA~GL~vAIPAvi~yn~l~r~-------~~~~~~~~e~~ 201 (216)
T COG0811 134 LLGTVWGIMPA---FIGIGAGGGADLAVVAPGISEALI--ATAIGLFVAIPAVVAYNVLRRK-------VEELLAKLEDF 201 (216)
T ss_pred HHHHHHHHHHH---HHHHhccCCCCHHHHHhhHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence 56888887654 33333 00123444444433222 2244666666677899999763 55556677777
Q ss_pred HHHHHH
Q 041282 122 AREMRD 127 (144)
Q Consensus 122 A~~v~~ 127 (144)
++++-+
T Consensus 202 ~~~l~~ 207 (216)
T COG0811 202 AEELEL 207 (216)
T ss_pred HHHHHH
Confidence 766655
No 11
>TIGR02797 exbB tonB-system energizer ExbB. This model describes ExbB proteins, part of the MotA/TolQ/ExbB protein family. The paired proteins MotA and MotB, TolQ and TolR, and ExbB and ExbD harness the proton-motive force to drive the flagellar motor, energize the Tol-Pal system, or energize TonB, respectively. Tol-Pal and TonB are both active at the outer membrane. Genomes may have many different TonB-dependent receptors, of which many of those characterized are involved in siderophore transport across the outer membrane.
Probab=80.57 E-value=16 Score=29.56 Aligned_cols=70 Identities=20% Similarity=0.184 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhhhHHhh---chhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH
Q 041282 44 MAGTVIALTIATPLLVIC---SPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHPPGADQLEQARMKLAS 120 (144)
Q Consensus 44 L~gtvigL~vaTPLfvif---SPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d 120 (144)
|.|||+|++-+.=-+=-- +|-.|-.+|.-+|.++. +|+..-=.-...|||++. +.|.-.++|.+
T Consensus 134 LLGTV~Gmi~aF~~ia~~g~~~~~~lA~GI~eALitTA------~GL~VAIPAli~yn~f~~-------ri~~~~~~le~ 200 (211)
T TIGR02797 134 LFGTVWGIMNSFIGISKSQTTNLAVVAPGIAEALLATA------IGLVAAIPAVVIYNVFAR-------SIAGYRALLAD 200 (211)
T ss_pred HHHHHHHHHHHHHHHhhCCCCCHHHHhHHHHHHHHHHH------HHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence 568999988754322110 34444444444444433 355444445578999974 46777777777
Q ss_pred HHHHHH
Q 041282 121 KAREMR 126 (144)
Q Consensus 121 ~A~~v~ 126 (144)
.+.++-
T Consensus 201 ~~~e~~ 206 (211)
T TIGR02797 201 ASAGVE 206 (211)
T ss_pred HHHHHH
Confidence 776654
No 12
>PRK10414 biopolymer transport protein ExbB; Provisional
Probab=79.75 E-value=21 Score=29.98 Aligned_cols=71 Identities=18% Similarity=0.141 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHhhhHHh---hchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH
Q 041282 44 MAGTVIALTIATPLLVI---CSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHPPGADQLEQARMKLAS 120 (144)
Q Consensus 44 L~gtvigL~vaTPLfvi---fSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d 120 (144)
|.|||+|++-+.--+=. -+|-.|-.+|.-+|.++.+ |+..--.-...|||++.+ +|.-..+|.+
T Consensus 145 LlGTV~Gmi~aF~~ia~~g~~~~~~va~GI~eALitTa~------GL~vAIPAliayn~f~~r-------i~~~~~~me~ 211 (244)
T PRK10414 145 LFGTVWGIMNSFIGIAQTQTTNLAVVAPGIAEALLATAI------GLVAAIPAVVIYNVFARQ-------IGGYKAMLGD 211 (244)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHH-------HHHHHHHHHH
Confidence 57899998875433310 2666666667666666543 665555566899999753 4555556666
Q ss_pred HHHHHHH
Q 041282 121 KAREMRD 127 (144)
Q Consensus 121 ~A~~v~~ 127 (144)
.+.+.-+
T Consensus 212 ~a~~l~~ 218 (244)
T PRK10414 212 VAAQVLL 218 (244)
T ss_pred HHHHHHH
Confidence 6655554
No 13
>TIGR02796 tolQ TolQ protein. TolQ is one of the essential components of the Tol-Pal system. Together with TolR, it harnesses protonmotive force to energize TolA, which spans the periplasm to reach the complex of TolB and Pal at the outer member. The tol-pal system proves to be important for maintaining outer membrane integrity. Gene pairs similar to the TolQ and TolR gene pair often number several per genome, but this model describes specificially TolQ per se, as found in tol-pal operons. A close homolog, excluded from this model, is ExbB of the ExbB/ExbD/TonB protein complex, which powers transport of siderophores and vitamin B12 across the bacterial outer membrane. The Tol-Pal system is exploited by colicin and filamentous phage DNA to enter the cell. It is also implicated in pathogenesis in several bacterial species
Probab=78.78 E-value=28 Score=28.31 Aligned_cols=88 Identities=14% Similarity=0.135 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHh----hchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 041282 23 VVKAATAVTAGGSLLVLSGLTMAGTVIALTIATPLLVI----CSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYR 98 (144)
Q Consensus 23 vl~~~~~~~~g~~LL~LaGlTL~gtvigL~vaTPLfvi----fSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~ 98 (144)
-+.++.......-+|. |.|||+|++-+.--+=. -+|-.+-.+|..+|.+|.+ |+..-=.-.=.||
T Consensus 121 ~l~~L~ti~~~aPllG-----LLGTV~Gmi~aF~~i~~~~g~~~~~~la~GI~~ALitTa~------GL~vAIPali~yn 189 (215)
T TIGR02796 121 GLPFLATIGSTSPFIG-----LFGTVWGIMHSFQAIGGSKNQATLAVVAPGIAEALIATAI------GLFAAIPAVIAYN 189 (215)
T ss_pred hhHHHHHHHHHhhHHH-----HHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHH
Confidence 3344444444444444 46788888775444332 1234444455555554432 4433333345799
Q ss_pred HHhcCCCCCCCcHHHHHHHHHHHHHHHHHH
Q 041282 99 YVTGGHPPGADQLEQARMKLASKAREMRDR 128 (144)
Q Consensus 99 y~~g~~p~g~~~ld~Ar~ri~d~A~~v~~k 128 (144)
|++. ++|.-..+|.+.+.++-++
T Consensus 190 ~f~~-------~i~~~~~~me~~~~~l~~~ 212 (215)
T TIGR02796 190 KLST-------QVNKIEQRYENFADEFSTI 212 (215)
T ss_pred HHHH-------HHHHHHHHHHHHHHHHHHH
Confidence 9974 3556666666666665443
No 14
>TIGR03750 conj_TIGR03750 conjugative transfer region protein, TIGR03750 family. Members of this protein family are found occasionally on plasmids. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=78.23 E-value=8.4 Score=29.28 Aligned_cols=32 Identities=16% Similarity=0.290 Sum_probs=21.2
Q ss_pred HHHHHHHHHHhhhHHhhc-hhhhHHHHHHHHHH
Q 041282 45 AGTVIALTIATPLLVICS-PVLVPAVITVSLLI 76 (144)
Q Consensus 45 ~gtvigL~vaTPLfvifS-PVLVPAai~~~L~~ 76 (144)
++.+.|+++..|+.+++. -+++|..+.++.++
T Consensus 29 ~~~~~gl~~g~~l~~~~~~w~~~p~~~lig~~l 61 (111)
T TIGR03750 29 VGLAAGLVLGLLLALLAGPWALIPTGALLGPIL 61 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677788888777766 55667666555543
No 15
>PF01618 MotA_ExbB: MotA/TolQ/ExbB proton channel family MotA family only; InterPro: IPR002898 This family groups together integral membrane proteins that appear to be involved in translocation of proteins across a membrane. These proteins are probably proton channels. MotA is an essential component of the flagellar motor that uses a proton gradient to generate rotational motion in the flagellar []. ExbB is part of the TonB-dependent transduction complex. The TonB complex uses the proton gradient across the inner bacterial membrane to transport large molecules across the outer bacterial membrane.; GO: 0008565 protein transporter activity, 0006810 transport, 0016020 membrane
Probab=76.33 E-value=28 Score=25.93 Aligned_cols=53 Identities=25% Similarity=0.354 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhhhHHh---hchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhc
Q 041282 44 MAGTVIALTIATPLLVI---CSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTG 102 (144)
Q Consensus 44 L~gtvigL~vaTPLfvi---fSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g 102 (144)
|.||++|++.+..-+=. -.|--+=..|..+|..+ .+|+..--....+|+|++.
T Consensus 70 LlGTv~Gmi~~f~~l~~~~~~~~~~l~~gi~~Al~tT------~~GL~vai~~~~~~~~l~~ 125 (139)
T PF01618_consen 70 LLGTVIGMIEAFQALAETGSGDPSQLAGGISVALITT------AYGLVVAIPALPFYNYLKR 125 (139)
T ss_pred HHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHH
Confidence 56899998876544322 12333333333333332 2344333334488898864
No 16
>PF12537 DUF3735: Protein of unknown function (DUF3735); InterPro: IPR022535 This conserved domain is found in a subunit of a voltage dependent anion channel required for acidification and functions of the Golgi apparatus; it may function in counter-ion conductance. It belongs to the Golgi pH regulator (1.A.38 from TC) family
Probab=74.31 E-value=15 Score=25.23 Aligned_cols=56 Identities=16% Similarity=0.410 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCC-CCcHHHHHHHHHHHHHHHHHHHHHh
Q 041282 71 TVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHPPG-ADQLEQARMKLASKAREMRDRAEQF 132 (144)
Q Consensus 71 ~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p~g-~~~ld~Ar~ri~d~A~~v~~kake~ 132 (144)
++++.+.++|| |.++++.-.-.+.|+. +|.. ..++..+.+|+..+-..+.+|-|++
T Consensus 15 ViGVt~mAiLS----G~gaVstpy~~~~~~~--~~v~~~~~i~~~~~~l~~t~~~l~~Kk~~l 71 (72)
T PF12537_consen 15 VIGVTLMAILS----GFGAVSTPYYYFSYFR--RPVSRESDINNAERRLWHTRDMLVEKKKRL 71 (72)
T ss_pred HHHHHHHHHHh----hhhHHccHHHHHHHHH--hcCChHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45666666666 3444444444444443 2333 4567777788877777777777664
No 17
>PF09583 Phageshock_PspG: Phage shock protein G (Phageshock_PspG); InterPro: IPR014318 This protein previously was designated yjbO in Escherichia coli. It is found only in genomes that have the phage shock operon (psp), but it is only rarely encoded near other psp genes. The psp regulon is upregulated in response to a number of stress conditions, including ethanol, expression of the filamentous phage secretin protein IV and other secretins and heat shock.
Probab=73.93 E-value=18 Score=25.49 Aligned_cols=26 Identities=23% Similarity=0.644 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHh
Q 041282 35 SLLVLSGLTMAGTVIALTIATPLLVI 60 (144)
Q Consensus 35 ~LL~LaGlTL~gtvigL~vaTPLfvi 60 (144)
..|.++|+|+.|...++.+++-+..+
T Consensus 12 ~~Ll~TGvsllgv~aA~~va~~vm~l 37 (65)
T PF09583_consen 12 AMLLVTGVSLLGVLAALAVAFAVMFL 37 (65)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 45788999999999999988755443
No 18
>TIGR01666 YCCS hypothetical membrane protein, TIGR01666. This model represents a clade of sequences from gamma and beta proteobacteria. These proteins are 700 amino acids long and many have been annotated as putative membrane proteins. The gene from Salmonella has been annotated as a putative efflux transporter. The gene from E. coli has the name yccS.
Probab=72.66 E-value=37 Score=32.67 Aligned_cols=22 Identities=27% Similarity=0.564 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHhhhHHhhchhh
Q 041282 44 MAGTVIALTIATPLLVICSPVL 65 (144)
Q Consensus 44 L~gtvigL~vaTPLfvifSPVL 65 (144)
+.||++|.+++.+++.++-+..
T Consensus 432 i~GTllG~~lg~~ll~l~p~~~ 453 (704)
T TIGR01666 432 IIGTLLGVVIGSPLLYFNPSLE 453 (704)
T ss_pred HHHHHHHHHHHHHHHHHhccHH
Confidence 4599999999999887764433
No 19
>PRK15083 PTS system mannitol-specific transporter subunit IICBA; Provisional
Probab=71.89 E-value=16 Score=34.29 Aligned_cols=92 Identities=16% Similarity=0.100 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHh
Q 041282 23 VVKAATAVTAGGSLLVLSGLTMAGTV-IALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVT 101 (144)
Q Consensus 23 vl~~~~~~~~g~~LL~LaGlTL~gtv-igL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~ 101 (144)
+++.+....+|+....+.|+...+.. .|-+.+.|.| ..| + -+ .+++.+...+...-..++|+++++.
T Consensus 271 ~~a~~iGga~Gg~i~g~~~~~~~~~~~~ggi~~l~~~--~~~---~-~~------~~~~i~~~v~~~v~~v~t~~~~~~~ 338 (639)
T PRK15083 271 ILAVILGGMTGVFTLTLLNGGLVSPASPGSILAVLAM--TPK---G-AY------FANIASVAAAMAVSFVVSAILLKTS 338 (639)
T ss_pred hHHHHHHHHHHHHHHHHHcCcceeccCcchHHHHHHh--cCc---c-hH------HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 55555666666666666654433332 2223333443 122 1 01 1122222233333457889998877
Q ss_pred cCCCCCCCcHHHHHHHHHHHHHHHHHHHHHh
Q 041282 102 GGHPPGADQLEQARMKLASKAREMRDRAEQF 132 (144)
Q Consensus 102 g~~p~g~~~ld~Ar~ri~d~A~~v~~kake~ 132 (144)
+++ ..|.+|.|++|+.+ +|+|-+|.
T Consensus 339 ~~~--~~~~~~~~~~~~~~----~~~~~~~~ 363 (639)
T PRK15083 339 KVK--EEDDLEAATRRMQD----MKAESKGA 363 (639)
T ss_pred ccc--chhhHHHHHHHHHH----hhhccccc
Confidence 663 22369999999876 45555444
No 20
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=70.96 E-value=19 Score=24.39 Aligned_cols=13 Identities=54% Similarity=0.856 Sum_probs=7.6
Q ss_pred HHHHHhhHHHHHH
Q 041282 77 MGFLASGGFGVAA 89 (144)
Q Consensus 77 ~Gfl~sg~~Glta 89 (144)
.||+.+++.|+++
T Consensus 3 ~g~l~Ga~~Ga~~ 15 (74)
T PF12732_consen 3 LGFLAGAAAGAAA 15 (74)
T ss_pred HHHHHHHHHHHHH
Confidence 4666666666443
No 21
>TIGR01667 YCCS_YHJK integral membrane protein, YccS/YhfK family. TMHMM on members of this model shows a consensus of 11 transmembrane helices separated into two clusters, an N-terminal cluster of 6 and a central cluster of 5. This would indicate two non-membrane domains one on each side of the membrane
Probab=70.78 E-value=41 Score=32.24 Aligned_cols=19 Identities=32% Similarity=0.543 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHhhhHHhhc
Q 041282 44 MAGTVIALTIATPLLVICS 62 (144)
Q Consensus 44 L~gtvigL~vaTPLfvifS 62 (144)
+.||++|.+++.+++.++.
T Consensus 434 i~GTl~G~llg~~l~~l~p 452 (701)
T TIGR01667 434 IIGTVVGLVIGVALHFLIP 452 (701)
T ss_pred HHHHHHHHHHHHHHHHHcC
Confidence 4599999999888665543
No 22
>PF06695 Sm_multidrug_ex: Putative small multi-drug export protein; InterPro: IPR009577 This family contains a small number of putative small multi-drug export proteins.
Probab=67.58 E-value=49 Score=24.71 Aligned_cols=42 Identities=19% Similarity=0.219 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHHhc
Q 041282 87 VAAISVLSWIYRYVTGGHPPGADQLEQARMKLASKAREMRDRAEQFG 133 (144)
Q Consensus 87 ltals~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d~A~~v~~kake~G 133 (144)
.--+-.+-|+.++++..+. +..--+++.++++.-++|-++||
T Consensus 32 p~i~~~~~~i~~~l~~~~~-----~~~~~~~~~~k~~~~~~~i~kyg 73 (121)
T PF06695_consen 32 PFILLFLDKILKWLKRKPW-----LKKFYEWLEKKAEKKSKKIEKYG 73 (121)
T ss_pred HHHHHHHHHHHHHHHHhHH-----HHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445566777777765322 22233456666666666777776
No 23
>TIGR02975 phageshock_pspG phage shock protein G. This protein previously was designated yjbO in E. coli. It is found only in genomes that have the phage shock operon (psp), but only rarely is encoded near other psp genes. The psp regulon is upregulated in response to a number of stress conditions, including ethanol, expression of the filamentous phage secretin protein IV and other secretins, and heat shock.
Probab=67.53 E-value=29 Score=24.35 Aligned_cols=26 Identities=23% Similarity=0.603 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHh
Q 041282 35 SLLVLSGLTMAGTVIALTIATPLLVI 60 (144)
Q Consensus 35 ~LL~LaGlTL~gtvigL~vaTPLfvi 60 (144)
..|.++|+|+.|...++.+++-...+
T Consensus 11 ~~Ll~TGisllgv~aA~~va~~vm~l 36 (64)
T TIGR02975 11 VMLMVTGISLLGVLAALGVAVLFMAL 36 (64)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 45788999999999988887655443
No 24
>PRK13707 conjugal transfer pilus assembly protein TraL; Provisional
Probab=64.77 E-value=22 Score=26.26 Aligned_cols=31 Identities=19% Similarity=0.196 Sum_probs=18.2
Q ss_pred HHHHHHhhHH-HHHHHHHHHHHHHHHhcCCCC
Q 041282 76 IMGFLASGGF-GVAAISVLSWIYRYVTGGHPP 106 (144)
Q Consensus 76 ~~Gfl~sg~~-Gltals~lsW~y~y~~g~~p~ 106 (144)
+.||+++-.+ |+..-..+.|.||+++..+++
T Consensus 37 ~~Gi~~~~~l~g~i~g~~~~~~~r~lK~g~g~ 68 (101)
T PRK13707 37 GWGITTSKYLFGIIAAVLVWFGIRKLKKGRGS 68 (101)
T ss_pred HHHHHHchHHHHHHHHHHHHHHHHHHHcCCCh
Confidence 3355554333 444344577899999876653
No 25
>COG4709 Predicted membrane protein [Function unknown]
Probab=61.95 E-value=95 Score=26.01 Aligned_cols=22 Identities=23% Similarity=0.057 Sum_probs=11.1
Q ss_pred HHHHhhHHHHHHHHHHHHHHHH
Q 041282 78 GFLASGGFGVAAISVLSWIYRY 99 (144)
Q Consensus 78 Gfl~sg~~Gltals~lsW~y~y 99 (144)
.+..+.++|+.......-+.+|
T Consensus 152 ~~IGs~lLgl~~~~~if~iv~~ 173 (195)
T COG4709 152 IGIGSLLLGLGLGIVIFAIVKY 173 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666655444333333
No 26
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=61.79 E-value=17 Score=28.63 Aligned_cols=47 Identities=23% Similarity=0.437 Sum_probs=32.3
Q ss_pred HHhhch-hhhHHHHHHHHHHHHH-------HHhhHHHHHHHHHHHHHHHHHhcCC
Q 041282 58 LVICSP-VLVPAVITVSLLIMGF-------LASGGFGVAAISVLSWIYRYVTGGH 104 (144)
Q Consensus 58 fvifSP-VLVPAai~~~L~~~Gf-------l~sg~~Gltals~lsW~y~y~~g~~ 104 (144)
.=.||| =+=|..++.+.++.++ +.--+.++..++..-|+|.|-||+|
T Consensus 81 ~GfFsP~SwWPl~la~~~al~~lGla~g~Wl~~iG~~~~i~~~~G~vfEy~rg~~ 135 (137)
T PF12270_consen 81 LGFFSPHSWWPLVLAAAAALVFLGLAFGWWLILIGAVLLIVAVVGWVFEYYRGPE 135 (137)
T ss_pred cCcCCCccHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhheeccCcc
Confidence 346898 6667666554443332 3444566788899999999999976
No 27
>PRK11365 ssuC alkanesulfonate transporter permease subunit; Provisional
Probab=61.53 E-value=65 Score=26.36 Aligned_cols=10 Identities=40% Similarity=0.474 Sum_probs=5.7
Q ss_pred CcHHHHHHHH
Q 041282 18 PRSHQVVKAA 27 (144)
Q Consensus 18 Pss~qvl~~~ 27 (144)
|+..+++..+
T Consensus 40 P~p~~v~~~~ 49 (263)
T PRK11365 40 PSPEGVVTAF 49 (263)
T ss_pred CCHHHHHHHH
Confidence 5566666543
No 28
>PF12597 DUF3767: Protein of unknown function (DUF3767); InterPro: IPR022533 This group of proteins includes mitochodrial cytochrome c oxidase proteins [], and some transmembrane domain-containing proteins of unknown function known as FAM36A. Proteins in this family are typically between 112 and 199 amino acids in length.
Probab=58.64 E-value=31 Score=26.14 Aligned_cols=64 Identities=20% Similarity=0.230 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-HHHhcCCCCCCCcHHHHHHHHHHHH
Q 041282 44 MAGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIY-RYVTGGHPPGADQLEQARMKLASKA 122 (144)
Q Consensus 44 L~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y-~y~~g~~p~g~~~ld~Ar~ri~d~A 122 (144)
|+|..-|+++..=-|++-+++.--+=. ++.+|+ ..|+.+|-| ||-|.+. -++++.++..+.++-
T Consensus 45 L~Gi~~G~~vG~~~fl~~~~~~~A~nw----avgsF~--------l~s~~~we~Cr~~r~~~---~~~~~~~~e~~~~k~ 109 (118)
T PF12597_consen 45 LYGIAGGFGVGGLRFLFTSNPRKAANW----AVGSFF--------LGSLGSWEYCRYNRRKE---RQQMKRAVEAMQEKK 109 (118)
T ss_pred HHHHHHHHHHHhhhhcccCCCccchhh----hhHHHH--------HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence 344444555555568888877654332 333332 246677876 3433322 244555555555543
No 29
>PF12153 CAP18_C: LPS binding domain of CAP18 (C terminal); InterPro: IPR022746 This entry represents the cathlecidin antimicrobial C-terminal peptides. The C terminus is cleaved from the cathlecidin precursor, and is approximately 30 amino acids in length with a helical structure. This entry is found in association with PF00666 from PFAM. The C terminus peptides possess antimicrobial activity by virtue of their binding to bacterial lipopolysaccharides [][].; GO: 0042742 defense response to bacterium; PDB: 1LYP_A 2LMF_A 2FBU_H 2FBS_N 2K6O_A 2FCG_F.
Probab=58.08 E-value=16 Score=21.84 Aligned_cols=24 Identities=17% Similarity=0.302 Sum_probs=20.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHhc
Q 041282 110 QLEQARMKLASKAREMRDRAEQFG 133 (144)
Q Consensus 110 ~ld~Ar~ri~d~A~~v~~kake~G 133 (144)
-+..++.+|.++.+.++||.|++=
T Consensus 3 ~lrk~~eKigeklkkIGQkIKDff 26 (28)
T PF12153_consen 3 FLRKGGEKIGEKLKKIGQKIKDFF 26 (28)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 356789999999999999999873
No 30
>PRK01345 heat shock protein HtpX; Provisional
Probab=57.85 E-value=1.2e+02 Score=26.11 Aligned_cols=32 Identities=9% Similarity=0.007 Sum_probs=17.0
Q ss_pred HHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHH
Q 041282 94 SWIYRYVTGGHPPGADQLEQARMKLASKAREM 125 (144)
Q Consensus 94 sW~y~y~~g~~p~g~~~ld~Ar~ri~d~A~~v 125 (144)
.|+.....+.++..+++-+.-++++.+.+...
T Consensus 49 ~~~~~~~~~a~~v~~~~~p~L~~~v~~La~~a 80 (317)
T PRK01345 49 DKMVLRMYGAQEVDERSAPELYRMVRDLARRA 80 (317)
T ss_pred HHHHHHHcCCeECCcccCHHHHHHHHHHHHHc
Confidence 44555555666665555445555555544443
No 31
>PRK04897 heat shock protein HtpX; Provisional
Probab=57.08 E-value=94 Score=26.37 Aligned_cols=37 Identities=5% Similarity=-0.098 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHH
Q 041282 89 AISVLSWIYRYVTGGHPPGADQLEQARMKLASKAREM 125 (144)
Q Consensus 89 als~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d~A~~v 125 (144)
....-.|+.....+.+|..+++-.+-++++.+.++..
T Consensus 57 ~~~~~~~~~~~~~~a~~v~~~~~p~L~~~v~~la~~~ 93 (298)
T PRK04897 57 MIFQSTNVVMSMNHAREVTEEEAPELWHIVEDMAMVA 93 (298)
T ss_pred HHHhhHHHHHHhCCCEECChhhhHHHHHHHHHHHHHc
Confidence 3444567777777777777765555555555554444
No 32
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=56.03 E-value=12 Score=26.40 Aligned_cols=26 Identities=27% Similarity=0.429 Sum_probs=14.8
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHHhch
Q 041282 109 DQLEQARMKLASKAREMRDRAEQFGQ 134 (144)
Q Consensus 109 ~~ld~Ar~ri~d~A~~v~~kake~G~ 134 (144)
+..+.+|.|+.+..++..+++++..+
T Consensus 27 ~~~~~~r~~~~~~~~~a~~~~~~~~~ 52 (94)
T PF05957_consen 27 EKADEARDRAEEALDDARDRAEDAAD 52 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666655555555555544
No 33
>PF14017 DUF4233: Protein of unknown function (DUF4233)
Probab=55.52 E-value=85 Score=23.45 Aligned_cols=32 Identities=28% Similarity=0.445 Sum_probs=23.2
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCC
Q 041282 73 SLLIMGFLASGGFGVAAISVLSWIYRYVTGGH 104 (144)
Q Consensus 73 ~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~ 104 (144)
.+.+++|+--..+.+..+....|.|-...|++
T Consensus 68 ~~i~~g~v~p~m~vvG~iF~~~W~~~l~lg~~ 99 (107)
T PF14017_consen 68 LLIAGGFVHPAMFVVGVIFAAVWWYALYLGRR 99 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35556666666677777888999999876654
No 34
>COG5393 Predicted membrane protein [Function unknown]
Probab=55.44 E-value=1e+02 Score=24.33 Aligned_cols=22 Identities=32% Similarity=0.416 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 041282 36 LLVLSGLTMAGTVIALTIATPL 57 (144)
Q Consensus 36 LL~LaGlTL~gtvigL~vaTPL 57 (144)
+|+++|+|+.=+..||.--+-|
T Consensus 50 lllm~gLtl~fa~~~lmsL~vL 71 (131)
T COG5393 50 LLLMAGLTLLFAAFGLMSLMVL 71 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 6788899888777776544433
No 35
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=54.91 E-value=1e+02 Score=24.23 Aligned_cols=11 Identities=18% Similarity=0.060 Sum_probs=4.7
Q ss_pred HHHHHHHHHHH
Q 041282 113 QARMKLASKAR 123 (144)
Q Consensus 113 ~Ar~ri~d~A~ 123 (144)
+.|+.+.+.-.
T Consensus 72 ~~~~~l~ea~~ 82 (199)
T PF10112_consen 72 YIREILEEAKE 82 (199)
T ss_pred HHHHHHHHHHH
Confidence 34444444433
No 36
>PRK15100 amino acid ABC transporter permease; Provisional
Probab=53.48 E-value=1.1e+02 Score=24.19 Aligned_cols=9 Identities=33% Similarity=0.206 Sum_probs=5.9
Q ss_pred CCcHHHHHH
Q 041282 108 ADQLEQARM 116 (144)
Q Consensus 108 ~~~ld~Ar~ 116 (144)
+++.|.||.
T Consensus 116 ~~~~eAA~~ 124 (220)
T PRK15100 116 KGQWEAAAS 124 (220)
T ss_pred HhHHHHHHH
Confidence 466777764
No 37
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=53.45 E-value=1e+02 Score=23.73 Aligned_cols=15 Identities=7% Similarity=-0.093 Sum_probs=6.0
Q ss_pred hchhhhHHHHHHHHH
Q 041282 61 CSPVLVPAVITVSLL 75 (144)
Q Consensus 61 fSPVLVPAai~~~L~ 75 (144)
++|+..+....+.++
T Consensus 33 l~~~~s~~lg~~~lA 47 (191)
T PF04156_consen 33 LGALISFILGIALLA 47 (191)
T ss_pred hHHHHHHHHHHHHHH
Confidence 344444433333333
No 38
>COG4818 Predicted membrane protein [Function unknown]
Probab=53.07 E-value=49 Score=25.21 Aligned_cols=49 Identities=22% Similarity=0.330 Sum_probs=30.2
Q ss_pred hhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHH-HHHHHHHHHHHhcCC
Q 041282 56 PLLVICSPVLVPAVITVSLLIMGFLASGGFGVAA-ISVLSWIYRYVTGGH 104 (144)
Q Consensus 56 PLfvifSPVLVPAai~~~L~~~Gfl~sg~~Glta-ls~lsW~y~y~~g~~ 104 (144)
--++.|+|+++=..++...=.-|-+.|+..++++ +-++..|||-.||.+
T Consensus 37 QS~ltF~~l~~l~ill~~iP~Ig~lls~~v~l~a~iLwlv~mykAyrGe~ 86 (105)
T COG4818 37 QSFLTFLGLWLLIILLAFIPYIGWLLSGLVGLAAFILWLVCMYKAYRGER 86 (105)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHHHHHHHHHHHHHHHcCCe
Confidence 3455666666655555555555777777777643 344555788888854
No 39
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=52.54 E-value=1.1e+02 Score=23.71 Aligned_cols=14 Identities=7% Similarity=0.207 Sum_probs=7.6
Q ss_pred HhhhHHhhchhhhH
Q 041282 54 ATPLLVICSPVLVP 67 (144)
Q Consensus 54 aTPLfvifSPVLVP 67 (144)
..|++++++.+...
T Consensus 119 ~~~~~l~~~~~~~~ 132 (181)
T PF08006_consen 119 LSGIILLISGIFGG 132 (181)
T ss_pred HHHHHHHHHHHHHh
Confidence 45666665555443
No 40
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=52.18 E-value=41 Score=28.48 Aligned_cols=41 Identities=10% Similarity=0.028 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHH
Q 041282 39 LSGLTMAGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLA 81 (144)
Q Consensus 39 LaGlTL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~ 81 (144)
+.+..+.+.++|+++. -.+++.|+-+++++++++.+.+--+
T Consensus 35 ~l~~~~v~v~ig~l~~--~~~~~~i~gi~~g~l~am~vl~rra 75 (224)
T PF13829_consen 35 FLGPIAVFVLIGLLFG--SWWYWLIIGILLGLLAAMIVLSRRA 75 (224)
T ss_pred HHHHHHHHHHHHHHHc--cHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455556666665 3455666666666666666655544
No 41
>PF02987 LEA_4: Late embryogenesis abundant protein; InterPro: IPR004238 Different types of late embryogenesis abundant (LEA) proteins are expressed at different stages of late embryogenesis in higher plant seed embryos and under conditions of dehydration stress. The function of these proteins is unknown. This entry represents a repeat characteristic of some LEA proteins, including LEA3 [, ].
Probab=50.76 E-value=22 Score=22.14 Aligned_cols=23 Identities=26% Similarity=0.242 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 041282 111 LEQARMKLASKAREMRDRAEQFG 133 (144)
Q Consensus 111 ld~Ar~ri~d~A~~v~~kake~G 133 (144)
...++....+++++++|++.|..
T Consensus 8 a~e~~d~a~~ka~e~kd~a~eKa 30 (44)
T PF02987_consen 8 ASEAKDAAKEKAGEAKDAAAEKA 30 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445555555555544444
No 42
>PF04632 FUSC: Fusaric acid resistance protein family; InterPro: IPR006726 This entry represents the p-hydroxybenzoic acid efflux pump subunit AaeB (pHBA efflux pump protein B) whose substrates are p-hydroxybenzoic acid (pHBA), 6-hydroxy-2-naphthoic and 2-hydroxycinnamate. It could function as a metabolic relief valve, allowing to eliminate certain compounds when they accumulate to high levels in the cell []. This family also includes fusaric acid resistance proteins [], which are likely to be membrane transporter proteins, and uncharacterised transporter YdhK.; GO: 0006810 transport, 0005886 plasma membrane
Probab=50.63 E-value=1.9e+02 Score=26.12 Aligned_cols=41 Identities=20% Similarity=0.317 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHhhhHHhh--chhhhHHHHHHHHHHHHHHHh
Q 041282 42 LTMAGTVIALTIATPLLVIC--SPVLVPAVITVSLLIMGFLAS 82 (144)
Q Consensus 42 lTL~gtvigL~vaTPLfvif--SPVLVPAai~~~L~~~Gfl~s 82 (144)
-=+.||++|.+++.=+..+| +|++.-..+.+.+....+++.
T Consensus 51 ~R~~GT~iGa~~~~~lv~~~~~~p~l~~~~lal~i~~c~~~~~ 93 (650)
T PF04632_consen 51 YRLIGTLIGAAAGLLLVALFPQSPLLFLLALALWIGLCLYLSL 93 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHH
Confidence 33455555555544444344 676665555555555444443
No 43
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=50.43 E-value=19 Score=25.26 Aligned_cols=28 Identities=25% Similarity=0.417 Sum_probs=21.4
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHhchh
Q 041282 108 ADQLEQARMKLASKAREMRDRAEQFGQQ 135 (144)
Q Consensus 108 ~~~ld~Ar~ri~d~A~~v~~kake~G~q 135 (144)
.+.++.+|.++.|.++++.+++++...+
T Consensus 37 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ 64 (94)
T PF05957_consen 37 EEALDDARDRAEDAADQAREQAREAAEQ 64 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3568888888888888888887776543
No 44
>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12).
Probab=48.30 E-value=42 Score=29.44 Aligned_cols=45 Identities=27% Similarity=0.557 Sum_probs=29.8
Q ss_pred HHhhHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHH---HHHHHHHHHHHHHHHhc
Q 041282 80 LASGGFGVAAISVLSWIYRYVTGGHPPGADQLEQARM---KLASKAREMRDRAEQFG 133 (144)
Q Consensus 80 l~sg~~Gltals~lsW~y~y~~g~~p~g~~~ld~Ar~---ri~d~A~~v~~kake~G 133 (144)
|-+|-.|+.-++.-.|.|=| .+.++||. ..+|.-.++++|.++.-
T Consensus 21 LvGGp~Gl~ml~AgA~Y~~y---------Q~~EQAr~~A~~fA~~ld~~~~kl~~Ms 68 (301)
T PF06120_consen 21 LVGGPPGLVMLGAGAWYYFY---------QNAEQARQEAIEFADSLDELKEKLKEMS 68 (301)
T ss_pred hhcchHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHhhHHHHHHHHhcC
Confidence 44666677777777886666 44677775 35566666777777654
No 45
>PF01970 TctA: Tripartite tricarboxylate transporter TctA family; InterPro: IPR002823 Members of this prokaryotic family have no known function. Members are predicted to be integral membrane proteins and are similar to a protein in a tartrate utilisation region (TAR) of Agrobacterium vitis a common pathogen of grapevine. Most grapevine strains utilise tartrate, an abundant compound in grapevine [].
Probab=46.73 E-value=25 Score=31.64 Aligned_cols=30 Identities=30% Similarity=0.495 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHhhhHHhhchhhhHHHH
Q 041282 41 GLTMAGTVIALTIATPLLVICSPVLVPAVI 70 (144)
Q Consensus 41 GlTL~gtvigL~vaTPLfvifSPVLVPAai 70 (144)
++...++++|-+++.+++++|+|.+-|.+.
T Consensus 93 ~~a~~~S~~G~~is~~~l~~~a~~la~~a~ 122 (419)
T PF01970_consen 93 RLAAIGSFIGGLISAILLILFAPPLAPFAL 122 (419)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455678888888889999999988887654
No 46
>PF11286 DUF3087: Protein of unknown function (DUF3087); InterPro: IPR021438 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=46.35 E-value=1.3e+02 Score=24.48 Aligned_cols=44 Identities=27% Similarity=0.271 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhcCCCCCCC-----cHHHHHHHHHHHHHHHHHHHHHh
Q 041282 88 AAISVLSWIYRYVTGGHPPGAD-----QLEQARMKLASKAREMRDRAEQF 132 (144)
Q Consensus 88 tals~lsW~y~y~~g~~p~g~~-----~ld~Ar~ri~d~A~~v~~kake~ 132 (144)
.++...+|+.+.++. ||-..| ++.+.-+||..+=+.++..++|-
T Consensus 58 l~~~~~~~~l~~~k~-~p~m~Ev~YvW~LKq~ln~I~rkl~~ik~aa~~~ 106 (165)
T PF11286_consen 58 LGLLLTSALLRQLKT-HPFMTEVYYVWQLKQLLNKIYRKLHKIKAAAEQG 106 (165)
T ss_pred HHHHHHHHHHHHHcc-ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 344556777777764 554433 45666689999999998887753
No 47
>COG4709 Predicted membrane protein [Function unknown]
Probab=46.02 E-value=1.8e+02 Score=24.40 Aligned_cols=15 Identities=20% Similarity=0.685 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHH
Q 041282 84 GFGVAAISVLSWIYR 98 (144)
Q Consensus 84 ~~Gltals~lsW~y~ 98 (144)
+++......+.|.+|
T Consensus 162 ~~~~~if~iv~~~~r 176 (195)
T COG4709 162 GLGIVIFAIVKYASR 176 (195)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344455555555555
No 48
>cd03513 CrtW_beta-carotene-ketolase Beta-carotene ketolase/oxygenase (CrtW, also known as CrtO), the carotenoid astaxanthin biosynthetic enzyme, initially catalyzes the addition of two keto groups to carbons C4 and C4' of beta-carotene. Carotenoids are important natural pigments produced by many microorganisms and plants. Astaxanthin is reported to be an antioxidant, an anti-cancer agent, and an immune system stimulant. A number of bacteria and green algae can convert beta-carotene into astaxanthin by using several ketocarotenoids as intermediates and CrtW and a beta-carotene hydroxylase (CrtZ). CrtW initially converts beta-carotene to canthaxanthin via echinenone, and CrtZ initially mediates the conversion of beta-carotene to zeaxanthin via beta-cryptoxanthin. After a few more intermediates are formed, CrtW and CrtZ act in combination to produce astaxanthin. Sequences of this domain family appear to be structurally related to membrane fatty acid desaturases and alkane hydroxylases. Th
Probab=45.34 E-value=70 Score=26.42 Aligned_cols=23 Identities=39% Similarity=0.592 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHhhhHHhhch
Q 041282 41 GLTMAGTVIALTIATPLLVICSP 63 (144)
Q Consensus 41 GlTL~gtvigL~vaTPLfvifSP 63 (144)
||++++.++++-+++=+..++-+
T Consensus 1 gl~~a~~i~~~w~~~~~~~~~~~ 23 (225)
T cd03513 1 GLTLAGLIIAAWLASHVHALFFP 23 (225)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHh
Confidence 55666666666555555444433
No 49
>COG0600 TauC ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]
Probab=45.10 E-value=1.9e+02 Score=24.46 Aligned_cols=63 Identities=21% Similarity=0.291 Sum_probs=37.1
Q ss_pred HhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHH-HHHHHHHHHHHhcCCCCCCCcHHHHHH
Q 041282 54 ATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAA-ISVLSWIYRYVTGGHPPGADQLEQARM 116 (144)
Q Consensus 54 aTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Glta-ls~lsW~y~y~~g~~p~g~~~ld~Ar~ 116 (144)
.-|++.++-|+=.-|-+-+.++--|+--..-+.++. .+..-=+.|-..|-+-+.+|.+|.+|.
T Consensus 98 l~P~i~~l~~iP~lA~~Pl~ilwfG~g~~s~i~i~~~~~ffpi~int~~Gvr~v~~~~~~~ar~ 161 (258)
T COG0600 98 LDPLVQVLRPIPPLALAPLAILWFGIGETSKIVIAVLGAFFPILINTLDGVRSVDPDLLELART 161 (258)
T ss_pred HhHHHHHHhcCCHHHHHHHHHHHHhCCcchHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 357777777664444444555555665544555555 344444566677766555666776663
No 50
>PF14019 DUF4235: Protein of unknown function (DUF4235)
Probab=44.27 E-value=52 Score=23.00 Aligned_cols=27 Identities=30% Similarity=0.539 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHhcCCCC-CCCcHHHH
Q 041282 88 AAISVLSWIYRYVTGGHPP-GADQLEQA 114 (144)
Q Consensus 88 tals~lsW~y~y~~g~~p~-g~~~ld~A 114 (144)
.+=-.+.=+++..+|+.|| .++..|+-
T Consensus 15 ~a~k~~~~~W~~~tg~~~P~~~~d~~~~ 42 (78)
T PF14019_consen 15 LAGKVFEQVWKKVTGREPPKDPDDPDRS 42 (78)
T ss_pred HHHHHHHHHHHHHcCCCCCCCCCCcccc
Confidence 3335556678999999888 66655543
No 51
>TIGR02805 exbB2 tonB-system energizer ExbB, group 2. Members of this protein family appear to be the ExbB protein of an ExbBD proton-transporting membrane complex that, by means of TonB, energizes transport by TonB-dependent receptors. Note that this family represents one of at least two distinct groups TolQ homologs designated ExbB - see also TIGR02797. Each group associates with a distinct group of ExbD proteins, and a single species may have two ExbB/ExbD/TonB systems.
Probab=44.05 E-value=1.1e+02 Score=24.13 Aligned_cols=56 Identities=18% Similarity=0.159 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhc
Q 041282 44 MAGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTG 102 (144)
Q Consensus 44 L~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g 102 (144)
|.|||+|++.+.--+=.. .--=|..++.++..+=..+ ++|+..--...-.|||++.
T Consensus 70 LLGTV~GmI~~F~~lg~~-g~~~~~~la~GIs~ALitT--a~GL~VAIpali~yn~l~~ 125 (138)
T TIGR02805 70 LLGTVIGIMVTFYQMGHG-GGIDPSVIMLGLSLALKAT--ALGLLVAIPSLVFYNALLR 125 (138)
T ss_pred HHHHHHHHHHHHHHHHhc-CCCCHHHHHhHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
Confidence 468899988764444221 1123444444444433333 3344333333456888865
No 52
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=43.79 E-value=1.4e+02 Score=26.50 Aligned_cols=18 Identities=28% Similarity=0.268 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 041282 31 TAGGSLLVLSGLTMAGTV 48 (144)
Q Consensus 31 ~~g~~LL~LaGlTL~gtv 48 (144)
.+|.++|.+.|+..+-++
T Consensus 180 svGSA~LT~IGLaAAKaA 197 (295)
T TIGR01478 180 ALSSALLGNIGIAAAKTA 197 (295)
T ss_pred ccHHHHHHHHHHHHHHHH
Confidence 455666666666666543
No 53
>TIGR01597 PYST-B Plasmodium yoelii subtelomeric family PYST-B. This model represents a paralogous family of Plasmodium yoelii genes preferentially located in the subtelomeric regions of the chromosomes. There are no obvious homologs to these genes in any other organism.
Probab=43.56 E-value=61 Score=28.14 Aligned_cols=11 Identities=27% Similarity=0.646 Sum_probs=7.5
Q ss_pred HHHHHHHHHHh
Q 041282 91 SVLSWIYRYVT 101 (144)
Q Consensus 91 s~lsW~y~y~~ 101 (144)
-...|-|+|++
T Consensus 234 ~~~~~~~qy~~ 244 (255)
T TIGR01597 234 YWSIWRFQYVK 244 (255)
T ss_pred HHHHHHHHHHH
Confidence 34568888874
No 54
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=43.27 E-value=3.2 Score=29.06 Aligned_cols=25 Identities=24% Similarity=0.424 Sum_probs=3.0
Q ss_pred HHHHHHHHHHHhcCCCCCCCcHHHHHH
Q 041282 90 ISVLSWIYRYVTGGHPPGADQLEQARM 116 (144)
Q Consensus 90 ls~lsW~y~y~~g~~p~g~~~ld~Ar~ 116 (144)
+-++.++||+. ++..|+-.+|+-|.
T Consensus 27 lLIlf~iyR~r--kkdEGSY~l~e~K~ 51 (64)
T PF01034_consen 27 LLILFLIYRMR--KKDEGSYDLDEPKP 51 (64)
T ss_dssp ----------S--------SS--S---
T ss_pred HHHHHHHHHHH--hcCCCCccCCCCCc
Confidence 44567788875 34567888888774
No 55
>COG4425 Predicted membrane protein [Function unknown]
Probab=42.63 E-value=83 Score=30.07 Aligned_cols=62 Identities=23% Similarity=0.380 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCC
Q 041282 39 LSGLTMAGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHP 105 (144)
Q Consensus 39 LaGlTL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p 105 (144)
+-+++-+|.+.|.+.. -.=.+|-|.|=.-.+--+..||. .++|-++-..+-|+.+|++-..|
T Consensus 46 ~~~~s~tG~~~g~vff---~~sLTPSLLPr~~l~qgv~sgf~--~A~Gy~~gv~~~wl~~y~elp~~ 107 (588)
T COG4425 46 LRSLSATGLLMGTVFF---WASLTPSLLPRPWLFQGVLSGFS--LAAGYGAGVFLHWLWRYLELPES 107 (588)
T ss_pred HHhhccchHHHHHHHH---HHhcCccccCchHHHHHHHHHHH--HHhhhHHHHHHHHHHHHhhCCCC
Confidence 3455556666665432 23347888887777776777774 45555666788999999987654
No 56
>PRK03072 heat shock protein HtpX; Provisional
Probab=42.30 E-value=2.1e+02 Score=24.17 Aligned_cols=34 Identities=6% Similarity=-0.156 Sum_probs=18.0
Q ss_pred HHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHH
Q 041282 91 SVLSWIYRYVTGGHPPGADQLEQARMKLASKARE 124 (144)
Q Consensus 91 s~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d~A~~ 124 (144)
....|+.+...|.++..+++-.+-++.+.+.+..
T Consensus 49 ~~s~~~~~~~~~~~~v~~~~~p~L~~~v~~la~~ 82 (288)
T PRK03072 49 WNSDKLALRAMHAQPVSEVQAPAMYRIVRELSTA 82 (288)
T ss_pred HHhHHHHHHhcCCEECChhhhHHHHHHHHHHHHH
Confidence 3346666666677776665433444444443333
No 57
>TIGR01190 ccmB heme exporter protein CcmB. This model describes the cyt c biogenesis protein encoded by ccmB in bacteria. Bacterial c-type cytochromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome C.
Probab=41.74 E-value=1.8e+02 Score=24.04 Aligned_cols=43 Identities=21% Similarity=0.263 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHh------hhHHhhchhhhHHHHHHHHHHHHHHHh
Q 041282 40 SGLTMAGTVIALTIAT------PLLVICSPVLVPAVITVSLLIMGFLAS 82 (144)
Q Consensus 40 aGlTL~gtvigL~vaT------PLfvifSPVLVPAai~~~L~~~Gfl~s 82 (144)
-|+++.||+.+-.... =+-++.-|+.||..|...-++...+.+
T Consensus 133 ~~Ls~igtl~aALt~g~r~~~~Ll~lL~lPl~vPvLIfg~~a~~~~~~G 181 (211)
T TIGR01190 133 PALSFLGAIGAALTVGLKRGGLLLSLLVLPLYIPVLIFGSAAIQAAAEG 181 (211)
T ss_pred HHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3455555554433222 233666799999888877777665554
No 58
>PRK11026 ftsX cell division ABC transporter subunit FtsX; Provisional
Probab=41.33 E-value=1.8e+02 Score=24.92 Aligned_cols=25 Identities=4% Similarity=-0.219 Sum_probs=17.6
Q ss_pred HhhHHHHHHHHHHHHHHHHHhcCCC
Q 041282 81 ASGGFGVAAISVLSWIYRYVTGGHP 105 (144)
Q Consensus 81 ~sg~~Gltals~lsW~y~y~~g~~p 105 (144)
...++.++.+++..=+.||+|..+|
T Consensus 284 ~~~~~~ig~l~s~~s~~r~L~~~~~ 308 (309)
T PRK11026 284 LLVCSMIGWVAAWLATVQHLRRFTP 308 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 3444566777787888999987655
No 59
>PF13886 DUF4203: Domain of unknown function (DUF4203)
Probab=41.18 E-value=1.8e+02 Score=23.01 Aligned_cols=80 Identities=21% Similarity=0.262 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHhhhHHh-------hchhhhHHHHHHHHHHHH-------
Q 041282 21 HQVVKAATAVTAGGSLLVL--------SGLTMAGTVIALTIATPLLVI-------CSPVLVPAVITVSLLIMG------- 78 (144)
Q Consensus 21 ~qvl~~~~~~~~g~~LL~L--------aGlTL~gtvigL~vaTPLfvi-------fSPVLVPAai~~~L~~~G------- 78 (144)
.+....++.+..|..+..+ .|+.+.|...|+.++.-++.. ..|.+++..+...+...+
T Consensus 53 ~~~~~~v~g~~~G~i~g~~~~~~~~~~~glf~~G~~~G~~la~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~l~~ 132 (210)
T PF13886_consen 53 NLGASVVAGVLGGIILGLLWWAFLIYSVGLFLVGLLLGFLLAMWILSLPPGGLIIPHPDWVFWVLFLCLALVFGLLTLKF 132 (210)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccceeccCCchhHHHHHHHHHHHHHHHHHHh
Confidence 3344444555555554444 788899999999988666543 346677766654443322
Q ss_pred -----HHHhhHHHHHHHHHHHHHHHHHhcC
Q 041282 79 -----FLASGGFGVAAISVLSWIYRYVTGG 103 (144)
Q Consensus 79 -----fl~sg~~Gltals~lsW~y~y~~g~ 103 (144)
++++..+| -..+.|=.+|+.+.
T Consensus 133 ~k~~~I~~ts~~G---a~~i~~giD~f~~~ 159 (210)
T PF13886_consen 133 QKPFLIVSTSFFG---AYAIVLGIDYFVGA 159 (210)
T ss_pred hhHHHHHHHHHHH---HHHHHHHhHHHhcC
Confidence 12333333 34455666777665
No 60
>PRK05812 secD preprotein translocase subunit SecD; Reviewed
Probab=41.06 E-value=1.3e+02 Score=27.88 Aligned_cols=33 Identities=15% Similarity=0.182 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHH
Q 041282 44 MAGTVIALTIATPLLVICSPVLVPAVITVSLLI 76 (144)
Q Consensus 44 L~gtvigL~vaTPLfvifSPVLVPAai~~~L~~ 76 (144)
+..++.-++.+.|||++-++.+-|.++++.+..
T Consensus 435 l~s~lTTlia~l~L~~~g~g~i~~fAitl~iGi 467 (498)
T PRK05812 435 LDSNITTLIAAIILYALGTGPVKGFAVTLGIGI 467 (498)
T ss_pred HHHHHHHHHHHHHHHHHhccchhHHHHHHHHHH
Confidence 344555556778888888788888877766543
No 61
>PRK10404 hypothetical protein; Provisional
Probab=40.64 E-value=29 Score=25.58 Aligned_cols=26 Identities=15% Similarity=0.189 Sum_probs=15.5
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHHhch
Q 041282 109 DQLEQARMKLASKAREMRDRAEQFGQ 134 (144)
Q Consensus 109 ~~ld~Ar~ri~d~A~~v~~kake~G~ 134 (144)
++++.+|.|+.|..+.+.+++|+..+
T Consensus 45 ~~L~~ar~~l~~~~~~~~~~~k~aa~ 70 (101)
T PRK10404 45 KALDDVKKRVSQASDSYYYRAKQAVY 70 (101)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 34566666666666655566666553
No 62
>PF12811 BaxI_1: Bax inhibitor 1 like ; InterPro: IPR010539 Bax inhibitor-1 (BI1) family contains six known genes in human. Some members of BI1 family have been proved to play important roles in cell death [, ].
Probab=39.55 E-value=2.5e+02 Score=24.32 Aligned_cols=29 Identities=21% Similarity=0.454 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHhhhHHhhchhh-hHHHHHH
Q 041282 42 LTMAGTVIALTIATPLLVICSPVL-VPAVITV 72 (144)
Q Consensus 42 lTL~gtvigL~vaTPLfvifSPVL-VPAai~~ 72 (144)
+.+.|.++||++ -|+..|.|.. .|+.+.+
T Consensus 90 ~~~~g~i~glvl--~lv~~F~~~~~sp~l~~~ 119 (274)
T PF12811_consen 90 LAIVGAIGGLVL--ALVISFKRKVWSPALAPI 119 (274)
T ss_pred HHHHHHHHHHHH--HHHHHhCCccCChHHHHH
Confidence 466777777766 5777887766 6655433
No 63
>TIGR00439 ftsX putative protein insertion permease FtsX. FtsX is an integral membrane protein encoded in the same operon as signal recognition particle docking protein FtsY and FtsE. It belongs to a family of predicted permeases and may play a role in the insertion of proteins required for potassium transport, cell division, and other activities. FtsE is a hydrophilic nucleotide-binding protein that associates with the inner membrane by means of association with FtsX.
Probab=39.27 E-value=1.7e+02 Score=25.04 Aligned_cols=27 Identities=4% Similarity=-0.119 Sum_probs=17.6
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHhcCCC
Q 041282 79 FLASGGFGVAAISVLSWIYRYVTGGHP 105 (144)
Q Consensus 79 fl~sg~~Gltals~lsW~y~y~~g~~p 105 (144)
.+...+..+..+++..=+.||+|--.|
T Consensus 282 ~l~~~g~~lg~lgs~~s~~r~Lr~~~~ 308 (309)
T TIGR00439 282 LLLGFCIALGVVGAWLATTQHLLCFKA 308 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 334444556667777778899886655
No 64
>PF01618 MotA_ExbB: MotA/TolQ/ExbB proton channel family MotA family only; InterPro: IPR002898 This family groups together integral membrane proteins that appear to be involved in translocation of proteins across a membrane. These proteins are probably proton channels. MotA is an essential component of the flagellar motor that uses a proton gradient to generate rotational motion in the flagellar []. ExbB is part of the TonB-dependent transduction complex. The TonB complex uses the proton gradient across the inner bacterial membrane to transport large molecules across the outer bacterial membrane.; GO: 0008565 protein transporter activity, 0006810 transport, 0016020 membrane
Probab=39.25 E-value=34 Score=25.53 Aligned_cols=19 Identities=26% Similarity=0.385 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHhhhHHhh
Q 041282 43 TMAGTVIALTIATPLLVIC 61 (144)
Q Consensus 43 TL~gtvigL~vaTPLfvif 61 (144)
.|..|+.||+++.|.++++
T Consensus 102 Al~tT~~GL~vai~~~~~~ 120 (139)
T PF01618_consen 102 ALITTAYGLVVAIPALPFY 120 (139)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4667788888887777544
No 65
>COG0811 TolQ Biopolymer transport proteins [Intracellular trafficking and secretion]
Probab=38.76 E-value=33 Score=27.90 Aligned_cols=19 Identities=32% Similarity=0.478 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHhhhHHhh
Q 041282 43 TMAGTVIALTIATPLLVIC 61 (144)
Q Consensus 43 TL~gtvigL~vaTPLfvif 61 (144)
.|..|++||++|.|-+++.
T Consensus 166 AL~aTA~GL~vAIPAvi~y 184 (216)
T COG0811 166 ALIATAIGLFVAIPAVVAY 184 (216)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4677888888888766543
No 66
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=38.12 E-value=1.4e+02 Score=20.93 Aligned_cols=25 Identities=8% Similarity=0.300 Sum_probs=11.9
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHHhc
Q 041282 109 DQLEQARMKLASKAREMRDRAEQFG 133 (144)
Q Consensus 109 ~~ld~Ar~ri~d~A~~v~~kake~G 133 (144)
+..+..+.++.+.-.++.+.-++|.
T Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (181)
T PF12729_consen 75 EERQEIEKEIDEARAEIDEALEEYE 99 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444555555554544444443
No 67
>PTZ00370 STEVOR; Provisional
Probab=38.01 E-value=1.6e+02 Score=26.19 Aligned_cols=18 Identities=39% Similarity=0.577 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 041282 31 TAGGSLLVLSGLTMAGTV 48 (144)
Q Consensus 31 ~~g~~LL~LaGlTL~gtv 48 (144)
.+|.++|.+.|+..+-++
T Consensus 180 sVGSafLT~IGLaAAKaA 197 (296)
T PTZ00370 180 SLGSALLTLIGLAAAKAA 197 (296)
T ss_pred ccHHHHHHHHHHHHHHHH
Confidence 345556666666655533
No 68
>TIGR03750 conj_TIGR03750 conjugative transfer region protein, TIGR03750 family. Members of this protein family are found occasionally on plasmids. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=37.72 E-value=1.8e+02 Score=22.08 Aligned_cols=9 Identities=22% Similarity=0.350 Sum_probs=5.0
Q ss_pred HHHHHHHhc
Q 041282 94 SWIYRYVTG 102 (144)
Q Consensus 94 sW~y~y~~g 102 (144)
.|+-|+-||
T Consensus 68 ~~l~rlKRG 76 (111)
T TIGR03750 68 KLLARLKRG 76 (111)
T ss_pred HHHHHHHcC
Confidence 455555555
No 69
>PRK03982 heat shock protein HtpX; Provisional
Probab=37.70 E-value=2.4e+02 Score=23.55 Aligned_cols=34 Identities=6% Similarity=-0.116 Sum_probs=20.7
Q ss_pred HHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHH
Q 041282 93 LSWIYRYVTGGHPPGADQLEQARMKLASKAREMR 126 (144)
Q Consensus 93 lsW~y~y~~g~~p~g~~~ld~Ar~ri~d~A~~v~ 126 (144)
-.|+.+.+.+.+|..+++-.+-++++.+.+++.+
T Consensus 49 ~~~i~~~~~~~~~l~~~~~p~L~~~v~~la~~~g 82 (288)
T PRK03982 49 SDKIVLASYNARIVSEEEAPELYRIVERLAERAN 82 (288)
T ss_pred hHHHHHHhcCCEECChhhhHHHHHHHHHHHHHcC
Confidence 3677777777777666554455555555555443
No 70
>PF15420 Abhydrolase_9_N: Alpha/beta-hydrolase family N-terminus
Probab=37.60 E-value=65 Score=26.44 Aligned_cols=43 Identities=26% Similarity=0.543 Sum_probs=30.5
Q ss_pred hchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCC
Q 041282 61 CSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHP 105 (144)
Q Consensus 61 fSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p 105 (144)
++|=|+|=.-..-=+.+|+..+.+-|+.. .+.|+.||+.-.+|
T Consensus 1 LTPSLlPR~w~~Qgv~~Gi~~a~GY~~Gv--~~~~l~r~~~~~~~ 43 (208)
T PF15420_consen 1 LTPSLLPRPWLFQGVVSGISAAIGYGLGV--FLRWLWRRLGLPRP 43 (208)
T ss_pred CCCccCCCcHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhcCCCC
Confidence 46777776666666666776666666655 78999999976555
No 71
>COG2148 WcaJ Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]
Probab=36.17 E-value=31 Score=29.16 Aligned_cols=18 Identities=28% Similarity=0.515 Sum_probs=12.3
Q ss_pred hHHhhchhhhHHHHHHHH
Q 041282 57 LLVICSPVLVPAVITVSL 74 (144)
Q Consensus 57 LfvifSPVLVPAai~~~L 74 (144)
.+++|||++.+.++++-+
T Consensus 52 ~L~v~sP~~l~iai~ikl 69 (226)
T COG2148 52 GLLLLSPVMLIIALAIKL 69 (226)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 345678888887776644
No 72
>TIGR02762 TraL_TIGR type IV conjugative transfer system protein TraL. This protein is part of the type IV secretion system for conjugative plasmid transfer. The function of the TraL protein is unknown.
Probab=36.12 E-value=1.3e+02 Score=21.60 Aligned_cols=14 Identities=21% Similarity=0.268 Sum_probs=8.2
Q ss_pred HHHHHHHHhcCCCC
Q 041282 93 LSWIYRYVTGGHPP 106 (144)
Q Consensus 93 lsW~y~y~~g~~p~ 106 (144)
+.+.+|+++..+|.
T Consensus 52 ~~~~lrr~K~g~~~ 65 (95)
T TIGR02762 52 IWKRLRRIKGGEGE 65 (95)
T ss_pred HHHHHHHHHcCCCh
Confidence 34456677666653
No 73
>PF03379 CcmB: CcmB protein; InterPro: IPR003544 Within mitochondria and bacteria, a family of related proteins is involved in the assembly of periplasmic c-type cytochromes: these include CycK [], CcmF [,], NrfE [] and CcbS []. These proteins may play a role in guidance of apocytochromes and haem groups for their covalent linkage by the cytochrome-c-haem lyase. Members of the family are probably integral membrane proteins, with up to 16 predicted transmembrane (TM) helices. The gene products of the hel and ccl loci have been shown to be required specifically for the biogenesis of c-type cytochromes in the Gram-negative photosynthetic bacterium Rhodobacter capsulatus []. Genetic and molecular analyses show that the hel locus contains at least 4 genes, helA, helB, helC and orf52. HelA is similar to the ABC transporters and helA, helB, and helC are proposed to encode an export complex []. It is believed that the hel-encoded proteins are required for the export of haem to the periplasm, where it is subsequently ligated to the c-type apocytochromes []. However, while CcmB and CcmC have the potential to interact with CcmA, the 3 gene products probably associating to form a complex with (CcmA)2-CcmB-CcmC stoichiometry, the substrate for the putative CcmABC-transporter is probably neither haem nor c-type apocytochromes []. Hydropathy analysis suggests the presence of 6 TM domains.; GO: 0015232 heme transporter activity, 0015886 heme transport, 0017004 cytochrome complex assembly, 0016020 membrane
Probab=36.11 E-value=2.3e+02 Score=22.83 Aligned_cols=47 Identities=30% Similarity=0.371 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHH------hhhHHhhchhhhHHHHHHHHHHHHHHHh
Q 041282 36 LLVLSGLTMAGTVIALTIA------TPLLVICSPVLVPAVITVSLLIMGFLAS 82 (144)
Q Consensus 36 LL~LaGlTL~gtvigL~va------TPLfvifSPVLVPAai~~~L~~~Gfl~s 82 (144)
++.-.|++..||+.+-..+ .=+-++.-|+.+|..|...-+....+.+
T Consensus 132 ~lgt~gl~~igtl~aal~~~~r~~~~Ll~lL~lPl~iPvli~~~~~t~~~~~g 184 (215)
T PF03379_consen 132 LLGTLGLAAIGTLLAALAAGARGREILLPLLLLPLLIPVLIFAVQATTAALTG 184 (215)
T ss_pred HHHhHHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3444667777777665443 1244566799999888776666655443
No 74
>PRK02391 heat shock protein HtpX; Provisional
Probab=35.92 E-value=2e+02 Score=24.54 Aligned_cols=37 Identities=5% Similarity=-0.028 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHH
Q 041282 90 ISVLSWIYRYVTGGHPPGADQLEQARMKLASKAREMR 126 (144)
Q Consensus 90 ls~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d~A~~v~ 126 (144)
.-...|+..+..|.++..+++..+-++++.+.+...+
T Consensus 54 ~~~~~~~~~~~~~~~~~~~~~~p~L~~~v~~la~~~~ 90 (296)
T PRK02391 54 YFFSDKLALWSMGARIVSEDEYPELHAMVERLCALAD 90 (296)
T ss_pred HHHhHHHHHHHcCCEECChhhCHHHHHHHHHHHHHcC
Confidence 3444566677777777777665566666655555443
No 75
>PRK01315 putative inner membrane protein translocase component YidC; Provisional
Probab=35.71 E-value=1.2e+02 Score=26.77 Aligned_cols=31 Identities=19% Similarity=0.266 Sum_probs=26.2
Q ss_pred HHHHhhhHHhhchhhhHHHHHHHHHHHHHHH
Q 041282 51 LTIATPLLVICSPVLVPAVITVSLLIMGFLA 81 (144)
Q Consensus 51 L~vaTPLfvifSPVLVPAai~~~L~~~Gfl~ 81 (144)
+....|++++|+=+-+|+++.+--++.++.+
T Consensus 217 M~~imPim~~~~~~~fPaGL~LYW~~snl~s 247 (329)
T PRK01315 217 LLYLFPLMFLVSGIAFPVGVLFYWLTSNVWT 247 (329)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456899999999999999999998887765
No 76
>TIGR00930 2a30 K-Cl cotransporter.
Probab=35.56 E-value=2.2e+02 Score=28.44 Aligned_cols=42 Identities=21% Similarity=0.252 Sum_probs=24.2
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCC
Q 041282 65 LVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHPP 106 (144)
Q Consensus 65 LVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p~ 106 (144)
++|..-++..+..-|+.+.-..+.++....=+|.|+.-++|.
T Consensus 501 ~~sllG~l~c~~lmf~i~w~~ali~~~i~~~ly~~~~~~~~~ 542 (953)
T TIGR00930 501 WLSLLGASLCCAIMFLISWWAALVAMVIALFLYKYVTYKKPD 542 (953)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCC
Confidence 455544444455556655555555555566667777656654
No 77
>TIGR01097 PhnE phosphonate ABC transporter, permease protein PhnE. Phosphonates are a class of compound analogous to organic phosphates, but in which the C-O-P linkage is replaced by a direct, stable C-P bond. Some bacteria can utilize phosphonates as a source of phosphorus. This family consists of permease proteins of known or predicted phosphonate ABC transporters. Often this protein is found as a duplicated pair, occasionally as a fused pair. Certain "second" copies score in between the trusted and noise cutoff and should be considered true hits (by context).
Probab=35.13 E-value=2.3e+02 Score=22.58 Aligned_cols=24 Identities=8% Similarity=0.138 Sum_probs=11.3
Q ss_pred HHHHHHHHHhc-CCCCCCCcHHHHH
Q 041282 92 VLSWIYRYVTG-GHPPGADQLEQAR 115 (144)
Q Consensus 92 ~lsW~y~y~~g-~~p~g~~~ld~Ar 115 (144)
...+++|.++. -+-...+..|.||
T Consensus 137 ~~~~~~~~~~~~l~~i~~~~~eaa~ 161 (250)
T TIGR01097 137 TVGFLGKLFAEAIEEVDPGPVEALR 161 (250)
T ss_pred HHHHHHHHHHHHHHcCChhHHHHHH
Confidence 34555555443 2333445555555
No 78
>PF06796 NapE: Periplasmic nitrate reductase protein NapE; InterPro: IPR010649 This family consists of several bacterial periplasmic nitrate reductase NapE proteins. Seven genes, napKEFDABC, encoding the periplasmic nitrate reductase system were cloned from the denitrifying phototrophic bacterium Rhodobacter sphaeroides. NapE is thought to be a transmembrane protein [].
Probab=34.73 E-value=1.1e+02 Score=20.76 Aligned_cols=14 Identities=21% Similarity=0.759 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHhc
Q 041282 89 AISVLSWIYRYVTG 102 (144)
Q Consensus 89 als~lsW~y~y~~g 102 (144)
+-..+.|+|.-+.|
T Consensus 39 ~YGF~VWm~Q~~~G 52 (56)
T PF06796_consen 39 GYGFIVWMYQIFFG 52 (56)
T ss_pred HHHHHHHHHHHHcC
Confidence 34557899999877
No 79
>COG1289 Predicted membrane protein [Function unknown]
Probab=34.65 E-value=3.2e+02 Score=25.61 Aligned_cols=74 Identities=18% Similarity=0.287 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhhhHHhhchh----hhHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHH
Q 041282 44 MAGTVIALTIATPLLVICSPV----LVPAVITVSLLIMGF-LASGGFGVAAISVLSWIYRYVTGGHPPGADQLEQARMKL 118 (144)
Q Consensus 44 L~gtvigL~vaTPLfvifSPV----LVPAai~~~L~~~Gf-l~sg~~Gltals~lsW~y~y~~g~~p~g~~~ld~Ar~ri 118 (144)
..||++|+.++..++.+.-|. |.-..+..++...++ +..-.+...+++...++-+-+-|..+ .++.-.|.
T Consensus 407 i~GTllg~~~g~~~l~~~~p~~~~~l~~l~~~~~l~~~~~~~~~~~~a~~~i~l~v~~~~~l~~~~~-----~~~~~~r~ 481 (674)
T COG1289 407 ILGTLLGLLLGLLVLLLLLPLIPGLLLLLLLAALLFAAGIRLAKYRLATLGITLLVLFLVGLLGSNG-----PDYDLPRF 481 (674)
T ss_pred HHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHcccch-----hhhhHHHH
Q ss_pred HHHH
Q 041282 119 ASKA 122 (144)
Q Consensus 119 ~d~A 122 (144)
.|..
T Consensus 482 ~d~~ 485 (674)
T COG1289 482 LDTL 485 (674)
T ss_pred HHHH
No 80
>PRK10631 p-hydroxybenzoic acid efflux subunit AaeB; Provisional
Probab=32.92 E-value=4.6e+02 Score=25.34 Aligned_cols=85 Identities=16% Similarity=0.194 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHhh--chhhhHHHHHHHHHHHHHHH-------hhHHHHHHHHHHHHHHHHHhcC
Q 041282 33 GGSLLVLSGLTMAGTVIALTIATPLLVIC--SPVLVPAVITVSLLIMGFLA-------SGGFGVAAISVLSWIYRYVTGG 103 (144)
Q Consensus 33 g~~LL~LaGlTL~gtvigL~vaTPLfvif--SPVLVPAai~~~L~~~Gfl~-------sg~~Gltals~lsW~y~y~~g~ 103 (144)
.|..+-=+---+.||++|-+++.=+..+| .|++.=.++.+.+....+.+ +=+|.+++.+...=.+-.. .
T Consensus 58 ~G~v~~K~~~Ri~GTliGa~~~l~l~~~f~~~p~l~~l~l~lWig~c~~~s~l~r~~~sY~~~LaGyTa~iI~~~~~--~ 135 (652)
T PRK10631 58 SGAIRYRGMLRIIGTFIGCIAALVIIIATIRAPLLMILLCCIWAGFCTWISSLVRVENSYAWGLAGYTALIIVITIQ--P 135 (652)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHhcc--C
Confidence 34444444455677777777776666666 47765554444443333322 2255555554443333322 2
Q ss_pred CCCCCCcHHHHHHHHHHH
Q 041282 104 HPPGADQLEQARMKLASK 121 (144)
Q Consensus 104 ~p~g~~~ld~Ar~ri~d~ 121 (144)
+|. +-.|.|-.|+.|.
T Consensus 136 ~p~--~~f~~A~~R~~Ei 151 (652)
T PRK10631 136 EPL--LTPQFAVERCSEI 151 (652)
T ss_pred Cch--HHHHHHHHHHHHH
Confidence 331 1245555554443
No 81
>PF12420 DUF3671: Protein of unknown function ; InterPro: IPR022139 This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length.
Probab=32.61 E-value=1.6e+02 Score=21.78 Aligned_cols=19 Identities=21% Similarity=0.158 Sum_probs=11.9
Q ss_pred hHHHHHHHHHHHHHHHHHh
Q 041282 83 GGFGVAAISVLSWIYRYVT 101 (144)
Q Consensus 83 g~~Gltals~lsW~y~y~~ 101 (144)
-.+...++..++++|-+.+
T Consensus 81 f~~i~~~i~ll~iiYi~~K 99 (104)
T PF12420_consen 81 FFIIFITIILLVIIYIFIK 99 (104)
T ss_pred hhHHHHHHHHHHHHHHHHh
Confidence 3344566777778876653
No 82
>PRK13023 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=32.33 E-value=2.4e+02 Score=27.76 Aligned_cols=54 Identities=15% Similarity=0.041 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHH-HHHHHHHHHHh
Q 041282 45 AGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAI-SVLSWIYRYVT 101 (144)
Q Consensus 45 ~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltal-s~lsW~y~y~~ 101 (144)
.+++..++.+.|||++-++.+-|.++++.+.+.. |--..+... ..+.|.+|+.+
T Consensus 381 ~s~lTTlia~lpL~~~g~g~ik~FAitliiGi~~---S~~~al~vt~~l~~~~~~~~~ 435 (758)
T PRK13023 381 DANLTTLIAALVLFLLGSGTVHGFALTVAIGIGT---TLFTTLTFTRLLIAQWVRTAK 435 (758)
T ss_pred HHHHHHHHHHHHHHHHhchhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhhcC
Confidence 3444455667788888888888877766554333 222223222 23455566543
No 83
>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=32.29 E-value=1.4e+02 Score=24.45 Aligned_cols=58 Identities=22% Similarity=0.363 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q 041282 32 AGGSLLVLSGLTMAGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIY 97 (144)
Q Consensus 32 ~g~~LL~LaGlTL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y 97 (144)
.+|.+|.+.|+.+.-..+...+ -+.|++-+..- .++...+|+.+..+.+..+ ++.|++
T Consensus 188 ~~G~llmf~G~~~~~~~l~~l~------~~~P~lg~l~~-~~~~~~~~~~s~~lsl~~I-a~aW~~ 245 (248)
T PF07787_consen 188 FIGWLLMFIGFFLLFSPLYTLV------DWIPLLGNLVG-FGLFLVAFIISFSLSLLTI-ALAWLF 245 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------hhhceeechhh-hHHHHHHHHHHHHHHHHHH-HHhhee
Confidence 5566666667776655543332 23444443211 2222233555555554443 456764
No 84
>PF13072 DUF3936: Protein of unknown function (DUF3936)
Probab=32.23 E-value=14 Score=23.58 Aligned_cols=21 Identities=33% Similarity=0.556 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHhchhcc
Q 041282 117 KLASKAREMRDRAEQFGQQQS 137 (144)
Q Consensus 117 ri~d~A~~v~~kake~G~q~~ 137 (144)
++..+|-|+.++-|||+.++.
T Consensus 11 ~lvGKAWeIr~~Lkey~k~~~ 31 (38)
T PF13072_consen 11 ILVGKAWEIRAKLKEYGKQFG 31 (38)
T ss_pred EEEehHHHHHHHHHHHHHhhh
Confidence 567899999999999998764
No 85
>TIGR02973 nitrate_rd_NapE periplasmic nitrate reductase, NapE protein. NapE, homologous to TorE (TIGR02972), is a membrane protein of unknown function that is part of the periplasmic nitrate reductase system; it may be part of the enzyme complex. The periplasmic nitrate reductase allows for nitrate respiration in anaerobic conditions.
Probab=32.21 E-value=1.4e+02 Score=19.34 Aligned_cols=14 Identities=21% Similarity=0.771 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHhc
Q 041282 89 AISVLSWIYRYVTG 102 (144)
Q Consensus 89 als~lsW~y~y~~g 102 (144)
+-..+.|+|.-+.|
T Consensus 26 ~YGF~vWm~Q~~~G 39 (42)
T TIGR02973 26 GYGFAVWMYQILAG 39 (42)
T ss_pred HHHHHHHHHHHhcC
Confidence 34557899998866
No 86
>PF03773 DUF318: Predicted permease; InterPro: IPR005524 This family of predicted integral membrane proteins.
Probab=32.16 E-value=2.9e+02 Score=23.24 Aligned_cols=47 Identities=15% Similarity=0.331 Sum_probs=25.0
Q ss_pred hHHhhchhhhHHHHHHHHHHHHHHHhh---HHHHHHHHHHHHHHHHHhcC
Q 041282 57 LLVICSPVLVPAVITVSLLIMGFLASG---GFGVAAISVLSWIYRYVTGG 103 (144)
Q Consensus 57 LfvifSPVLVPAai~~~L~~~Gfl~sg---~~Gltals~lsW~y~y~~g~ 103 (144)
-|++-||++-|..+.......|.--.- .+++...-...|+.+.+..+
T Consensus 88 aFl~a~p~~n~~~~~~~~~~lg~~~~~~r~~~~~~~~~~~g~l~~~~~~~ 137 (307)
T PF03773_consen 88 AFLLASPLLNPIVLLLTWAALGWKFTLIRIVLGLILAILVGLLFSRLFKR 137 (307)
T ss_pred HHHHhhHHhhHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 377778888887777766555532211 12222223445666555443
No 87
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=32.11 E-value=1.2e+02 Score=22.86 Aligned_cols=10 Identities=20% Similarity=0.056 Sum_probs=4.7
Q ss_pred HHHHHHhcCC
Q 041282 95 WIYRYVTGGH 104 (144)
Q Consensus 95 W~y~y~~g~~ 104 (144)
-+|...||++
T Consensus 96 i~y~a~rg~~ 105 (115)
T PF05915_consen 96 IAYYAWRGYK 105 (115)
T ss_pred HHHHHHcCCC
Confidence 3444455544
No 88
>PF05145 AmoA: Putative ammonia monooxygenase; InterPro: IPR007820 This family contains sequences annotated as ammonia monooxygenase. The AmoA gene product from Pseudomonas putida has been characterised as ammonia monooxygenase []. Ammonia monooxygenase catalyses the oxidation of NH(3) to NH(2)OH.
Probab=31.91 E-value=3.1e+02 Score=23.59 Aligned_cols=81 Identities=17% Similarity=0.282 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHH
Q 041282 39 LSGLTMAGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHPPGADQLEQARMKL 118 (144)
Q Consensus 39 LaGlTL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p~g~~~ld~Ar~ri 118 (144)
-.|..+.|..+|+-+.-..+--....+.|..+.+.+.. .......|++++.++-+ ..+.-=.=+
T Consensus 28 ~~~q~ilG~~iG~~~t~~~l~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~l~r~~~~d-----~~TA~~~~~ 91 (318)
T PF05145_consen 28 NAGQAILGVSIGSSFTPEVLAQLASWWPPMLLLLVVTL-----------LLSLVGAWLLRRISGLD-----RATAFFASM 91 (318)
T ss_pred HHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHcCCC-----hhHHHHHcC
Confidence 45677788888888866666666666666554443332 11234456666555433 223333333
Q ss_pred HHHHHHHHHHHHHhchh
Q 041282 119 ASKAREMRDRAEQFGQQ 135 (144)
Q Consensus 119 ~d~A~~v~~kake~G~q 135 (144)
-..+.|+---++|+|.+
T Consensus 92 PGg~s~m~~la~~~gad 108 (318)
T PF05145_consen 92 PGGLSEMVALAEEYGAD 108 (318)
T ss_pred CccHHHHHHHHHHcCCC
Confidence 34455566666666654
No 89
>PRK13022 secF preprotein translocase subunit SecF; Reviewed
Probab=31.90 E-value=2.8e+02 Score=23.57 Aligned_cols=37 Identities=11% Similarity=0.184 Sum_probs=21.9
Q ss_pred HHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHH
Q 041282 47 TVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFG 86 (144)
Q Consensus 47 tvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~G 86 (144)
++.-++...|+++.-+|.+-|.+++... |++++.-.-
T Consensus 235 slTTl~~~l~L~~~g~~~i~~fa~~l~~---Gli~~~~~s 271 (289)
T PRK13022 235 SLTTLLVVLALYLFGGGTLHDFALALLI---GIIVGTYSS 271 (289)
T ss_pred HHHHHHHHHHHHHhcchhHHHHHHHHHH---HHHHHHHHH
Confidence 3344455567777777888887766544 444443333
No 90
>PRK00523 hypothetical protein; Provisional
Probab=30.93 E-value=1.8e+02 Score=20.83 Aligned_cols=17 Identities=12% Similarity=0.260 Sum_probs=10.5
Q ss_pred HHHHHHHHHhcCCCCCCC
Q 041282 92 VLSWIYRYVTGGHPPGAD 109 (144)
Q Consensus 92 ~lsW~y~y~~g~~p~g~~ 109 (144)
+--|+-||++. +||-.|
T Consensus 26 ark~~~k~l~~-NPpine 42 (72)
T PRK00523 26 SKKMFKKQIRE-NPPITE 42 (72)
T ss_pred HHHHHHHHHHH-CcCCCH
Confidence 44577888875 444443
No 91
>PF02397 Bac_transf: Bacterial sugar transferase; InterPro: IPR003362 This entry represents a conserved region from a number of different bacterial sugar transferases, involved in diverse biosynthesis pathways. Examples include galactosyl-P-P-undecaprenol synthetase (2.7.8.6 from EC), which transfers galatose-1-phosphate to the lipid precursor undecaprenol phosphate in the first steps of O-polysaccharide biosynthesis; UDP-galactose-lipid carrier transferase, which is involved in the biosynthesis of amylovoran; and galactosyl transferase CpsD, which is essential for assembly of the group B Streptococci (GBS) type III capsular polysaccharide.
Probab=30.81 E-value=58 Score=26.33 Aligned_cols=24 Identities=29% Similarity=0.539 Sum_probs=17.1
Q ss_pred HHHHhhhHHhhchhhhHHHHHHHH
Q 041282 51 LTIATPLLVICSPVLVPAVITVSL 74 (144)
Q Consensus 51 L~vaTPLfvifSPVLVPAai~~~L 74 (144)
++++..+++++||+++..++++-+
T Consensus 6 i~~a~~~li~~~Pl~l~iai~i~l 29 (187)
T PF02397_consen 6 IVLALLLLILLSPLFLIIAILIKL 29 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667778888888777666655
No 92
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=30.74 E-value=4.3e+02 Score=24.35 Aligned_cols=57 Identities=14% Similarity=0.248 Sum_probs=36.1
Q ss_pred HHHHHHHhhhHHhhchhh--hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH-hcCCCCCCCcHHH
Q 041282 48 VIALTIATPLLVICSPVL--VPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYV-TGGHPPGADQLEQ 113 (144)
Q Consensus 48 vigL~vaTPLfvifSPVL--VPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~-~g~~p~g~~~ld~ 113 (144)
..-+.+..|++++|+-+. +|+++.+--++.++.+ ..-.|+.+|+ +-..|.-++--++
T Consensus 227 m~~m~~~~Pim~~~~g~~~~~PaallLYWv~snlwt---------l~Qq~i~~~~l~~~~P~~~~~~~~ 286 (429)
T PRK00247 227 LIVMAILAPIFPLSLGLTGPFPTAIALYWVANNLWT---------LIQNIIMYLILERKYPLTDEFKEH 286 (429)
T ss_pred HHHHHHHhHHHHHHHHHhccchHHHHHHHHHhhHHH---------HHHHHHHHHHHHHhcCCCcchHHH
Confidence 344456688877664444 6999999888888766 4456655543 3355655554433
No 93
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=30.03 E-value=2e+02 Score=20.31 Aligned_cols=39 Identities=18% Similarity=0.245 Sum_probs=22.4
Q ss_pred HHHHHHHHHhcC--CCCCCCcHHHHH-HHHHHHHHHHHHHHH
Q 041282 92 VLSWIYRYVTGG--HPPGADQLEQAR-MKLASKAREMRDRAE 130 (144)
Q Consensus 92 ~lsW~y~y~~g~--~p~g~~~ld~Ar-~ri~d~A~~v~~kak 130 (144)
+..|++.|.+.+ ...|-++-|+.+ ..+.++|+.+.|+-+
T Consensus 18 ap~wl~lHY~~k~~~~~~ls~~d~~~L~~L~~~a~rm~eRI~ 59 (75)
T TIGR02976 18 APLWLILHYRSKRKTAASLSTDDQALLQELYAKADRLEERID 59 (75)
T ss_pred HHHHHHHHHHhhhccCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 457888766543 233444444444 566777777777643
No 94
>PRK09776 putative diguanylate cyclase; Provisional
Probab=29.71 E-value=5e+02 Score=24.74 Aligned_cols=18 Identities=17% Similarity=0.294 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHhhhHHhh
Q 041282 44 MAGTVIALTIATPLLVIC 61 (144)
Q Consensus 44 L~gtvigL~vaTPLfvif 61 (144)
..|.++|..+.+|+++..
T Consensus 141 ~~~~~~g~l~~~p~~l~~ 158 (1092)
T PRK09776 141 VLSEAIGMLALVPLGLLF 158 (1092)
T ss_pred HHHHHHHHHHHhhHhhhc
Confidence 467888999999988875
No 95
>TIGR02972 TMAO_torE trimethylamine N-oxide reductase system, TorE protein. Members of this small, apparent transmembrane protein are designated TorE and occur in operons for the trimethylamine N-oxide (TMAO) reductase system. Members are closely related to the NapE protein of the related periplasmic nitrate reductase system. It may be that TorE is an integral membrane subunit of a complex with the reductase TorA.
Probab=29.06 E-value=1.6e+02 Score=19.46 Aligned_cols=14 Identities=14% Similarity=0.529 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHhc
Q 041282 89 AISVLSWIYRYVTG 102 (144)
Q Consensus 89 als~lsW~y~y~~g 102 (144)
+-..+.|+|.-+.|
T Consensus 31 ~YGF~vWm~Q~~~G 44 (47)
T TIGR02972 31 GYGFIIWMIQAFGG 44 (47)
T ss_pred HHHHHHHHHHHHcC
Confidence 34557899998855
No 96
>PRK10263 DNA translocase FtsK; Provisional
Probab=29.05 E-value=4.3e+02 Score=28.11 Aligned_cols=21 Identities=24% Similarity=0.229 Sum_probs=16.6
Q ss_pred HHHHHHHHHHhhhHHhhchhh
Q 041282 45 AGTVIALTIATPLLVICSPVL 65 (144)
Q Consensus 45 ~gtvigL~vaTPLfvifSPVL 65 (144)
.|=+||..++.+|.-+|+-+-
T Consensus 142 gGGIIG~lLs~lL~~LfG~vG 162 (1355)
T PRK10263 142 SGGVIGSLLSTTLQPLLHSSG 162 (1355)
T ss_pred ccchHHHHHHHHHHHHHhHHH
Confidence 588899999888888887643
No 97
>COG1292 BetT Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]
Probab=28.42 E-value=4.8e+02 Score=24.99 Aligned_cols=91 Identities=14% Similarity=0.148 Sum_probs=56.0
Q ss_pred ccCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHH
Q 041282 14 QSRQPRSHQVVKAATAVTAGGSLLVLSGLTMAGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVL 93 (144)
Q Consensus 14 ~~~~Pss~qvl~~~~~~~~g~~LL~LaGlTL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~l 93 (144)
.+.+|+..++.-.+.....+.+||...|+.-.=++. .+.+.|..++ ..+.+. |..
T Consensus 438 ~~~pp~~~r~~W~v~~~~ia~~lL~~ggl~aLqt~~-ii~alPF~~v-----------ll~~~~-------------sl~ 492 (537)
T COG1292 438 GEDPPRWVRVFWGVLIGLIAAVLLLIGGLEALQTAA-IITALPFSLV-----------LLVMMF-------------SLI 492 (537)
T ss_pred CCCChHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHH-HHHHccHHHH-----------HHHHHH-------------HHH
Confidence 466778888888888888999999999965444433 2445565443 223332 444
Q ss_pred HHHHHHHhc-----CCCCCCCcHHHHHHHHHHHHHHHHHHH
Q 041282 94 SWIYRYVTG-----GHPPGADQLEQARMKLASKAREMRDRA 129 (144)
Q Consensus 94 sW~y~y~~g-----~~p~g~~~ld~Ar~ri~d~A~~v~~ka 129 (144)
=|+.++.+. .++..+++.++.+++..|.++...+..
T Consensus 493 k~l~~d~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~a~~~~ 533 (537)
T COG1292 493 KDLKQDYADRKKRLEALMSPPRLRAGLRFKGDVAEPAMEEV 533 (537)
T ss_pred HHHHhhHHhhhhhhhhhccccchhHHHHhhhcccccchhhh
Confidence 455554422 235556777777777777665555433
No 98
>TIGR01998 PTS-II-BC-nag PTS system, N-acetylglucosamine-specific IIBC component. This model represents the combined B and C domains of the PTS transport system enzyme II specific for N-acetylglucosamine transport. Many of the genes in this family also include an A domain as part of the same polypeptide and thus should be given the name "PTS system, N-acetylglucosamine-specific IIABC component". This family is most closely related to the glucose-specific PTS enzymes.
Probab=28.28 E-value=1.9e+02 Score=26.45 Aligned_cols=42 Identities=12% Similarity=0.051 Sum_probs=27.0
Q ss_pred HHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHH
Q 041282 48 VIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAA 89 (144)
Q Consensus 48 vigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Glta 89 (144)
++.+.++.|+-+++.|||-+..-.+.-....+-.+|.+|...
T Consensus 152 iit~li~~~l~~~~~~iwp~i~~~I~~~~~~i~~~g~~g~~i 193 (476)
T TIGR01998 152 IMAGFVGLVLAALLGYVWPTLYGGIVAFGESISGLGALGAGI 193 (476)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence 345666788888889999777666655554444455555443
No 99
>PF01864 DUF46: Putative integral membrane protein DUF46; InterPro: IPR002726 This archaebacterial protein has no known function. It contains several predicted transmembrane regions, suggesting it is an integral membrane protein.
Probab=28.14 E-value=2.2e+02 Score=23.04 Aligned_cols=23 Identities=26% Similarity=0.327 Sum_probs=14.4
Q ss_pred HHHHHHHH----hcCCCCCCCcHHHHH
Q 041282 93 LSWIYRYV----TGGHPPGADQLEQAR 115 (144)
Q Consensus 93 lsW~y~y~----~g~~p~g~~~ld~Ar 115 (144)
..+..|.. +|++-++-||+|.+=
T Consensus 104 ~~SFIKRRlgi~~G~~ap~lDQldf~l 130 (175)
T PF01864_consen 104 PGSFIKRRLGIPRGAPAPGLDQLDFVL 130 (175)
T ss_pred HHHHHHHhcCCCCCCcCccchhHHHHH
Confidence 34444544 556667888988764
No 100
>PRK12933 secD preprotein translocase subunit SecD; Reviewed
Probab=27.91 E-value=2.4e+02 Score=27.15 Aligned_cols=56 Identities=16% Similarity=0.227 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 041282 42 LTMAGTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRY 99 (144)
Q Consensus 42 lTL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y 99 (144)
-++.+++.-++++.|||.+=+..+=|.++++.+.+..-+.++.+..-.+ +.|+|+.
T Consensus 541 ~IldanlTTlia~lpL~~~Ggg~ikgFAvTL~iGIl~S~ftAi~vtr~l--~~~~~~~ 596 (604)
T PRK12933 541 TIFDANFTTMITAVVLYSIGNGPIQGFALTLGLGLLTSMFTGIFASRAL--INLVYGR 596 (604)
T ss_pred HHHHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHHHHHHH--HHHHhcc
Confidence 3566777778899999999888888887777665554444444433322 2455543
No 101
>COG1422 Predicted membrane protein [Function unknown]
Probab=27.62 E-value=3.7e+02 Score=22.58 Aligned_cols=22 Identities=18% Similarity=0.468 Sum_probs=9.3
Q ss_pred hhchhhhHHHHHHHHHHHHHHH
Q 041282 60 ICSPVLVPAVITVSLLIMGFLA 81 (144)
Q Consensus 60 ifSPVLVPAai~~~L~~~Gfl~ 81 (144)
+|-|++=|---.+.++++|.+.
T Consensus 36 ~f~P~i~~~~p~lvilV~avi~ 57 (201)
T COG1422 36 VFGPLLSPLPPHLVILVAAVIT 57 (201)
T ss_pred HHhhhccccccHHHHHHHHHHH
Confidence 4444444433334444444433
No 102
>COG5346 Predicted membrane protein [Function unknown]
Probab=26.90 E-value=1e+02 Score=24.48 Aligned_cols=19 Identities=21% Similarity=0.127 Sum_probs=8.1
Q ss_pred HHHHHHHHHHhhHHHHHHH
Q 041282 72 VSLLIMGFLASGGFGVAAI 90 (144)
Q Consensus 72 ~~L~~~Gfl~sg~~Gltal 90 (144)
++.....-+++|..++-|+
T Consensus 105 i~~~tla~~~~Gtv~alAl 123 (136)
T COG5346 105 IFPKTLASLAGGTVFALAL 123 (136)
T ss_pred HHHHHHHHHccchHHHHHH
Confidence 3333444444444444333
No 103
>TIGR02797 exbB tonB-system energizer ExbB. This model describes ExbB proteins, part of the MotA/TolQ/ExbB protein family. The paired proteins MotA and MotB, TolQ and TolR, and ExbB and ExbD harness the proton-motive force to drive the flagellar motor, energize the Tol-Pal system, or energize TonB, respectively. Tol-Pal and TonB are both active at the outer membrane. Genomes may have many different TonB-dependent receptors, of which many of those characterized are involved in siderophore transport across the outer membrane.
Probab=26.89 E-value=55 Score=26.49 Aligned_cols=20 Identities=35% Similarity=0.514 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHhhhHHhhc
Q 041282 43 TMAGTVIALTIATPLLVICS 62 (144)
Q Consensus 43 TL~gtvigL~vaTPLfvifS 62 (144)
.|..|+.||+||.|-++.++
T Consensus 166 ALitTA~GL~VAIPAli~yn 185 (211)
T TIGR02797 166 ALLATAIGLVAAIPAVVIYN 185 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 47789999999999877653
No 104
>PRK01844 hypothetical protein; Provisional
Probab=26.76 E-value=2.4e+02 Score=20.16 Aligned_cols=18 Identities=17% Similarity=0.477 Sum_probs=11.1
Q ss_pred HHHHHHHHHHhcCCCCCCC
Q 041282 91 SVLSWIYRYVTGGHPPGAD 109 (144)
Q Consensus 91 s~lsW~y~y~~g~~p~g~~ 109 (144)
-+--|+-||++. +||-.|
T Consensus 24 ~ark~~~k~lk~-NPpine 41 (72)
T PRK01844 24 IARKYMMNYLQK-NPPINE 41 (72)
T ss_pred HHHHHHHHHHHH-CCCCCH
Confidence 345678888885 444443
No 105
>COG2020 STE14 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=26.63 E-value=3.2e+02 Score=21.52 Aligned_cols=86 Identities=19% Similarity=0.113 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHhhchhhh---------------------H--HHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 041282 38 VLSGLTMAGTVIALTIATPLLVICSPVLV---------------------P--AVITVSLLIMGFLASGGFGVAAISVLS 94 (144)
Q Consensus 38 ~LaGlTL~gtvigL~vaTPLfvifSPVLV---------------------P--Aai~~~L~~~Gfl~sg~~Gltals~ls 94 (144)
...|+.+....+.+........-.+ ..+ | ++..+..+..+++.+.-.++..+..+.
T Consensus 70 ~~~g~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~LVttG~Y~~VRHP~Y~~~~l~~~g~~~~~~~~~~l~~~~~~~ 148 (187)
T COG2020 70 VGLGLLLVGLGLALRLWAMRTLGRS-WTVSVKARKGHELVTTGPYSIVRHPIYLGLLLFALGTGLLLGSLWALLIFVVLV 148 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCC-CCcccCCCCCCeeEecCCcceecCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 4566666666666666667677776 222 1 355566677778888899999999999
Q ss_pred HHHHHHhcCCCCCCCcHHHHHHHHHHHHHH-HHHHHHHhc
Q 041282 95 WIYRYVTGGHPPGADQLEQARMKLASKARE-MRDRAEQFG 133 (144)
Q Consensus 95 W~y~y~~g~~p~g~~~ld~Ar~ri~d~A~~-v~~kake~G 133 (144)
|.+++++-++ -.+++.++=++ ..||.|++.
T Consensus 149 ~~~~~~~i~~---------EEr~L~~~fg~~Y~~Y~~rV~ 179 (187)
T COG2020 149 ALLFLFRIRE---------EERYLRAEFGDEYREYRKRVP 179 (187)
T ss_pred HHHHHHHhhH---------HHHHHHHHhhHHHHHHHHhCC
Confidence 9998776432 22334343333 666666543
No 106
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=26.41 E-value=88 Score=27.69 Aligned_cols=39 Identities=21% Similarity=0.083 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHhhhHHhhchhh
Q 041282 27 ATAVTAGGSLLVLSG-LTMAGTVIALTIATPLLVICSPVL 65 (144)
Q Consensus 27 ~~~~~~g~~LL~LaG-lTL~gtvigL~vaTPLfvifSPVL 65 (144)
+......+.-|+|+| ++....++|++++.-+.++|.|+.
T Consensus 171 ~l~~ll~~~Wlllsg~~s~~~l~~G~v~~~~v~~~~~~~~ 210 (357)
T PRK12652 171 ALFGASFGFYLLLGDPLYWFDLLTGAVTALIVAVLLAHVT 210 (357)
T ss_pred HHHHHHHHHHHHHcCcCCHHHHHHHHHHHHHHHHHhcccc
Confidence 334566677788888 888888888888887888887753
No 107
>PRK14726 bifunctional preprotein translocase subunit SecD/SecF; Provisional
Probab=25.90 E-value=3.1e+02 Score=27.47 Aligned_cols=37 Identities=19% Similarity=0.182 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHH
Q 041282 42 LTMAGTVIALTIATPLLVICSPVLVPAVITVSLLIMG 78 (144)
Q Consensus 42 lTL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~G 78 (144)
-++.+++.-++.+.|||++=+..+=|.++++.+.+..
T Consensus 472 ~Il~s~lTTlia~lpL~~~g~~~ikgFAvtl~igii~ 508 (855)
T PRK14726 472 TIVDANVTILIAAVILFFLGSGAVRGFAVTLAVGILT 508 (855)
T ss_pred HHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHH
Confidence 3455666667888999999888888888777665543
No 108
>TIGR02790 nickel_nikC nickel ABC transporter, permease subunit NikC. This family consists of the NikC family of nickel ABC transporter permeases. Operons that contain this protein also contain a homologous permease subunit NikB. Nickel is used in cells as part of urease or certain hydrogenases or superoxide dismutases.
Probab=25.38 E-value=3.7e+02 Score=21.85 Aligned_cols=38 Identities=26% Similarity=0.435 Sum_probs=17.2
Q ss_pred hhhHHHHHHHHHHHHHHHhhHH-HHHHHHHHHH--HHHHHhc
Q 041282 64 VLVPAVITVSLLIMGFLASGGF-GVAAISVLSW--IYRYVTG 102 (144)
Q Consensus 64 VLVPAai~~~L~~~Gfl~sg~~-Gltals~lsW--~y~y~~g 102 (144)
--+|..+...+... ++..|.. .+.+++..+| .+|.+|+
T Consensus 105 ~~iP~l~l~l~l~~-~~g~g~~~~il~l~l~~~~~~~r~~r~ 145 (258)
T TIGR02790 105 LSFPTIILSLAIVG-ILGPGLENVIIAIVLVHWAWYARMVRG 145 (258)
T ss_pred HHhhHHHHHHHHHH-HHcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 33555554444433 2222221 2345555555 5566655
No 109
>PF06081 DUF939: Bacterial protein of unknown function (DUF939); InterPro: IPR010343 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=25.19 E-value=3e+02 Score=20.72 Aligned_cols=16 Identities=13% Similarity=0.048 Sum_probs=11.9
Q ss_pred CCcHHHHHHHHHHHHH
Q 041282 108 ADQLEQARMKLASKAR 123 (144)
Q Consensus 108 ~~~ld~Ar~ri~d~A~ 123 (144)
++..+++-+|+.|+.=
T Consensus 114 ~~~~~~~~~r~l~t~i 129 (141)
T PF06081_consen 114 SDSFSYALNRVLLTLI 129 (141)
T ss_pred CccHHHHHHHHHHHHH
Confidence 4557779999988753
No 110
>TIGR01104 V_PPase vacuolar-type H(+)-translocating pyrophosphatase. This model describes proton pyrophosphatases from eukaryotes (predominantly plants), archaea and bacteria. It is an integral membrane protein and is suggested to have about 15 membrane spanning domains. Proton translocating inorganic pyrophosphatase, like H(+)-ATPase, acidifies the vacuoles and is pivotal to the vacuolar secondary active transport systems in plants.
Probab=25.19 E-value=1.5e+02 Score=29.11 Aligned_cols=39 Identities=13% Similarity=0.212 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHH
Q 041282 85 FGVAAISVLSWIYRYVTGGHPPGADQLEQARMKLASKARE 124 (144)
Q Consensus 85 ~Gltals~lsW~y~y~~g~~p~g~~~ld~Ar~ri~d~A~~ 124 (144)
.++.++..-.|.++++.. +|+|.++|.+--+.|+|.|+-
T Consensus 10 ~~~~gl~~a~~~~~~v~~-~~~G~~~M~~Ia~~I~eGA~a 48 (697)
T TIGR01104 10 CAVIGIAYAVLQWVWVSR-VKLGTAKMAEIQQAISEGATA 48 (697)
T ss_pred HHHHHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHHHHHHH
Confidence 345556667788888875 455776666655666655543
No 111
>PF12666 PrgI: PrgI family protein; InterPro: IPR024414 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 116 and 146 amino acids in length. PrgI is found encoded on plasmids of Enterococcus faecalis, its function is not known.
Probab=25.07 E-value=2.4e+02 Score=19.45 Aligned_cols=19 Identities=16% Similarity=0.064 Sum_probs=11.2
Q ss_pred CCcHHHHHHHHHHHHHHHH
Q 041282 17 QPRSHQVVKAATAVTAGGS 35 (144)
Q Consensus 17 ~Pss~qvl~~~~~~~~g~~ 35 (144)
+=+.+|++-++.++.++..
T Consensus 16 GlT~RQl~~l~~~~~~~~~ 34 (93)
T PF12666_consen 16 GLTLRQLICLAIGALVGVG 34 (93)
T ss_pred CCCHHHHHHHHHHHHHHHH
Confidence 3477887766655544433
No 112
>PF05532 CsbD: CsbD-like; InterPro: IPR008462 CsbD is a bacterial general stress response protein. It's expression is mediated by sigma-B, an alternative sigma factor []. The role of CsbD in stress response is unclear.; PDB: 1YWW_A 1RYK_A.
Probab=25.02 E-value=79 Score=20.63 Aligned_cols=23 Identities=35% Similarity=0.410 Sum_probs=16.3
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHH
Q 041282 109 DQLEQARMKLASKAREMRDRAEQ 131 (144)
Q Consensus 109 ~~ld~Ar~ri~d~A~~v~~kake 131 (144)
-+.|++..++.+++.+++|++++
T Consensus 31 G~~~q~~G~~q~~~g~~kd~~~~ 53 (53)
T PF05532_consen 31 GKAEQAKGKAQEKAGDAKDAAKD 53 (53)
T ss_dssp TSHHHHHHHHHHHT---HHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHhcC
Confidence 45888899999999999888764
No 113
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=24.94 E-value=2.5e+02 Score=19.78 Aligned_cols=13 Identities=31% Similarity=0.631 Sum_probs=9.0
Q ss_pred HHHHHHHHHHhcC
Q 041282 91 SVLSWIYRYVTGG 103 (144)
Q Consensus 91 s~lsW~y~y~~g~ 103 (144)
-.++|+|-+...+
T Consensus 67 ~~l~~~Yv~~An~ 79 (91)
T PF04341_consen 67 WVLTWLYVRRANR 79 (91)
T ss_pred HHHHHHHHHHHcc
Confidence 4678888876543
No 114
>COG4537 ComGC Competence protein ComGC [Intracellular trafficking and secretion]
Probab=24.89 E-value=59 Score=24.89 Aligned_cols=28 Identities=32% Similarity=0.503 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHhhhHHhhchhhhH
Q 041282 40 SGLTMAGTVIALTIATPLLVICSPVLVP 67 (144)
Q Consensus 40 aGlTL~gtvigL~vaTPLfvifSPVLVP 67 (144)
.|.||.--+|-|.+..-|+++|-|=+.-
T Consensus 12 kgFTLvEMLiVLlIISiLlLl~iPNltK 39 (107)
T COG4537 12 KGFTLVEMLIVLLIISILLLLFIPNLTK 39 (107)
T ss_pred ccccHHHHHHHHHHHHHHHHHHccchhh
Confidence 4778999999999999999999998765
No 115
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=24.38 E-value=1.2e+02 Score=30.15 Aligned_cols=43 Identities=14% Similarity=0.134 Sum_probs=27.0
Q ss_pred HHHhhhHHhh---chhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q 041282 52 TIATPLLVIC---SPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIY 97 (144)
Q Consensus 52 ~vaTPLfvif---SPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y 97 (144)
+...|+++.. ++.+-|.++++ +.|++.|-.+-+..+=++.|++
T Consensus 984 ~gllPl~l~~G~g~~~~~plai~i---i~GL~~St~ltL~~vP~ly~~~ 1029 (1049)
T PRK15127 984 LGVMPLVISSGAGSGAQNAVGTGV---MGGMVTATVLAIFFVPVFFVVV 1029 (1049)
T ss_pred HHHHHHHhcCCCCHHHhcCchhhh---hHHHHHHHHHHHHHHHHHHHHH
Confidence 4457888764 45788866654 4466666666666666665554
No 116
>PF05337 CSF-1: Macrophage colony stimulating factor-1 (CSF-1); InterPro: IPR008001 Colony stimulating factor 1 (CSF-1) is a homodimeric polypeptide growth factor whose primary function is to regulate the survival, proliferation, differentiation, and function of cells of the mononuclear phagocytic lineage. This lineage includes mononuclear phagocytic precursors, blood monocytes, tissue macrophages, osteoclasts, and microglia of the brain, all of which possess cell surface receptors for CSF-1. The protein has also been linked with male fertility [] and mutations in the Csf-1 gene have been found to cause osteopetrosis and failure of tooth eruption [].; GO: 0005125 cytokine activity, 0008083 growth factor activity, 0016021 integral to membrane; PDB: 3EJJ_A.
Probab=24.17 E-value=26 Score=30.84 Aligned_cols=19 Identities=42% Similarity=0.607 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHHH
Q 041282 63 PVLVPAVITVSLLIMGFLA 81 (144)
Q Consensus 63 PVLVPAai~~~L~~~Gfl~ 81 (144)
.+|||-+|.+-|+++|++.
T Consensus 229 ~lLVPSiILVLLaVGGLLf 247 (285)
T PF05337_consen 229 YLLVPSIILVLLAVGGLLF 247 (285)
T ss_dssp -------------------
T ss_pred cccccchhhhhhhccceee
Confidence 5789999999999888763
No 117
>TIGR02865 spore_II_E stage II sporulation protein E. Stage II sporulation protein E (SpoIIE) is a multiple membrane spanning protein with two separable functions. It plays a role in the switch to polar cell division during sporulation. By means of it protein phosphatase activity, located in the C-terminal region, it activates sigma-F. All proteins that score above the trusted cutoff to this model are found in endospore-forming Gram-positive bacteria. Surprisingly, a sequence from the Cyanobacterium-like (and presumably non-spore-forming) photosynthesizer Heliobacillus mobilis is homologous, and scores between the trusted and noise cutoffs.
Probab=23.84 E-value=6.8e+02 Score=24.35 Aligned_cols=54 Identities=20% Similarity=0.241 Sum_probs=26.2
Q ss_pred HHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhc
Q 041282 46 GTVIALTIATPLLVICSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTG 102 (144)
Q Consensus 46 gtvigL~vaTPLfvifSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g 102 (144)
|+.+|+++++=++.+.+.-..+..+. +.--++++..|-+.=-.+.-++-+++.+
T Consensus 240 g~~~g~~l~~~il~~y~~~~~~~~~~---~~e~~ia~~lFll~P~~~~~~~~~~~~~ 293 (764)
T TIGR02865 240 GTGIGYLVGFLILAFYTQGSVAFSLA---LYEALIATLLFLLIPNKIYKKLERYLDG 293 (764)
T ss_pred eeeHHHHHHHHHHHHHhccchhHHHH---HHHHHHHHHHHHHhhHHHHHHHHhhCCC
Confidence 45677777776666666655553322 1122223333333333444455555544
No 118
>PF11990 DUF3487: Protein of unknown function (DUF3487); InterPro: IPR021877 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 121 to 136 amino acids in length. This protein has a conserved RLN sequence motif.
Probab=23.63 E-value=3.3e+02 Score=20.66 Aligned_cols=7 Identities=29% Similarity=0.942 Sum_probs=3.3
Q ss_pred HHHHHHH
Q 041282 94 SWIYRYV 100 (144)
Q Consensus 94 sW~y~y~ 100 (144)
.|+|+|+
T Consensus 83 ~yl~r~l 89 (121)
T PF11990_consen 83 GYLYRRL 89 (121)
T ss_pred hHHHHHH
Confidence 3555543
No 119
>TIGR02805 exbB2 tonB-system energizer ExbB, group 2. Members of this protein family appear to be the ExbB protein of an ExbBD proton-transporting membrane complex that, by means of TonB, energizes transport by TonB-dependent receptors. Note that this family represents one of at least two distinct groups TolQ homologs designated ExbB - see also TIGR02797. Each group associates with a distinct group of ExbD proteins, and a single species may have two ExbB/ExbD/TonB systems.
Probab=23.56 E-value=87 Score=24.71 Aligned_cols=21 Identities=33% Similarity=0.561 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHhhhHHhhc
Q 041282 42 LTMAGTVIALTIATPLLVICS 62 (144)
Q Consensus 42 lTL~gtvigL~vaTPLfvifS 62 (144)
..|..|+.||++|.|-++..+
T Consensus 101 ~ALitTa~GL~VAIpali~yn 121 (138)
T TIGR02805 101 LALKATALGLLVAIPSLVFYN 121 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 357789999999998877654
No 120
>PRK09946 hypothetical protein; Provisional
Probab=23.44 E-value=1.4e+02 Score=26.22 Aligned_cols=27 Identities=19% Similarity=0.309 Sum_probs=21.8
Q ss_pred HHHHHHHHHhcCCCCCCCcHHHHHHHH
Q 041282 92 VLSWIYRYVTGGHPPGADQLEQARMKL 118 (144)
Q Consensus 92 ~lsW~y~y~~g~~p~g~~~ld~Ar~ri 118 (144)
.-.|+||+|..++|-|.+..|-.+.-+
T Consensus 13 ~~~~~yRWFlr~fp~Gg~Y~~v~dALv 39 (270)
T PRK09946 13 VGAVMYRWFLRHFPRGGSYADIHHALI 39 (270)
T ss_pred cchhHHHHHHHhCCCCCcHHHHHHHHH
Confidence 347999999999999999877766533
No 121
>PRK14402 membrane protein; Provisional
Probab=23.42 E-value=3.5e+02 Score=22.17 Aligned_cols=35 Identities=20% Similarity=0.359 Sum_probs=22.1
Q ss_pred HHHHhhhHHhhchhhhHHHHHHHHHH---HHHHHhhHH
Q 041282 51 LTIATPLLVICSPVLVPAVITVSLLI---MGFLASGGF 85 (144)
Q Consensus 51 L~vaTPLfvifSPVLVPAai~~~L~~---~Gfl~sg~~ 85 (144)
.+.+.-.++.++|.+....+.+++++ +...+-|.+
T Consensus 107 vAt~~G~~l~l~p~~~l~~~~v~~i~~~itr~vSl~Si 144 (198)
T PRK14402 107 VATSFGTLLFLDPVLALLTFPVGVACMWLTRFVSAGSM 144 (198)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445556667888888777776665 455555553
No 122
>COG4459 NapE Periplasmic nitrate reductase system, NapE component [Energy production and conversion]
Probab=23.39 E-value=2.5e+02 Score=19.61 Aligned_cols=18 Identities=28% Similarity=0.982 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhcCCCCCCC
Q 041282 90 ISVLSWIYRYVTGGHPPGAD 109 (144)
Q Consensus 90 ls~lsW~y~y~~g~~p~g~~ 109 (144)
-..+.|||..+-| |||+.
T Consensus 43 yGFiVWM~QiifG--PPGpp 60 (62)
T COG4459 43 YGFIVWMFQIIFG--PPGPP 60 (62)
T ss_pred hhHHHHHHHHHhC--CCCCC
Confidence 3568899999876 66664
No 123
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=23.33 E-value=2.2e+02 Score=22.98 Aligned_cols=10 Identities=20% Similarity=0.328 Sum_probs=4.6
Q ss_pred HHHHHHHHHH
Q 041282 91 SVLSWIYRYV 100 (144)
Q Consensus 91 s~lsW~y~y~ 100 (144)
.++.|+.+|+
T Consensus 59 lIlv~lL~k~ 68 (205)
T PRK06231 59 SILLLLGIFL 68 (205)
T ss_pred HHHHHHHHHH
Confidence 3444554443
No 124
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=23.05 E-value=7.3e+02 Score=24.42 Aligned_cols=79 Identities=13% Similarity=0.220 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHhhhHHh---hchhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCCC-cHHHHHH
Q 041282 41 GLTMAGTVIALTIATPLLVI---CSPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHPPGAD-QLEQARM 116 (144)
Q Consensus 41 GlTL~gtvigL~vaTPLfvi---fSPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p~g~~-~ld~Ar~ 116 (144)
.-.+++|+.-+++..|++.+ ....+-|.++++.++...-+ +.++..+=+++.++-..++...+ +.....+
T Consensus 433 ~~i~~stlTti~vF~Pl~f~~G~~g~~~~~l~~~v~~al~~Sl------lval~~~P~l~~~~l~~~~~~~~~~~~~~~~ 506 (1021)
T PF00873_consen 433 PPILASTLTTIAVFLPLLFMPGIAGQFFRPLALTVIIALIASL------LVALTLVPALAALFLKPKKKSSKKRFFSKFD 506 (1021)
T ss_dssp HHHHHHHHHHHHHTCGGGGSBHHHHHHHHHHHHHHHHHHHHHH------HHHHTTHHHHHHHCS----TT-CCCHHHHHH
T ss_pred HHHHHHHHHHHHHhhhhhhcCCchHHHHHHHHHHHHHHHHHHH------HHHHHhhhhhhhhhhcccccccccccccccc
Confidence 33455666667888999752 23445555554444332222 23445555555554322222222 4555555
Q ss_pred HHHHHHHHH
Q 041282 117 KLASKAREM 125 (144)
Q Consensus 117 ri~d~A~~v 125 (144)
|+-++..+.
T Consensus 507 ~~~~~l~~~ 515 (1021)
T PF00873_consen 507 RFFDRLQRG 515 (1021)
T ss_dssp HHHHHHHHH
T ss_pred ccccccccc
Confidence 555554443
No 125
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=23.00 E-value=91 Score=25.61 Aligned_cols=26 Identities=8% Similarity=0.439 Sum_probs=21.1
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHh
Q 041282 76 IMGFLASGGFGVAAISVLSWIYRYVT 101 (144)
Q Consensus 76 ~~Gfl~sg~~Gltals~lsW~y~y~~ 101 (144)
++.|+.+-.+-+..++++..+|||.|
T Consensus 160 ~~SFiGGIVL~LGv~aI~ff~~KF~k 185 (186)
T PF05283_consen 160 AASFIGGIVLTLGVLAIIFFLYKFCK 185 (186)
T ss_pred hhhhhhHHHHHHHHHHHHHHHhhhcc
Confidence 45677777777888899999999986
No 126
>TIGR03003 ectoine_ehuD ectoine/hydroxyectoine ABC transporter, permease protein EhuD. Members of this family are presumed to act as permease subunits of ectoine ABC transporters. Operons containing this gene also contain the other genes of the ABC transporter and typically are found next to either ectoine utilization or ectoine biosynthesis operons.
Probab=22.83 E-value=3.6e+02 Score=20.79 Aligned_cols=31 Identities=19% Similarity=0.129 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHH--HHHhc-CCCCCCCcHHHHHH
Q 041282 86 GVAAISVLSWIY--RYVTG-GHPPGADQLEQARM 116 (144)
Q Consensus 86 Gltals~lsW~y--~y~~g-~~p~g~~~ld~Ar~ 116 (144)
++-+++...|.| +.+|+ -....+++.|.||.
T Consensus 89 ~iial~l~~~~~~~~~~r~~l~~v~~~~~eaA~a 122 (212)
T TIGR03003 89 GVLGLGLHYATYAAEVYRAGIEAVPRGQWEAATA 122 (212)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHH
Confidence 444555555544 44344 33445678888875
No 127
>PF05745 CRPA: Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); InterPro: IPR008436 Chlamydia is a genus of bacteria, which causes the most common bacterial sexually transmitted diseases. They are obligate intracellular bacterial pathogens. Members of this genus lack a peptidoglycan layer, but as a substitute, it has been proposed that they have several cysteine rich membrane proteins. This includes the major outer membrane protein (MOMP). These form disulphide bonds to provide rigidity to the cell wall. The alignment of the amino acid sequences of the MOMP from various serovars of Chlamydia show that they have between seven and ten cysteine residues; seven of which are highly conserved []. The MOMP has been the focus of efforts to produce a vaccine for Chlamydia trachomatis []. The 15 kDa cysteine-rich protein in this entry is a multi-pass outer membrane protein. They are associated with the differentiation of reticulate bodies (RBs) into elementary bodies (EBs) []. They immunolocalise to the inclusion membrane, which is the membrane that surrounds the intracellular parasite. These proteins are recognised by CD8+ T cells in both human and mouse infections, suggesting they gain access to the host cytoplasm.; GO: 0019867 outer membrane
Probab=22.83 E-value=2.3e+02 Score=22.81 Aligned_cols=39 Identities=26% Similarity=0.412 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhchhhhHHHHHHH
Q 041282 30 VTAGGSLLVLSGLTMAGTVIALTIATPLLVICSPVLVPAVITVS 73 (144)
Q Consensus 30 ~~~g~~LL~LaGlTL~gtvigL~vaTPLfvifSPVLVPAai~~~ 73 (144)
..+-|++|+.+|++|.=.+=+=.-..+.++ ++||+|-..
T Consensus 68 l~VlGiiLviagl~l~fil~~~lg~naf~~-----~IPAviGlv 106 (150)
T PF05745_consen 68 LVVLGIILVIAGLALTFILHSQLGNNAFLF-----IIPAVIGLV 106 (150)
T ss_pred HHHHHHHHHHHHHHHHhhehhhhcCccchh-----hHHHHHHHH
Confidence 455667788899998866666666666544 678876443
No 128
>PF07332 DUF1469: Protein of unknown function (DUF1469); InterPro: IPR009937 This entry represents proteins found in hypothetical bacterial proteins where is is annotated as ycf49 or ycf49-like. The function is not known.
Probab=22.32 E-value=3e+02 Score=19.61 Aligned_cols=25 Identities=12% Similarity=0.153 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 041282 21 HQVVKAATAVTAGGSLLVLSGLTMA 45 (144)
Q Consensus 21 ~qvl~~~~~~~~g~~LL~LaGlTL~ 45 (144)
.+....+.....++++++++-+.+.
T Consensus 32 ~~~~~~~~~~~~a~vl~~~~l~~l~ 56 (121)
T PF07332_consen 32 RRLGRGLALLVLAAVLALLALLFLL 56 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444544555555444444433
No 129
>PRK08124 flagellar motor protein MotA; Validated
Probab=22.26 E-value=2.8e+02 Score=23.35 Aligned_cols=31 Identities=23% Similarity=0.236 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHH
Q 041282 44 MAGTVIALTIATPLLVICSPVLVPAVITVSLLI 76 (144)
Q Consensus 44 L~gtvigL~vaTPLfvifSPVLVPAai~~~L~~ 76 (144)
+.|||+|++-+.--+ -.|-.+=..|..+|.+
T Consensus 159 llGTVlGlI~~f~~l--~~p~~lg~gIa~ALit 189 (263)
T PRK08124 159 VLGAVIGLIAALGNL--SDIEKLGHAISAAFVA 189 (263)
T ss_pred HHHHHHHHHHHHHhc--cCHHHHHHHHHHHHHH
Confidence 568999998765543 2443333344444443
No 130
>PF14219 DUF4328: Domain of unknown function (DUF4328)
Probab=22.23 E-value=1.7e+02 Score=22.31 Aligned_cols=26 Identities=38% Similarity=0.611 Sum_probs=19.3
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHH
Q 041282 75 LIMGFLASGGFGVAAISVLSWIYRYV 100 (144)
Q Consensus 75 ~~~Gfl~sg~~Gltals~lsW~y~y~ 100 (144)
..++.+....+-++++..+.|+||-.
T Consensus 24 ~~~~~~~~~~~v~~~V~~l~Wl~rar 49 (171)
T PF14219_consen 24 ALLGLLALLLFVAAAVVFLVWLYRAR 49 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666667778899999999954
No 131
>PLN02769 Probable galacturonosyltransferase
Probab=21.78 E-value=30 Score=33.33 Aligned_cols=29 Identities=41% Similarity=0.676 Sum_probs=19.7
Q ss_pred HhhhHHhhchhhhHHHHHHHHHHHHHHHhh
Q 041282 54 ATPLLVICSPVLVPAVITVSLLIMGFLASG 83 (144)
Q Consensus 54 aTPLfvifSPVLVPAai~~~L~~~Gfl~sg 83 (144)
+.+-+++|| +|||.++..++.=.||-+.+
T Consensus 22 ~v~~lv~~s-~l~pl~~l~~~~~~~~~~~~ 50 (629)
T PLN02769 22 AVLALVLCS-MLVPLAFLLGLHHNGFHSTG 50 (629)
T ss_pred HHHHHHHHH-HHHHHHHHhccccccCCccc
Confidence 334444554 78999988888777776643
No 132
>PRK10720 uracil transporter; Provisional
Probab=21.44 E-value=3.5e+02 Score=24.19 Aligned_cols=16 Identities=19% Similarity=0.067 Sum_probs=8.9
Q ss_pred HHHhhhHHhhchhhhH
Q 041282 52 TIATPLLVICSPVLVP 67 (144)
Q Consensus 52 ~vaTPLfvifSPVLVP 67 (144)
+++.++++=.+|..++
T Consensus 367 i~~~~l~~g~~~~~~~ 382 (428)
T PRK10720 367 LTSVILIIGVSGAKVN 382 (428)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4555555555555554
No 133
>PRK15135 histidine/lysine/arginine/ornithine ABC transporter permease HisQ; Provisional
Probab=21.35 E-value=4.1e+02 Score=20.82 Aligned_cols=32 Identities=16% Similarity=0.193 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHH--HHHhc-CCCCCCCcHHHHHH
Q 041282 85 FGVAAISVLSWIY--RYVTG-GHPPGADQLEQARM 116 (144)
Q Consensus 85 ~Gltals~lsW~y--~y~~g-~~p~g~~~ld~Ar~ 116 (144)
.++-+++...|.| |.+|+ -+....|++|.||.
T Consensus 95 ~~ilal~l~~~~~~~~~~r~~l~~v~~~~ieaA~~ 129 (228)
T PRK15135 95 AGIITLGFIYGAYFTETFRGAFMAVPKGHIEAATA 129 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCHhHHHHHHH
Confidence 3455566655555 56777 24445888888885
No 134
>COG4241 Predicted membrane protein [Function unknown]
Probab=21.33 E-value=1.2e+02 Score=27.06 Aligned_cols=40 Identities=18% Similarity=0.234 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHH------hcCCCCCCCcHHHHHHHHHHHHHHHHH
Q 041282 88 AAISVLSWIYRYV------TGGHPPGADQLEQARMKLASKAREMRD 127 (144)
Q Consensus 88 tals~lsW~y~y~------~g~~p~g~~~ld~Ar~ri~d~A~~v~~ 127 (144)
+.+++.+|++||. -+.-+|-+|-+.|.|+++.+.-+-.++
T Consensus 104 ~s~~amiwi~~~yF~ls~~~~~inpv~~a~~~~Rqsl~~a~~~~i~ 149 (314)
T COG4241 104 ASTAAMIWIINFYFPLSIVIRIINPVDDAVVYLRQSLNAAIKMAIA 149 (314)
T ss_pred HHHHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHhhhHHHHHHHHH
Confidence 4678999999753 123356788899999988775443333
No 135
>PRK12911 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=21.33 E-value=4.3e+02 Score=28.22 Aligned_cols=34 Identities=12% Similarity=0.157 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHH
Q 041282 43 TMAGTVIALTIATPLLVICSPVLVPAVITVSLLI 76 (144)
Q Consensus 43 TL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~ 76 (144)
++.+++..++.+.|||++-++.+-|.++++.+.+
T Consensus 1010 ILdTnLTTLIA~lPLf~fGtG~vkgFAvTLiIGI 1043 (1403)
T PRK12911 1010 IFDSNLTTILASALLLMLDTGPIKGFALTLIIGI 1043 (1403)
T ss_pred HHHHHHHHHHHHHHHHHhcccccccHHHHHHHHH
Confidence 3445555667778998888888889887766644
No 136
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=21.31 E-value=1e+02 Score=24.28 Aligned_cols=15 Identities=20% Similarity=0.353 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHH
Q 041282 112 EQARMKLASKAREMR 126 (144)
Q Consensus 112 d~Ar~ri~d~A~~v~ 126 (144)
|+-...|.|.|++++
T Consensus 68 D~~daEI~dgAGe~G 82 (137)
T PF12270_consen 68 DREDAEIADGAGELG 82 (137)
T ss_pred cccccccccCCCCcC
Confidence 333445666655543
No 137
>PF02654 CobS: Cobalamin-5-phosphate synthase; InterPro: IPR003805 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents the CobS protein, a cobalamin-5-phosphate synthase that catyalzes the reactions: Adenosylcobinamide-GDP + alpha-ribazole-5'-P = adenosylcobalamin-5'-phosphate + GMP Adenosylcobinamide-GDP + alpha-ribazole = adenosylcobalamin + GMP The protein product from these catalyses is associated with a large complex of proteins and is induced by cobinamide. CobS is involved in part III of cobalamin biosynthesis, one of the late steps in adenosylcobalamin synthesis that, together with CobU, CobT, and CobC proteins, defines the nucleotide loop assembly pathway [, ].; GO: 0008818 cobalamin 5'-phosphate synthase activity, 0009236 cobalamin biosynthetic process
Probab=21.24 E-value=2.1e+02 Score=23.37 Aligned_cols=15 Identities=27% Similarity=0.308 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHhhhH
Q 041282 44 MAGTVIALTIATPLL 58 (144)
Q Consensus 44 L~gtvigL~vaTPLf 58 (144)
++|.++|++.+.+.+
T Consensus 30 lvGlliG~l~~~~~~ 44 (235)
T PF02654_consen 30 LVGLLIGLLAALVAW 44 (235)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344455555554444
No 138
>cd03395 PAP2_like_4 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase.
Probab=20.90 E-value=3.8e+02 Score=20.36 Aligned_cols=20 Identities=10% Similarity=0.320 Sum_probs=12.3
Q ss_pred HHhhHHHHHHHHHHHHHHHH
Q 041282 80 LASGGFGVAAISVLSWIYRY 99 (144)
Q Consensus 80 l~sg~~Gltals~lsW~y~y 99 (144)
+++..+|+.......++||+
T Consensus 157 l~G~~lG~~~~~~~~~~~~~ 176 (177)
T cd03395 157 IAGALIGIISGLLFYLLFSW 176 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 44555666655666677765
No 139
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=20.60 E-value=86 Score=22.52 Aligned_cols=18 Identities=17% Similarity=0.315 Sum_probs=11.8
Q ss_pred CCcHHHHHHHHHHHHHHH
Q 041282 108 ADQLEQARMKLASKAREM 125 (144)
Q Consensus 108 ~~~ld~Ar~ri~d~A~~v 125 (144)
.|.+|+|-.||.+.|+++
T Consensus 24 ~~d~d~Al~eM~e~A~~l 41 (74)
T TIGR03884 24 SDNVDEIVENLREKVKAK 41 (74)
T ss_pred cCCHHHHHHHHHHHHHHc
Confidence 346888888876554443
No 140
>TIGR02796 tolQ TolQ protein. TolQ is one of the essential components of the Tol-Pal system. Together with TolR, it harnesses protonmotive force to energize TolA, which spans the periplasm to reach the complex of TolB and Pal at the outer member. The tol-pal system proves to be important for maintaining outer membrane integrity. Gene pairs similar to the TolQ and TolR gene pair often number several per genome, but this model describes specificially TolQ per se, as found in tol-pal operons. A close homolog, excluded from this model, is ExbB of the ExbB/ExbD/TonB protein complex, which powers transport of siderophores and vitamin B12 across the bacterial outer membrane. The Tol-Pal system is exploited by colicin and filamentous phage DNA to enter the cell. It is also implicated in pathogenesis in several bacterial species
Probab=20.51 E-value=1e+02 Score=25.00 Aligned_cols=20 Identities=25% Similarity=0.399 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHhhhHHhhc
Q 041282 43 TMAGTVIALTIATPLLVICS 62 (144)
Q Consensus 43 TL~gtvigL~vaTPLfvifS 62 (144)
.|..|+.||+||.|-++.++
T Consensus 170 ALitTa~GL~vAIPali~yn 189 (215)
T TIGR02796 170 ALIATAIGLFAAIPAVIAYN 189 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 46678888888888766543
No 141
>PF04982 HPP: HPP family; InterPro: IPR007065 These proteins are integral membrane proteins with four transmembrane spanning helices. The most conserved region of an alignment of the proteins is a motif HPP. The function of these proteins is uncertain but they may be transporters.
Probab=20.39 E-value=3.7e+02 Score=19.96 Aligned_cols=81 Identities=20% Similarity=0.222 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhchhhhHHHHHHHHHHHH--------HHHhhHHHHHHHHHHH
Q 041282 23 VVKAATAVTAGGSLLVLSGLTMAGTVIALTIATPLLVICSPVLVPAVITVSLLIMG--------FLASGGFGVAAISVLS 94 (144)
Q Consensus 23 vl~~~~~~~~g~~LL~LaGlTL~gtvigL~vaTPLfvifSPVLVPAai~~~L~~~G--------fl~sg~~Gltals~ls 94 (144)
+.+-+....+|..+.-+-|-+.....++..++.-++.++-=+-=|++-+.-+.+.+ .+..-.+|...+....
T Consensus 28 i~gh~isa~iG~~~~~~~~~~~~~~alav~lai~~M~~~~~~HPPA~Atall~~l~~~~~~~~~~~~pVl~g~~il~~~a 107 (120)
T PF04982_consen 28 IGGHLISALIGVLCVYLFGDPWWAAALAVGLAIVLMVLTRTVHPPAGATALLAVLGGASLGWGFVLIPVLLGSLILVVVA 107 (120)
T ss_pred HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHcCCCCchhhhhhhhhhcccccCchHHHHHHHHHHHHHHHHH
Confidence 55556666777777777776665556666666667777766666665544443322 1222356677778889
Q ss_pred HHHHHHhcC
Q 041282 95 WIYRYVTGG 103 (144)
Q Consensus 95 W~y~y~~g~ 103 (144)
|+||.+++|
T Consensus 108 ~~~~~l~~r 116 (120)
T PF04982_consen 108 LLFNNLIRR 116 (120)
T ss_pred HHHHcCccC
Confidence 999999864
No 142
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=20.07 E-value=3.5e+02 Score=27.04 Aligned_cols=51 Identities=14% Similarity=0.103 Sum_probs=30.2
Q ss_pred HHHhhhHHhh---chhhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCC
Q 041282 52 TIATPLLVIC---SPVLVPAVITVSLLIMGFLASGGFGVAAISVLSWIYRYVTGGHPPGA 108 (144)
Q Consensus 52 ~vaTPLfvif---SPVLVPAai~~~L~~~Gfl~sg~~Gltals~lsW~y~y~~g~~p~g~ 108 (144)
+-..|+.+-. ++.+-|.++++ +.|+++|-.+- +-.+=++|.+++.+++..|
T Consensus 981 ~gllPlal~~g~g~~~~~pla~~i---i~GL~~St~lt---L~vvP~ly~~~~~~~~~~~ 1034 (1037)
T PRK10555 981 FGVLPMATSTGAGSGSQHAVGTGV---MGGMISATILA---IFFVPLFFVLVRRRFPLKP 1034 (1037)
T ss_pred HHHHHHHHhcCCChHHhcccHHHH---HHHHHHHHHHH---HHHHHHHHHHHHhhcCCCC
Confidence 3346777642 46888877654 33455554443 4555666777777776544
Done!