Query 035240
Match_columns 69
No_of_seqs 101 out of 255
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 10:19:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035240.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035240hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00478 Sec superfamily; Prov 100.0 2E-37 4.4E-42 194.8 7.0 68 1-68 13-80 (81)
2 KOG3498 Preprotein translocase 100.0 3.4E-37 7.3E-42 187.7 7.7 67 1-67 1-67 (67)
3 TIGR00327 secE_euk_arch protei 100.0 1E-32 2.2E-37 165.6 7.6 59 7-65 2-60 (61)
4 COG2443 Sss1 Preprotein transl 100.0 7.7E-30 1.7E-34 155.0 8.6 65 1-65 1-65 (65)
5 PRK09400 secE preprotein trans 100.0 8.3E-28 1.8E-32 144.0 8.4 59 3-61 2-60 (61)
6 PF00584 SecE: SecE/Sec61-gamm 98.9 7.4E-09 1.6E-13 59.6 5.3 55 11-65 2-56 (57)
7 PRK07597 secE preprotein trans 95.1 0.32 6.9E-06 28.4 7.5 52 7-58 6-57 (64)
8 PRK05740 secE preprotein trans 94.8 0.24 5.2E-06 31.3 6.7 50 9-58 34-83 (92)
9 PF00957 Synaptobrevin: Synapt 94.8 0.17 3.8E-06 30.6 5.9 53 2-54 31-83 (89)
10 TIGR00964 secE_bact preprotein 93.7 0.59 1.3E-05 26.6 6.3 47 12-58 2-48 (55)
11 COG0690 SecE Preprotein transl 88.6 3.8 8.2E-05 24.8 7.6 50 8-57 17-66 (73)
12 TIGR00985 3a0801s04tom mitocho 78.6 2.9 6.2E-05 28.8 3.2 25 33-57 4-28 (148)
13 KOG0811 SNARE protein PEP12/VA 77.7 5.2 0.00011 29.9 4.5 56 2-61 211-266 (269)
14 KOG0860 Synaptobrevin/VAMP-lik 72.7 26 0.00056 23.5 6.4 51 3-53 58-109 (116)
15 PRK09573 (S)-2,3-di-O-geranylg 72.6 10 0.00022 27.2 4.8 33 22-55 243-275 (279)
16 cd07669 BAR_SNX33 The Bin/Amph 69.4 18 0.0004 26.3 5.6 28 11-38 28-55 (207)
17 PF10929 DUF2811: Protein of u 69.2 15 0.00032 21.8 4.2 35 9-46 5-39 (57)
18 PF02673 BacA: Bacitracin resi 66.6 20 0.00043 26.2 5.3 52 7-58 49-103 (259)
19 PF10617 DUF2474: Protein of u 65.9 21 0.00045 19.8 4.7 33 27-59 2-34 (40)
20 smart00389 HOX Homeodomain. DN 65.2 18 0.00039 19.2 3.8 26 18-43 15-40 (56)
21 TIGR02230 ATPase_gene1 F0F1-AT 64.2 28 0.00061 22.5 5.1 32 17-48 23-54 (100)
22 cd07626 BAR_SNX9_like The Bin/ 62.9 28 0.00061 24.7 5.4 32 7-38 16-47 (199)
23 cd07670 BAR_SNX18 The Bin/Amph 62.9 29 0.00063 25.3 5.5 35 9-43 26-61 (207)
24 cd07668 BAR_SNX9 The Bin/Amphi 62.4 29 0.00064 25.3 5.5 33 11-43 28-61 (210)
25 PF02167 Cytochrom_C1: Cytochr 60.4 62 0.0013 23.4 7.0 48 8-55 165-212 (219)
26 PF08928 DUF1910: Domain of un 59.9 40 0.00086 21.0 5.2 38 8-46 66-103 (117)
27 PRK00281 undecaprenyl pyrophos 59.2 55 0.0012 24.1 6.6 51 7-57 55-107 (268)
28 PF09925 DUF2157: Predicted me 57.4 43 0.00093 21.8 5.2 35 19-53 16-52 (145)
29 PF10518 TAT_signal: TAT (twin 56.0 14 0.00031 18.2 2.2 22 27-48 1-22 (26)
30 PF02468 PsbN: Photosystem II 55.7 12 0.00026 21.1 2.0 25 37-61 6-30 (43)
31 PF10779 XhlA: Haemolysin XhlA 55.3 11 0.00025 22.2 2.0 19 37-55 53-71 (71)
32 PF05230 MASE2: MASE2 domain; 53.7 19 0.00041 22.7 2.9 34 20-53 48-81 (91)
33 TIGR00753 undec_PP_bacA undeca 52.8 83 0.0018 23.0 6.6 51 7-57 47-101 (255)
34 KOG4455 Uncharacterized conser 52.4 30 0.00065 23.1 3.8 38 28-65 23-65 (110)
35 cd07912 Tweety_N N-terminal do 51.6 33 0.00072 27.0 4.6 33 26-59 28-60 (418)
36 PF10456 BAR_3_WASP_bdg: WASP- 51.2 31 0.00067 25.1 4.1 33 8-40 54-86 (237)
37 PRK12554 undecaprenyl pyrophos 49.0 1E+02 0.0022 22.9 6.5 51 7-57 52-108 (276)
38 TIGR00397 mauM_napG MauM/NapG 48.3 33 0.00073 24.1 3.8 14 27-40 1-14 (213)
39 KOG0775 Transcription factor S 47.8 22 0.00048 27.3 3.0 38 7-47 183-220 (304)
40 PRK13183 psbN photosystem II r 47.0 14 0.0003 21.2 1.4 24 37-60 9-32 (46)
41 PF14394 DUF4423: Domain of un 46.5 25 0.00055 24.0 2.9 29 2-30 132-160 (171)
42 PF14325 DUF4383: Domain of un 46.3 19 0.00041 23.8 2.2 20 34-53 2-21 (125)
43 PF01213 CAP_N: Adenylate cycl 46.2 31 0.00067 26.1 3.5 22 20-41 90-111 (312)
44 cd00086 homeodomain Homeodomai 45.9 46 0.00099 17.5 3.9 22 22-43 19-40 (59)
45 PF06589 CRA: Circumsporozoite 45.7 50 0.0011 23.1 4.3 46 8-53 50-98 (157)
46 PRK12884 ubiA prenyltransferas 45.6 61 0.0013 22.9 4.8 32 23-55 245-276 (279)
47 PF12955 DUF3844: Domain of un 45.4 35 0.00076 22.3 3.3 22 38-59 70-91 (103)
48 PF13789 DUF4181: Domain of un 44.6 39 0.00084 21.4 3.4 30 24-53 80-109 (110)
49 cd05171 PIKKc_ATM Ataxia telan 44.6 1E+02 0.0023 22.3 6.0 41 26-66 155-195 (279)
50 KOG3415 Putative Rab5-interact 44.4 46 0.001 22.7 3.8 12 27-38 35-46 (129)
51 PF01788 PsbJ: PsbJ; InterPro 44.0 49 0.0011 18.4 3.3 18 38-55 13-30 (40)
52 PF00957 Synaptobrevin: Synapt 44.0 69 0.0015 19.0 6.1 44 5-51 41-84 (89)
53 PRK09793 methyl-accepting prot 43.7 1.1E+02 0.0025 23.7 6.4 24 41-64 197-221 (533)
54 PF08336 P4Ha_N: Prolyl 4-Hydr 42.4 34 0.00073 22.0 2.9 29 11-39 66-94 (134)
55 TIGR01167 LPXTG_anchor LPXTG-m 42.0 16 0.00036 18.0 1.1 18 36-53 10-27 (34)
56 cd07643 I-BAR_IMD_MIM Inverse 41.8 36 0.00079 25.2 3.2 33 4-36 95-127 (231)
57 PF10658 DUF2484: Protein of u 41.4 34 0.00073 21.4 2.6 30 24-53 18-48 (77)
58 PF09489 CbtB: Probable cobalt 41.3 58 0.0012 19.0 3.5 25 29-53 9-33 (54)
59 CHL00020 psbN photosystem II p 40.9 15 0.00032 20.8 0.8 25 36-60 5-29 (43)
60 PF02285 COX8: Cytochrome oxid 40.7 25 0.00055 19.8 1.8 28 26-53 3-30 (44)
61 PF03936 Terpene_synth_C: Terp 40.5 1.1E+02 0.0025 20.6 6.7 44 7-50 142-188 (270)
62 PF01299 Lamp: Lysosome-associ 39.4 19 0.00042 26.3 1.5 14 41-54 281-294 (306)
63 KOG4554 Protein involved in in 38.6 53 0.0012 23.6 3.6 28 28-55 88-115 (185)
64 COG5065 PHO88 Protein involved 38.6 53 0.0012 23.6 3.6 28 28-55 88-115 (185)
65 PF13242 Hydrolase_like: HAD-h 38.3 28 0.0006 19.8 1.8 16 25-40 2-17 (75)
66 PF02064 MAS20: MAS20 protein 38.0 11 0.00023 25.0 0.0 16 41-56 2-17 (121)
67 PF02755 RPEL: RPEL repeat; I 37.9 27 0.00059 17.4 1.5 13 23-35 6-18 (26)
68 PF07760 DUF1616: Protein of u 37.9 74 0.0016 23.2 4.4 42 21-62 42-85 (287)
69 KOG0859 Synaptobrevin/VAMP-lik 37.4 18 0.0004 26.6 1.1 56 4-62 155-210 (217)
70 PF08229 SHR3_chaperone: ER me 36.8 55 0.0012 23.5 3.5 20 37-56 61-80 (196)
71 PRK05529 cell division protein 36.6 25 0.00054 25.3 1.7 32 17-49 20-51 (255)
72 PRK09898 hypothetical protein; 36.5 36 0.00078 23.5 2.4 22 28-49 13-34 (208)
73 TIGR00813 sss transporter, SSS 36.5 1.1E+02 0.0023 22.7 5.1 30 21-50 326-358 (407)
74 PF08429 PLU-1: PLU-1-like pro 36.3 73 0.0016 23.1 4.1 37 2-38 106-142 (335)
75 PF12650 DUF3784: Domain of un 35.9 70 0.0015 19.4 3.4 28 27-54 31-60 (97)
76 TIGR03097 PEP_O_lig_1 probable 35.4 1.2E+02 0.0025 22.8 5.2 48 15-62 344-392 (402)
77 PRK11677 hypothetical protein; 34.7 46 0.001 22.4 2.7 17 39-55 5-21 (134)
78 PF14476 Chloroplast_duf: Peta 34.6 79 0.0017 24.5 4.2 29 12-40 175-203 (313)
79 PF08869 XisI: XisI protein; 34.1 40 0.00086 22.2 2.2 21 1-21 1-21 (111)
80 PF11384 DUF3188: Protein of u 34.1 48 0.001 18.8 2.3 29 25-53 16-44 (49)
81 PRK10983 putative inner membra 34.0 1.7E+02 0.0037 22.1 5.9 29 19-47 189-221 (368)
82 PHA00649 hypothetical protein 33.9 1.2E+02 0.0027 19.0 4.5 42 11-53 36-77 (83)
83 PRK10617 cytochrome c-type pro 33.3 91 0.002 22.2 4.1 13 19-31 12-24 (200)
84 PF00046 Homeobox: Homeobox do 33.2 77 0.0017 16.9 3.0 22 21-42 18-39 (57)
85 cd00385 Isoprenoid_Biosyn_C1 I 32.8 1.3E+02 0.0028 19.0 7.7 36 6-41 83-120 (243)
86 TIGR00865 bcl-2 Apoptosis regu 32.7 1.7E+02 0.0038 21.0 5.5 32 3-34 143-185 (213)
87 PF13829 DUF4191: Domain of un 32.4 77 0.0017 23.3 3.7 44 12-55 7-50 (224)
88 PRK12768 CysZ-like protein; Re 32.4 73 0.0016 23.1 3.6 37 25-65 56-92 (240)
89 COG4682 Predicted membrane pro 32.3 84 0.0018 21.4 3.6 30 27-56 2-31 (128)
90 PRK07417 arogenate dehydrogena 32.1 1.3E+02 0.0028 21.3 4.7 33 6-38 236-268 (279)
91 cd00687 Terpene_cyclase_nonpla 31.8 1.3E+02 0.0029 21.1 4.8 46 4-49 131-179 (303)
92 PF13038 DUF3899: Domain of un 31.8 63 0.0014 19.4 2.7 22 34-55 2-23 (92)
93 TIGR02811 formate_TAT formate 31.7 87 0.0019 18.6 3.3 26 26-51 7-32 (66)
94 smart00707 RPEL Repeat in Dros 31.2 47 0.001 16.7 1.7 13 23-35 6-18 (26)
95 PF13800 Sigma_reg_N: Sigma fa 30.9 1.3E+02 0.0027 18.2 4.1 35 20-57 3-37 (96)
96 PRK08507 prephenate dehydrogen 30.8 1.4E+02 0.0031 20.9 4.8 33 6-38 234-266 (275)
97 KOG0861 SNARE protein YKT6, sy 30.7 54 0.0012 23.8 2.6 29 2-30 165-193 (198)
98 PF10828 DUF2570: Protein of u 30.4 92 0.002 19.7 3.4 20 38-57 5-24 (110)
99 TIGR03025 EPS_sugtrans exopoly 30.3 89 0.0019 23.6 3.8 31 25-55 54-84 (445)
100 PF13727 CoA_binding_3: CoA-bi 30.2 17 0.00037 22.7 0.0 31 25-55 10-40 (175)
101 PRK12883 ubiA prenyltransferas 30.1 1.4E+02 0.0031 21.2 4.7 29 24-53 243-271 (277)
102 PF06143 Baculo_11_kDa: Baculo 30.0 58 0.0013 20.6 2.4 18 2-19 20-37 (84)
103 TIGR02147 Fsuc_second hypothet 29.6 62 0.0013 23.9 2.8 29 2-30 230-258 (271)
104 cd00930 Cyt_c_Oxidase_VIII Cyt 29.3 44 0.00096 18.7 1.6 26 26-51 3-28 (43)
105 PRK10484 putative transporter; 29.1 83 0.0018 24.5 3.6 24 26-49 366-389 (523)
106 PHA02641 hypothetical protein; 29.0 44 0.00095 24.0 1.9 31 10-55 123-153 (188)
107 KOG3488 Dolichol phosphate-man 28.8 1.2E+02 0.0026 19.1 3.6 25 35-59 49-73 (81)
108 COG1883 OadB Na+-transporting 28.7 1.6E+02 0.0034 23.3 5.0 49 4-55 246-297 (375)
109 PRK09617 type III secretion sy 28.5 2.2E+02 0.0048 21.3 5.5 27 3-29 121-153 (243)
110 PF09604 Potass_KdpF: F subuni 28.4 87 0.0019 15.6 2.9 20 41-60 3-22 (25)
111 COG2981 CysZ Uncharacterized p 28.3 1E+02 0.0023 23.1 3.8 50 12-66 47-96 (250)
112 PF05920 Homeobox_KN: Homeobox 28.3 39 0.00084 18.1 1.2 17 28-44 11-27 (40)
113 PF05545 FixQ: Cbb3-type cytoc 28.3 1.1E+02 0.0023 16.6 4.6 28 29-56 2-29 (49)
114 TIGR02121 Na_Pro_sym sodium/pr 28.2 1.6E+02 0.0035 22.7 5.0 23 27-49 358-380 (487)
115 PRK10654 dcuC C4-dicarboxylate 28.1 50 0.0011 26.0 2.2 37 29-65 63-102 (455)
116 PRK14759 potassium-transportin 28.1 98 0.0021 16.1 3.0 21 40-60 6-26 (29)
117 PF02194 PXA: PXA domain; Int 27.9 1.8E+02 0.0039 19.0 4.7 36 3-43 7-43 (185)
118 PF02061 Lambda_CIII: Lambda P 27.7 1.2E+02 0.0027 17.1 3.5 25 5-29 18-43 (45)
119 TIGR02161 napC_nirT periplasmi 27.6 1.3E+02 0.0027 21.1 4.0 10 20-29 4-13 (185)
120 PRK11403 hypothetical protein; 27.5 68 0.0015 21.5 2.5 22 35-56 2-23 (113)
121 PF02375 JmjN: jmjN domain; I 27.5 31 0.00066 18.2 0.7 11 27-37 4-14 (34)
122 PF09813 Coiled-coil_56: Coile 27.5 44 0.00096 21.9 1.6 25 33-57 49-73 (100)
123 PF02153 PDH: Prephenate dehyd 27.3 1.8E+02 0.004 20.5 4.9 32 7-38 226-257 (258)
124 smart00786 SHR3_chaperone ER m 27.2 73 0.0016 23.0 2.8 19 38-56 62-80 (196)
125 cd05170 PIKKc_SMG1 Suppressor 26.9 2.6E+02 0.0057 20.6 5.9 41 26-66 183-223 (307)
126 PF02498 Bro-N: BRO family, N- 26.6 17 0.00038 21.1 -0.4 19 19-37 63-81 (87)
127 TIGR01006 polys_exp_MPA1 polys 26.1 70 0.0015 21.9 2.5 34 20-53 158-191 (226)
128 PRK04949 putative sulfate tran 26.0 1.1E+02 0.0024 22.2 3.6 36 26-65 62-97 (251)
129 PF05372 Delta_lysin: Delta ly 26.0 81 0.0017 15.9 2.0 15 46-60 5-19 (25)
130 COG3333 Uncharacterized protei 25.9 1.2E+02 0.0026 25.0 4.0 46 22-67 382-440 (504)
131 COG4459 NapE Periplasmic nitra 25.7 1.6E+02 0.0035 17.7 3.9 18 40-57 33-50 (62)
132 PF03908 Sec20: Sec20; InterP 25.6 1.6E+02 0.0035 17.8 5.0 45 8-55 45-89 (92)
133 PF14410 GH-E: HNH/ENDO VII su 25.5 1E+02 0.0022 18.4 2.8 22 15-36 26-49 (70)
134 PF10981 DUF2788: Protein of u 25.5 1.4E+02 0.0031 17.3 3.3 16 43-58 33-48 (52)
135 PF14072 DndB: DNA-sulfur modi 25.5 2E+02 0.0044 20.9 4.9 50 5-54 229-284 (346)
136 PRK09592 celD cellobiose phosp 25.5 2.1E+02 0.0046 22.3 5.2 49 1-55 1-52 (449)
137 COG3617 Prophage antirepressor 25.2 63 0.0014 22.5 2.1 22 18-39 79-100 (176)
138 cd05163 TRRAP TRansformation/t 25.2 2.6E+02 0.0057 20.1 5.7 41 26-66 128-168 (253)
139 COG0287 TyrA Prephenate dehydr 25.1 2E+02 0.0043 21.2 4.8 35 6-40 238-272 (279)
140 PF10999 DUF2839: Protein of u 25.1 62 0.0014 19.7 1.8 27 31-57 34-61 (68)
141 PRK12797 type III secretion sy 24.7 2.8E+02 0.0061 20.2 6.7 24 4-27 95-124 (213)
142 TIGR01102 yscR type III secret 24.7 2.4E+02 0.0052 20.4 5.1 25 3-27 85-115 (202)
143 PF04906 Tweety: Tweety; Inte 24.3 1.7E+02 0.0037 22.6 4.5 15 27-41 9-23 (406)
144 PF02791 DDT: DDT domain; Int 24.2 1.5E+02 0.0032 16.8 3.7 36 2-39 2-37 (61)
145 COG1891 Uncharacterized protei 24.1 22 0.00049 26.1 -0.3 45 14-62 153-197 (235)
146 PF10136 SpecificRecomb: Site- 23.8 75 0.0016 26.6 2.6 44 10-53 290-345 (643)
147 COG3944 Capsular polysaccharid 23.6 84 0.0018 23.3 2.6 25 30-54 15-39 (226)
148 PF06295 DUF1043: Protein of u 23.3 87 0.0019 20.4 2.4 17 40-56 2-18 (128)
149 TIGR02459 CbtB cobalt transpor 23.3 1.5E+02 0.0033 17.7 3.2 24 30-53 16-39 (60)
150 PF09537 DUF2383: Domain of un 23.0 1.4E+02 0.0031 18.0 3.3 32 2-33 4-35 (111)
151 KOG2528 Sorting nexin SNX9/SH3 22.9 1.3E+02 0.0029 24.6 3.8 28 11-38 346-373 (490)
152 PF09032 Siah-Interact_N: Siah 22.8 2E+02 0.0043 17.8 5.1 33 6-38 3-35 (79)
153 PRK11166 chemotaxis regulator 22.8 2.2E+02 0.0049 20.6 4.6 31 7-39 83-113 (214)
154 TIGR02119 panF sodium/pantothe 22.8 1.9E+02 0.0041 22.0 4.4 19 28-46 359-377 (471)
155 PF06686 SpoIIIAC: Stage III s 22.7 1.5E+02 0.0033 16.5 5.2 37 21-57 18-54 (58)
156 PF02392 Ycf4: Ycf4; InterPro 22.7 1.2E+02 0.0026 21.6 3.2 31 24-54 12-42 (180)
157 COG4062 MtrB Tetrahydromethano 22.5 2.4E+02 0.0053 18.7 6.3 55 1-55 33-99 (108)
158 COG4036 Predicted membrane pro 22.5 45 0.00097 24.4 1.0 34 22-55 148-183 (224)
159 KOG1997 PH domain-containing p 22.4 1.7E+02 0.0038 27.2 4.7 36 3-38 1443-1481(1518)
160 PRK05685 fliS flagellar protei 22.4 1.6E+02 0.0034 19.2 3.5 27 3-29 106-132 (132)
161 PF11368 DUF3169: Protein of u 22.2 1.9E+02 0.0042 20.4 4.2 29 30-58 5-33 (248)
162 COG4575 ElaB Uncharacterized c 22.1 2.4E+02 0.0052 18.5 4.3 32 4-35 10-41 (104)
163 PF14206 Cys_rich_CPCC: Cystei 22.0 53 0.0011 20.3 1.1 22 11-32 56-77 (78)
164 cd08812 CARD_RIG-I_like Caspas 22.0 72 0.0016 19.5 1.7 23 21-43 59-82 (88)
165 PRK09459 pspG phage shock prot 22.0 2.1E+02 0.0046 17.9 4.3 13 45-57 36-48 (76)
166 PTZ00475 RESA-like protein; Pr 21.9 90 0.0019 23.8 2.5 50 4-54 64-113 (282)
167 PRK13474 cytochrome b6-f compl 21.7 1.6E+02 0.0035 20.2 3.6 24 27-50 11-34 (178)
168 TIGR03233 DNA_S_dndB DNA sulfu 21.6 3.9E+02 0.0085 20.7 6.1 37 16-54 247-284 (355)
169 PF03773 DUF318: Predicted per 21.4 1.9E+02 0.0041 21.1 4.1 27 28-54 183-209 (307)
170 PF05659 RPW8: Arabidopsis bro 21.3 2.7E+02 0.0058 18.7 4.7 34 5-38 65-98 (147)
171 COG4949 Uncharacterized membra 21.3 72 0.0016 25.4 2.0 23 37-59 364-386 (424)
172 cd05491 Bromo_TBP7_like Bromod 21.3 72 0.0016 21.3 1.7 26 7-32 78-103 (119)
173 PF05197 TRIC: TRIC channel; 21.3 1.5E+02 0.0033 21.1 3.5 32 12-43 123-157 (197)
174 PRK04132 replication factor C 21.2 62 0.0013 27.8 1.7 22 22-43 438-459 (846)
175 PRK09913 putative fructose-lik 21.2 1.9E+02 0.0041 18.2 3.6 31 7-38 113-143 (148)
176 PF02208 Sorb: Sorbin homologo 21.1 79 0.0017 18.2 1.6 24 8-31 22-45 (47)
177 PF10930 DUF2737: Protein of u 21.0 62 0.0013 19.1 1.2 10 26-35 23-32 (54)
178 PF11460 DUF3007: Protein of u 21.0 86 0.0019 20.6 2.0 15 40-54 9-23 (104)
179 PF02202 Tachykinin: Tachykini 20.8 61 0.0013 13.4 0.8 7 27-33 1-7 (11)
180 PRK05699 fliP flagellar biosyn 20.7 2.9E+02 0.0063 20.6 5.0 26 3-28 127-158 (245)
181 PRK15032 trimethylamine N-oxid 20.6 2.4E+02 0.0051 22.2 4.7 12 20-31 3-14 (390)
182 PF04157 EAP30: EAP30/Vps36 fa 20.6 2.2E+02 0.0047 19.8 4.1 40 3-42 27-72 (223)
183 KOG4056 Translocase of outer m 20.5 1.1E+02 0.0024 21.2 2.5 23 35-57 8-30 (143)
184 PF04854 DUF624: Protein of un 20.4 1.8E+02 0.004 16.5 5.3 8 31-38 54-61 (77)
185 PF11084 DUF2621: Protein of u 20.4 2.9E+02 0.0063 19.1 4.6 44 2-45 46-90 (141)
186 PF12606 RELT: Tumour necrosis 20.4 93 0.002 17.8 1.8 12 43-54 9-20 (50)
187 PRK15419 proline:sodium sympor 20.3 2.7E+02 0.0059 21.5 4.9 23 27-49 365-387 (502)
188 PF07441 BofA: SigmaK-factor p 20.2 1.8E+02 0.004 17.6 3.3 33 31-63 19-53 (78)
189 COG1393 ArsC Arsenate reductas 20.2 62 0.0013 20.9 1.2 21 24-44 34-54 (117)
No 1
>PTZ00478 Sec superfamily; Provisional
Probab=100.00 E-value=2e-37 Score=194.83 Aligned_cols=68 Identities=50% Similarity=1.023 Sum_probs=66.3
Q ss_pred ChhhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccC
Q 035240 1 MDAIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNIIVGS 68 (69)
Q Consensus 1 m~~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~niivg~ 68 (69)
||.++++++++++|++||+|++++|+||||+||+++|+++++||++||+|||+||||||||||+||||
T Consensus 13 m~~~~~v~~~~~eF~kds~r~vkrctKPdrkEf~kiakat~iGf~imG~IGy~IKLIhIPinniivg~ 80 (81)
T PTZ00478 13 SNPVGYVVSGVQEFANDSRRLIRKCTKPDAKEYTNIAYACSVGFFIMGFIGYSIKLVFIPINNIIVGS 80 (81)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhhheeEeeccceecCC
Confidence 67788999999999999999999999999999999999999999999999999999999999999997
No 2
>KOG3498 consensus Preprotein translocase, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.4e-37 Score=187.75 Aligned_cols=67 Identities=78% Similarity=1.301 Sum_probs=66.3
Q ss_pred ChhhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccc
Q 035240 1 MDAIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNIIVG 67 (69)
Q Consensus 1 m~~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~niivg 67 (69)
||+++++.|+++||.||+.|++|||+||||+||+++++++|+||++||+|||+||||||||||+|||
T Consensus 1 m~~~~~~~~~~~~f~k~s~rf~krC~KPdrKEf~ki~~~~aiGf~~mG~iGf~vKLIhIPInnIIVg 67 (67)
T KOG3498|consen 1 MDQVDQLVEPLRDFAKDSIRFVKRCTKPDRKEFTKIAKATAIGFVIMGFIGFFVKLIHIPINNIIVG 67 (67)
T ss_pred CchHHHhcchHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHheecccceecC
Confidence 8999999999999999999999999999999999999999999999999999999999999999997
No 3
>TIGR00327 secE_euk_arch protein translocase SEC61 complex gamma subunit, archaeal and eukaryotic. This model describes archaeal SEC61-like and eukaryotic SEC61 but not bacterial secE proteins, for which a Pfam pfam00584 (SecE) has been created.
Probab=99.98 E-value=1e-32 Score=165.55 Aligned_cols=59 Identities=36% Similarity=0.778 Sum_probs=57.6
Q ss_pred hhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Q 035240 7 VFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNII 65 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~nii 65 (69)
+.|++++|++||+|++++|+|||||||+++++++++||++||++||+||++|+||||++
T Consensus 2 ~~e~~~~f~k~~~r~lk~~~KPd~~Ef~~iak~t~iG~~i~G~IGf~Ikli~~pi~~ii 60 (61)
T TIGR00327 2 LIEAPVEFIKEGTRVLAVCKKPDLEEYLKVAKVTGIGIIIVGIIGYIIKIIAIPIRGVL 60 (61)
T ss_pred ccchHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 57899999999999999999999999999999999999999999999999999999987
No 4
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=99.96 E-value=7.7e-30 Score=155.02 Aligned_cols=65 Identities=40% Similarity=0.748 Sum_probs=62.2
Q ss_pred ChhhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Q 035240 1 MDAIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNII 65 (69)
Q Consensus 1 m~~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~nii 65 (69)
|++.++..|.+++|+++|+||+++|+|||||||++++|++|+||+++|+|||+|+++|+|+++++
T Consensus 1 ~~~~~~~~e~~~~~lke~~rvl~~arKP~~eEy~~~aKi~~~Gi~liG~IGfiI~li~~~i~~~~ 65 (65)
T COG2443 1 MNQMMDKPEELREFLKEYRRVLKVARKPDWEEYSKIAKITGLGILLIGIIGFIIYLIMIPINGII 65 (65)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 56788899999999999999999999999999999999999999999999999999999999864
No 5
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=99.95 E-value=8.3e-28 Score=143.97 Aligned_cols=59 Identities=31% Similarity=0.616 Sum_probs=55.9
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035240 3 AIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPI 61 (69)
Q Consensus 3 ~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI 61 (69)
..+++.|++++|++||+|++++|+|||||||+++++++++||++||+|||+||+++..+
T Consensus 2 ~~~~~~e~~~~f~~d~~rvl~~~~KPd~~Ef~~ia~~~~iG~~i~G~iGf~Ikli~~~l 60 (61)
T PRK09400 2 SSNKLQENVKNFLEDYKRVLKVARKPTREEFLLVAKVTGLGILLIGLIGFIIYLIMTLL 60 (61)
T ss_pred cHHHHHHhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35678999999999999999999999999999999999999999999999999999765
No 6
>PF00584 SecE: SecE/Sec61-gamma subunits of protein translocation complex; InterPro: IPR001901 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. SecE, part of the main SecYEG translocase complex, is ~106 residues in length, and spans the inner membrane of the Gram-negative bacterial envelope. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. In eukaryotes, the evolutionary related protein sec61-gamma plays a role in protein translocation through the endoplasmic reticulum; it is part of a trimeric complex that also consist of sec61-alpha and beta []. Both secE and sec61-gamma are small proteins of about 60 to 90 amino acids that contain a single transmembrane region at their C-terminal extremity (Escherichia coli secE is an exception, in that it possess an extra N-terminal segment of 60 residues that contains two additional transmembrane domains) [].; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0016020 membrane; PDB: 3J01_B 2WW9_B 2WWA_B 3DL8_C 2WWB_B 3DIN_G 2ZJS_E 2ZQP_E.
Probab=98.86 E-value=7.4e-09 Score=59.60 Aligned_cols=55 Identities=27% Similarity=0.484 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Q 035240 11 LRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNII 65 (69)
Q Consensus 11 ~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~nii 65 (69)
+.+|+++.++-+++++.||++|..+.+.++.++.+++|++.|.+..++.++.+.+
T Consensus 2 ~~~f~~~~~~Elkkv~WP~~~e~~~~t~~Vl~~~~i~~~~~~~vD~~~~~~~~~i 56 (57)
T PF00584_consen 2 IKNFFREVKKELKKVTWPSRKELLKSTIIVLVFVIIFGLFFFLVDLIFSWLLNLI 56 (57)
T ss_dssp CHHHHHCHHHHHHHHHCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999999999999999999999999999999999988765
No 7
>PRK07597 secE preprotein translocase subunit SecE; Reviewed
Probab=95.11 E-value=0.32 Score=28.38 Aligned_cols=52 Identities=23% Similarity=0.387 Sum_probs=42.0
Q ss_pred hhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIF 58 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ 58 (69)
......+|++|.+.=+|+.+=|+|+|-.+...++.+-.++++++=|.+-.++
T Consensus 6 ~~~~~~~f~~~~~~ElkkV~WPs~~e~~~~t~~Vi~~~~~~~~~i~~vD~~~ 57 (64)
T PRK07597 6 KMKKLKKFFKDVKAELKKVTWPTRKELVRSTIVVLVFVAFFALFFYLVDLLF 57 (64)
T ss_pred HhHHHHHHHHHHHHHHhhCcCcCHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456789999999999999999999999988888877777776666655444
No 8
>PRK05740 secE preprotein translocase subunit SecE; Reviewed
Probab=94.78 E-value=0.24 Score=31.25 Aligned_cols=50 Identities=22% Similarity=0.284 Sum_probs=38.7
Q ss_pred hhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 9 DPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIF 58 (69)
Q Consensus 9 e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ 58 (69)
....+|++|.+.=+|+++=|+|+|-.+..-++.+-.+++++.=+.+-.++
T Consensus 34 ~~~~~F~k~v~~ElkKV~WPtr~e~~~~t~~Viv~~~i~~l~i~~~D~~~ 83 (92)
T PRK05740 34 KAFFAFAKESRTEVRKVVWPTRQETLQTTLIVIAVVIVMALILWGLDSIL 83 (92)
T ss_pred HHHHHHHHHHHHHhhhccCcCHHHHHhHHHHHhhHHHHHHHHHHHHHHHH
Confidence 34678999999999999999999999888887777766665544444333
No 9
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=94.76 E-value=0.17 Score=30.61 Aligned_cols=53 Identities=11% Similarity=0.195 Sum_probs=43.1
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 2 DAIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFV 54 (69)
Q Consensus 2 ~~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiI 54 (69)
|+++.+.+...+.-.++..|-+.+++=.++.+++-.|...+.++++.++-++|
T Consensus 31 e~L~~L~~kt~~L~~~a~~F~k~a~~l~r~~~~~~~k~~~i~~~iv~~~~~~i 83 (89)
T PF00957_consen 31 EKLEELEDKTEELSDNAKQFKKNAKKLKRKMWWRNYKLYIIIIIIVIIIILII 83 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhhhhhHH
Confidence 45777788888888999999999999999999999888877777766666664
No 10
>TIGR00964 secE_bact preprotein translocase, SecE subunit, bacterial. This model represents exclusively the bacterial (and some organellar) SecE protein. SecE is part of the core heterotrimer, SecYEG, of the Sec preprotein translocase system. Other components are the ATPase SecA, a cytosolic chaperone SecB, and an accessory complex of SecDF and YajC.
Probab=93.67 E-value=0.59 Score=26.63 Aligned_cols=47 Identities=21% Similarity=0.279 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 12 RDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIF 58 (69)
Q Consensus 12 ~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ 58 (69)
.+|++|.+.=+|+.+=|+|+|-.+...++.+-.++++++=+.+-.++
T Consensus 2 ~~f~~~~~~ElkkV~WPt~~e~~~~t~~Vi~~~~~~~~~~~~~D~~~ 48 (55)
T TIGR00964 2 FKFFKEVKAELKKVVWPSRKELITYTIVVIVFVIFFSLFLFGVDYVF 48 (55)
T ss_pred hhHHHHHHHHHhcCcCcCHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46889999999999999999999988888777777766655554443
No 11
>COG0690 SecE Preprotein translocase subunit SecE [Intracellular trafficking and secretion]
Probab=88.62 E-value=3.8 Score=24.77 Aligned_cols=50 Identities=14% Similarity=0.199 Sum_probs=40.6
Q ss_pred hhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 8 FDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 8 ~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI 57 (69)
-+...+|+++.+.=+++-+=|+|+|-.+...++..-.++++++=|++-..
T Consensus 17 ~k~~~~f~~~~~~E~~KV~WPsrke~~~~t~~Vl~~v~~~s~~~~~~D~l 66 (73)
T COG0690 17 GKKFFNFFKEVRKELKKVVWPTRKELIRSTLIVLVVVAFFSLFLYGLDQL 66 (73)
T ss_pred hHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34458999999999999999999999998888887777777666665443
No 12
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=78.64 E-value=2.9 Score=28.78 Aligned_cols=25 Identities=20% Similarity=0.317 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 33 FTKVAFRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 33 f~~~~k~~~lG~~i~G~IGfiIklI 57 (69)
+.++....+.|.+..|++||.|++=
T Consensus 4 ~~~~~~~~~ag~a~~~flgYciYFD 28 (148)
T TIGR00985 4 SNKSNVVIAAGIAAAAFLGYAIYFD 28 (148)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4455667788999999999999864
No 13
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.66 E-value=5.2 Score=29.86 Aligned_cols=56 Identities=25% Similarity=0.297 Sum_probs=42.4
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035240 2 DAIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPI 61 (69)
Q Consensus 2 ~~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI 61 (69)
|.++.-+|......++...=|++|-+=.++-.... .++.++.|.+|+++-++..-+
T Consensus 211 DsIe~nve~a~~nveqg~~~L~kA~~yq~~~~k~~----~~ll~v~~~v~lii~l~i~~~ 266 (269)
T KOG0811|consen 211 DSIEANVENASVNVEQGTENLRKAAKYQRKARKKK----CILLLVGGPVGLIIGLIIAGI 266 (269)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCch----hhhhHHHHHHHHHHHHHHHHh
Confidence 56667788889999999999999987776655554 566677777888877765443
No 14
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=72.65 E-value=26 Score=23.46 Aligned_cols=51 Identities=18% Similarity=0.214 Sum_probs=35.1
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH-HHHHHHHHHHHHH
Q 035240 3 AIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRT-AIGFVVMGFVGFF 53 (69)
Q Consensus 3 ~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~-~lG~~i~G~IGfi 53 (69)
+++++-+...+.-..+..|-+.+.|=-|+-.++-+|.. .+|+.++.++..+
T Consensus 58 kL~~L~drad~L~~~as~F~~~A~klkrk~wWkn~Km~~il~~v~~i~l~ii 109 (116)
T KOG0860|consen 58 KLDELDDRADQLQAGASQFEKTAVKLKRKMWWKNCKMRIILGLVIIILLVVI 109 (116)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777777777888888888888888877777754 4444444444444
No 15
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=72.58 E-value=10 Score=27.15 Aligned_cols=33 Identities=15% Similarity=0.309 Sum_probs=25.0
Q ss_pred HHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 22 VKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 22 lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
.+..++||++++.+..+.+-+.++ +|.++|.+-
T Consensus 243 ~~~~~~~~~~~~~~~~~~~~~~m~-~g~~~~~~~ 275 (279)
T PRK09573 243 LILLKNPSIEGASKASKYLKIIMI-LGLIAFLIG 275 (279)
T ss_pred HHHHcCCCHHHHHHHHHHHHHHHH-HHHHHHHHh
Confidence 344568999999888888777765 888888753
No 16
>cd07669 BAR_SNX33 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 33. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX33 interacts with Wiskott-Aldrich syndrome protein (WASP) and plays a role in the maintenance of cell shape and cell cycle progression. It modulates the shedding and endocytosis of cellular prion protein (PrP(c)) and amyloid precursor protein (APP). BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=69.44 E-value=18 Score=26.27 Aligned_cols=28 Identities=25% Similarity=0.290 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 11 LRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 11 ~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
+++...-+.-+.|||.-|-++||+++..
T Consensus 28 vk~l~~~~~e~~kk~~~~~kkEyqkiG~ 55 (207)
T cd07669 28 VLQLSNVASELVRKHLGGFRKEFQKLGN 55 (207)
T ss_pred HHHHHHHHHHHHHHHcccccHHHHHHHH
Confidence 3444444566789999999999999987
No 17
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=69.20 E-value=15 Score=21.85 Aligned_cols=35 Identities=11% Similarity=0.348 Sum_probs=21.8
Q ss_pred hhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHH
Q 035240 9 DPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVV 46 (69)
Q Consensus 9 e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i 46 (69)
|.+.+.-+..++++. +-|+||.|.-+. ++..||++
T Consensus 5 eiPe~L~~~m~~fie--~hP~WDQ~Rl~~-aALa~FL~ 39 (57)
T PF10929_consen 5 EIPEDLHQAMKDFIE--THPNWDQYRLFQ-AALAGFLL 39 (57)
T ss_pred cccHHHHHHHHHHHH--cCCCchHHHHHH-HHHHHHHH
Confidence 445555555566654 679999997554 44555554
No 18
>PF02673 BacA: Bacitracin resistance protein BacA; InterPro: IPR003824 This is a family of small, highly hydrophobic proteins. Over-expression of this protein in Escherichia coli is associated with bacitracin resistance [], and the protein was originally proposed to be an undecaprenol kinase called bacA. BacA protein, however, does not show undecaprenol phosphokinase activity []. It is now known to be an undecaprenyl pyrophosphate phosphatase (3.6.1.27 from EC) and is renamed UppP. It is not the only protein associated with bacitracin resistance [, ].; GO: 0050380 undecaprenyl-diphosphatase activity, 0016311 dephosphorylation, 0016020 membrane
Probab=66.62 E-value=20 Score=26.23 Aligned_cols=52 Identities=23% Similarity=0.303 Sum_probs=38.5
Q ss_pred hhhhHHHHHHHHHHHHHHhcCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRCHKP---DRKEFTKVAFRTAIGFVVMGFVGFFVKLIF 58 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~KP---d~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ 58 (69)
+...+--|++|+.++++..-+. ..+|..+......+|.+-.|++|+..+-..
T Consensus 49 llAvl~~fr~~i~~~~~~~~~~~~~~~~~~~~~~~~iiiatip~~v~G~~~~~~i 103 (259)
T PF02673_consen 49 LLAVLIYFRKDIWRLLKGFFRGLRGRSNPDRRLLLLIIIATIPTGVVGLLFKDFI 103 (259)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455667888888888876554 456667777778899999999999876443
No 19
>PF10617 DUF2474: Protein of unknown function (DUF2474); InterPro: IPR018895 This family of short proteins has no known function.
Probab=65.87 E-value=21 Score=19.78 Aligned_cols=33 Identities=21% Similarity=0.346 Sum_probs=24.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 035240 27 KPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFI 59 (69)
Q Consensus 27 KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~i 59 (69)
||.++-..=.+-+=+.+.+.+|.+++.+|+.+-
T Consensus 2 ~~~wkRl~W~v~iW~~SV~aL~~va~~~Rllm~ 34 (40)
T PF10617_consen 2 KPLWKRLGWFVLIWAASVLALGVVAMLFRLLMT 34 (40)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555445555667788999999999998763
No 20
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=65.17 E-value=18 Score=19.17 Aligned_cols=26 Identities=15% Similarity=0.217 Sum_probs=21.3
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHH
Q 035240 18 SLRLVKRCHKPDRKEFTKVAFRTAIG 43 (69)
Q Consensus 18 ~~r~lk~~~KPd~~Ef~~~~k~~~lG 43 (69)
-.+....+..||.+|...+|..+++.
T Consensus 15 L~~~f~~~~~P~~~~~~~la~~~~l~ 40 (56)
T smart00389 15 LEKEFQKNPYPSREEREELAAKLGLS 40 (56)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHCcC
Confidence 34566788899999999999988764
No 21
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=64.25 E-value=28 Score=22.49 Aligned_cols=32 Identities=19% Similarity=0.262 Sum_probs=23.2
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH
Q 035240 17 DSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMG 48 (69)
Q Consensus 17 ~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G 48 (69)
+..|-++--+.|+++-+...+.+..+|+-++.
T Consensus 23 ~~~R~~~a~r~~~~~~~~~l~~~g~IG~~~v~ 54 (100)
T TIGR02230 23 KELRKLRARKNATRSIWEGLGMFGLIGWSVAI 54 (100)
T ss_pred HHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH
Confidence 44455544445999999999988888887664
No 22
>cd07626 BAR_SNX9_like The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9 and Similar Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX9, SNX18, SNX33, and similar proteins. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosis, while SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains for
Probab=62.93 E-value=28 Score=24.68 Aligned_cols=32 Identities=19% Similarity=0.353 Sum_probs=25.4
Q ss_pred hhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
+-+.++++..-..-..++|.-|-++||+++..
T Consensus 16 md~svk~l~~~~~~~~kk~~~~~kkeyqk~G~ 47 (199)
T cd07626 16 MDDSVKNLINIAQEQAKKHQGPYKKEYQKIGQ 47 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence 34455666666777889999999999999987
No 23
>cd07670 BAR_SNX18 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 18. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=62.85 E-value=29 Score=25.30 Aligned_cols=35 Identities=11% Similarity=0.204 Sum_probs=25.6
Q ss_pred hhHHHHHHHHHHHHHHhcCCCHHHHHHHHH-HHHHH
Q 035240 9 DPLRDFAKDSLRLVKRCHKPDRKEFTKVAF-RTAIG 43 (69)
Q Consensus 9 e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k-~~~lG 43 (69)
+.+++...-+.-+.|+|.-|-++||+++-. ..+++
T Consensus 26 ~sv~~l~~~~~e~~kk~~~~~KkEyqkiG~af~~Ls 61 (207)
T cd07670 26 ESVLQLNHTANEFARKQVTGFKKEYQKVGQSFKGLS 61 (207)
T ss_pred HHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence 334455555667889999999999999988 44443
No 24
>cd07668 BAR_SNX9 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX9, also known as SH3PX1, is a cytosolic protein that interacts with proteins associated with clathrin-coated pits such as Cdc-42-associated tyrosine kinase 2 (ACK2). It binds class I polyproline sequences found in dynamin 1/2 and the WASP/N-WASP actin regulators. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosi
Probab=62.40 E-value=29 Score=25.29 Aligned_cols=33 Identities=21% Similarity=0.387 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHH-HHHHH
Q 035240 11 LRDFAKDSLRLVKRCHKPDRKEFTKVAF-RTAIG 43 (69)
Q Consensus 11 ~~~f~~~~~r~lk~~~KPd~~Ef~~~~k-~~~lG 43 (69)
+++...-+.-+.|+|.-|-++||+++-. ..+++
T Consensus 28 vk~l~~~~~e~~kk~~~~~KkEyqkiG~af~~Ls 61 (210)
T cd07668 28 VKELLTVGQEHWKRCTGPLPKEYQKIGKALQSLA 61 (210)
T ss_pred HHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHH
Confidence 3444444566789999999999999987 34443
No 25
>PF02167 Cytochrom_C1: Cytochrome C1 family; InterPro: IPR002326 Cytochrome bc1 complex (ubiquinol:ferricytochrome c oxidoreductase) is found in mitochondria, photosynthetic bacteria and other prokaryotes. It is minimally composed of three subunits: cytochrome b, carrying a low- and a high-potential haem group; cytochrome c1 (cyt c1); and a high-potential Rieske iron-sulphur protein. The general function of the complex is electron transfer between two mobile redox carriers, ubiquinol and cytochrome c; the electron transfer is coupled with proton translocation across the membrane, thus generating proton-motive force in the form of an electrochemical potential that can drive ATP synthesis. In its structure and functions, the cytochrome bc1 complex bears extensive analogy to the cytochrome b6f complex of chloroplasts and cyanobacteria; cyt c1 plays an analogous role to cytochrome f, in spite of their different structures [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1P84_D 2IBZ_D 1EZV_D 3CX5_O 3CXH_O 1KB9_D 1KYO_D 1ZRT_Q 2CA4_B 2C9X_B ....
Probab=60.44 E-value=62 Score=23.41 Aligned_cols=48 Identities=13% Similarity=0.347 Sum_probs=36.9
Q ss_pred hhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 8 FDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 8 ~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
-+...+..+|-..||.-+.-|.++|=.++..-+.+-++++.++.|..|
T Consensus 165 ~at~~q~a~DVv~FL~w~aeP~~~~R~~~G~~vl~fL~il~~l~y~~k 212 (219)
T PF02167_consen 165 PATVDQMAKDVVNFLAWAAEPEKDERKRMGLKVLGFLLILTVLAYLLK 212 (219)
T ss_dssp ---HHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355789999999999999999999988887777777777777777654
No 26
>PF08928 DUF1910: Domain of unknown function (DUF1910); InterPro: IPR015024 This domain is found in hypothetical bacterial proteins.
Probab=59.90 E-value=40 Score=20.99 Aligned_cols=38 Identities=8% Similarity=0.311 Sum_probs=28.4
Q ss_pred hhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHH
Q 035240 8 FDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVV 46 (69)
Q Consensus 8 ~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i 46 (69)
++.+++++.+...-+..+--++ ..|.......++|+++
T Consensus 66 i~~l~~~~~~~l~~~e~~~~~~-~~Y~~~lwllsLgiLL 103 (117)
T PF08928_consen 66 IEELKPYYPNILDYFEEIWDEN-DGYIYMLWLLSLGILL 103 (117)
T ss_pred HHHHHHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHH
Confidence 3456666666666667777777 6699999999999875
No 27
>PRK00281 undecaprenyl pyrophosphate phosphatase; Reviewed
Probab=59.19 E-value=55 Score=24.11 Aligned_cols=51 Identities=14% Similarity=0.219 Sum_probs=35.2
Q ss_pred hhhhHHHHHHHHHHHHHH--hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKR--CHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~--~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI 57 (69)
+...+--|++|..++++- .++.++++..+......+|.+-.|.+|+..+-.
T Consensus 55 llAvl~~fr~di~~~~~~~~~~~~~~~~~~~l~~~iii~tiP~~i~Gl~~~~~ 107 (268)
T PRK00281 55 ILAVVVYFRRRLWRLLGGSGKGGRGDREDRRLLLLVIVATIPAGVLGLLFKDF 107 (268)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455567789998888753 122223345566777789999999999998743
No 28
>PF09925 DUF2157: Predicted membrane protein (DUF2157); InterPro: IPR018677 This family of various hypothetical prokaryotic proteins has no known function.
Probab=57.36 E-value=43 Score=21.78 Aligned_cols=35 Identities=11% Similarity=0.269 Sum_probs=24.6
Q ss_pred HHHHHHhcC-CCHHH-HHHHHHHHHHHHHHHHHHHHH
Q 035240 19 LRLVKRCHK-PDRKE-FTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 19 ~r~lk~~~K-Pd~~E-f~~~~k~~~lG~~i~G~IGfi 53 (69)
.++++.... |++.. +.++....|..++..|++=|+
T Consensus 16 ~~i~~~~~~~~~~~~~~~~~l~~lGall~~~gii~fv 52 (145)
T PF09925_consen 16 EAILAFYGERPSRSSWLARILLYLGALLLGLGIILFV 52 (145)
T ss_pred HHHHHHhhccccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444333 67777 888888888888888887665
No 29
>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []. Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].
Probab=56.04 E-value=14 Score=18.20 Aligned_cols=22 Identities=23% Similarity=0.255 Sum_probs=17.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHH
Q 035240 27 KPDRKEFTKVAFRTAIGFVVMG 48 (69)
Q Consensus 27 KPd~~Ef~~~~k~~~lG~~i~G 48 (69)
+.+|.+|.+.+-+++.+..+-|
T Consensus 1 ~~sRR~fLk~~~a~~a~~~~~~ 22 (26)
T PF10518_consen 1 NLSRRQFLKGGAAAAAAAALGG 22 (26)
T ss_pred CCcHHHHHHHHHHHHHHHHhcc
Confidence 5789999999988888776544
No 30
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=55.75 E-value=12 Score=21.08 Aligned_cols=25 Identities=16% Similarity=0.329 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Q 035240 37 AFRTAIGFVVMGFVGFFVKLIFIPI 61 (69)
Q Consensus 37 ~k~~~lG~~i~G~IGfiIklI~ipI 61 (69)
..+..++.+++|+.||.++.-+=|=
T Consensus 6 ~~~i~i~~~lv~~Tgy~iYtaFGpp 30 (43)
T PF02468_consen 6 VLAIFISCLLVSITGYAIYTAFGPP 30 (43)
T ss_pred eHHHHHHHHHHHHHhhhhhheeCCC
Confidence 4567788999999999998776553
No 31
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=55.34 E-value=11 Score=22.17 Aligned_cols=19 Identities=26% Similarity=0.579 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 035240 37 AFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 37 ~k~~~lG~~i~G~IGfiIk 55 (69)
..=+.+|.++.|++||++|
T Consensus 53 ~~r~iiGaiI~~i~~~i~K 71 (71)
T PF10779_consen 53 IWRTIIGAIITAIIYLIIK 71 (71)
T ss_pred HHHHHHHHHHHHHHHHHhC
Confidence 3346678788888887764
No 32
>PF05230 MASE2: MASE2 domain; InterPro: IPR007894 This domain of unknown function is often found adjacent to the GGDEF domain in bacteria (IPR000160 from INTERPRO).
Probab=53.69 E-value=19 Score=22.72 Aligned_cols=34 Identities=26% Similarity=0.454 Sum_probs=27.8
Q ss_pred HHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 20 RLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 20 r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
+.-++++.|.+.|+....--+.+|=+-+|..||-
T Consensus 48 ~~a~rs~~p~~~E~~nLl~Da~~~G~wia~m~fn 81 (91)
T PF05230_consen 48 QLARRSRDPYRAEQRNLLIDAAFGGFWIALMGFN 81 (91)
T ss_pred HHHHhCCChHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 3345699999999999999888888888887763
No 33
>TIGR00753 undec_PP_bacA undecaprenyl-diphosphatase UppP. This is a family of small, highly hydrophobic proteins. Overexpression of this protein in Escherichia coli is associated with bacitracin resistance, and the protein was originally proposed to be an undecaprenol kinase and called bacA. It is now known to be an undecaprenyl pyrophosphate phosphatase (EC 3.6.1.27) and is renamed UppP.
Probab=52.78 E-value=83 Score=23.05 Aligned_cols=51 Identities=14% Similarity=0.152 Sum_probs=34.5
Q ss_pred hhhhHHHHHHHHHHHHHHhc----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRCH----KPDRKEFTKVAFRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~----KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI 57 (69)
++..+--|++|..++++..- ++++++..+......+|.+-.|.+|+..+-.
T Consensus 47 llAVl~~fr~di~~l~~~~~~~~~~~~~~~~~~l~~~iii~tiP~~i~Gl~~~~~ 101 (255)
T TIGR00753 47 ILAVVIYFWRRILRLLGIWIRFSTRKTESSDLLLLKLILLGLIPTVVLGLLFKDL 101 (255)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556678888888765421 1223244566677779999999999998754
No 34
>KOG4455 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.40 E-value=30 Score=23.07 Aligned_cols=38 Identities=21% Similarity=0.373 Sum_probs=24.9
Q ss_pred CCHHHHHHHHHHHHHH----HHH-HHHHHHHHHHHHhhccccc
Q 035240 28 PDRKEFTKVAFRTAIG----FVV-MGFVGFFVKLIFIPINNII 65 (69)
Q Consensus 28 Pd~~Ef~~~~k~~~lG----~~i-~G~IGfiIklI~ipI~nii 65 (69)
|.+=||.+.+..+..| |+- =|+.||+-+++...|+-++
T Consensus 23 ~kvl~f~Rt~~s~i~G~aAGILGltg~~GFi~Y~l~~~i~~il 65 (110)
T KOG4455|consen 23 KKVLEFVRTSSSAIAGCAAGILGLTGLHGFIFYFLSVLILSIL 65 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Confidence 4445666666655544 443 3889999998887777554
No 35
>cd07912 Tweety_N N-terminal domain of the protein encoded by the Drosophila tweety gene and related proteins, a family of chloride ion channels. The protein product of the Drosophila tweety (tty) gene is thought to form a trans-membrane protein with five membrane-spanning regions and a cytoplasmic C-terminus. This N-terminal domain contains the putative transmembrane spanning regions. Tweety has been suggested as a candidate for a large conductance chloride channel, both in vertebrate and insect cells. Three human homologs have been identified and designated TTYH1-3. TTYH2 has been associated with the progression of cancer, and Drosophila melanogaster tweety has been assumed to play a role in development. TTYH2, and TTYH3 bind to and are ubiquinated by Nedd4-2, a HECT type E3 ubiquitin ligase, which most likely plays a role in controlling the cellular levels of tweety family proteins.
Probab=51.57 E-value=33 Score=27.00 Aligned_cols=33 Identities=9% Similarity=0.140 Sum_probs=23.2
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 035240 26 HKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFI 59 (69)
Q Consensus 26 ~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~i 59 (69)
=.|+.++|+++.-.+|. ++.++++.+.+-++.+
T Consensus 28 F~p~~~~Y~~Sv~~~a~-iaavwlil~ll~ll~~ 60 (418)
T cd07912 28 FNPEDEIYQQSLLILAS-IPAACLILSLLFLLVY 60 (418)
T ss_pred CCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence 37999999998888777 5555665555555433
No 36
>PF10456 BAR_3_WASP_bdg: WASP-binding domain of Sorting nexin protein; InterPro: IPR019497 The C-terminal region of the Sorting nexin group of proteins appears to carry a BAR-like (Bin/amphiphysin/Rvs) domain. This domain is very diverse and the similarities with other BAR domains are few. In the Sorting nexins it is associated with IPR001683 from INTERPRO, and in combination with PX appears to be necessary to bind WASP along with p85 to form a multimeric signalling complex []. ; PDB: 2RAK_A 2RAI_A 3DYU_C 2RAJ_A 3DYT_A.
Probab=51.16 E-value=31 Score=25.14 Aligned_cols=33 Identities=18% Similarity=0.312 Sum_probs=26.7
Q ss_pred hhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035240 8 FDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRT 40 (69)
Q Consensus 8 ~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~ 40 (69)
=+.++.+...+..+.|+|.-|-++||+++..+.
T Consensus 54 d~sv~~l~~~~~~~~kk~~~~~kkE~qkiG~af 86 (237)
T PF10456_consen 54 DDSVKQLSSVANEFAKKHQGPFKKEYQKIGQAF 86 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 345566777788889999999999999987754
No 37
>PRK12554 undecaprenyl pyrophosphate phosphatase; Reviewed
Probab=48.96 E-value=1e+02 Score=22.91 Aligned_cols=51 Identities=27% Similarity=0.446 Sum_probs=34.3
Q ss_pred hhhhHHHHHHHHHHHHHH----h--cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKR----C--HKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~----~--~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI 57 (69)
+...+--|++|..++++. . +++.+++..+.+....+|.+-.|.+|+..+-.
T Consensus 52 llAVl~~fr~di~~~~~~~~~~~~~~~~~~~~~~~l~~~iivatiP~~i~Gl~l~~~ 108 (276)
T PRK12554 52 LLAVLLYFRKDIIRIIKNFFSSLFGRKPKAKSDARFGWYIIIGTIPAGVLGLLFKDR 108 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhccccccccchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566788888777653 1 12222244567777889999999999988753
No 38
>TIGR00397 mauM_napG MauM/NapG family ferredoxin-type protein. MauM is involved in methylamine utilization. NapG is associated with nitrate reductase activity. The two proteins are highly similar.
Probab=48.33 E-value=33 Score=24.12 Aligned_cols=14 Identities=36% Similarity=0.506 Sum_probs=10.5
Q ss_pred CCCHHHHHHHHHHH
Q 035240 27 KPDRKEFTKVAFRT 40 (69)
Q Consensus 27 KPd~~Ef~~~~k~~ 40 (69)
||||.+|.+.+.-.
T Consensus 1 ~~~rr~~~~~~~~~ 14 (213)
T TIGR00397 1 KPERRDAFADAARA 14 (213)
T ss_pred CccHHHHHHHHHHH
Confidence 79999988655443
No 39
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=47.79 E-value=22 Score=27.29 Aligned_cols=38 Identities=13% Similarity=0.141 Sum_probs=32.9
Q ss_pred hhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVM 47 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~ 47 (69)
|-|..|.+++||.+ .+.-|+.+|=..+|++||+-+.=|
T Consensus 183 FKekSR~~LrewY~---~~~YPsp~eKReLA~aTgLt~tQV 220 (304)
T KOG0775|consen 183 FKEKSRSLLREWYL---QNPYPSPREKRELAEATGLTITQV 220 (304)
T ss_pred hhHhhHHHHHHHHh---cCCCCChHHHHHHHHHhCCchhhh
Confidence 67888999999987 899999999999999999865433
No 40
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=46.97 E-value=14 Score=21.21 Aligned_cols=24 Identities=21% Similarity=0.382 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 035240 37 AFRTAIGFVVMGFVGFFVKLIFIP 60 (69)
Q Consensus 37 ~k~~~lG~~i~G~IGfiIklI~ip 60 (69)
..+..++.+++|+.||.++.-+=|
T Consensus 9 ~~~i~i~~lL~~~TgyaiYtaFGp 32 (46)
T PRK13183 9 SLAITILAILLALTGFGIYTAFGP 32 (46)
T ss_pred HHHHHHHHHHHHHhhheeeeccCC
Confidence 445678889999999998876544
No 41
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=46.50 E-value=25 Score=24.02 Aligned_cols=29 Identities=21% Similarity=0.527 Sum_probs=24.8
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHhcCCCH
Q 035240 2 DAIDNVFDPLRDFAKDSLRLVKRCHKPDR 30 (69)
Q Consensus 2 ~~~~~~~e~~~~f~~~~~r~lk~~~KPd~ 30 (69)
+..+++.+.+++|.++-.++...+++||+
T Consensus 132 ~~~~ki~~~i~~fRk~i~~i~~~~~~~~~ 160 (171)
T PF14394_consen 132 EDYEKIKKEIREFRKKIIAIAEEDKEPDR 160 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCe
Confidence 35678889999999999999999988874
No 42
>PF14325 DUF4383: Domain of unknown function (DUF4383)
Probab=46.31 E-value=19 Score=23.77 Aligned_cols=20 Identities=25% Similarity=0.625 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 035240 34 TKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 34 ~~~~k~~~lG~~i~G~IGfi 53 (69)
+..+.+.++-++++|.+||+
T Consensus 2 q~~al~~G~~fl~~GilGFi 21 (125)
T PF14325_consen 2 QYAALVIGVVFLLLGILGFI 21 (125)
T ss_pred hhHHHHHHHHHHHHHHHhCc
Confidence 45688999999999999998
No 43
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=46.23 E-value=31 Score=26.14 Aligned_cols=22 Identities=23% Similarity=0.526 Sum_probs=13.8
Q ss_pred HHHHHhcCCCHHHHHHHHHHHH
Q 035240 20 RLVKRCHKPDRKEFTKVAFRTA 41 (69)
Q Consensus 20 r~lk~~~KPd~~Ef~~~~k~~~ 41 (69)
.+-.+|+|||.++|..+++-..
T Consensus 90 ~~as~~kKP~~~~~~~lL~Pl~ 111 (312)
T PF01213_consen 90 LVASKCKKPDQSELQELLKPLS 111 (312)
T ss_dssp HHHHHBE---HHHHHHHCHHHH
T ss_pred HHHHccCCCChhhHHHHHHHHH
Confidence 3446799999999999877543
No 44
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=45.94 E-value=46 Score=17.53 Aligned_cols=22 Identities=18% Similarity=0.255 Sum_probs=18.3
Q ss_pred HHHhcCCCHHHHHHHHHHHHHH
Q 035240 22 VKRCHKPDRKEFTKVAFRTAIG 43 (69)
Q Consensus 22 lk~~~KPd~~Ef~~~~k~~~lG 43 (69)
...+..|+.+|...+|..+++.
T Consensus 19 f~~~~~P~~~~~~~la~~~~l~ 40 (59)
T cd00086 19 FEKNPYPSREEREELAKELGLT 40 (59)
T ss_pred HHhCCCCCHHHHHHHHHHHCcC
Confidence 3449999999999999988754
No 45
>PF06589 CRA: Circumsporozoite-related antigen (CRA); InterPro: IPR009512 The mode of choroquine action or resistance of the malarial parasite Plasmodium falciparum is not fully elucidated and presents a huge challenge world wide. Plasmodial EXP-1 protein, also called circumsporozoite-related antigen, changes under chloroquine treatment, making it a potential chloroquine resistance marker []. Although there are no authentic repeats in this antigen, there are a number of internal homologies (N-A-N-P) and (N-A-D-P). The first of these tetramers is the dominant repeat found in the circumsporozoite protein (CSP) of P. falciparum and reacts with antibodies against circumsporozoite-related antigen (CRA). It is possible that immune responses to CRA may act against the CSP also. The CRA is found in many parasitic strains.
Probab=45.73 E-value=50 Score=23.08 Aligned_cols=46 Identities=28% Similarity=0.476 Sum_probs=32.4
Q ss_pred hhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH---HHHHHHHHH
Q 035240 8 FDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGF---VVMGFVGFF 53 (69)
Q Consensus 8 ~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~---~i~G~IGfi 53 (69)
-|.+.+.++.-..+.++.+|-.+=--..++.++++|. +++|.+|.+
T Consensus 50 hdLisdmv~KeeElv~~~K~kkkyk~~t~aLAsalgvvsa~LLgg~Glv 98 (157)
T PF06589_consen 50 HDLISDMVKKEEELVNVTKKKKKYKLATVALASALGVVSAVLLGGAGLV 98 (157)
T ss_pred HHHHHHHHHhHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhccceeE
Confidence 3445555555566788877766666677888899998 788877754
No 46
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=45.56 E-value=61 Score=22.92 Aligned_cols=32 Identities=22% Similarity=0.290 Sum_probs=22.3
Q ss_pred HHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 23 KRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 23 k~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
+..+.||++++.+.-...-.| .++|.++|.+-
T Consensus 245 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 276 (279)
T PRK12884 245 SLLRSQDRETIRKVRKITLTA-MLLALVAFALG 276 (279)
T ss_pred HHhcCCCHHHHHHHHHHHHHH-HHHHHHHHHHh
Confidence 345578888888876666666 66788887653
No 47
>PF12955 DUF3844: Domain of unknown function (DUF3844); InterPro: IPR024382 This presumed domain is found in fungal species. It contains 8 largely conserved cysteine residues. This domain is found in proteins thought to be located in the endoplasmic reticulum.
Probab=45.41 E-value=35 Score=22.28 Aligned_cols=22 Identities=14% Similarity=0.205 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 035240 38 FRTAIGFVVMGFVGFFVKLIFI 59 (69)
Q Consensus 38 k~~~lG~~i~G~IGfiIklI~i 59 (69)
..++..+++++++++.|+|++.
T Consensus 70 L~~~~ti~lv~~~~~~I~lL~s 91 (103)
T PF12955_consen 70 LFAGFTIALVVLVAGAIGLLFS 91 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788899999999998874
No 48
>PF13789 DUF4181: Domain of unknown function (DUF4181)
Probab=44.64 E-value=39 Score=21.39 Aligned_cols=30 Identities=13% Similarity=0.272 Sum_probs=24.3
Q ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 24 RCHKPDRKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 24 ~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
.=-.++.+||.-+.-.++.++++.|++.|+
T Consensus 80 WKy~resK~yi~sl~~~~~~l~i~~~~~~~ 109 (110)
T PF13789_consen 80 WKYDRESKEYILSLIGAVFFLLIFGIMIYF 109 (110)
T ss_pred HHhcccchhhhhhHHHHHHHHHHHHHHHHh
Confidence 334788999999998888888888888775
No 49
>cd05171 PIKKc_ATM Ataxia telangiectasia mutated (ATM), catalytic domain; The ATM catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. ATM is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). ATM contains a FAT (FRAP, ATM and TRRAP) domain, a catalytic domain, and a FATC domain at the C-terminus. ATM is critical in the response to DNA double strand breaks (DSBs) caused by radiation. It is activated at the site of a DSB and phosphorylates key substrates that trigger pathways that regulate DNA repair and cell cycle checkpoints at the G1/S, S phase, and G2/M transi
Probab=44.58 E-value=1e+02 Score=22.34 Aligned_cols=41 Identities=17% Similarity=0.216 Sum_probs=30.7
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Q 035240 26 HKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNIIV 66 (69)
Q Consensus 26 ~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~niiv 66 (69)
+-||.++|.+.-+--+--.+++.++||++.+-=-=-.||++
T Consensus 155 ~~~~~~~~~~~r~~F~~S~A~~s~~~yilglgDRh~~NIll 195 (279)
T cd05171 155 KFLDPQDWFERRLAYTRSVATSSIVGYILGLGDRHANNILI 195 (279)
T ss_pred HCcCHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCcccEEE
Confidence 45788899888888889999999999998764333334443
No 50
>KOG3415 consensus Putative Rab5-interacting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.43 E-value=46 Score=22.67 Aligned_cols=12 Identities=33% Similarity=0.681 Sum_probs=9.2
Q ss_pred CCCHHHHHHHHH
Q 035240 27 KPDRKEFTKVAF 38 (69)
Q Consensus 27 KPd~~Ef~~~~k 38 (69)
=||+|||..+..
T Consensus 35 W~DKdellDViy 46 (129)
T KOG3415|consen 35 WPDKDELLDVIY 46 (129)
T ss_pred CCCHHHHHHHHH
Confidence 358999988754
No 51
>PF01788 PsbJ: PsbJ; InterPro: IPR002682 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbJ found in PSII. PsbJ is one of the most hydrophobic proteins in the thylakoid membrane, and is located in a gene cluster with PsbE, PsbF and PsbL (PsbEFJL). Both PsbJ and PsbL (IPR003372 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbJ cause the light-harvesting antenna to remain detached from the PSII dimers []. In addition, both PsbJ and PsbL are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_J 3ARC_J 3A0B_J 3KZI_J 2AXT_J 3PRQ_J 4FBY_b 3BZ2_J 1S5L_j 3PRR_J ....
Probab=44.02 E-value=49 Score=18.44 Aligned_cols=18 Identities=39% Similarity=0.743 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 035240 38 FRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 38 k~~~lG~~i~G~IGfiIk 55 (69)
-.+..|++++|++|-+.+
T Consensus 13 Vgtv~G~~vi~lvglFfY 30 (40)
T PF01788_consen 13 VGTVAGIAVIGLVGLFFY 30 (40)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhee
Confidence 456678999999998864
No 52
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=43.99 E-value=69 Score=19.02 Aligned_cols=44 Identities=11% Similarity=0.230 Sum_probs=25.0
Q ss_pred hhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHH
Q 035240 5 DNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVG 51 (69)
Q Consensus 5 ~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IG 51 (69)
+++.+...+|-++++++=++. -++.|.....+.++.++++.++-
T Consensus 41 ~~L~~~a~~F~k~a~~l~r~~---~~~~~k~~~i~~~iv~~~~~~i~ 84 (89)
T PF00957_consen 41 EELSDNAKQFKKNAKKLKRKM---WWRNYKLYIIIIIIVIIIILIII 84 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhHHHHHHHHHHHHHH---HHHHHHHHHhHHhhhhhhhhHHH
Confidence 345555566666666655444 35666666666665555555443
No 53
>PRK09793 methyl-accepting protein IV; Provisional
Probab=43.68 E-value=1.1e+02 Score=23.66 Aligned_cols=24 Identities=17% Similarity=0.348 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHH-HHHHhhcccc
Q 035240 41 AIGFVVMGFVGFFV-KLIFIPINNI 64 (69)
Q Consensus 41 ~lG~~i~G~IGfiI-klI~ipI~ni 64 (69)
.+++++.++++|++ +.|.-|++.+
T Consensus 197 ~~~~~l~~~~~~~~~~~i~~pl~~~ 221 (533)
T PRK09793 197 IVAAIYISSALWWTRKMIVQPLAII 221 (533)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444445555554 5677788753
No 54
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=42.45 E-value=34 Score=22.04 Aligned_cols=29 Identities=17% Similarity=0.139 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 035240 11 LRDFAKDSLRLVKRCHKPDRKEFTKVAFR 39 (69)
Q Consensus 11 ~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~ 39 (69)
++.+..||.++.+..++|..+|+.+....
T Consensus 66 IrRl~~dW~~~~~~~~~~~~~~~~~~~~~ 94 (134)
T PF08336_consen 66 IRRLHQDWPKWEKLMEQPVGQEQLQNLQE 94 (134)
T ss_pred HHHHHHhhhhHHHHHHHhhhHHHHHHHHH
Confidence 47788888888888888887777665543
No 55
>TIGR01167 LPXTG_anchor LPXTG-motif cell wall anchor domain. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region.
Probab=41.97 E-value=16 Score=18.05 Aligned_cols=18 Identities=17% Similarity=0.554 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 035240 36 VAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 36 ~~k~~~lG~~i~G~IGfi 53 (69)
..-.+.+|+++++..+++
T Consensus 10 ~~~~~~~G~~l~~~~~~~ 27 (34)
T TIGR01167 10 NSLLLLLGLLLLGLGGLL 27 (34)
T ss_pred cHHHHHHHHHHHHHHHHH
Confidence 344556666777665554
No 56
>cd07643 I-BAR_IMD_MIM Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), of Missing In Metastasis. The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs (I-BAR) domain, is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions. Members of this subfamily include missing in metastasis (MIM) or metastasis suppressor 1 (MTSS1), metastasis suppressor 1-like (MTSSL) or ABBA (Actin-Bundling protein with BAIAP2 homology), and similar proteins. They contain an N-terminal IMD and a WASP homology 2 (WH2) actin-binding motif at the C-terminus. MIM was originally identified as a missing transcript from metastatic bladder and prostate cancer cells. It is a scaffold protein that functions in a signaling pathway between the PDGF receptor, Src kinases, and actin assembly. It may also function as a cofactor of the Sonic hedgehog (Shh) transcriptional pathway and may participate in tumor development and progression via this pathway. ABBA regulate
Probab=41.80 E-value=36 Score=25.18 Aligned_cols=33 Identities=21% Similarity=0.436 Sum_probs=27.9
Q ss_pred hhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHH
Q 035240 4 IDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKV 36 (69)
Q Consensus 4 ~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~ 36 (69)
++.++.|+++-+++|++-+....|=-.+||.+.
T Consensus 95 ~~~lI~pLe~k~E~wkk~~~~ldKd~~k~~kk~ 127 (231)
T cd07643 95 MDCLVNPLQEKIEEWKKVANQLDKDHAKEYKKA 127 (231)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456789999999999999988888888888764
No 57
>PF10658 DUF2484: Protein of unknown function (DUF2484); InterPro: IPR018919 A role of this family in UDP-N-acetylenolpyruvoylglucosamine reductase, as MurB, could not be confirmed.
Probab=41.38 E-value=34 Score=21.39 Aligned_cols=30 Identities=20% Similarity=0.380 Sum_probs=24.2
Q ss_pred HhcCCCH-HHHHHHHHHHHHHHHHHHHHHHH
Q 035240 24 RCHKPDR-KEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 24 ~~~KPd~-~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
.|--|.| ..+..-.-..++|+-++|.+||-
T Consensus 18 ~AmLP~rd~hw~~a~~Lia~g~pLlg~v~~~ 48 (77)
T PF10658_consen 18 VAMLPSRDNHWRPAYVLIAAGIPLLGWVTYQ 48 (77)
T ss_pred HHHcCchhhcchhHHHHHHHHhhHhhhhHhh
Confidence 3556888 67777777889999999999884
No 58
>PF09489 CbtB: Probable cobalt transporter subunit (CbtB); InterPro: IPR012667 This entry represents a family of proteins which have been proposed to act as cobalt transporters acting in concert with vitamin B12 biosynthesis systems []. Evidence for this assignment includes 1) prediction of a single transmembrane segment and a C-terminal histidine-rich motif likely to be a metal-binding site, 2) positional gene linkage with known B12 biosynthesis genes, 3) upstream proximity of B12 transcriptional regulatory sites, 4) the absence of other known cobalt import systems and 5) the obligate co-localization with a protein (CbtA) predicted to have five additional transmembrane segments.
Probab=41.31 E-value=58 Score=18.95 Aligned_cols=25 Identities=24% Similarity=0.506 Sum_probs=20.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 29 DRKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 29 d~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
.++.....+-+..+|.+++.+.||.
T Consensus 9 ~~~~~~~~~~a~~lg~~l~~~~gf~ 33 (54)
T PF09489_consen 9 SASRLVQAAAAALLGLLLLYFVGFS 33 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4566778888889999999988875
No 59
>CHL00020 psbN photosystem II protein N
Probab=40.93 E-value=15 Score=20.80 Aligned_cols=25 Identities=16% Similarity=0.222 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 035240 36 VAFRTAIGFVVMGFVGFFVKLIFIP 60 (69)
Q Consensus 36 ~~k~~~lG~~i~G~IGfiIklI~ip 60 (69)
...+..++.+++|+.||.++.-+=|
T Consensus 5 ~~~~i~i~~ll~~~Tgy~iYtaFGp 29 (43)
T CHL00020 5 TLVAIFISGLLVSFTGYALYTAFGQ 29 (43)
T ss_pred hhHHHHHHHHHHHhhheeeeeccCC
Confidence 3456778889999999998876544
No 60
>PF02285 COX8: Cytochrome oxidase c subunit VIII; InterPro: IPR003205 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits.This family is composed of cytochrome c oxidase subunit VIII. ; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG3_Z 3ABM_M 1OCC_Z 3ASO_Z 3AG2_Z 3ABL_M 3AG4_M 3AG1_M 3ASN_M 1OCZ_M ....
Probab=40.69 E-value=25 Score=19.78 Aligned_cols=28 Identities=18% Similarity=0.319 Sum_probs=18.5
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 26 HKPDRKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 26 ~KPd~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
.||-|+.-...-+++|++.+..++++-.
T Consensus 3 SkP~~~~~s~~e~aigltv~f~~~L~Pa 30 (44)
T PF02285_consen 3 SKPPREPLSPAEQAIGLTVCFVTFLGPA 30 (44)
T ss_dssp E---SS---HHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHhhH
Confidence 5888888888889999999988888654
No 61
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=40.55 E-value=1.1e+02 Score=20.61 Aligned_cols=44 Identities=11% Similarity=0.209 Sum_probs=26.0
Q ss_pred hhhhHHHHHHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRC---HKPDRKEFTKVAFRTAIGFVVMGFV 50 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~---~KPd~~Ef~~~~k~~~lG~~i~G~I 50 (69)
+.+..+++++.+.+-.+.. +.|+-+||...-..+.-....+.+.
T Consensus 142 ~~~~~~~~~~~~~~e~~~~~~~~~ps~eeYl~~R~~t~g~~~~~~l~ 188 (270)
T PF03936_consen 142 FRNSWREYLNAYLWEARWRERGRIPSLEEYLEMRRHTSGVYPCLALI 188 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHHTSHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHhccccccccHHHHHH
Confidence 4444444444443333222 5799999999999888666666665
No 62
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=39.43 E-value=19 Score=26.27 Aligned_cols=14 Identities=14% Similarity=0.638 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHH
Q 035240 41 AIGFVVMGFVGFFV 54 (69)
Q Consensus 41 ~lG~~i~G~IGfiI 54 (69)
++|++++.+|+|+|
T Consensus 281 La~lvlivLiaYli 294 (306)
T PF01299_consen 281 LAGLVLIVLIAYLI 294 (306)
T ss_pred HHHHHHHHHHhhee
Confidence 45666777777765
No 63
>KOG4554 consensus Protein involved in inorganic phosphate transport [Inorganic ion transport and metabolism]
Probab=38.61 E-value=53 Score=23.60 Aligned_cols=28 Identities=36% Similarity=0.642 Sum_probs=23.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 28 PDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 28 Pd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
=|-+|..+..|-+.+|+++|+|.=+-.+
T Consensus 88 YD~seL~ka~rs~~~~~aim~fmHlym~ 115 (185)
T KOG4554|consen 88 YDLSELTKASRSAVIGFAIMSFMHLYMK 115 (185)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3778999999999999999999765444
No 64
>COG5065 PHO88 Protein involved in inorganic phosphate transport [Inorganic ion transport and metabolism]
Probab=38.61 E-value=53 Score=23.60 Aligned_cols=28 Identities=36% Similarity=0.642 Sum_probs=23.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 28 PDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 28 Pd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
=|-+|..+..|-+.+|+++|+|.=+-.+
T Consensus 88 YD~seL~ka~rs~~~~~aim~fmHlym~ 115 (185)
T COG5065 88 YDLSELTKASRSAVIGFAIMSFMHLYMK 115 (185)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3778999999999999999999765444
No 65
>PF13242 Hydrolase_like: HAD-hyrolase-like; PDB: 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A 2HX1_D 2X4D_A 3HLT_C 3L1U_B ....
Probab=38.30 E-value=28 Score=19.84 Aligned_cols=16 Identities=25% Similarity=0.414 Sum_probs=13.9
Q ss_pred hcCCCHHHHHHHHHHH
Q 035240 25 CHKPDRKEFTKVAFRT 40 (69)
Q Consensus 25 ~~KPd~~Ef~~~~k~~ 40 (69)
|.||++.-|...++-.
T Consensus 2 ~gKP~p~~~~~a~~~~ 17 (75)
T PF13242_consen 2 CGKPSPGMLEQALKRL 17 (75)
T ss_dssp CSTTSHHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHHc
Confidence 8999999999888765
No 66
>PF02064 MAS20: MAS20 protein import receptor; InterPro: IPR002056 Virtually all mitochondrial precursors are imported via the same mechanism []: precursors first bind to receptors on the mitochondrial surface, then insert into the translocation channel in the outer membrane. Many outer-membrane proteins participate in the early stages of import, four of which (MAS20, MAS22, MAS37 and MAS70) are components of the receptor. MAS20, which forms a subcomplex with MAS22, seems to interact with most or all mitochondrial precursors, suggesting that the protein binds directly to mitochondrial targeting sequences. The MAS37 and MAS70 components also form a subcomplex, the two subcomplexes possibly binding via their trans- membrane (TM) regions - the TM region of MAS70 promotes oligomerisation of attatched protein domains and shares sequence similarity with the TM region of MAS20 []. MAS20 is also known as TOM20.; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0005742 mitochondrial outer membrane translocase complex; PDB: 3AX3_A 3AWR_B 2V1S_A 3AX5_C 3AX2_C 1OM2_A 2V1T_B.
Probab=38.01 E-value=11 Score=25.04 Aligned_cols=16 Identities=25% Similarity=0.646 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHH
Q 035240 41 AIGFVVMGFVGFFVKL 56 (69)
Q Consensus 41 ~lG~~i~G~IGfiIkl 56 (69)
+.|.+..+++||.|++
T Consensus 2 ~ag~a~~~~lgYciYF 17 (121)
T PF02064_consen 2 AAGVAAAAFLGYCIYF 17 (121)
T ss_dssp ----------------
T ss_pred hHHHHHHHHHHHHhhc
Confidence 4677889999999976
No 67
>PF02755 RPEL: RPEL repeat; InterPro: IPR004018 The RPEL repeat is named after four conserved amino acids it contains. The function of the RPEL repeat is unknown however it might be a DNA binding repeat based on the observation that Q9VZY2 from SWISSPROT contains a SAP domain that is also implicated in DNA binding.; PDB: 2YJE_M 2V52_M 2YJF_M 2V51_E.
Probab=37.89 E-value=27 Score=17.44 Aligned_cols=13 Identities=31% Similarity=0.649 Sum_probs=7.4
Q ss_pred HHhcCCCHHHHHH
Q 035240 23 KRCHKPDRKEFTK 35 (69)
Q Consensus 23 k~~~KPd~~Ef~~ 35 (69)
|.+..|+++|..+
T Consensus 6 kl~~RP~~~eLv~ 18 (26)
T PF02755_consen 6 KLSQRPTREELVE 18 (26)
T ss_dssp HHHT---HHHHHH
T ss_pred HHhcCCCHHHHHH
Confidence 5688999999653
No 68
>PF07760 DUF1616: Protein of unknown function (DUF1616); InterPro: IPR011674 This is a group of sequences from hypothetical archaeal proteins. The region in question is approximately 330 amino acid residues long.
Probab=37.89 E-value=74 Score=23.16 Aligned_cols=42 Identities=17% Similarity=0.335 Sum_probs=34.9
Q ss_pred HHHHh--cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 035240 21 LVKRC--HKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPIN 62 (69)
Q Consensus 21 ~lk~~--~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~ 62 (69)
+++.. ++.+-+...+.+...|+.++++-++|++.....-||+
T Consensus 42 l~~~lfp~~~~l~~~er~~ls~glSi~~~~~~g~~l~~~~~~i~ 85 (287)
T PF07760_consen 42 LVAALFPRKHDLDGIERLALSVGLSIAIVPLIGLLLNYTPWGIR 85 (287)
T ss_pred HHHHHccCcCCCcHHHHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence 34444 7778888999999999999999999999988776665
No 69
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.41 E-value=18 Score=26.58 Aligned_cols=56 Identities=14% Similarity=0.075 Sum_probs=39.0
Q ss_pred hhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 035240 4 IDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPIN 62 (69)
Q Consensus 4 ~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~ 62 (69)
+|-+++.-.+...++.+|-+-.|+=.|+-+.+.+|...+-++ .+-++|++|..+..
T Consensus 155 iELLVdKTenl~~~s~~fr~q~r~~~r~mw~~n~kl~~iv~~---~~~~~iyiiv~~~C 210 (217)
T KOG0859|consen 155 IELLVDKTENLRSKSFDFRTQGRKLRRKMWFQNMKLKLIVLG---VSISLIYIIVARRC 210 (217)
T ss_pred EEeeechhhhhhhhhHHHHHHHHHHHHHHHHhccceehhhhh---HHHHHHHHHHHHhc
Confidence 444556666677788888888888889999999998876544 44455555555543
No 70
>PF08229 SHR3_chaperone: ER membrane protein SH3 ; InterPro: IPR013248 This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) []. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=36.79 E-value=55 Score=23.47 Aligned_cols=20 Identities=20% Similarity=0.364 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 035240 37 AFRTAIGFVVMGFVGFFVKL 56 (69)
Q Consensus 37 ~k~~~lG~~i~G~IGfiIkl 56 (69)
.+...-+++.+|++|+++|+
T Consensus 61 v~~~Lh~v~~lglig~~iKl 80 (196)
T PF08229_consen 61 VKYILHIVIGLGLIGLLIKL 80 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44556678899999999998
No 71
>PRK05529 cell division protein FtsQ; Provisional
Probab=36.57 E-value=25 Score=25.32 Aligned_cols=32 Identities=25% Similarity=0.317 Sum_probs=15.8
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHH
Q 035240 17 DSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGF 49 (69)
Q Consensus 17 ~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~ 49 (69)
++.+ .++.+.|.+.-|.-.+-+.++.++++++
T Consensus 20 ~~~~-~~~~~~~~~~r~~~~~~~~~~~~~l~~l 51 (255)
T PRK05529 20 DYER-VRRFTTRIRRRFILLACAVGAVLTLLLF 51 (255)
T ss_pred chhh-hhchhhhccchhhhHHHHHHHHHHHHHH
Confidence 3444 5566666666554444444433433333
No 72
>PRK09898 hypothetical protein; Provisional
Probab=36.50 E-value=36 Score=23.54 Aligned_cols=22 Identities=18% Similarity=0.274 Sum_probs=17.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHH
Q 035240 28 PDRKEFTKVAFRTAIGFVVMGF 49 (69)
Q Consensus 28 Pd~~Ef~~~~k~~~lG~~i~G~ 49 (69)
.+|.+|++.+-.+++|..+.|.
T Consensus 13 ~~RR~flk~~~~~~~g~~~~~~ 34 (208)
T PRK09898 13 LTRLEFLRISGKGLAGLTIAPA 34 (208)
T ss_pred hhHHHHHHhhcchhhhhhhhhH
Confidence 8999999998776667666554
No 73
>TIGR00813 sss transporter, SSS family. have different numbers of TMSs. A 13 TMS topology with a periplasmic N-terminus and a cytoplasmic C-terminus has been experimentally determined for the proline:Na+ symporter, PutP, of E. coli.
Probab=36.48 E-value=1.1e+02 Score=22.73 Aligned_cols=30 Identities=17% Similarity=0.164 Sum_probs=17.0
Q ss_pred HHHHhcCCC---HHHHHHHHHHHHHHHHHHHHH
Q 035240 21 LVKRCHKPD---RKEFTKVAFRTAIGFVVMGFV 50 (69)
Q Consensus 21 ~lk~~~KPd---~~Ef~~~~k~~~lG~~i~G~I 50 (69)
+.++..+|+ .++..+.++.+.+++.+++.+
T Consensus 326 i~~~~~~~~~~~~~~~~~~~r~~~~~~~~i~~~ 358 (407)
T TIGR00813 326 LYKKIIRPNASGEKKIVMRGRIAVLVAAVIAGF 358 (407)
T ss_pred HHHHhcCCccchhhhhhHHHHHHHHHHHHHHHH
Confidence 334444444 556677777776665555544
No 74
>PF08429 PLU-1: PLU-1-like protein; InterPro: IPR013637 This domain is found in the central region of lysine-specific demethylases, which are nuclear proteins that may have a role in DNA-binding and transcription, and are associated with malignant cancer phenotypes []. The domain is also found in various other Jumonji/ARID domain-containing proteins (see IPR013129 from INTERPRO, IPR001606 from INTERPRO). ; GO: 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process
Probab=36.33 E-value=73 Score=23.10 Aligned_cols=37 Identities=11% Similarity=0.311 Sum_probs=30.9
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 2 DAIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 2 ~~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
+++..+++.+.+|-.+++..+.....++-+|+.....
T Consensus 106 ~~L~~l~~~ve~f~~~a~~~L~~~~~~~~~~le~Ll~ 142 (335)
T PF08429_consen 106 DQLKELLEEVEEFQSRAQEALSDPESPSLEELEELLE 142 (335)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHH
Confidence 5678889999999999999998877788888876653
No 75
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=35.92 E-value=70 Score=19.41 Aligned_cols=28 Identities=11% Similarity=0.268 Sum_probs=16.1
Q ss_pred CCCHHHH--HHHHHHHHHHHHHHHHHHHHH
Q 035240 27 KPDRKEF--TKVAFRTAIGFVVMGFVGFFV 54 (69)
Q Consensus 27 KPd~~Ef--~~~~k~~~lG~~i~G~IGfiI 54 (69)
|-.||+| .+.++..|..++++|++-.+.
T Consensus 31 ~eEk~~~D~~~l~r~~g~~~~~~~i~~li~ 60 (97)
T PF12650_consen 31 KEEKEKYDKKKLCRFMGKFMLIIGIILLIG 60 (97)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445 556677777777766654433
No 76
>TIGR03097 PEP_O_lig_1 probable O-glycosylation ligase, exosortase system type 1-associated. These proteins are members of the O-antigen polymerase (wzy) family described by Pfam model pfam04932. This group is associated with genomes and ususally genomic contexts containing elements of the exosortase/PEP-CTERM protein export system, specificially the type 1 variety of this system described by the Genome Property, GenProp0652.
Probab=35.39 E-value=1.2e+02 Score=22.84 Aligned_cols=48 Identities=17% Similarity=0.184 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 035240 15 AKDSLRLVKRCHK-PDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPIN 62 (69)
Q Consensus 15 ~~~~~r~lk~~~K-Pd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~ 62 (69)
+..+.|..+++++ |+.+.....+.+.-+|++.-.+-|-+..+-+.++.
T Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~v~~~fl~~~~~~~f 392 (402)
T TIGR03097 344 LLRAGWLKRHARGIPELKWAVDLAAMLQVSLVGYAVGGAFLGLAYFDLP 392 (402)
T ss_pred HHHHHHHHHHhhcCcchhHHHHHHHHHHHHHHHHHHHHHHHhcchhHHH
Confidence 4455677777766 65554444444444444333333334333333333
No 77
>PRK11677 hypothetical protein; Provisional
Probab=34.66 E-value=46 Score=22.44 Aligned_cols=17 Identities=29% Similarity=0.319 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 035240 39 RTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 39 ~~~lG~~i~G~IGfiIk 55 (69)
++.+|+++-.+|||++-
T Consensus 5 ~a~i~livG~iiG~~~~ 21 (134)
T PRK11677 5 YALIGLVVGIIIGAVAM 21 (134)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45678888888899864
No 78
>PF14476 Chloroplast_duf: Petal formation-expressed
Probab=34.55 E-value=79 Score=24.45 Aligned_cols=29 Identities=7% Similarity=0.283 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035240 12 RDFAKDSLRLVKRCHKPDRKEFTKVAFRT 40 (69)
Q Consensus 12 ~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~ 40 (69)
++.=.|.+.++.+.+.-|.+||.+..+++
T Consensus 175 ~eLE~EmReVv~VlK~KD~edY~rlg~l~ 203 (313)
T PF14476_consen 175 EELEEEMREVVEVLKRKDEEDYLRLGNLA 203 (313)
T ss_pred HHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence 45567788888888889999999988765
No 79
>PF08869 XisI: XisI protein; InterPro: IPR014968 The fdxN element, along with two other DNA elements, is excised from the chromosome during heterocyst differentiation in cyanobacteria. The xisH as well as the xisF and xisI genes are required []. ; PDB: 3D7Q_A 2NWV_A 2NVM_A 2NLV_B.
Probab=34.12 E-value=40 Score=22.19 Aligned_cols=21 Identities=10% Similarity=0.322 Sum_probs=19.5
Q ss_pred ChhhhhhhhhHHHHHHHHHHH
Q 035240 1 MDAIDNVFDPLRDFAKDSLRL 21 (69)
Q Consensus 1 m~~~~~~~e~~~~f~~~~~r~ 21 (69)
||++++.-+.+++.++++.++
T Consensus 1 MDkl~~Yr~iI~~iL~~ya~~ 21 (111)
T PF08869_consen 1 MDKLEKYRQIIKQILEEYAQI 21 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred CCcHHHHHHHHHHHHHHHhcC
Confidence 899999999999999999887
No 80
>PF11384 DUF3188: Protein of unknown function (DUF3188); InterPro: IPR021524 This bacterial family of proteins has no known function.
Probab=34.08 E-value=48 Score=18.80 Aligned_cols=29 Identities=21% Similarity=0.205 Sum_probs=25.4
Q ss_pred hcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 25 CHKPDRKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 25 ~~KPd~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
.+.|+.+.+.--+-.+|+++.+-|.+++.
T Consensus 16 ~r~~~~~i~~lP~~~~Gi~Lii~g~v~r~ 44 (49)
T PF11384_consen 16 SRNGSDRIQALPAILIGIGLIISGGVGRR 44 (49)
T ss_pred hcCCccchhccHHHHHhHHHHhhhhhhhh
Confidence 67888888888999999999999998874
No 81
>PRK10983 putative inner membrane protein; Provisional
Probab=33.98 E-value=1.7e+02 Score=22.14 Aligned_cols=29 Identities=17% Similarity=0.162 Sum_probs=15.8
Q ss_pred HHHHHHhcCCCHHHH----HHHHHHHHHHHHHH
Q 035240 19 LRLVKRCHKPDRKEF----TKVAFRTAIGFVVM 47 (69)
Q Consensus 19 ~r~lk~~~KPd~~Ef----~~~~k~~~lG~~i~ 47 (69)
++++.+..+++.+++ .+..+.+..|.+++
T Consensus 189 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~~l~ 221 (368)
T PRK10983 189 RHFATRLAGKRGDAAVLLAAQAIRAVALGVVVT 221 (368)
T ss_pred HHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444445555555544 55666666666444
No 82
>PHA00649 hypothetical protein
Probab=33.93 E-value=1.2e+02 Score=19.04 Aligned_cols=42 Identities=19% Similarity=0.330 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 11 LRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 11 ~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
+.||- +-.|++++.||.--+-|..+.-.+..|+..-=-.||-
T Consensus 36 VEEFr-~D~~~~Rr~RKA~D~G~L~~VGL~~~~iGAA~W~G~~ 77 (83)
T PHA00649 36 VEEFR-EDLRFGRRMRKAADHGFLALVGLVAVALGAAVWAGIT 77 (83)
T ss_pred HHHHH-HHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHH
Confidence 44554 4467889999987777776654444443333234443
No 83
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=33.28 E-value=91 Score=22.23 Aligned_cols=13 Identities=38% Similarity=0.411 Sum_probs=8.3
Q ss_pred HHHHHHhcCCCHH
Q 035240 19 LRLVKRCHKPDRK 31 (69)
Q Consensus 19 ~r~lk~~~KPd~~ 31 (69)
+|+++..+||.+-
T Consensus 12 ~~~~~~~~k~~~~ 24 (200)
T PRK10617 12 KRLWKWWRTPSRL 24 (200)
T ss_pred HHHHHHHHhhHHH
Confidence 4566666788743
No 84
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=33.18 E-value=77 Score=16.89 Aligned_cols=22 Identities=14% Similarity=0.211 Sum_probs=18.0
Q ss_pred HHHHhcCCCHHHHHHHHHHHHH
Q 035240 21 LVKRCHKPDRKEFTKVAFRTAI 42 (69)
Q Consensus 21 ~lk~~~KPd~~Ef~~~~k~~~l 42 (69)
+...+..||.+|...+|..+++
T Consensus 18 ~f~~~~~p~~~~~~~la~~l~l 39 (57)
T PF00046_consen 18 YFQENPYPSKEEREELAKELGL 39 (57)
T ss_dssp HHHHSSSCHHHHHHHHHHHHTS
T ss_pred HHHHhccccccccccccccccc
Confidence 3446999999999999988754
No 85
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1. Superfamily of trans-isoprenyl diphosphate synthases (IPPS) and class I terpene cyclases which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, and diterpenes; and are widely distributed among archaea, bacteria, and eukaryota.The enzymes in this superfamily share the same 'isoprenoid synthase fold' and include several subgroups. The head-to-tail (HT) IPPS catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. Cyclic monoter
Probab=32.83 E-value=1.3e+02 Score=18.97 Aligned_cols=36 Identities=17% Similarity=0.157 Sum_probs=24.0
Q ss_pred hhhhhHHHHHHHHHHHHHHhc--CCCHHHHHHHHHHHH
Q 035240 6 NVFDPLRDFAKDSLRLVKRCH--KPDRKEFTKVAFRTA 41 (69)
Q Consensus 6 ~~~e~~~~f~~~~~r~lk~~~--KPd~~Ef~~~~k~~~ 41 (69)
.+.+..+++++....=++-.. .|+.+||....+.++
T Consensus 83 ~~~~~~~~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t 120 (243)
T cd00385 83 ILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKT 120 (243)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhH
Confidence 344445555555444444443 899999999999886
No 86
>TIGR00865 bcl-2 Apoptosis regulator. in artificial membranes at acidic pH, proapoptotic Bcl-2 family proteins (including Bax and Bak) probably induce the mitochondrial permeability transition and cytochrome c release by interacting with permeability transition pores, the most important component for pore fomation of which is VDAC.
Probab=32.66 E-value=1.7e+02 Score=20.98 Aligned_cols=32 Identities=6% Similarity=0.108 Sum_probs=21.9
Q ss_pred hhhhhhhhHHHHHHH-----------HHHHHHHhcCCCHHHHH
Q 035240 3 AIDNVFDPLRDFAKD-----------SLRLVKRCHKPDRKEFT 34 (69)
Q Consensus 3 ~~~~~~e~~~~f~~~-----------~~r~lk~~~KPd~~Ef~ 34 (69)
.++.+++.+.+|+++ |..|++.-.+|.+.+|.
T Consensus 143 ~v~~I~~wv~~yl~~~l~~WI~~nGGW~gf~~~f~~~~~~~~~ 185 (213)
T TIGR00865 143 LVSRIAGWMTEYLNEHLHPWIQENGGWDGFVELYGNNAAQLFD 185 (213)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHcCCHHHHHHHHCCCcccccc
Confidence 345566666666654 56788888899887743
No 87
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=32.43 E-value=77 Score=23.26 Aligned_cols=44 Identities=16% Similarity=-0.013 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 12 RDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 12 ~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
++.+++-.+..+..+|=|+.==.-.+-+....+++.-++|++..
T Consensus 7 ~~~~~Qi~q~y~~trk~dp~l~~~ml~a~l~~~~v~v~ig~l~~ 50 (224)
T PF13829_consen 7 PGRRKQIWQAYKMTRKEDPKLPWLMLGAFLGPIAVFVLIGLLFG 50 (224)
T ss_pred chHHHHHHHHHHHHHHHCcchHHHHHHHHHHHHHHHHHHHHHHc
Confidence 46677777888887776665555555554444555455555543
No 88
>PRK12768 CysZ-like protein; Reviewed
Probab=32.43 E-value=73 Score=23.14 Aligned_cols=37 Identities=16% Similarity=0.220 Sum_probs=26.8
Q ss_pred hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Q 035240 25 CHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNII 65 (69)
Q Consensus 25 ~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~nii 65 (69)
..-|||=++...+-....++.++-..+|. +.|+.|++
T Consensus 56 ~~~p~wl~wL~~ll~~l~~l~~l~~~~fl----f~~va~~I 92 (240)
T PRK12768 56 PGFPDWAGWLGWVLSIAAGLGLALGLALL----IAPVTALI 92 (240)
T ss_pred hcCccHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHH
Confidence 46799999988877777777666666665 66666654
No 89
>COG4682 Predicted membrane protein [Function unknown]
Probab=32.32 E-value=84 Score=21.45 Aligned_cols=30 Identities=27% Similarity=0.245 Sum_probs=23.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 27 KPDRKEFTKVAFRTAIGFVVMGFVGFFVKL 56 (69)
Q Consensus 27 KPd~~Ef~~~~k~~~lG~~i~G~IGfiIkl 56 (69)
+|.++-.+...++++-+.++.|++-|.|-|
T Consensus 2 ~~~~~~~s~af~~va~~~lv~G~vvyLiGL 31 (128)
T COG4682 2 DPKMEIVSKAFTIVAWLALVVGAVVYLVGL 31 (128)
T ss_pred CccccchHHHHHHHHHHHHHHHHHHHHHhh
Confidence 577777788888888888988888887654
No 90
>PRK07417 arogenate dehydrogenase; Reviewed
Probab=32.06 E-value=1.3e+02 Score=21.34 Aligned_cols=33 Identities=6% Similarity=0.084 Sum_probs=27.7
Q ss_pred hhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 6 NVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 6 ~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
.+.+.+.+|.++..++...-+.-|++++.+..+
T Consensus 236 ~i~~~l~~~~~~l~~~~~~l~~~d~~~l~~~~~ 268 (279)
T PRK07417 236 ALLRSLASYRQSLDQLEELIEQENWSALEQKLE 268 (279)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 477888899999999999999999988877655
No 91
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1. This CD includes terpenoid cyclases such as pentalenene synthase and aristolochene synthase which, using an all-trans pathway, catalyze the ionization of farnesyl diphosphate, followed by the formation of a macrocyclic intermediate by bond formation between C1 with either C10 (aristolochene synthase) or C11 (pentalenene synthase), resulting in production of tricyclic hydrocarbon pentalenene or bicyclic hydrocarbon aristolochene. As with other enzymes with the 'terpenoid synthase fold', they have two conserved metal binding motifs, proposed to coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP to the enzymes. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function in the monomeric form and are found in
Probab=31.77 E-value=1.3e+02 Score=21.06 Aligned_cols=46 Identities=15% Similarity=0.135 Sum_probs=28.2
Q ss_pred hhhhhhhHHHHHHHHHHHHH---HhcCCCHHHHHHHHHHHHHHHHHHHH
Q 035240 4 IDNVFDPLRDFAKDSLRLVK---RCHKPDRKEFTKVAFRTAIGFVVMGF 49 (69)
Q Consensus 4 ~~~~~e~~~~f~~~~~r~lk---~~~KPd~~Ef~~~~k~~~lG~~i~G~ 49 (69)
.+.+.+..+++++.+..-.+ ..+-|+-+||...-..+.-....+.+
T Consensus 131 ~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eYl~~R~~~~g~~~~~~l 179 (303)
T cd00687 131 FNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEYLEMRRFNIGADPCLGL 179 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHhhhcccccccHHH
Confidence 34566666666666554432 23569999999988887433333333
No 92
>PF13038 DUF3899: Domain of unknown function (DUF3899)
Probab=31.76 E-value=63 Score=19.42 Aligned_cols=22 Identities=14% Similarity=0.318 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 035240 34 TKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 34 ~~~~k~~~lG~~i~G~IGfiIk 55 (69)
..++-.+++-++++|++.++++
T Consensus 2 iN~~Fl~~l~lliig~~~~v~~ 23 (92)
T PF13038_consen 2 INILFLVGLILLIIGGFLFVFQ 23 (92)
T ss_pred chHHHHHHHHHHHHHHHHHHHh
Confidence 4556678888999999988865
No 93
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=31.74 E-value=87 Score=18.58 Aligned_cols=26 Identities=23% Similarity=0.175 Sum_probs=18.4
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHH
Q 035240 26 HKPDRKEFTKVAFRTAIGFVVMGFVG 51 (69)
Q Consensus 26 ~KPd~~Ef~~~~k~~~lG~~i~G~IG 51 (69)
.+++|..|++.+-..+.+.......+
T Consensus 7 ~~~sRR~Flk~lg~~aaa~~aa~~~~ 32 (66)
T TIGR02811 7 ADPSRRDLLKGLGVGAAAGAVAAATG 32 (66)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHhcc
Confidence 46789999998777666666655444
No 94
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=31.21 E-value=47 Score=16.72 Aligned_cols=13 Identities=31% Similarity=0.646 Sum_probs=10.2
Q ss_pred HHhcCCCHHHHHH
Q 035240 23 KRCHKPDRKEFTK 35 (69)
Q Consensus 23 k~~~KPd~~Ef~~ 35 (69)
|...+|+++|..+
T Consensus 6 kl~~RP~~eeLv~ 18 (26)
T smart00707 6 KLSQRPTREELEE 18 (26)
T ss_pred HHHcCCCHHHHHH
Confidence 5678999999753
No 95
>PF13800 Sigma_reg_N: Sigma factor regulator N-terminal
Probab=30.88 E-value=1.3e+02 Score=18.24 Aligned_cols=35 Identities=17% Similarity=0.392 Sum_probs=17.1
Q ss_pred HHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 20 RLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 20 r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI 57 (69)
+++|+++ |+-+.++.-++.+-++++-.++++...+
T Consensus 3 ~i~kK~K---~k~~l~~~~isi~~~lvi~~i~~~~~~l 37 (96)
T PF13800_consen 3 KILKKAK---RKSRLRTVVISIISALVIFIISFIISAL 37 (96)
T ss_pred hHHHHHH---HHHHHHHHHHHHhhhhhhHHHHHHhhhh
Confidence 4555554 5566665444433344444445544443
No 96
>PRK08507 prephenate dehydrogenase; Validated
Probab=30.75 E-value=1.4e+02 Score=20.92 Aligned_cols=33 Identities=18% Similarity=0.296 Sum_probs=27.3
Q ss_pred hhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 6 NVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 6 ~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
.+.+.+.+|.++..++.+.-..-|++++.+..+
T Consensus 234 ~~~~~l~~~~~~l~~~~~~l~~~d~~~~~~~~~ 266 (275)
T PRK08507 234 NVLEAIDEFIKELEQFKQLIENEDWEELEEWME 266 (275)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 467888889999989988888899988877655
No 97
>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.66 E-value=54 Score=23.81 Aligned_cols=29 Identities=14% Similarity=0.288 Sum_probs=24.9
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHhcCCCH
Q 035240 2 DAIDNVFDPLRDFAKDSLRLVKRCHKPDR 30 (69)
Q Consensus 2 ~~~~~~~e~~~~f~~~~~r~lk~~~KPd~ 30 (69)
|++|.+++...+.--+++.|.|-++|-++
T Consensus 165 EKLDdLV~KSe~Ls~qSKmfYKsAKK~Ns 193 (198)
T KOG0861|consen 165 EKLDDLVSKSENLSLQSKMFYKSAKKTNS 193 (198)
T ss_pred chHHHHHHHHHhhhHHHHHHHHHHhhcCC
Confidence 57888999889999999999999998763
No 98
>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT.3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.
Probab=30.40 E-value=92 Score=19.68 Aligned_cols=20 Identities=20% Similarity=0.365 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 035240 38 FRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 38 k~~~lG~~i~G~IGfiIklI 57 (69)
...++|++++|+.|++...-
T Consensus 5 ~~~~l~~lvl~L~~~l~~qs 24 (110)
T PF10828_consen 5 IYIALAVLVLGLGGWLWYQS 24 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45677999999999987543
No 99
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=30.26 E-value=89 Score=23.60 Aligned_cols=31 Identities=16% Similarity=0.263 Sum_probs=26.2
Q ss_pred hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 25 CHKPDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 25 ~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
.+.+..+|+.++++++.++.+++.++.|+.+
T Consensus 54 ~r~~~~~el~ri~~a~~l~~l~~~~~~~~~~ 84 (445)
T TIGR03025 54 RGRSFLEELARVLLAWLLVFLLLLALAFLLK 84 (445)
T ss_pred hcCCHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4567789999999999999988888888765
No 100
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=30.17 E-value=17 Score=22.75 Aligned_cols=31 Identities=19% Similarity=0.404 Sum_probs=0.0
Q ss_pred hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 25 CHKPDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 25 ~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
..++-.+|+.++.+++.++++++.++.|+.+
T Consensus 10 ~~~~~~~~~~~i~~a~~~~~~~~~~~~~~~~ 40 (175)
T PF13727_consen 10 RRRSFLRELRRILIAWLIAFLLLVLILFFLK 40 (175)
T ss_dssp -------------------------------
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4577889999999999999999999888877
No 101
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=30.09 E-value=1.4e+02 Score=21.19 Aligned_cols=29 Identities=21% Similarity=0.316 Sum_probs=16.9
Q ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 24 RCHKPDRKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 24 ~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
..++||++++.+..+..-..++ +|.++|.
T Consensus 243 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 271 (277)
T PRK12883 243 VLRNPDRETAHKGQKLLKIAIF-LAVISFL 271 (277)
T ss_pred HHhCcchhHHHHHHHHHHHHHH-HHHHHHH
Confidence 3457888888554444433333 6777665
No 102
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=30.05 E-value=58 Score=20.61 Aligned_cols=18 Identities=22% Similarity=0.501 Sum_probs=11.7
Q ss_pred hhhhhhhhhHHHHHHHHH
Q 035240 2 DAIDNVFDPLRDFAKDSL 19 (69)
Q Consensus 2 ~~~~~~~e~~~~f~~~~~ 19 (69)
||+++++..=+.|++|..
T Consensus 20 DQL~qlVsrN~sfirdFv 37 (84)
T PF06143_consen 20 DQLEQLVSRNRSFIRDFV 37 (84)
T ss_pred HHHHHHHHhChHHHHHHH
Confidence 567777766666666544
No 103
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=29.57 E-value=62 Score=23.89 Aligned_cols=29 Identities=21% Similarity=0.504 Sum_probs=24.5
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHhcCCCH
Q 035240 2 DAIDNVFDPLRDFAKDSLRLVKRCHKPDR 30 (69)
Q Consensus 2 ~~~~~~~e~~~~f~~~~~r~lk~~~KPd~ 30 (69)
+..+++.+.+++|.++-.++...+.+||+
T Consensus 230 ~~~~~i~~~i~~fRk~i~~i~~~~~~~~~ 258 (271)
T TIGR02147 230 EAYKEIVKKIQEFRKEVLAIATKDKEEDR 258 (271)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCcCe
Confidence 35678889999999999998888888884
No 104
>cd00930 Cyt_c_Oxidase_VIII Cytochrome oxidase c subunit VIII. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIII is the smallest of the nuclear-encoded subunits. It exists in muscle-specific and non-muscle-specific isoforms that are differently expressed in different species, suggesting species-specific regulation of energy metabolism.
Probab=29.32 E-value=44 Score=18.69 Aligned_cols=26 Identities=12% Similarity=0.234 Sum_probs=20.6
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHH
Q 035240 26 HKPDRKEFTKVAFRTAIGFVVMGFVG 51 (69)
Q Consensus 26 ~KPd~~Ef~~~~k~~~lG~~i~G~IG 51 (69)
.||-++.-...=++++++.+..++++
T Consensus 3 S~Pp~~~~s~~E~aigl~~~f~~~L~ 28 (43)
T cd00930 3 SKPPKTPLSAAESAIGLSVFFTTFLL 28 (43)
T ss_pred CCCCCCcCCHHHHHHHHHHHHHHHHh
Confidence 57888877788888888888877765
No 105
>PRK10484 putative transporter; Provisional
Probab=29.11 E-value=83 Score=24.51 Aligned_cols=24 Identities=13% Similarity=0.279 Sum_probs=18.1
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHH
Q 035240 26 HKPDRKEFTKVAFRTAIGFVVMGF 49 (69)
Q Consensus 26 ~KPd~~Ef~~~~k~~~lG~~i~G~ 49 (69)
++++.+|..+++|++.+.+.++++
T Consensus 366 ~~~s~~~~l~v~Ri~~vv~~ii~~ 389 (523)
T PRK10484 366 PNASEKQLVKVGKKFGFVLAIISM 389 (523)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHH
Confidence 355678889999988887776654
No 106
>PHA02641 hypothetical protein; Provisional
Probab=28.99 E-value=44 Score=23.96 Aligned_cols=31 Identities=19% Similarity=0.497 Sum_probs=18.8
Q ss_pred hHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 10 PLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 10 ~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
++.+|+++.--=.+.|.|| +.++|++||+..
T Consensus 123 rLf~FI~~~~infNn~~~~---------------L~LIG~~GYvce 153 (188)
T PHA02641 123 RLFNFISSMDINFNNCDTC---------------LILIGFIGYVCS 153 (188)
T ss_pred HHHHHHHhhcccccccccc---------------hhHHHHHHHHHH
Confidence 3445555544444555554 467899999864
No 107
>KOG3488 consensus Dolichol phosphate-mannose regulatory protein (DPM2) [Posttranslational modification, protein turnover, chaperones]
Probab=28.78 E-value=1.2e+02 Score=19.12 Aligned_cols=25 Identities=20% Similarity=0.634 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 035240 35 KVAFRTAIGFVVMGFVGFFVKLIFI 59 (69)
Q Consensus 35 ~~~k~~~lG~~i~G~IGfiIklI~i 59 (69)
.++--++.|++++-+||-+|.++++
T Consensus 49 Ai~iPvaagl~ll~lig~Fis~vMl 73 (81)
T KOG3488|consen 49 AITIPVAAGLFLLCLIGTFISLVML 73 (81)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHhh
Confidence 4566678899999999999988875
No 108
>COG1883 OadB Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]
Probab=28.75 E-value=1.6e+02 Score=23.28 Aligned_cols=49 Identities=14% Similarity=0.309 Sum_probs=34.6
Q ss_pred hhhhhhhHHHHHHHHHHHHH---HhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 4 IDNVFDPLRDFAKDSLRLVK---RCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 4 ~~~~~e~~~~f~~~~~r~lk---~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
+|++.|..++.+-+...++- .-.|-+.|-|.+ ...+|++.+|.++|.+-
T Consensus 246 v~RLs~taqn~linivTI~LgLsVGsk~~ad~FL~---~~tL~Il~lG~~AF~~~ 297 (375)
T COG1883 246 VERLSDTAQNELINIVTIFLGLSVGSKMRADKFLT---PQTLGILALGLVAFAIG 297 (375)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccccccchhhcCC---HHHHHHHHHHHHHHHhh
Confidence 55666666777767766654 345667777764 56789999999999864
No 109
>PRK09617 type III secretion system protein; Reviewed
Probab=28.52 E-value=2.2e+02 Score=21.28 Aligned_cols=27 Identities=26% Similarity=0.285 Sum_probs=16.8
Q ss_pred hhhhhhhhHHHHHH------HHHHHHHHhcCCC
Q 035240 3 AIDNVFDPLRDFAK------DSLRLVKRCHKPD 29 (69)
Q Consensus 3 ~~~~~~e~~~~f~~------~~~r~lk~~~KPd 29 (69)
..++-.+++|+|.. |-..+.+.++++.
T Consensus 121 a~~~~~~Plr~FM~~~t~~~dl~~F~~~a~~~~ 153 (243)
T PRK09617 121 AANKSKEPLRSFLIKNTPKPQIASFYKISQKTF 153 (243)
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHhCccC
Confidence 35566778888873 4455666666533
No 110
>PF09604 Potass_KdpF: F subunit of K+-transporting ATPase (Potass_KdpF); InterPro: IPR011726 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the F subunit (KdpF) of a P-type K+-translocating ATPase (Kdp). KdpF is a very small integral membrane peptide. The kdpABC operon of Escherichia coli codes for the high affinity K+-translocating Kdp complex []. KdpF is found upstream of the KdpA subunit (IPR004623 from INTERPRO). Because of its very small size and highly hydrophobic character, it is sometimes missed in genome annotation. More information about this protein can be found at Protein of the Month: ATP Synthases [].
Probab=28.37 E-value=87 Score=15.56 Aligned_cols=20 Identities=15% Similarity=0.338 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 035240 41 AIGFVVMGFVGFFVKLIFIP 60 (69)
Q Consensus 41 ~lG~~i~G~IGfiIklI~ip 60 (69)
..|++.+|+.+|.+.-..-|
T Consensus 3 l~~~v~~~L~~YL~~aLl~P 22 (25)
T PF09604_consen 3 LGGIVAVALFVYLFYALLRP 22 (25)
T ss_pred HHHHHHHHHHHHHHHHHhCc
Confidence 45677778888887766544
No 111
>COG2981 CysZ Uncharacterized protein involved in cysteine biosynthesis [Amino acid transport and metabolism]
Probab=28.35 E-value=1e+02 Score=23.12 Aligned_cols=50 Identities=14% Similarity=0.139 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Q 035240 12 RDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNIIV 66 (69)
Q Consensus 12 ~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~niiv 66 (69)
-++..+|...+ +-.-|||-++......-..++.+.=..||. +.|+.|+|-
T Consensus 47 ~~~~~~wid~L-m~~iPdWl~wLs~v~~~la~L~lll~~~~l----fs~v~~~IA 96 (250)
T COG2981 47 FSQALPWIDTL-MPGIPDWLGWLSYLLWILAVLLLLLVFAFL----FSTVANLIA 96 (250)
T ss_pred HHHHHHHHHHH-hhcCccHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence 44556666655 356799999999877777777776666766 666666553
No 112
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=28.27 E-value=39 Score=18.10 Aligned_cols=17 Identities=24% Similarity=0.370 Sum_probs=11.8
Q ss_pred CCHHHHHHHHHHHHHHH
Q 035240 28 PDRKEFTKVAFRTAIGF 44 (69)
Q Consensus 28 Pd~~Ef~~~~k~~~lG~ 44 (69)
|+++|-..+++-+++-.
T Consensus 11 Ps~~ek~~L~~~tgls~ 27 (40)
T PF05920_consen 11 PSKEEKEELAKQTGLSR 27 (40)
T ss_dssp --HHHHHHHHHHHTS-H
T ss_pred CCHHHHHHHHHHcCCCH
Confidence 89999999998887643
No 113
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=28.27 E-value=1.1e+02 Score=16.60 Aligned_cols=28 Identities=11% Similarity=0.122 Sum_probs=20.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 29 DRKEFTKVAFRTAIGFVVMGFVGFFVKL 56 (69)
Q Consensus 29 d~~Ef~~~~k~~~lG~~i~G~IGfiIkl 56 (69)
+-++....++..++-++.+-++|.++..
T Consensus 2 ~~~~~~~~~~~~~~v~~~~~F~gi~~w~ 29 (49)
T PF05545_consen 2 TYETLQGFARSIGTVLFFVFFIGIVIWA 29 (49)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777888888888888888877653
No 114
>TIGR02121 Na_Pro_sym sodium/proline symporter. This family consists of the sodium/proline symporter (proline permease) from a number of Gram-negative and Gram-positive bacteria and from the archaeal genus Methanosarcina. Using the related pantothenate permease as an outgroup, candidate sequences from Bifidobacterium longum and several from archaea are found to be outside the clade defined by known proline permeases. These sequences, scoring between 570 and -40, define the range between trusted and noise cutoff scores.
Probab=28.20 E-value=1.6e+02 Score=22.65 Aligned_cols=23 Identities=13% Similarity=0.273 Sum_probs=17.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Q 035240 27 KPDRKEFTKVAFRTAIGFVVMGF 49 (69)
Q Consensus 27 KPd~~Ef~~~~k~~~lG~~i~G~ 49 (69)
++|.+|..+++|++.+.+.+++.
T Consensus 358 ~~s~~~~l~v~R~~~v~~~~~~~ 380 (487)
T TIGR02121 358 EASQKELVMVGRLSVLVIAIIAI 380 (487)
T ss_pred CCChHHHHHHHHHHHHHHHHHHH
Confidence 34567788999988887766664
No 115
>PRK10654 dcuC C4-dicarboxylate transporter DcuC; Provisional
Probab=28.15 E-value=50 Score=26.04 Aligned_cols=37 Identities=24% Similarity=0.489 Sum_probs=27.9
Q ss_pred CHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhhccccc
Q 035240 29 DRKEFTKV---AFRTAIGFVVMGFVGFFVKLIFIPINNII 65 (69)
Q Consensus 29 d~~Ef~~~---~k~~~lG~~i~G~IGfiIklI~ipI~nii 65 (69)
|--||.+. .+..++|..+|.+.||.-++-|+--++-+
T Consensus 63 d~~~~~~~~~~~~~~~lGl~Im~~~gFa~yM~~iGa~~~l 102 (455)
T PRK10654 63 DIVEYVKILLMSRGGDLGMMIMMLCGFAAYMTHIGANDMV 102 (455)
T ss_pred HHHHHHHHHhccccccHHHHHHHHHHHHHHHhhcCchHHH
Confidence 33456666 56699999999999999988887655443
No 116
>PRK14759 potassium-transporting ATPase subunit F; Provisional
Probab=28.11 E-value=98 Score=16.08 Aligned_cols=21 Identities=19% Similarity=0.456 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 035240 40 TAIGFVVMGFVGFFVKLIFIP 60 (69)
Q Consensus 40 ~~lG~~i~G~IGfiIklI~ip 60 (69)
...|+..+|++.|.+.-..-|
T Consensus 6 ~l~~~va~~L~vYL~~ALlrP 26 (29)
T PRK14759 6 SLAGAVSLGLLIYLTYALLRP 26 (29)
T ss_pred HHHHHHHHHHHHHHHHHHhCc
Confidence 456788888999988766555
No 117
>PF02194 PXA: PXA domain; InterPro: IPR003114 This domain is found associated with PX domains. The PX (phox) domain [] occurs in a variety of eukaryotic proteins associated with intracellular signalling pathways.
Probab=27.88 E-value=1.8e+02 Score=19.00 Aligned_cols=36 Identities=31% Similarity=0.438 Sum_probs=22.4
Q ss_pred hhhhhhhh-HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHH
Q 035240 3 AIDNVFDP-LRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIG 43 (69)
Q Consensus 3 ~~~~~~e~-~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG 43 (69)
.++++++. +++|+..|.+-+ .||. ||..-.+.+.-.
T Consensus 7 ~l~~li~~I~rdfV~sWY~~I----s~d~-~F~~ei~~~l~~ 43 (185)
T PF02194_consen 7 ALHELIDLILRDFVNSWYSKI----SPDP-EFPNEIRRILRH 43 (185)
T ss_pred HHHHHHHHHHHHHHHhhhhcc----CCcH-HHHHHHHHHHHH
Confidence 34554443 478888888443 3666 888877655443
No 118
>PF02061 Lambda_CIII: Lambda Phage CIII; InterPro: IPR013056 Bacteriophage lambda regulatory protein CIII is a small protein that plays a role in stabilising the CII transcriptional activator, via a mechanism that is not yet fully understood [, ]. Stabilised CII activates CI, the gene for the repressor protein that prevents transcription of proteins required for lytic development. The central portion of the protein is well conserved and is both necessary and sufficient for the activity of the protein []. Comparative analysis of the CIII sequence in lambda, Bacteriophage HK022 and the lambdoid Enterobacteria phage P22 has led to the suggestion that this central region assumes an amphipathic alpha-helical structure []. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=27.68 E-value=1.2e+02 Score=17.13 Aligned_cols=25 Identities=20% Similarity=0.386 Sum_probs=18.5
Q ss_pred hhhhhhH-HHHHHHHHHHHHHhcCCC
Q 035240 5 DNVFDPL-RDFAKDSLRLVKRCHKPD 29 (69)
Q Consensus 5 ~~~~e~~-~~f~~~~~r~lk~~~KPd 29 (69)
|+++|.+ ++...-|+|+.+....|.
T Consensus 18 ESLLdrItRklr~gwKRl~~iLnQpG 43 (45)
T PF02061_consen 18 ESLLDRITRKLRDGWKRLWDILNQPG 43 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 5677776 456667999999888774
No 119
>TIGR02161 napC_nirT periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family. Nearly every member of this subfamily is NapC, a predicted membrane-anchored four-heme c-type cytochrome that forms one component of the periplasmic nitrate reductase along with NapA, NapB, NapD, NapE, and NapF subunits. A single known exception at this time is NirT, which is instead a component of a nitrite reductase. This family excludes TorC subunits of trimethylamine N-oxide (TMAO) reductases.
Probab=27.63 E-value=1.3e+02 Score=21.09 Aligned_cols=10 Identities=30% Similarity=0.521 Sum_probs=6.2
Q ss_pred HHHHHhcCCC
Q 035240 20 RLVKRCHKPD 29 (69)
Q Consensus 20 r~lk~~~KPd 29 (69)
|+++..+||.
T Consensus 4 ~~~~~~~k~~ 13 (185)
T TIGR02161 4 RFWKWLRRPS 13 (185)
T ss_pred HHHHHHHhhH
Confidence 4555566777
No 120
>PRK11403 hypothetical protein; Provisional
Probab=27.54 E-value=68 Score=21.45 Aligned_cols=22 Identities=27% Similarity=0.304 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 035240 35 KVAFRTAIGFVVMGFVGFFVKL 56 (69)
Q Consensus 35 ~~~k~~~lG~~i~G~IGfiIkl 56 (69)
++.+.+.-+.+++|.++|.|-|
T Consensus 2 ~~~r~~sw~aL~~G~~~YliGL 23 (113)
T PRK11403 2 KTSKTVAKLLFVVGALVYLVGL 23 (113)
T ss_pred chhHHHHHHHHHHHHHHHHHHh
Confidence 5678888899999999999865
No 121
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=27.47 E-value=31 Score=18.21 Aligned_cols=11 Identities=27% Similarity=0.413 Sum_probs=5.5
Q ss_pred CCCHHHHHHHH
Q 035240 27 KPDRKEFTKVA 37 (69)
Q Consensus 27 KPd~~Ef~~~~ 37 (69)
+|+.+||..-.
T Consensus 4 ~Pt~eEF~dp~ 14 (34)
T PF02375_consen 4 YPTMEEFKDPI 14 (34)
T ss_dssp ---HHHHS-HH
T ss_pred cCCHHHHhCHH
Confidence 69999998643
No 122
>PF09813 Coiled-coil_56: Coiled-coil domain-containing protein 56; InterPro: IPR018628 Members of this family of proteins have no known function.
Probab=27.47 E-value=44 Score=21.88 Aligned_cols=25 Identities=16% Similarity=0.268 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 33 FTKVAFRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 33 f~~~~k~~~lG~~i~G~IGfiIklI 57 (69)
....+-..++|-+++|.-+|-|+-+
T Consensus 49 ~rN~~Tgl~L~~~v~gIY~YTi~sV 73 (100)
T PF09813_consen 49 RRNLLTGLALGAFVVGIYAYTIYSV 73 (100)
T ss_pred hhhHHHHHHHHHHHHHHHhheeeee
Confidence 5667777888888999999987654
No 123
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=27.26 E-value=1.8e+02 Score=20.46 Aligned_cols=32 Identities=19% Similarity=0.312 Sum_probs=27.9
Q ss_pred hhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
+.+.+.+|.++-.++.+....-|++|+.+..+
T Consensus 226 ~~~~l~~~~~~L~~l~~~l~~~d~~~l~~~l~ 257 (258)
T PF02153_consen 226 LLEALDEFIKELNELREALEAGDEEELEELLE 257 (258)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHhc
Confidence 77888999999999999999999999987653
No 124
>smart00786 SHR3_chaperone ER membrane protein SH3. This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) PUBMED:15623581. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=27.18 E-value=73 Score=23.03 Aligned_cols=19 Identities=32% Similarity=0.649 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 035240 38 FRTAIGFVVMGFVGFFVKL 56 (69)
Q Consensus 38 k~~~lG~~i~G~IGfiIkl 56 (69)
+...=+++.+|++|++||+
T Consensus 62 ~~~Lh~V~~LGliG~~iKl 80 (196)
T smart00786 62 LYILHIVIGLGLIGFFIKL 80 (196)
T ss_pred HHHHHHHHHHHHHHHHhhe
Confidence 4455567889999999997
No 125
>cd05170 PIKKc_SMG1 Suppressor of morphogenetic effect on genitalia-1 (SMG-1), catalytic domain; The SMG-1 catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. SMG-1 is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). In addition to its catalytic domain, SMG-1 contains a FATC (FRAP, ATM and TRRAP, C-terminal) domain at the C-terminus. SMG-1 plays a critical role in the mRNA surveillance mechanism known as non-sense mediated mRNA decay (NMD). NMD protects the cells from the accumulation of aberrant mRNAs with premature termination codons (PTCs) generated by geno
Probab=26.90 E-value=2.6e+02 Score=20.62 Aligned_cols=41 Identities=22% Similarity=0.344 Sum_probs=32.0
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Q 035240 26 HKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNIIV 66 (69)
Q Consensus 26 ~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~niiv 66 (69)
+-|+.++|...-+--+...+++.++||++.+-=-=..||++
T Consensus 183 ~~~~~~~w~~~r~~f~~s~A~~s~~~yilglgDRh~~NIli 223 (307)
T cd05170 183 SSTTSSEWWSVTQRYARSTAVMSMIGYVIGLGDRHLDNVLI 223 (307)
T ss_pred hCCCHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCccEEE
Confidence 46888999999999999999999999998764434444444
No 126
>PF02498 Bro-N: BRO family, N-terminal domain; InterPro: IPR003497 This entry represents the N terminus of the Baculoviridae BRO and ALI motif proteins. The function of BRO proteins is unknown. It has been suggested that BRO-A and BRO-C are DNA binding proteins that influence host DNA replication and/or transcription []. This Pfam domain does not include the characteristic invariant alanine, leucine, isoleucine motif of the ALI proteins [].
Probab=26.58 E-value=17 Score=21.07 Aligned_cols=19 Identities=42% Similarity=0.679 Sum_probs=15.5
Q ss_pred HHHHHHhcCCCHHHHHHHH
Q 035240 19 LRLVKRCHKPDRKEFTKVA 37 (69)
Q Consensus 19 ~r~lk~~~KPd~~Ef~~~~ 37 (69)
.+++..|++|..++|++-+
T Consensus 63 y~li~~s~~~~A~~F~~Wv 81 (87)
T PF02498_consen 63 YRLIMRSNKPKAKEFRDWV 81 (87)
T ss_pred eeeeccCCChHHHHHHHHh
Confidence 4678889999999998754
No 127
>TIGR01006 polys_exp_MPA1 polysaccharide export protein, MPA1 family, Gram-positive type. This family contains members from Low GC Gram-positive bacteria; they are proposed to have a function in the export of complex polysaccharides.
Probab=26.11 E-value=70 Score=21.89 Aligned_cols=34 Identities=12% Similarity=0.128 Sum_probs=15.4
Q ss_pred HHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 20 RLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 20 r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
+++..++.|+.--.-+..+..++|+++=.++|+.
T Consensus 158 ~vl~~a~~p~~p~~P~~~~~~~~g~~~G~~~~~~ 191 (226)
T TIGR01006 158 TTLEEAKPATTPSSPNPKRNLLIGFLLGLVVALI 191 (226)
T ss_pred EEeecCCCCCCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 5555665554333323344445554443333443
No 128
>PRK04949 putative sulfate transport protein CysZ; Validated
Probab=26.04 E-value=1.1e+02 Score=22.19 Aligned_cols=36 Identities=22% Similarity=0.346 Sum_probs=22.2
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Q 035240 26 HKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNII 65 (69)
Q Consensus 26 ~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~nii 65 (69)
.=||+-++...+-....++.++.+..|. +.++.|++
T Consensus 62 ~~p~wl~wl~~ll~~l~~l~~l~l~~~l----f~~v~~~I 97 (251)
T PRK04949 62 QLPDWLSWLSYLLWPLAVLSVLLVFSFF----FSTLANFI 97 (251)
T ss_pred cCccHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHH
Confidence 4588888777776666666555444444 55555544
No 129
>PF05372 Delta_lysin: Delta lysin family; InterPro: IPR008034 Delta-lysin is a 26 amino acid, hemolytic peptide toxin secreted by Staphylococcus aureus. It is thought that delta-toxin forms an amphipathic helix upon binding to lipid bilayers []. The precise mode of action of delta-lysis is unclear.; GO: 0019836 hemolysis by symbiont of host erythrocytes, 0005576 extracellular region; PDB: 2KAM_A 2DTB_A 1DTC_A.
Probab=26.00 E-value=81 Score=15.88 Aligned_cols=15 Identities=40% Similarity=0.645 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHhh
Q 035240 46 VMGFVGFFVKLIFIP 60 (69)
Q Consensus 46 i~G~IGfiIklI~ip 60 (69)
+++.||=++|+|.-.
T Consensus 5 IisTIgdfvKlI~~T 19 (25)
T PF05372_consen 5 IISTIGDFVKLIIET 19 (25)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 678899999988643
No 130
>COG3333 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.91 E-value=1.2e+02 Score=24.99 Aligned_cols=46 Identities=20% Similarity=0.426 Sum_probs=37.6
Q ss_pred HHHhcCCCHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHhhccccccc
Q 035240 22 VKRCHKPDRKEFTKVAFRTAIGF-------------VVMGFVGFFVKLIFIPINNIIVG 67 (69)
Q Consensus 22 lk~~~KPd~~Ef~~~~k~~~lG~-------------~i~G~IGfiIklI~ipI~niivg 67 (69)
.|..+-|++==|--++..|.+|. +..|++||+.+-...|+--+++|
T Consensus 382 akll~iP~~~L~p~I~~f~~iG~Y~v~~~~fDv~~~~~fG~lgY~~~kl~~p~aPllLg 440 (504)
T COG3333 382 AKLLRIPYSVLYPIILAFCAIGVYAVNNSVFDVYLMLGFGLLGYLLRKLGFPLAPLLLG 440 (504)
T ss_pred HHHHhCcHHHHHHHHHHHHHhhhhhhcchHHHHHHHHHHHHHHHHHHHcCCCchHHHHH
Confidence 45566799999999999999984 56799999999999888766554
No 131
>COG4459 NapE Periplasmic nitrate reductase system, NapE component [Energy production and conversion]
Probab=25.71 E-value=1.6e+02 Score=17.75 Aligned_cols=18 Identities=22% Similarity=0.427 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 035240 40 TAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 40 ~~lG~~i~G~IGfiIklI 57 (69)
-.+..+++|.-||++-+.
T Consensus 33 PilsV~~VG~yGFiVWM~ 50 (62)
T COG4459 33 PILSVAFVGGYGFIVWMF 50 (62)
T ss_pred HHHHHHHhcchhHHHHHH
Confidence 345566778888887543
No 132
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=25.60 E-value=1.6e+02 Score=17.75 Aligned_cols=45 Identities=16% Similarity=0.205 Sum_probs=29.8
Q ss_pred hhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 8 FDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 8 ~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIk 55 (69)
.+.....++.++++++...|-++.+..-+. ..=.++++.++|+++
T Consensus 45 ~~~~~~~l~~s~~ll~~l~r~~~~D~~li~---~~~~~f~~~v~yI~~ 89 (92)
T PF03908_consen 45 YDGQSSLLKKSRKLLKKLERRDKTDRILIF---FAFLFFLLVVLYILW 89 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHH---HHHHHHHHHHHHHhh
Confidence 344677888899999888877666655443 223345677777764
No 133
>PF14410 GH-E: HNH/ENDO VII superfamily nuclease with conserved GHE residues
Probab=25.54 E-value=1e+02 Score=18.39 Aligned_cols=22 Identities=36% Similarity=0.382 Sum_probs=17.3
Q ss_pred HHHHHHHHHHh--cCCCHHHHHHH
Q 035240 15 AKDSLRLVKRC--HKPDRKEFTKV 36 (69)
Q Consensus 15 ~~~~~r~lk~~--~KPd~~Ef~~~ 36 (69)
-.+|++....+ ..++++||..-
T Consensus 26 ~~e~~~~~~~~~~~~~t~ke~~d~ 49 (70)
T PF14410_consen 26 GVEYWRLVGRAEEGGITRKEFLDW 49 (70)
T ss_pred HHHHHHHHHHHHhcCCCHHHHHHH
Confidence 45778888888 88999999753
No 134
>PF10981 DUF2788: Protein of unknown function (DUF2788); InterPro: IPR021249 This bacterial family of proteins have no known function.
Probab=25.49 E-value=1.4e+02 Score=17.29 Aligned_cols=16 Identities=31% Similarity=0.447 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHH
Q 035240 43 GFVVMGFVGFFVKLIF 58 (69)
Q Consensus 43 G~~i~G~IGfiIklI~ 58 (69)
.-+..|..||++|-+.
T Consensus 33 ~vLglG~~GFi~K~ii 48 (52)
T PF10981_consen 33 LVLGLGCAGFIAKGII 48 (52)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3345688888888664
No 135
>PF14072 DndB: DNA-sulfur modification-associated
Probab=25.48 E-value=2e+02 Score=20.87 Aligned_cols=50 Identities=16% Similarity=0.439 Sum_probs=29.3
Q ss_pred hhhhhhHHHHHHHHHHHHHH---hcCCCH--HHH-HHHHHHHHHHHHHHHHHHHHH
Q 035240 5 DNVFDPLRDFAKDSLRLVKR---CHKPDR--KEF-TKVAFRTAIGFVVMGFVGFFV 54 (69)
Q Consensus 5 ~~~~e~~~~f~~~~~r~lk~---~~KPd~--~Ef-~~~~k~~~lG~~i~G~IGfiI 54 (69)
+...+.+.+|++.+...+.. ..+++. .+| .+.....++|+-.+|.++..+
T Consensus 229 ~~~~~~l~~f~~~v~~~~~~w~~~~~~~~~~~~~r~~~~~~~~v~l~alg~~~~~~ 284 (346)
T PF14072_consen 229 EEIYEILNNFWDAVAEVFPEWQKLFEKENSPVDFREKSILTHSVGLRALGFLGKRL 284 (346)
T ss_pred HHHHHHHHHHHHHHHHHChHHHHhhcccCchhhHhhHhhhcchHHHHHHHHHHHHH
Confidence 44556666666666555422 222221 234 344566788888899888774
No 136
>PRK09592 celD cellobiose phosphotransferase system IIC component; Reviewed
Probab=25.46 E-value=2.1e+02 Score=22.34 Aligned_cols=49 Identities=18% Similarity=0.287 Sum_probs=31.3
Q ss_pred ChhhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH---HHHHHHHHHHHHHHH
Q 035240 1 MDAIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRT---AIGFVVMGFVGFFVK 55 (69)
Q Consensus 1 m~~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~---~lG~~i~G~IGfiIk 55 (69)
|||++++.+.++ ++++..+.|=++.-|.+..+-. .+-+.++|.+.-++.
T Consensus 1 ~~~~~~~~~~~~------~~l~p~~~k~~~~~~l~air~g~~~~iP~~ivGs~~~li~ 52 (449)
T PRK09592 1 MDQQNGLFGFLE------KHLMGPMGKLAQFRIVRAIMAAGMASIPFTIVGSMFLVLS 52 (449)
T ss_pred ChhHHHHHHHHH------HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788876655433 4566777777777887776654 455566666555544
No 137
>COG3617 Prophage antirepressor [Transcription]
Probab=25.23 E-value=63 Score=22.51 Aligned_cols=22 Identities=23% Similarity=0.478 Sum_probs=18.1
Q ss_pred HHHHHHHhcCCCHHHHHHHHHH
Q 035240 18 SLRLVKRCHKPDRKEFTKVAFR 39 (69)
Q Consensus 18 ~~r~lk~~~KPd~~Ef~~~~k~ 39 (69)
..+++-+|+||..++|.+=...
T Consensus 79 lY~li~~sr~~~A~~Fr~WV~~ 100 (176)
T COG3617 79 LYKLIMRSRKPEAEKFRRWVTD 100 (176)
T ss_pred HHHHHHHcCCchHHHHHHHHHH
Confidence 5678899999999999875543
No 138
>cd05163 TRRAP TRansformation/tRanscription domain-Associated Protein (TRRAP), pseudokinase domain; The TRRAP catalytic domain is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. TRRAP shows some similarity to members of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily in that it contains a FATC (FRAP, ATM and TRRAP, C-terminal) domain and has a large molecular weight. Unlike PIKK proteins, however, it contains an inactive PI3K-like pseudokinase domain, which lacks the conserved residues necessary for ATP binding and catalytic activity. TRRAP also contains many motifs that may be critical for protein-protein interactions. TRRAP is a common component of many histone acetyltransferase (HAT) complexes, and is responsible for the recruitment of these complexes to chromatin during transcription, replicat
Probab=25.23 E-value=2.6e+02 Score=20.06 Aligned_cols=41 Identities=7% Similarity=0.205 Sum_probs=30.8
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Q 035240 26 HKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNIIV 66 (69)
Q Consensus 26 ~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~niiv 66 (69)
+=||.++|...-+--+--.+++.++||++-+---=-.||++
T Consensus 128 ~~~~~~~~~~~r~~ft~s~A~~s~~gYilglgdRh~~nili 168 (253)
T cd05163 128 TFPTYQDYWLFRKQFTYQLALLSFMTYILSINNRNPDKIFI 168 (253)
T ss_pred HCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCchhEEE
Confidence 45788999988888899999999999997654333334443
No 139
>COG0287 TyrA Prephenate dehydrogenase [Amino acid transport and metabolism]
Probab=25.09 E-value=2e+02 Score=21.15 Aligned_cols=35 Identities=14% Similarity=0.208 Sum_probs=30.1
Q ss_pred hhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035240 6 NVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRT 40 (69)
Q Consensus 6 ~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~ 40 (69)
.+++.+.+|.++..+.-...+.-|+++|.+..+-+
T Consensus 238 ~~l~~i~~~~~~l~~l~~~i~~~d~~~l~~~~~~a 272 (279)
T COG0287 238 ALLEAIERFAKSLDELKELIENGDAEALADLFEEA 272 (279)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence 37888999999999999999999999998876543
No 140
>PF10999 DUF2839: Protein of unknown function (DUF2839); InterPro: IPR021262 This bacterial family of unknown function appear to be restricted to Cyanobacteria.
Probab=25.06 E-value=62 Score=19.66 Aligned_cols=27 Identities=26% Similarity=0.419 Sum_probs=20.1
Q ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHH
Q 035240 31 KEFTKVA-FRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 31 ~Ef~~~~-k~~~lG~~i~G~IGfiIklI 57 (69)
+.|.+.. |-.-+||.+++++-.++++|
T Consensus 34 ~~~~~~ttkg~w~gig~l~~~wi~vrfi 61 (68)
T PF10999_consen 34 KQFYKLTTKGPWIGIGILVLIWIIVRFI 61 (68)
T ss_pred HHHHHHhhcccchhHHHHHHHHHHHHhh
Confidence 4466555 78889998888888777665
No 141
>PRK12797 type III secretion system protein YscR; Provisional
Probab=24.74 E-value=2.8e+02 Score=20.21 Aligned_cols=24 Identities=33% Similarity=0.685 Sum_probs=14.6
Q ss_pred hhhhhhhHHHHHH------HHHHHHHHhcC
Q 035240 4 IDNVFDPLRDFAK------DSLRLVKRCHK 27 (69)
Q Consensus 4 ~~~~~e~~~~f~~------~~~r~lk~~~K 27 (69)
.++-.+++|+|.. |-..|.+.+++
T Consensus 95 ~~~~~~Plr~Fm~~~t~~~~l~~F~~~a~~ 124 (213)
T PRK12797 95 LDAALAPLRDFLKKHTDERERTFFVRSAQR 124 (213)
T ss_pred HHHHHhHHHHHHHHhCCHHHHHHHHHHhCc
Confidence 4556777777763 34456666654
No 142
>TIGR01102 yscR type III secretion apparatus protein, YscR/HrcR family. This model identifies the generic virulence translocation proteins in bacteria. It derives its name:'Yop' from Yersinia enterocolitica species, where this virulence protein was identified. In bacterial pathogenesis, Yop effector proteins are translocated into the eukaryotic cells.
Probab=24.71 E-value=2.4e+02 Score=20.44 Aligned_cols=25 Identities=24% Similarity=0.461 Sum_probs=15.5
Q ss_pred hhhhhhhhHHHHHH------HHHHHHHHhcC
Q 035240 3 AIDNVFDPLRDFAK------DSLRLVKRCHK 27 (69)
Q Consensus 3 ~~~~~~e~~~~f~~------~~~r~lk~~~K 27 (69)
..++-.+++|+|.. |-..+.+.+++
T Consensus 85 a~~~~~~Plr~Fm~~~t~~~~l~~f~~~a~~ 115 (202)
T TIGR01102 85 SLDAGLAPYREFLKKNTDEDEVAFFERSTQK 115 (202)
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHhCc
Confidence 35566778888873 44455666654
No 143
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=24.34 E-value=1.7e+02 Score=22.60 Aligned_cols=15 Identities=20% Similarity=0.421 Sum_probs=11.5
Q ss_pred CCCHHHHHHHHHHHH
Q 035240 27 KPDRKEFTKVAFRTA 41 (69)
Q Consensus 27 KPd~~Ef~~~~k~~~ 41 (69)
.|+.+||++.+-..|
T Consensus 9 ~p~~~~Y~qsL~~la 23 (406)
T PF04906_consen 9 NPQDEEYQQSLLILA 23 (406)
T ss_pred CCCCHHHHHHHHHHH
Confidence 699999999865443
No 144
>PF02791 DDT: DDT domain; InterPro: IPR004022 This domain is predicted to be a DNA binding domain. The DDT domain is named after (DNA binding homeobox and Different Transcription factors). It is found in foetal Alzheimer antigen and several hypothetical and uncharacterised proteins.
Probab=24.21 E-value=1.5e+02 Score=16.75 Aligned_cols=36 Identities=8% Similarity=0.150 Sum_probs=27.0
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 035240 2 DAIDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFR 39 (69)
Q Consensus 2 ~~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~ 39 (69)
+.+..++. +.+|++...+.++.... +-|+|.+..+-
T Consensus 2 ~~~~~~L~-v~~Fl~~F~~~L~L~~f-tlddf~~AL~~ 37 (61)
T PF02791_consen 2 EAFGDLLM-VWEFLNTFGEVLGLSPF-TLDDFEQALLC 37 (61)
T ss_pred cHHHHHHH-HHHHHHHHHHHHcCCcC-CHHHHHHHHcC
Confidence 34445555 68999999999998877 88888776543
No 145
>COG1891 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.05 E-value=22 Score=26.15 Aligned_cols=45 Identities=22% Similarity=0.329 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 035240 14 FAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLIFIPIN 62 (69)
Q Consensus 14 f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ipI~ 62 (69)
-+||.++.+.-..+-+-+||...+.-.|+=.++-|.+++= |+|+-
T Consensus 153 aiKDGkslFdfm~~e~l~eFvd~Ah~hGL~~AlAGs~~~e----hlp~l 197 (235)
T COG1891 153 AIKDGKSLFDFMDEEELEEFVDLAHEHGLEVALAGSLKFE----HLPIL 197 (235)
T ss_pred ccccchhHHhhhcHHHHHHHHHHHHHcchHHHhccccccc----cchHH
Confidence 3678888999999999999999999999999999998875 66653
No 146
>PF10136 SpecificRecomb: Site-specific recombinase; InterPro: IPR011385 This group represents a site-specific recombinase Gcr. Please see the following relevant reference: [].
Probab=23.81 E-value=75 Score=26.56 Aligned_cols=44 Identities=23% Similarity=0.391 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHHHHHh-----c-------CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 10 PLRDFAKDSLRLVKRC-----H-------KPDRKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 10 ~~~~f~~~~~r~lk~~-----~-------KPd~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
+++++++++.+.+.+- . .=||+||.+..+.++-|=+++++..++
T Consensus 290 sir~L~~~n~~lLAr~vtE~~s~tGEHYItr~r~EY~~M~~sAaGGG~iia~ma~l 345 (643)
T PF10136_consen 290 SIRALWRSNTSLLARKVTENASETGEHYITRDRKEYFAMLRSAAGGGLIIAFMALL 345 (643)
T ss_pred cHHHHHHHHHHHHHHHHHHhcCCCCCCcccCCHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 4577777777766543 1 358999999999999888888887765
No 147
>COG3944 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]
Probab=23.58 E-value=84 Score=23.29 Aligned_cols=25 Identities=24% Similarity=0.287 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 30 RKEFTKVAFRTAIGFVVMGFVGFFV 54 (69)
Q Consensus 30 ~~Ef~~~~k~~~lG~~i~G~IGfiI 54 (69)
++++..++-++.++.++.|++-|++
T Consensus 15 ~K~~~lIlivti~~~~~~~~~sffv 39 (226)
T COG3944 15 MKRKKLILIVTILFVAISAIVSFFV 39 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHheee
Confidence 4577888999999999999998883
No 148
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=23.34 E-value=87 Score=20.40 Aligned_cols=17 Identities=35% Similarity=0.604 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 035240 40 TAIGFVVMGFVGFFVKL 56 (69)
Q Consensus 40 ~~lG~~i~G~IGfiIkl 56 (69)
+++|+++=.+|||++.-
T Consensus 2 ~~i~lvvG~iiG~~~~r 18 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIGR 18 (128)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 35666666678888643
No 149
>TIGR02459 CbtB cobalt transporter subunit CbtB (proposed). This model represents a family of proteins which have been proposed to act as cobalt transporters acting in concert with vitamin B12 biosynthesis systems. Evidence for this assignment includes 1) prediction of a single trans-membrane segment and a C-terminal histidine-rich motif likely to be a metal-binding site, 2) positional gene linkage with known B12 biosynthesis genes, 3) upstream proximity of B12 transcriptional regulatory sites, 4) the absence of other known cobalt import systems and 5) the obligate co-localization with a protein (CbtA) predicted to have five additional trans-membrane segments.
Probab=23.28 E-value=1.5e+02 Score=17.69 Aligned_cols=24 Identities=21% Similarity=0.438 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 30 RKEFTKVAFRTAIGFVVMGFVGFF 53 (69)
Q Consensus 30 ~~Ef~~~~k~~~lG~~i~G~IGfi 53 (69)
++-.....-+..+|.+++.++||-
T Consensus 16 ~~r~~~~~~a~~lgl~~ly~vG~~ 39 (60)
T TIGR02459 16 AARLAAALVAALLGLFLVYFVGFS 39 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhc
Confidence 444556667778888888888874
No 150
>PF09537 DUF2383: Domain of unknown function (DUF2383); InterPro: IPR019052 This entry represents a functionally uncharacterised ferritin like domain.; PDB: 3FSE_B.
Probab=22.99 E-value=1.4e+02 Score=18.03 Aligned_cols=32 Identities=16% Similarity=0.369 Sum_probs=23.8
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHhcCCCHHHH
Q 035240 2 DAIDNVFDPLRDFAKDSLRLVKRCHKPDRKEF 33 (69)
Q Consensus 2 ~~~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef 33 (69)
+.++.+++...+=.+-|.+....|+-|+-+.+
T Consensus 4 ~~Ln~Ll~~~~d~~~~Y~~a~~~~~~~~lk~~ 35 (111)
T PF09537_consen 4 EALNDLLKGLHDGIEGYEKAAEKAEDPELKSL 35 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--SHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence 46778888888888999999999997765543
No 151
>KOG2528 consensus Sorting nexin SNX9/SH3PX1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.92 E-value=1.3e+02 Score=24.62 Aligned_cols=28 Identities=21% Similarity=0.241 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 11 LRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 11 ~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
+++...-..-++|+|.-|-++||+++-.
T Consensus 346 ~~~l~~~~~~~~k~~~~~~kke~qk~g~ 373 (490)
T KOG2528|consen 346 VRQLNTTANEFWKRKVGGFKKEYQKMGS 373 (490)
T ss_pred HHHHhhhhHHHHHHhcccchHHHHHHHH
Confidence 3444455667889999999999999843
No 152
>PF09032 Siah-Interact_N: Siah interacting protein, N terminal ; InterPro: IPR015120 The N-terminal domain of Siah interacting protein (SIP) adopts a helical hairpin structure with a hydrophobic core stabilised by a classic knobs-and-holes arrangement of side chains contributed by the two amphipathic helices. Little is known about this domain's function, except that it is crucial for interactions with Siah. It has also been hypothesised that SIP can dimerise through this N-terminal domain []. ; PDB: 1YSM_A 2A26_C 2A25_B 1X5M_A.
Probab=22.83 E-value=2e+02 Score=17.79 Aligned_cols=33 Identities=9% Similarity=0.131 Sum_probs=27.2
Q ss_pred hhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 6 NVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 6 ~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
+-++.++.-+.+-++++..|++|.-+++...-+
T Consensus 3 ~~i~eL~~Dl~El~~Ll~~a~R~rVk~~L~~ei 35 (79)
T PF09032_consen 3 EQIEELQLDLEELKSLLEQAKRKRVKDLLTNEI 35 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 446668888899999999999999998876543
No 153
>PRK11166 chemotaxis regulator CheZ; Provisional
Probab=22.81 E-value=2.2e+02 Score=20.60 Aligned_cols=31 Identities=0% Similarity=-0.093 Sum_probs=21.8
Q ss_pred hhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFR 39 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~ 39 (69)
+-+..+..-++|.+++. +.-+.+||...+.-
T Consensus 83 l~~~a~~L~~~w~~l~~--~~~~~~e~~~L~~~ 113 (214)
T PRK11166 83 LEKEAKALDARWDEWFA--NPIELADARELVTD 113 (214)
T ss_pred HHHHHHHHHHHHHHHHc--CCCCHHHHHHHHHH
Confidence 55567778888888877 44567788776643
No 154
>TIGR02119 panF sodium/pantothenate symporter. Pantothenate (vitamin B5) is a precursor of coenzyme A and is made from aspartate and 2-oxoisovalerate in most bacteria with completed genome sequences. However, some pathogens must import pantothenate. This model describes PanF, a sodium/pantothenate symporter, from a larger family of Sodium/substrate symporters (pfam00474). Several species that have this transporter appear to lack all enzymes of pantothenate biosynthesis, namely Haemophilus influenzae, Pasteurella multocida, Fusobacterium nucleatum, and Borrelia burgdorferi.
Probab=22.78 E-value=1.9e+02 Score=21.97 Aligned_cols=19 Identities=5% Similarity=0.146 Sum_probs=12.1
Q ss_pred CCHHHHHHHHHHHHHHHHH
Q 035240 28 PDRKEFTKVAFRTAIGFVV 46 (69)
Q Consensus 28 Pd~~Ef~~~~k~~~lG~~i 46 (69)
+|.++..++++++.+++.+
T Consensus 359 ~~~~~~~~~~r~~~~~~g~ 377 (471)
T TIGR02119 359 AKESKIKKISMCITLIIGL 377 (471)
T ss_pred CChHHHHHHHHHHHHHHHH
Confidence 4456777888776655543
No 155
>PF06686 SpoIIIAC: Stage III sporulation protein AC/AD protein family
Probab=22.70 E-value=1.5e+02 Score=16.48 Aligned_cols=37 Identities=16% Similarity=0.229 Sum_probs=21.4
Q ss_pred HHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 21 LVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 21 ~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiIklI 57 (69)
++|..++|+...+...+--+.+=+.+++-+..++..+
T Consensus 18 vlk~~~~~e~a~~isla~~i~I~~~~~~~i~~l~~~i 54 (58)
T PF06686_consen 18 VLKQAGEPEYASLISLAGGILIFLLVLPKISSLFETI 54 (58)
T ss_pred HHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666555555555556665555443
No 156
>PF02392 Ycf4: Ycf4; InterPro: IPR003359 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane. It consists of 11 subunits, ~100 chlorophyll a molecules, 2 phylloquinones, and 3 Fe4S4-clusters. The three dimensional structure of the PSI complex has been resolved at 2.5 A [], which allows the precise localisation of each cofactor. PSI together with photosystem II (PSII) catalyses the light-induced steps in oxygenic photosynthesis - a process found in cyanobacteria, eukaryotic algae (e.g. red algae, green algae) and higher plants. To date, three thylakoid proteins involved in the stable accumulation of PSI have been identified: BtpA (IPR005137 from INTERPRO) [], Ycf3 [, ], and Ycf4 []. Because translation of the psaA and psaB mRNAs encoding the two reaction centre polypeptides, of PSI and PSII respectively, is not affected in mutant strains lacking functional ycf3 and ycf4, the products of these two genes appear to act at a post-translational step of PSI biosynthesis. These gene products are therefore involved either in the stabilisation or in the assembly of the PSI complex. However, their exact roles remain unknown. The BtpA protein appears to act at the level of PSI stabilisation []. It is an extrinsic membrane protein located on the cytoplasmic side of the thylakoid membrane [, ]. Homologs of BtpA are found in the crenarchaeota and euryarchaeota, where their function remains unknown. The Ycf4 protein is firmly associated with the thylakoid membrane, presumably through a transmembrane domain []. Ycf4 co-fractionates with a protein complex larger than PSI upon sucrose density gradient centrifugation of solubilised thylakoids []. The Ycf3 protein is loosely associated with the thylakoid membrane and can be released from the membrane with sodium carbonate. This suggests that Ycf3 is not part of a stable complex and that it probably interacts transiently with its partners []. Ycf3 contains a number of tetratrico peptide repeats (TPR, IPR001440 from INTERPRO); TPR is a structural motif present in a wide range of proteins, which mediates protein-protein interactions. ; GO: 0015979 photosynthesis, 0009522 photosystem I, 0009579 thylakoid, 0016021 integral to membrane
Probab=22.66 E-value=1.2e+02 Score=21.64 Aligned_cols=31 Identities=13% Similarity=0.358 Sum_probs=21.4
Q ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 24 RCHKPDRKEFTKVAFRTAIGFVVMGFVGFFV 54 (69)
Q Consensus 24 ~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiI 54 (69)
-+||++-==.--+.-.-++||+++|+--|+=
T Consensus 12 GSRr~SN~~wa~ii~~G~lGFll~G~sSYl~ 42 (180)
T PF02392_consen 12 GSRRFSNYFWAFIIFLGGLGFLLVGISSYLG 42 (180)
T ss_pred ccchHHHHHHHHHHHHhhHHHHHhHHHHHhC
Confidence 3455555455566777788888888888873
No 157
>COG4062 MtrB Tetrahydromethanopterin S-methyltransferase, subunit B [Coenzyme metabolism]
Probab=22.47 E-value=2.4e+02 Score=18.68 Aligned_cols=55 Identities=18% Similarity=0.367 Sum_probs=35.5
Q ss_pred ChhhhhhhhhHHHHHHHHHHHHHHhcC-----CCHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Q 035240 1 MDAIDNVFDPLRDFAKDSLRLVKRCHK-----PDRKEF-------TKVAFRTAIGFVVMGFVGFFVK 55 (69)
Q Consensus 1 m~~~~~~~e~~~~f~~~~~r~lk~~~K-----Pd~~Ef-------~~~~k~~~lG~~i~G~IGfiIk 55 (69)
||-+++-++.+....+|..+=+.=++. |.||-- .....-..+|..++|++++++-
T Consensus 33 v~pi~Eqi~kLe~~vddl~~sldPstp~lnS~PgRegv~~~aG~~tna~yGfviGl~i~aLlAlil~ 99 (108)
T COG4062 33 VDPIEEQIKKLETLVDDLENSLDPSTPPLNSFPGREGVYATAGYLTNAFYGFVIGLGIMALLALILG 99 (108)
T ss_pred ccHHHHHHHHHHHHHHHHHhccCCCCCCcccCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566667788888888887765544 556543 3333445577777888777654
No 158
>COG4036 Predicted membrane protein [Function unknown]
Probab=22.47 E-value=45 Score=24.45 Aligned_cols=34 Identities=29% Similarity=0.615 Sum_probs=28.5
Q ss_pred HHHhcCCCHHHHHHHHHHHHHHHH--HHHHHHHHHH
Q 035240 22 VKRCHKPDRKEFTKVAFRTAIGFV--VMGFVGFFVK 55 (69)
Q Consensus 22 lk~~~KPd~~Ef~~~~k~~~lG~~--i~G~IGfiIk 55 (69)
-+|++.|.-+|..-++-++|+|-+ +-||++|+.+
T Consensus 148 srRa~g~~~~EW~Gi~giSGi~WalWvaGF~~FF~~ 183 (224)
T COG4036 148 SRRANGPHYEEWRGIEGISGIGWALWVAGFSTFFLH 183 (224)
T ss_pred HhhccCCCchhcccccccchHHHHHHHHHHHHHHhc
Confidence 357899999999999999999866 4699998854
No 159
>KOG1997 consensus PH domain-containing protein [Signal transduction mechanisms]
Probab=22.43 E-value=1.7e+02 Score=27.16 Aligned_cols=36 Identities=17% Similarity=0.181 Sum_probs=30.2
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHhc---CCCHHHHHHHHH
Q 035240 3 AIDNVFDPLRDFAKDSLRLVKRCH---KPDRKEFTKVAF 38 (69)
Q Consensus 3 ~~~~~~e~~~~f~~~~~r~lk~~~---KPd~~Ef~~~~k 38 (69)
.++++-+..++|.+.|.+-+++++ ++|.+||..-++
T Consensus 1443 ~~~kLr~~fr~f~~~C~~Al~~n~~lI~~Dq~eyh~~L~ 1481 (1518)
T KOG1997|consen 1443 HLNKLRLCFREFMKVCQDALELNERLIGEDQKEYHEELE 1481 (1518)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence 467788899999999998887664 799999998765
No 160
>PRK05685 fliS flagellar protein FliS; Validated
Probab=22.41 E-value=1.6e+02 Score=19.18 Aligned_cols=27 Identities=26% Similarity=0.263 Sum_probs=20.8
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHhcCCC
Q 035240 3 AIDNVFDPLRDFAKDSLRLVKRCHKPD 29 (69)
Q Consensus 3 ~~~~~~e~~~~f~~~~~r~lk~~~KPd 29 (69)
.+++..+.+++....|..+.+..+||.
T Consensus 106 ~l~ev~~il~~LreaW~~i~~~~~~~~ 132 (132)
T PRK05685 106 AIDEVEGLLREIKEAWKQIPPEEHNIQ 132 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccCC
Confidence 466777777888888888888888774
No 161
>PF11368 DUF3169: Protein of unknown function (DUF3169); InterPro: IPR021509 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently there is no known function.
Probab=22.20 E-value=1.9e+02 Score=20.36 Aligned_cols=29 Identities=28% Similarity=0.542 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 30 RKEFTKVAFRTAIGFVVMGFVGFFVKLIF 58 (69)
Q Consensus 30 ~~Ef~~~~k~~~lG~~i~G~IGfiIklI~ 58 (69)
++-+.+.+....+|-++=|++||+.-.+.
T Consensus 5 k~~~~~~~~~illg~~iGg~~G~~~~~~~ 33 (248)
T PF11368_consen 5 KKRILRFLLLILLGGLIGGFIGFFIGRIG 33 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34688888999999888899999876554
No 162
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=22.10 E-value=2.4e+02 Score=18.53 Aligned_cols=32 Identities=16% Similarity=0.232 Sum_probs=22.8
Q ss_pred hhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHH
Q 035240 4 IDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTK 35 (69)
Q Consensus 4 ~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~ 35 (69)
++++...+++...+--.+|+-+.+|..+|+..
T Consensus 10 ~~~l~~el~~L~d~lEevL~ssg~~a~~e~~~ 41 (104)
T COG4575 10 IDQLLAELQELLDTLEEVLKSSGSLAGDEAEE 41 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccchhhHHHH
Confidence 35666667777777777777777777777754
No 163
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=22.01 E-value=53 Score=20.34 Aligned_cols=22 Identities=23% Similarity=0.462 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHhcCCCHHH
Q 035240 11 LRDFAKDSLRLVKRCHKPDRKE 32 (69)
Q Consensus 11 ~~~f~~~~~r~lk~~~KPd~~E 32 (69)
.++|-.--.|+++..|+|..+|
T Consensus 56 y~~~GA~e~~~~~~vR~P~~~E 77 (78)
T PF14206_consen 56 YKKFGACEERMLKHVRPPTEEE 77 (78)
T ss_pred HHHHCcccHHHHhhCCCCCccC
Confidence 3445555678999999999886
No 164
>cd08812 CARD_RIG-I_like Caspase activation and recruitment domains found in RIG-I-like DEAD box helicases. Caspase activation and recruitment domains (CARDs) found in Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. These helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, RIG-I and MDA5 have been shown to recognize different sets of viruses. MDA5 and RIG-I associate with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mec
Probab=21.99 E-value=72 Score=19.52 Aligned_cols=23 Identities=30% Similarity=0.510 Sum_probs=16.8
Q ss_pred HHHHhcCCCH-HHHHHHHHHHHHH
Q 035240 21 LVKRCHKPDR-KEFTKVAFRTAIG 43 (69)
Q Consensus 21 ~lk~~~KPd~-~Ef~~~~k~~~lG 43 (69)
-|.+|++|+| ++|...+..++-+
T Consensus 59 ~L~~~r~~~wf~~Fl~AL~~~g~~ 82 (88)
T cd08812 59 RLERCDKPGWFQAFLDALRRTGND 82 (88)
T ss_pred HHHHhccCCcHHHHHHHHHHcCCc
Confidence 3455789998 6888888777643
No 165
>PRK09459 pspG phage shock protein G; Reviewed
Probab=21.98 E-value=2.1e+02 Score=17.85 Aligned_cols=13 Identities=23% Similarity=0.613 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHH
Q 035240 45 VVMGFVGFFVKLI 57 (69)
Q Consensus 45 ~i~G~IGfiIklI 57 (69)
++-|..|..||+.
T Consensus 36 ~l~Gm~~lviKLL 48 (76)
T PRK09459 36 FLGGMFALMIKLL 48 (76)
T ss_pred HHHHHHHHHHHHH
Confidence 3448888888874
No 166
>PTZ00475 RESA-like protein; Provisional
Probab=21.94 E-value=90 Score=23.77 Aligned_cols=50 Identities=12% Similarity=0.111 Sum_probs=29.8
Q ss_pred hhhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 4 IDNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAFRTAIGFVVMGFVGFFV 54 (69)
Q Consensus 4 ~~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~i~G~IGfiI 54 (69)
..+++..+++.+..|..=-.-+..+-++|=.+.+. +..|-.++-.|||+=
T Consensus 64 E~kLAl~LrdrLq~YVdg~~ew~~~~e~Eak~L~~-ssFg~~iLesIGwiY 113 (282)
T PTZ00475 64 EEEVAELLKDRLDLYIDNEDEWEKLMENEISMLLK-SSFSNFILESIGWTY 113 (282)
T ss_pred HHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh-CcccHHHHHHhHHHH
Confidence 34566666777766653222222333344444444 678899999999974
No 167
>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional
Probab=21.68 E-value=1.6e+02 Score=20.20 Aligned_cols=24 Identities=17% Similarity=0.252 Sum_probs=16.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHH
Q 035240 27 KPDRKEFTKVAFRTAIGFVVMGFV 50 (69)
Q Consensus 27 KPd~~Ef~~~~k~~~lG~~i~G~I 50 (69)
.|+|.+|++.+-....|+...|.+
T Consensus 11 d~~RR~FL~~~~~~~gg~~a~~~~ 34 (178)
T PRK13474 11 SMGRRQFMNLLTFGTVTGVALGAL 34 (178)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHH
Confidence 368999999877666666554443
No 168
>TIGR03233 DNA_S_dndB DNA sulfur modification protein DndB. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndB is described as a putative ATPase.
Probab=21.57 E-value=3.9e+02 Score=20.71 Aligned_cols=37 Identities=14% Similarity=0.189 Sum_probs=23.9
Q ss_pred HHHHHHHHHhcCCCHHHHHH-HHHHHHHHHHHHHHHHHHH
Q 035240 16 KDSLRLVKRCHKPDRKEFTK-VAFRTAIGFVVMGFVGFFV 54 (69)
Q Consensus 16 ~~~~r~lk~~~KPd~~Ef~~-~~k~~~lG~~i~G~IGfiI 54 (69)
.+|..+.++-..| .||.+ ..-.+++|+-.+|.+|+-+
T Consensus 247 ~~w~~v~~~~~s~--~e~R~~~I~~h~V~L~alG~~g~~l 284 (355)
T TIGR03233 247 PEWQLVREKRLSA--GELRRDFIHAHGIALHALGLVGKDL 284 (355)
T ss_pred hHHHHHHhcCCCH--HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445444443322 46644 4557899999999999964
No 169
>PF03773 DUF318: Predicted permease; InterPro: IPR005524 This family of predicted integral membrane proteins.
Probab=21.38 E-value=1.9e+02 Score=21.06 Aligned_cols=27 Identities=22% Similarity=0.298 Sum_probs=23.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035240 28 PDRKEFTKVAFRTAIGFVVMGFVGFFV 54 (69)
Q Consensus 28 Pd~~Ef~~~~k~~~lG~~i~G~IGfiI 54 (69)
=.++||.++.+...+|.++.|++.-++
T Consensus 183 ~~~~~~~~v~~~lliG~~iaa~i~~~i 209 (307)
T PF03773_consen 183 HFWDEFKMVGPYLLIGVFIAALIQAFI 209 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 457899999999999999999887654
No 170
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=21.31 E-value=2.7e+02 Score=18.68 Aligned_cols=34 Identities=21% Similarity=0.372 Sum_probs=25.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 5 DNVFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 5 ~~~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
++-++.+.+.+++++.++++|.|=.|-.+.+-.+
T Consensus 65 ~ee~e~L~~~L~~g~~LV~k~sk~~r~n~~kk~~ 98 (147)
T PF05659_consen 65 QEEIERLKELLEKGKELVEKCSKVRRWNLYKKPR 98 (147)
T ss_pred hHHHHHHHHHHHHHHHHHHHhccccHHHHHhhHh
Confidence 3447778899999999999999988766544433
No 171
>COG4949 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]
Probab=21.30 E-value=72 Score=25.35 Aligned_cols=23 Identities=22% Similarity=0.439 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 035240 37 AFRTAIGFVVMGFVGFFVKLIFI 59 (69)
Q Consensus 37 ~k~~~lG~~i~G~IGfiIklI~i 59 (69)
+.+.+++--++|++||.-|-+..
T Consensus 364 LSvaAvsYYVvGLiGYl~K~~sh 386 (424)
T COG4949 364 LSVAAVSYYVVGLIGYLAKAWSH 386 (424)
T ss_pred ceehhhhHHHHHHHHHHHHHHHh
Confidence 35678899999999999996543
No 172
>cd05491 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, limited to fungi. TBP7, or TAT-binding protein homolog 7, is a yeast protein of unknown function that contains AAA-superfamily ATP-ase domains and a bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=21.29 E-value=72 Score=21.32 Aligned_cols=26 Identities=27% Similarity=0.471 Sum_probs=21.7
Q ss_pred hhhhHHHHHHHHHHHHHHhcCCCHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRCHKPDRKE 32 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~KPd~~E 32 (69)
.-..+++|++|-+++++-|++=+-+|
T Consensus 78 ~Y~tp~~F~~DiklI~~Nc~~ynd~d 103 (119)
T cd05491 78 YYATPKDFLKDIKRIVRDAKTIGDRE 103 (119)
T ss_pred CCCCHHHHHHHHHHHHHHHHHhCCHH
Confidence 34568999999999999999877665
No 173
>PF05197 TRIC: TRIC channel; InterPro: IPR007866 TRIC (trimeric intracellular cation) channels are differentially expressed in intracellular stores in animal cell types. TRIC subtypes contain three proposed transmembrane segments, and form homo-trimers with a bullet-like structure. Electrophysiological measurements with purified TRIC preparations identify a monovalent cation-selective channel []. ; GO: 0005261 cation channel activity, 0015672 monovalent inorganic cation transport, 0016020 membrane
Probab=21.26 E-value=1.5e+02 Score=21.14 Aligned_cols=32 Identities=22% Similarity=0.301 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHH---HHHHHHH
Q 035240 12 RDFAKDSLRLVKRCHKPDRKEFTKV---AFRTAIG 43 (69)
Q Consensus 12 ~~f~~~~~r~lk~~~KPd~~Ef~~~---~k~~~lG 43 (69)
.++++.-.|.++-.=||+..|+.+- .|++.+|
T Consensus 123 ~~~~~~~~~llrg~w~p~~~e~l~pSf~tK~~l~~ 157 (197)
T PF05197_consen 123 GGFMKPFEQLLRGSWKPESNELLKPSFPTKACLLA 157 (197)
T ss_pred chHHHHHHHHHhcCCCcccHHHHhccchHHHHHHH
Confidence 3678888899999899999999984 4555444
No 174
>PRK04132 replication factor C small subunit; Provisional
Probab=21.16 E-value=62 Score=27.80 Aligned_cols=22 Identities=32% Similarity=0.443 Sum_probs=18.2
Q ss_pred HHHhcCCCHHHHHHHHHHHHHH
Q 035240 22 VKRCHKPDRKEFTKVAFRTAIG 43 (69)
Q Consensus 22 lk~~~KPd~~Ef~~~~k~~~lG 43 (69)
++--+||+-++|.++|++.|+-
T Consensus 438 ~~~~~~~~~~~~~~~~~~~~~~ 459 (846)
T PRK04132 438 IKGKRKPSLKNYIKIAKALGIN 459 (846)
T ss_pred HhcCCCccHHHHHHHHHHhccc
Confidence 4556899999999999987653
No 175
>PRK09913 putative fructose-like phosphotransferase system subunit EIIA; Provisional
Probab=21.15 E-value=1.9e+02 Score=18.22 Aligned_cols=31 Identities=6% Similarity=0.076 Sum_probs=20.5
Q ss_pred hhhhHHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 035240 7 VFDPLRDFAKDSLRLVKRCHKPDRKEFTKVAF 38 (69)
Q Consensus 7 ~~e~~~~f~~~~~r~lk~~~KPd~~Ef~~~~k 38 (69)
++..+.+++.| ..+++...+.|.+|+.....
T Consensus 113 ~l~~l~~~l~~-~~~~~~L~~~~~~ei~~~l~ 143 (148)
T PRK09913 113 IIGTLCRKIIH-QDFIHQLKQGDTDQVLALLN 143 (148)
T ss_pred HHHHHHHHHcC-HHHHHHHHcCCHHHHHHHHH
Confidence 44445566655 44666666778999987764
No 176
>PF02208 Sorb: Sorbin homologous domain; InterPro: IPR003127 Sorbin is an active peptide present in the digestive tract, where it has pro-absorptive and anti-secretory effects in different parts of the intestine, including the ability to decrease VIP (vasoactive intestinal peptide) and cholera toxin-induced secretion. It is expressed in some intestinal and pancreatic endocrine tumours in humans []. Sorbin-homology domains are found in adaptor proteins such as vinexin, CAP/ponsin and argBP2, which regulate various cellular functions, including cell adhesion, cytoskeletal organisation, and growth factor signalling []. In addition to the sorbin domain, these proteins contain three SH3 (src homology 3) domains. The sorbin homology domain mediates the interaction of vinexin and CAP with flotillin, which is crucial for the localisation of SH3-binding proteins to the lipid raft, a region of the plasma membrane rich in cholesterol and sphingolipids that acts to concentrate certain signalling molecules. The sorbin homology domain of adaptor proteins may mediate interactions with the lipid raft that are crucial to intracellular communication [].
Probab=21.12 E-value=79 Score=18.16 Aligned_cols=24 Identities=29% Similarity=0.583 Sum_probs=19.1
Q ss_pred hhhHHHHHHHHHHHHHHhcCCCHH
Q 035240 8 FDPLRDFAKDSLRLVKRCHKPDRK 31 (69)
Q Consensus 8 ~e~~~~f~~~~~r~lk~~~KPd~~ 31 (69)
++..+++.+..-+-+.+..|||-+
T Consensus 22 vd~~kDWYktMFkqIHk~~~~dd~ 45 (47)
T PF02208_consen 22 VDRPKDWYKTMFKQIHKLHKPDDD 45 (47)
T ss_pred ccchhHHHHHHHHHHHhhcccccC
Confidence 477788888888888888888753
No 177
>PF10930 DUF2737: Protein of unknown function (DUF2737); InterPro: IPR020295 The proteins in this entry are uncharacterised.
Probab=21.04 E-value=62 Score=19.09 Aligned_cols=10 Identities=40% Similarity=0.634 Sum_probs=7.7
Q ss_pred cCCCHHHHHH
Q 035240 26 HKPDRKEFTK 35 (69)
Q Consensus 26 ~KPd~~Ef~~ 35 (69)
-=|||||.++
T Consensus 23 PmPsREELlk 32 (54)
T PF10930_consen 23 PMPSREELLK 32 (54)
T ss_pred CCCCHHHHHh
Confidence 3589999865
No 178
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=20.98 E-value=86 Score=20.60 Aligned_cols=15 Identities=13% Similarity=0.213 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHH
Q 035240 40 TAIGFVVMGFVGFFV 54 (69)
Q Consensus 40 ~~lG~~i~G~IGfiI 54 (69)
.++|+++.|.++|.+
T Consensus 9 Iglgv~~~Gg~~Y~~ 23 (104)
T PF11460_consen 9 IGLGVFLLGGLLYGG 23 (104)
T ss_pred ecHHHHHHHHHHHHH
Confidence 578888889988875
No 179
>PF02202 Tachykinin: Tachykinin family; InterPro: IPR002040 This family includes peptides, which belong to the tachykinin family. Tachykinins [, , ] are a group of biologically active peptides which excite neurons, evoke behavioral responses, are potent vasodilatators and contract (directly or indirectly) many smooth muscles. Tachykinins, like most other active peptides, are synthesized as larger protein precursors that are enzymatically converted to their mature forms. Tachykinins are from ten to twelve residues long.; GO: 0007217 tachykinin receptor signaling pathway, 0007268 synaptic transmission; PDB: 1MYU_A 1N6T_A 2GFR_A.
Probab=20.80 E-value=61 Score=13.44 Aligned_cols=7 Identities=29% Similarity=0.852 Sum_probs=3.6
Q ss_pred CCCHHHH
Q 035240 27 KPDRKEF 33 (69)
Q Consensus 27 KPd~~Ef 33 (69)
+|+.++|
T Consensus 1 ~p~pd~F 7 (11)
T PF02202_consen 1 QPKPDQF 7 (11)
T ss_dssp --CHHHH
T ss_pred CCCcccc
Confidence 4777776
No 180
>PRK05699 fliP flagellar biosynthesis protein FliP; Reviewed
Probab=20.73 E-value=2.9e+02 Score=20.61 Aligned_cols=26 Identities=35% Similarity=0.570 Sum_probs=16.9
Q ss_pred hhhhhhhhHHHHH------HHHHHHHHHhcCC
Q 035240 3 AIDNVFDPLRDFA------KDSLRLVKRCHKP 28 (69)
Q Consensus 3 ~~~~~~e~~~~f~------~~~~r~lk~~~KP 28 (69)
..++-.+++|+|. +|-..|.+.+++|
T Consensus 127 a~~~~~~Plr~FM~~~t~~~dl~~f~~~a~~~ 158 (245)
T PRK05699 127 ALERAAAPLREFMLKQTREKDLALFAKLAGEP 158 (245)
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHhcCCC
Confidence 3566778888887 4455666666553
No 181
>PRK15032 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional
Probab=20.59 E-value=2.4e+02 Score=22.15 Aligned_cols=12 Identities=17% Similarity=0.454 Sum_probs=6.8
Q ss_pred HHHHHhcCCCHH
Q 035240 20 RLVKRCHKPDRK 31 (69)
Q Consensus 20 r~lk~~~KPd~~ 31 (69)
+++++.+||.+.
T Consensus 3 ~~~~~~~~~~~~ 14 (390)
T PRK15032 3 KLWNALRRPSAR 14 (390)
T ss_pred hHHHHHhcchHH
Confidence 344555677764
No 182
>PF04157 EAP30: EAP30/Vps36 family; InterPro: IPR007286 EAP30 is a subunit of the ELL complex. The ELL is an 80kDa RNA polymerase II transcription factor. ELL interacts with three other proteins to form the complex known as ELL complex. The ELL complex is capable of increasing that catalytic rate of transcription elongation, but is unable to repress initiation of transcription by RNA polymerase II as is the case of ELL. EAP30 is thought to lead to the derepression of ELL's transcriptional inhibitory activity. ; PDB: 2ZME_A 3CUQ_A 1W7P_D 1U5T_B.
Probab=20.57 E-value=2.2e+02 Score=19.84 Aligned_cols=40 Identities=8% Similarity=0.257 Sum_probs=28.5
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHhcCCCH------HHHHHHHHHHHH
Q 035240 3 AIDNVFDPLRDFAKDSLRLVKRCHKPDR------KEFTKVAFRTAI 42 (69)
Q Consensus 3 ~~~~~~e~~~~f~~~~~r~lk~~~KPd~------~Ef~~~~k~~~l 42 (69)
.++.+.+.+++|.+...+|-++-++-.+ .+|...+...|+
T Consensus 27 dl~~L~~qa~~~~~~l~~fa~k~~~~i~~~~~~r~~f~~~~~~lGv 72 (223)
T PF04157_consen 27 DLEALMSQAKDFVELLENFARKHKSEIKSDPEFRSQFQSMCASLGV 72 (223)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCCCCCCSHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccCCchHHHHHHHHHHHcCC
Confidence 4667788888888888888877765443 478888776665
No 183
>KOG4056 consensus Translocase of outer mitochondrial membrane complex, subunit TOM20 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.48 E-value=1.1e+02 Score=21.23 Aligned_cols=23 Identities=17% Similarity=0.300 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 035240 35 KVAFRTAIGFVVMGFVGFFVKLI 57 (69)
Q Consensus 35 ~~~k~~~lG~~i~G~IGfiIklI 57 (69)
...-+.+.|++..-++||-|+.=
T Consensus 8 ~~~~vI~agiag~af~gYciYFd 30 (143)
T KOG4056|consen 8 LRTSVIAAGIAGLAFIGYCIYFD 30 (143)
T ss_pred hhhHHHHHHHHHHHHHHHHhhcc
Confidence 34456778999999999999763
No 184
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=20.42 E-value=1.8e+02 Score=16.52 Aligned_cols=8 Identities=13% Similarity=0.451 Sum_probs=3.5
Q ss_pred HHHHHHHH
Q 035240 31 KEFTKVAF 38 (69)
Q Consensus 31 ~Ef~~~~k 38 (69)
++|.+...
T Consensus 54 ~nf~~~~~ 61 (77)
T PF04854_consen 54 QNFKQSLL 61 (77)
T ss_pred HHHHHHHH
Confidence 44444443
No 185
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=20.38 E-value=2.9e+02 Score=19.13 Aligned_cols=44 Identities=18% Similarity=0.206 Sum_probs=34.9
Q ss_pred hhhhhhhhhHHHHH-HHHHHHHHHhcCCCHHHHHHHHHHHHHHHH
Q 035240 2 DAIDNVFDPLRDFA-KDSLRLVKRCHKPDRKEFTKVAFRTAIGFV 45 (69)
Q Consensus 2 ~~~~~~~e~~~~f~-~~~~r~lk~~~KPd~~Ef~~~~k~~~lG~~ 45 (69)
|--|..+|..+..+ .|.+.+++...+|-.+=|..+||-...|=+
T Consensus 46 DWq~~yi~~trhlW~de~K~lL~eLV~PVPelFRdvAk~kIAgkI 90 (141)
T PF11084_consen 46 DWQEYYIEKTRHLWTDEQKALLEELVSPVPELFRDVAKHKIAGKI 90 (141)
T ss_pred cHHHHHHHHhHhhcCHHHHHHHHHHhhcCcHHHHHHHHHHHHHHH
Confidence 33456777777655 568899999999999999999998877643
No 186
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=20.35 E-value=93 Score=17.79 Aligned_cols=12 Identities=42% Similarity=0.905 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHH
Q 035240 43 GFVVMGFVGFFV 54 (69)
Q Consensus 43 G~~i~G~IGfiI 54 (69)
-|+++|++|..|
T Consensus 9 i~iv~~lLg~~I 20 (50)
T PF12606_consen 9 IFIVMGLLGLSI 20 (50)
T ss_pred HHHHHHHHHHHH
Confidence 356778888775
No 187
>PRK15419 proline:sodium symporter PutP; Provisional
Probab=20.27 E-value=2.7e+02 Score=21.54 Aligned_cols=23 Identities=13% Similarity=0.161 Sum_probs=16.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Q 035240 27 KPDRKEFTKVAFRTAIGFVVMGF 49 (69)
Q Consensus 27 KPd~~Ef~~~~k~~~lG~~i~G~ 49 (69)
+++.++..+.+|++.+.+.+++.
T Consensus 365 ~~s~~~~l~~~Ri~~v~~~~~a~ 387 (502)
T PRK15419 365 HASQKELVWVGRVMVLVVALVAI 387 (502)
T ss_pred CCChHHHHHHHHHHHHHHHHHHH
Confidence 44567788888888776666553
No 188
>PF07441 BofA: SigmaK-factor processing regulatory protein BofA; InterPro: IPR010001 This family contains the sigmaK-factor processing regulatory protein BofA (Bypass-of-forespore protein A) (approximately 80 residues long). During sporulation in Bacillus subtilis, transcription is controlled in the developing sporangium by a cascade of sporulation-specific transcription factors (sigma factors). Following engulfment, processing of sigmaK is inhibited by BofA. It has been suggested that this effect is exerted by alteration of the level of the SpoIVFA protein [].
Probab=20.24 E-value=1.8e+02 Score=17.57 Aligned_cols=33 Identities=27% Similarity=0.477 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHhhccc
Q 035240 31 KEFTKVAFRTAIGFVVMGFVGFFVKL--IFIPINN 63 (69)
Q Consensus 31 ~Ef~~~~k~~~lG~~i~G~IGfiIkl--I~ipI~n 63 (69)
|-..+...-+.+|.+++..+-++-.. +|+|+|-
T Consensus 19 k~l~~l~~~~v~G~~~L~~vN~~g~~~g~~I~iN~ 53 (78)
T PF07441_consen 19 KILLKLIINAVVGAILLFLVNLFGGYFGFHIPINP 53 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCeeecccH
Confidence 34455566667787777776665432 4888883
No 189
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=20.20 E-value=62 Score=20.92 Aligned_cols=21 Identities=24% Similarity=0.333 Sum_probs=17.6
Q ss_pred HhcCCCHHHHHHHHHHHHHHH
Q 035240 24 RCHKPDRKEFTKVAFRTAIGF 44 (69)
Q Consensus 24 ~~~KPd~~Ef~~~~k~~~lG~ 44 (69)
+.+.|+++|..+++..++.|+
T Consensus 34 ~~~~~s~~eL~~~l~~~g~~~ 54 (117)
T COG1393 34 LKTPPSREELKKILSKLGDGV 54 (117)
T ss_pred ecCCCCHHHHHHHHHHcCccH
Confidence 457899999999999988663
Done!