Query psy9982
Match_columns 222
No_of_seqs 150 out of 167
Neff 3.9
Searched_HMMs 46136
Date Sat Aug 17 00:38:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9982.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9982hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0260|consensus 100.0 7.2E-29 1.6E-33 252.7 13.1 51 57-107 1447-1497(1605)
2 KOG0260|consensus 100.0 5E-28 1.1E-32 246.6 13.2 108 61-168 1472-1579(1605)
3 KOG3722|consensus 99.3 2.7E-13 5.9E-18 129.0 1.9 57 16-73 24-80 (538)
4 PF13908 Shisa: Wnt and FGF in 95.3 0.089 1.9E-06 44.1 7.7 23 10-32 77-99 (179)
5 PF01102 Glycophorin_A: Glycop 93.8 0.054 1.2E-06 44.4 2.9 33 10-44 66-98 (122)
6 PF01034 Syndecan: Syndecan do 92.8 0.038 8.2E-07 41.1 0.4 32 6-43 11-42 (64)
7 PF06024 DUF912: Nucleopolyhed 89.9 0.11 2.4E-06 40.7 0.4 27 16-42 68-94 (101)
8 PF13908 Shisa: Wnt and FGF in 89.4 2.6 5.7E-05 35.3 8.3 31 6-36 77-107 (179)
9 PF12273 RCR: Chitin synthesis 84.6 0.95 2.1E-05 36.3 2.9 19 18-36 7-25 (130)
10 PF02439 Adeno_E3_CR2: Adenovi 83.0 1.2 2.7E-05 30.1 2.4 26 6-31 5-30 (38)
11 PF04277 OAD_gamma: Oxaloaceta 76.0 3.4 7.4E-05 30.1 3.2 34 8-42 8-41 (79)
12 PF04791 LMBR1: LMBR1-like mem 73.9 2.3 4.9E-05 40.1 2.3 26 18-43 1-26 (471)
13 PHA02849 putative transmembran 73.5 3.1 6.6E-05 32.4 2.5 17 18-34 27-43 (82)
14 PF11368 DUF3169: Protein of u 71.9 2.2 4.8E-05 37.6 1.6 27 16-42 51-77 (248)
15 PF07466 DUF1517: Protein of u 70.9 8 0.00017 35.7 5.0 44 19-62 70-113 (289)
16 PRK10263 DNA translocase FtsK; 70.9 3.1 6.6E-05 45.8 2.6 17 6-22 157-173 (1355)
17 TIGR03546 conserved hypothetic 70.2 3 6.5E-05 35.3 1.9 25 18-42 116-140 (154)
18 PF06143 Baculo_11_kDa: Baculo 69.5 3.6 7.7E-05 32.1 2.1 28 3-30 33-60 (84)
19 KOG4433|consensus 69.5 6.4 0.00014 39.4 4.3 30 20-52 398-427 (526)
20 PF10857 DUF2701: Protein of u 68.8 4.5 9.8E-05 30.1 2.4 20 15-34 5-24 (63)
21 PF06679 DUF1180: Protein of u 68.7 8 0.00017 33.3 4.2 11 49-59 149-159 (163)
22 PRK05886 yajC preprotein trans 67.6 3.7 7.9E-05 33.2 1.8 23 17-42 8-30 (109)
23 PHA02902 putative IMV membrane 65.3 8.5 0.00019 29.1 3.2 24 19-42 6-29 (70)
24 COG1930 CbiN ABC-type cobalt t 65.1 12 0.00025 30.0 4.1 40 32-73 20-61 (97)
25 PRK06531 yajC preprotein trans 59.2 5.1 0.00011 32.5 1.2 20 22-41 8-27 (113)
26 PF13073 DUF3937: Protein of u 59.1 12 0.00027 28.3 3.1 32 1-32 1-32 (73)
27 PF09451 ATG27: Autophagy-rela 58.5 8.4 0.00018 34.6 2.6 26 17-42 207-232 (268)
28 PF11857 DUF3377: Domain of un 58.2 6.5 0.00014 30.1 1.6 28 14-42 32-59 (74)
29 PF15102 TMEM154: TMEM154 prot 57.6 5.9 0.00013 33.7 1.4 27 17-43 62-88 (146)
30 TIGR01165 cbiN cobalt transpor 55.9 16 0.00035 28.9 3.5 54 17-72 7-62 (91)
31 PF05545 FixQ: Cbb3-type cytoc 55.6 14 0.0003 25.1 2.7 9 18-26 13-21 (49)
32 PF02553 CbiN: Cobalt transpor 55.6 12 0.00026 28.5 2.6 51 20-72 7-60 (74)
33 PF02439 Adeno_E3_CR2: Adenovi 55.5 9.1 0.0002 25.9 1.8 14 12-25 15-28 (38)
34 PF07172 GRP: Glycine rich pro 55.4 19 0.0004 28.3 3.8 19 17-35 7-25 (95)
35 PF05151 PsbM: Photosystem II 54.3 12 0.00025 24.4 2.0 24 5-28 4-27 (31)
36 PF14150 YesK: YesK-like prote 53.5 16 0.00036 28.2 3.2 26 16-41 2-27 (81)
37 PF12273 RCR: Chitin synthesis 53.4 8.8 0.00019 30.7 1.8 26 18-43 4-29 (130)
38 PRK10633 hypothetical protein; 52.7 19 0.00042 27.7 3.4 22 18-39 49-70 (80)
39 PF06129 Chordopox_G3: Chordop 51.7 14 0.0003 30.1 2.6 20 13-32 2-22 (109)
40 KOG4841|consensus 51.1 8.6 0.00019 30.5 1.3 33 22-58 46-78 (95)
41 PF06422 PDR_CDR: CDR ABC tran 50.9 19 0.00041 28.1 3.2 25 17-41 52-76 (103)
42 PHA02681 ORF089 virion membran 50.6 13 0.00029 29.3 2.3 21 21-41 8-28 (92)
43 PHA03030 hypothetical protein; 48.8 12 0.00027 30.7 1.9 27 14-40 1-27 (122)
44 PHA02657 hypothetical protein; 47.7 22 0.00047 28.3 3.0 17 18-34 37-53 (95)
45 PF10873 DUF2668: Protein of u 47.5 92 0.002 26.9 7.0 10 50-59 99-108 (155)
46 COG1862 YajC Preprotein transl 46.0 13 0.00028 29.5 1.6 22 18-42 14-35 (97)
47 PF12270 Cyt_c_ox_IV: Cytochro 45.4 36 0.00077 28.7 4.2 41 23-67 46-86 (137)
48 PRK14472 F0F1 ATP synthase sub 44.9 26 0.00055 29.3 3.3 13 1-13 1-13 (175)
49 PF15339 Afaf: Acrosome format 44.5 19 0.00041 32.0 2.5 27 17-43 138-164 (200)
50 PF05434 Tmemb_9: TMEM9; Inte 44.4 18 0.00039 30.9 2.3 27 8-34 52-78 (149)
51 PF08135 EPV_E5: Major transfo 42.8 35 0.00075 23.8 3.1 28 5-32 5-32 (44)
52 COG1766 fliF Flagellar basal b 42.8 25 0.00054 35.4 3.4 30 15-44 447-476 (545)
53 PF05399 EVI2A: Ectropic viral 42.7 24 0.00052 32.1 2.9 13 13-25 138-150 (227)
54 PF11119 DUF2633: Protein of u 42.6 23 0.00049 26.1 2.3 30 13-42 8-38 (59)
55 PF04906 Tweety: Tweety; Inte 42.3 21 0.00045 34.2 2.6 31 6-36 18-49 (406)
56 PRK13453 F0F1 ATP synthase sub 40.9 35 0.00076 28.6 3.6 23 7-29 10-34 (173)
57 PF13134 DUF3948: Protein of u 40.6 17 0.00038 24.1 1.3 12 4-15 12-23 (35)
58 PF02157 Man-6-P_recep: Mannos 39.9 9.6 0.00021 35.5 0.0 35 7-42 185-219 (278)
59 TIGR01432 QOXA cytochrome aa3 39.9 31 0.00068 30.0 3.2 26 17-42 28-53 (217)
60 PF00558 Vpu: Vpu protein; In 39.8 25 0.00054 27.3 2.3 38 1-39 1-38 (81)
61 COG4736 CcoQ Cbb3-type cytochr 39.7 40 0.00086 24.8 3.2 23 19-41 15-37 (60)
62 PF15471 TMEM171: Transmembran 39.6 22 0.00048 33.5 2.3 32 10-42 156-187 (319)
63 PF06716 DUF1201: Protein of u 38.9 43 0.00093 24.0 3.1 20 15-34 14-33 (54)
64 TIGR02762 TraL_TIGR type IV co 38.8 31 0.00066 26.7 2.7 24 19-43 42-65 (95)
65 PF01102 Glycophorin_A: Glycop 38.7 23 0.00051 29.1 2.1 30 4-34 64-93 (122)
66 KOG1094|consensus 38.3 4.1E+02 0.0089 28.2 11.1 13 62-74 443-455 (807)
67 PRK13454 F0F1 ATP synthase sub 37.8 30 0.00066 29.3 2.7 17 20-36 38-55 (181)
68 PF15468 DUF4636: Domain of un 37.6 40 0.00087 30.8 3.5 13 5-17 33-45 (243)
69 TIGR02866 CoxB cytochrome c ox 35.8 70 0.0015 27.4 4.6 23 18-41 19-42 (201)
70 TIGR00869 sec62 protein transl 35.7 27 0.00058 31.8 2.1 10 25-34 170-179 (232)
71 PF12409 P5-ATPase: P5-type AT 35.6 43 0.00093 26.4 3.1 26 12-37 17-42 (119)
72 PF11457 DUF3021: Protein of u 33.9 34 0.00075 26.9 2.3 28 15-42 102-129 (136)
73 PF06024 DUF912: Nucleopolyhed 33.9 31 0.00067 27.0 2.0 34 11-44 59-92 (101)
74 PF03821 Mtp: Golgi 4-transmem 33.4 32 0.00069 31.4 2.3 26 18-43 38-64 (233)
75 TIGR02976 phageshock_pspB phag 33.3 43 0.00092 25.4 2.6 27 15-42 5-31 (75)
76 PRK02898 cobalt transport prot 33.2 58 0.0013 26.2 3.4 55 16-72 5-62 (100)
77 PF13179 DUF4006: Family of un 32.8 44 0.00095 25.1 2.5 38 6-43 7-44 (66)
78 PRK14780 lipoprotein signal pe 32.7 45 0.00098 31.0 3.1 52 5-57 191-249 (263)
79 PHA02825 LAP/PHD finger-like p 32.3 29 0.00063 30.1 1.7 50 14-65 79-128 (162)
80 PF04478 Mid2: Mid2 like cell 32.2 15 0.00033 31.5 0.0 20 38-59 77-96 (154)
81 PF08374 Protocadherin: Protoc 32.2 29 0.00063 31.5 1.8 17 6-22 40-56 (221)
82 PF15330 SIT: SHP2-interacting 32.1 90 0.002 25.0 4.4 26 17-42 8-33 (107)
83 PF11057 Cortexin: Cortexin of 31.7 42 0.0009 26.1 2.3 30 12-41 29-60 (81)
84 PF13073 DUF3937: Protein of u 31.3 42 0.0009 25.5 2.2 16 18-33 10-25 (73)
85 PRK04989 psbM photosystem II r 31.2 31 0.00068 23.0 1.4 22 6-27 5-26 (35)
86 PF13800 Sigma_reg_N: Sigma fa 31.0 41 0.00089 25.4 2.2 21 14-34 19-39 (96)
87 CHL00080 psbM photosystem II p 30.8 31 0.00066 22.9 1.2 22 6-27 5-26 (34)
88 COG3462 Predicted membrane pro 30.7 85 0.0018 26.0 4.1 36 7-44 40-82 (117)
89 PRK13682 hypothetical protein; 30.7 56 0.0012 23.4 2.7 16 18-33 33-48 (51)
90 TIGR01195 oadG_fam sodium pump 29.9 66 0.0014 24.4 3.2 19 17-35 20-38 (82)
91 TIGR03063 srtB_target sortase 29.6 64 0.0014 20.6 2.5 12 21-32 11-22 (29)
92 PF02790 COX2_TM: Cytochrome C 29.6 84 0.0018 22.5 3.6 21 15-35 28-48 (84)
93 KOG4433|consensus 29.5 46 0.001 33.6 2.8 20 16-35 53-72 (526)
94 PF02532 PsbI: Photosystem II 29.4 80 0.0017 21.2 3.1 17 16-32 8-24 (36)
95 PF07946 DUF1682: Protein of u 29.2 46 0.001 30.7 2.6 21 16-36 6-26 (321)
96 PF08370 PDR_assoc: Plant PDR 29.2 77 0.0017 23.4 3.3 27 15-41 35-61 (65)
97 PF14851 FAM176: FAM176 family 29.0 63 0.0014 27.6 3.2 19 15-33 29-47 (153)
98 PF06196 DUF997: Protein of un 29.0 74 0.0016 24.2 3.3 22 18-39 49-70 (80)
99 PF14276 DUF4363: Domain of un 28.8 40 0.00088 26.3 1.9 26 17-42 1-26 (121)
100 PRK10983 putative inner membra 28.7 55 0.0012 30.8 3.1 38 6-43 312-350 (368)
101 PF03579 SHP: Small hydrophobi 28.7 62 0.0014 24.1 2.7 17 19-35 18-34 (64)
102 PF04246 RseC_MucC: Positive r 28.5 52 0.0011 26.2 2.5 24 20-43 100-123 (135)
103 TIGR03038 PS_II_psbM photosyst 28.4 37 0.00081 22.4 1.4 23 6-28 5-27 (33)
104 PF06783 UPF0239: Uncharacteri 28.2 18 0.00039 28.4 -0.2 18 8-25 25-42 (85)
105 PF13858 DUF4199: Protein of u 28.2 56 0.0012 26.2 2.7 15 28-42 43-57 (163)
106 PF12669 P12: Virus attachment 28.0 55 0.0012 23.4 2.3 9 31-39 18-26 (58)
107 TIGR02736 cbb3_Q_epsi cytochro 27.9 1.1E+02 0.0023 22.4 3.8 24 18-41 7-30 (56)
108 COG4395 Uncharacterized protei 27.8 31 0.00066 32.3 1.2 21 18-38 61-81 (281)
109 PLN03207 stomagen; Provisional 27.4 67 0.0015 26.2 2.9 20 13-33 10-29 (113)
110 PF13131 DUF3951: Protein of u 27.4 99 0.0022 22.4 3.5 39 18-56 8-46 (53)
111 PLN00090 photosystem II reacti 26.7 44 0.00096 27.2 1.8 22 6-27 75-96 (113)
112 PF10332 DUF2418: Protein of u 26.0 66 0.0014 25.4 2.6 32 11-42 35-66 (99)
113 KOG2417|consensus 25.7 37 0.00081 33.4 1.4 25 13-37 80-104 (462)
114 cd00922 Cyt_c_Oxidase_IV Cytoc 25.5 49 0.0011 27.4 1.9 23 3-25 71-94 (136)
115 TIGR01433 CyoA cytochrome o ub 25.5 50 0.0011 29.3 2.1 29 15-43 35-63 (226)
116 PF03620 IBV_3C: IBV 3C protei 25.1 91 0.002 24.8 3.2 27 7-33 9-35 (93)
117 PF10063 DUF2301: Uncharacteri 25.0 1.3E+02 0.0028 25.3 4.3 37 17-58 99-135 (135)
118 PRK09697 protein secretion pro 25.0 37 0.00081 28.4 1.1 21 10-30 24-44 (139)
119 PHA02909 hypothetical protein; 24.8 85 0.0018 23.4 2.8 14 13-26 39-52 (72)
120 PF03839 Sec62: Translocation 24.7 55 0.0012 29.5 2.2 25 6-30 146-171 (224)
121 COG5487 Small integral membran 24.6 87 0.0019 22.7 2.8 16 18-33 33-48 (54)
122 PRK09459 pspG phage shock prot 24.6 1.3E+02 0.0027 23.3 3.8 36 8-43 35-70 (76)
123 PRK14094 psbM photosystem II r 24.3 27 0.00058 24.9 0.1 11 7-17 6-16 (50)
124 PRK13707 conjugal transfer pil 23.7 67 0.0015 25.4 2.3 17 26-42 51-67 (101)
125 PF03908 Sec20: Sec20; InterP 23.6 93 0.002 23.5 3.0 18 18-35 73-90 (92)
126 PF09680 Tiny_TM_bacill: Prote 23.6 74 0.0016 19.7 1.9 13 18-30 8-20 (24)
127 COG3339 Uncharacterized conser 23.3 63 0.0014 26.5 2.1 39 2-42 66-104 (116)
128 PF15347 PAG: Phosphoprotein a 23.1 45 0.00098 32.8 1.4 22 18-41 26-47 (428)
129 PF06837 Fijivirus_P9-2: Fijiv 23.1 82 0.0018 28.4 2.9 17 22-38 125-141 (214)
130 PHA02975 hypothetical protein; 23.1 76 0.0017 24.1 2.3 11 17-27 54-64 (69)
131 PHA02815 hypothetical protein; 23.0 64 0.0014 24.1 1.9 17 16-32 5-21 (64)
132 PF07178 TraL: TraL protein; 23.0 78 0.0017 24.2 2.5 24 20-43 39-62 (95)
133 PF06667 PspB: Phage shock pro 22.5 84 0.0018 23.9 2.5 17 26-42 15-31 (75)
134 PRK09702 PTS system arbutin-sp 22.5 1E+02 0.0022 26.3 3.3 25 14-38 10-35 (161)
135 PF10864 DUF2663: Protein of u 22.4 43 0.00092 28.1 1.0 24 20-43 60-83 (130)
136 PF05978 UNC-93: Ion channel r 22.4 60 0.0013 27.1 1.9 32 2-34 56-87 (156)
137 PRK04778 septation ring format 22.2 70 0.0015 31.7 2.6 28 15-42 5-32 (569)
138 COG1585 Membrane protein impli 22.0 87 0.0019 26.0 2.7 25 17-41 48-72 (140)
139 PTZ00404 cytochrome P450; Prov 22.0 95 0.0021 29.0 3.3 27 17-43 3-29 (482)
140 PF15330 SIT: SHP2-interacting 21.9 1.1E+02 0.0024 24.4 3.3 29 16-44 4-32 (107)
141 PRK09458 pspB phage shock prot 21.8 1.1E+02 0.0023 23.5 3.0 16 27-42 16-31 (75)
142 PF12768 Rax2: Cortical protei 21.7 1.2E+02 0.0025 28.0 3.7 25 18-42 235-259 (281)
143 PHA02867 C-type lectin protein 21.6 63 0.0014 27.8 1.9 19 12-30 17-35 (167)
144 PF00558 Vpu: Vpu protein; In 21.5 84 0.0018 24.4 2.4 34 10-43 6-39 (81)
145 PF05620 DUF788: Protein of un 21.4 1.2E+02 0.0026 25.6 3.5 27 16-42 47-73 (170)
146 PF09125 COX2-transmemb: Cytoc 21.4 1.1E+02 0.0025 20.7 2.6 9 28-36 30-38 (38)
147 PF10954 DUF2755: Protein of u 21.4 88 0.0019 25.1 2.5 33 7-40 67-99 (100)
148 PHA02650 hypothetical protein; 21.2 85 0.0019 24.5 2.3 10 30-39 66-75 (81)
149 PF03208 PRA1: PRA1 family pro 21.2 93 0.002 25.0 2.7 20 16-35 118-137 (153)
150 PF06678 DUF1179: Protein of u 21.1 3.8E+02 0.0082 21.8 6.1 20 23-43 14-33 (103)
151 PHA02819 hypothetical protein; 21.1 88 0.0019 23.9 2.3 9 19-27 58-66 (71)
152 PTZ00358 hypothetical protein; 21.1 1.2E+02 0.0026 29.4 3.8 38 6-43 116-174 (367)
153 PHA03049 IMV membrane protein; 21.0 1.2E+02 0.0027 22.9 3.1 23 20-42 6-28 (68)
154 PHA03054 IMV membrane protein; 21.0 89 0.0019 23.9 2.3 9 19-27 60-68 (72)
155 PF11466 Doppel: Prion-like pr 20.7 77 0.0017 20.5 1.7 17 10-26 5-21 (30)
156 PF11045 YbjM: Putative inner 20.7 86 0.0019 26.2 2.4 18 14-31 8-25 (125)
157 PHA02681 ORF089 virion membran 20.6 81 0.0017 25.0 2.1 27 8-38 2-28 (92)
158 PF00430 ATP-synt_B: ATP synth 20.5 1.2E+02 0.0027 23.2 3.2 7 36-42 27-33 (132)
159 PF11845 DUF3365: Protein of u 20.5 72 0.0016 26.1 2.0 21 18-38 2-22 (188)
160 PF05821 NDUF_B8: NADH-ubiquin 20.3 1.2E+02 0.0027 26.3 3.4 37 1-37 106-145 (179)
161 PF11359 gpUL132: Glycoprotein 20.3 88 0.0019 28.6 2.6 9 22-30 70-78 (235)
162 PF07019 Rab5ip: Rab5-interact 20.2 1E+02 0.0022 22.7 2.6 18 25-42 35-52 (81)
163 PF07219 HemY_N: HemY protein 20.2 1.3E+02 0.0028 23.2 3.2 20 15-34 19-38 (108)
No 1
>KOG0260|consensus
Probab=99.96 E-value=7.2e-29 Score=252.69 Aligned_cols=51 Identities=45% Similarity=0.985 Sum_probs=23.7
Q ss_pred ecCCCcccCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy9982 57 TVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQV 107 (222)
Q Consensus 57 ~iS~~lc~~Sp~ysPtSP~ySPtSP~ysPtSP~ysPtSP~YsPtSP~ysp~ 107 (222)
--|++|.+.||.|+|+||.|+|++|+|+|+||+|+|+||.|+|++|.|+|+
T Consensus 1447 ~ssp~~s~tsp~ysptsp~ys~tsp~~sptspsysptspsysptspsyspt 1497 (1605)
T KOG0260|consen 1447 SSSPGYSPTSPNYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT 1497 (1605)
T ss_pred CCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Confidence 355555555555555555444444444444444444444443333333333
No 2
>KOG0260|consensus
Probab=99.95 E-value=5e-28 Score=246.59 Aligned_cols=108 Identities=42% Similarity=0.912 Sum_probs=60.7
Q ss_pred CcccCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCCC
Q psy9982 61 AYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSLAYTQVSLAYT 140 (222)
Q Consensus 61 ~lc~~Sp~ysPtSP~ySPtSP~ysPtSP~ysPtSP~YsPtSP~ysp~SP~ysPsSPsySP~SP~YSP~SP~ysP~SPsys 140 (222)
.|.+.||+|+|+||.|+|+||.|+|+||.|+|+||.|+|+||.|+|++|+|+|+||+|+|+||+|+|++|+|+|++|+|+
T Consensus 1472 ~~sptspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsys 1551 (1605)
T KOG0260|consen 1472 SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1551 (1605)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Confidence 34444444444444444444444444444555555555555555555555555555555555566666666666666666
Q ss_pred CCCCCCcCCCCCCCCCCCCCCCCCcccc
Q psy9982 141 QVSPAYTQVSPAYTQVSPAYTQVSSAYT 168 (222)
Q Consensus 141 PtSP~ysPtSP~ysPsSP~~sp~ss~~s 168 (222)
|+||.|+|+||.|+|++|.|+|+|+.|+
T Consensus 1552 ptspsysptsp~ysptspsysptspsys 1579 (1605)
T KOG0260|consen 1552 PTSPSYSPTSPSYSPTSPSYSPTSPSYS 1579 (1605)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCcc
Confidence 6666666666666666666666666666
No 3
>KOG3722|consensus
Probab=99.34 E-value=2.7e-13 Score=129.00 Aligned_cols=57 Identities=33% Similarity=0.486 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccccccCCccccceeecCCCcccCCCCccCCC
Q psy9982 16 VEIFLLVFLLLNVLSYILIEKFKRKDLEDYLSTDEDEATVYTVSPAYTQVSPAYTQVS 73 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~~fkk~~~~~~~~~d~~da~V~~iS~~lc~~Sp~ysPtS 73 (222)
.|||++||++||+.+|++|.|||||+|++ ++.||||+.|||||+|+|+|+.|-+=++
T Consensus 24 ~ii~~~l~~lLy~~sy~~isr~krk~~~~-ly~~dED~~Vyris~wl~tftlAvs~Ga 80 (538)
T KOG3722|consen 24 QIICMLLFMLLYVFSYWLISRLKRKTERE-LYAGDEDAFVYRISLWLSTFTLAVSIGA 80 (538)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHhhcCccc-cccCccceeeeeehhhHHHHHHHHHhcc
Confidence 57999999999999999999999999987 8888999999999999999998865443
No 4
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=95.31 E-value=0.089 Score=44.06 Aligned_cols=23 Identities=13% Similarity=0.296 Sum_probs=10.0
Q ss_pred ccchhhHHHHHHHHHHHHHHHHH
Q psy9982 10 IGGTLTVEIFLLVFLLLNVLSYI 32 (222)
Q Consensus 10 ~~~~~~~iI~lLLF~~LYi~Sy~ 32 (222)
+.+++..||++++|+++-|+.++
T Consensus 77 ~~~iivgvi~~Vi~Iv~~Iv~~~ 99 (179)
T PF13908_consen 77 ITGIIVGVICGVIAIVVLIVCFC 99 (179)
T ss_pred eeeeeeehhhHHHHHHHhHhhhe
Confidence 33344444444444444444443
No 5
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=93.84 E-value=0.054 Score=44.41 Aligned_cols=33 Identities=21% Similarity=0.398 Sum_probs=13.0
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHhhcccccccc
Q psy9982 10 IGGTLTVEIFLLVFLLLNVLSYILIEKFKRKDLED 44 (222)
Q Consensus 10 ~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~~ 44 (222)
|.|.++++++-++.++| +|.|+| +|.|||...+
T Consensus 66 i~~Ii~gv~aGvIg~Il-li~y~i-rR~~Kk~~~~ 98 (122)
T PF01102_consen 66 IIGIIFGVMAGVIGIIL-LISYCI-RRLRKKSSSD 98 (122)
T ss_dssp HHHHHHHHHHHHHHHHH-HHHHHH-HHHS------
T ss_pred eeehhHHHHHHHHHHHH-HHHHHH-HHHhccCCCC
Confidence 34444444444444444 455666 4455555543
No 6
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=92.77 E-value=0.038 Score=41.05 Aligned_cols=32 Identities=25% Similarity=0.533 Sum_probs=0.9
Q ss_pred chhhccchhhHHHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 6 FLGLIGGTLTVEIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
+.|+|+|.|..++|.+|.++ ++|.|+|||+|-
T Consensus 11 laavIaG~Vvgll~ailLIl------f~iyR~rkkdEG 42 (64)
T PF01034_consen 11 LAAVIAGGVVGLLFAILLIL------FLIYRMRKKDEG 42 (64)
T ss_dssp --------------------------------S-----
T ss_pred HHHHHHHHHHHHHHHHHHHH------HHHHHHHhcCCC
Confidence 35788887766666555443 356688888884
No 7
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=89.88 E-value=0.11 Score=40.72 Aligned_cols=27 Identities=19% Similarity=0.483 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 16 VEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
.+.|+.++++||+|.|+||.|=|++..
T Consensus 68 lls~v~IlVily~IyYFVILRer~~~~ 94 (101)
T PF06024_consen 68 LLSFVCILVILYAIYYFVILRERQKSI 94 (101)
T ss_pred HHHHHHHHHHHhhheEEEEEecccccc
Confidence 345666777889999999997666554
No 8
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=89.45 E-value=2.6 Score=35.27 Aligned_cols=31 Identities=19% Similarity=0.260 Sum_probs=22.5
Q ss_pred chhhccchhhHHHHHHHHHHHHHHHHHHHhh
Q psy9982 6 FLGLIGGTLTVEIFLLVFLLLNVLSYILIEK 36 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~ 36 (222)
..|+|+|.+..||++++.+++++.|-..+.|
T Consensus 77 ~~~iivgvi~~Vi~Iv~~Iv~~~Cc~c~~~K 107 (179)
T PF13908_consen 77 ITGIIVGVICGVIAIVVLIVCFCCCCCCLYK 107 (179)
T ss_pred eeeeeeehhhHHHHHHHhHhhheeccccccc
Confidence 4577888777777778888888876765444
No 9
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=84.62 E-value=0.95 Score=36.32 Aligned_cols=19 Identities=26% Similarity=0.424 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q psy9982 18 IFLLVFLLLNVLSYILIEK 36 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~ 36 (222)
|++++|+++.++++++-+|
T Consensus 7 iii~~i~l~~~~~~~~~rR 25 (130)
T PF12273_consen 7 IIIVAILLFLFLFYCHNRR 25 (130)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444443
No 10
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=82.96 E-value=1.2 Score=30.09 Aligned_cols=26 Identities=8% Similarity=0.253 Sum_probs=20.9
Q ss_pred chhhccchhhHHHHHHHHHHHHHHHH
Q psy9982 6 FLGLIGGTLTVEIFLLVFLLLNVLSY 31 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLLF~~LYi~Sy 31 (222)
..|.|+|.+..++.+.|.+++|+++|
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcy 30 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCY 30 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35778888888888888888888887
No 11
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=75.98 E-value=3.4 Score=30.08 Aligned_cols=34 Identities=26% Similarity=0.532 Sum_probs=22.9
Q ss_pred hhccchhhHHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 8 GLIGGTLTVEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 8 ~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
-++|-.+..++.+||.+++.+++++ +.++++++.
T Consensus 8 ~i~Gm~iVF~~L~lL~~~i~l~~~~-~~~~~~~~~ 41 (79)
T PF04277_consen 8 MIIGMGIVFLVLILLILVISLMSKL-IRKFAPKEK 41 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHhhccccc
Confidence 4566666666667777888888888 556655554
No 12
>PF04791 LMBR1: LMBR1-like membrane protein; InterPro: IPR006876 This group of uncharacterised proteins have a conserved C-terminal region which is found in LMBR1 and in the lipocalin-1 receptor. LMBR1 was thought to play a role in preaxial polydactyly, but recent evidence now suggests this not to be the case [].
Probab=73.95 E-value=2.3 Score=40.10 Aligned_cols=26 Identities=19% Similarity=0.612 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
||+++|++|+++++.+|.+|.++++.
T Consensus 1 i~~~~~~~l~~~~~~~l~~y~~~~~~ 26 (471)
T PF04791_consen 1 ILIVLFIILLLIAIYLLRRYQHPDDS 26 (471)
T ss_pred ChHHHHHHHHHHHHHHHHHhcCchhc
Confidence 79999999999999999999988875
No 13
>PHA02849 putative transmembrane protein; Provisional
Probab=73.54 E-value=3.1 Score=32.36 Aligned_cols=17 Identities=29% Similarity=0.663 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy9982 18 IFLLVFLLLNVLSYILI 34 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii 34 (222)
||+++|++||++=...|
T Consensus 27 I~i~~flLlyLvkws~v 43 (82)
T PHA02849 27 ISFLAFMLLYLIKWSYV 43 (82)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 89999999998755443
No 14
>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=71.91 E-value=2.2 Score=37.57 Aligned_cols=27 Identities=26% Similarity=0.402 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 16 VEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
..||+++++++.++....+.+-||...
T Consensus 51 ~~i~~~~~~i~~~~~~~~~~~~~k~~~ 77 (248)
T PF11368_consen 51 SFIALLIIIILFLLTFYFIYKSRKYKK 77 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 447777888888777777765555443
No 15
>PF07466 DUF1517: Protein of unknown function (DUF1517); InterPro: IPR010903 This family consists of several hypothetical glycine rich plant and bacterial proteins of around 300 residues in length. The function of this family is unknown.
Probab=70.92 E-value=8 Score=35.70 Aligned_cols=44 Identities=7% Similarity=0.039 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHhhcccccccccccCCccccceeecCCCc
Q psy9982 19 FLLVFLLLNVLSYILIEKFKRKDLEDYLSTDEDEATVYTVSPAY 62 (222)
Q Consensus 19 ~lLLF~~LYi~Sy~ii~~fkk~~~~~~~~~d~~da~V~~iS~~l 62 (222)
+||||++.+++-.++-...+++........+.+.++|-++-.+|
T Consensus 70 iLIl~~Ia~~vv~~~r~~~~~~~~~~~~~~~~~~vsV~klQv~L 113 (289)
T PF07466_consen 70 ILILFGIAFFVVRFFRRRRSGSQGSYGRGASNPKVSVVKLQVGL 113 (289)
T ss_pred HHHHHHHHHHHHHHHHhhcccccccccccccCCceEEEEeeehh
Confidence 34445555555444444444333333334577789999887765
No 16
>PRK10263 DNA translocase FtsK; Provisional
Probab=70.89 E-value=3.1 Score=45.83 Aligned_cols=17 Identities=24% Similarity=0.315 Sum_probs=8.9
Q ss_pred chhhccchhhHHHHHHH
Q psy9982 6 FLGLIGGTLTVEIFLLV 22 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLL 22 (222)
++|.+|++|..++++|+
T Consensus 157 LfG~vGa~LILLlllLI 173 (1355)
T PRK10263 157 LLHSSGGTIALLCVWAA 173 (1355)
T ss_pred HHhHHHHHHHHHHHHHH
Confidence 45666666555543333
No 17
>TIGR03546 conserved hypothetical protein TIGR03546. Members of this family are uncharacterized proteins, usually encoded by a gene adjacent to a member of family TIGR03545, which is also uncharacterized.
Probab=70.22 E-value=3 Score=35.33 Aligned_cols=25 Identities=16% Similarity=0.360 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+-+++.++-|.+|+.+|++||||--
T Consensus 116 ~Gli~~~~~Y~ls~~lI~~Yr~~~~ 140 (154)
T TIGR03546 116 VGLILLPPAFAISKVIIAKYRKRIV 140 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556677889999999999998754
No 18
>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=69.53 E-value=3.6 Score=32.10 Aligned_cols=28 Identities=32% Similarity=0.399 Sum_probs=20.6
Q ss_pred CccchhhccchhhHHHHHHHHHHHHHHH
Q psy9982 3 TPDFLGLIGGTLTVEIFLLVFLLLNVLS 30 (222)
Q Consensus 3 ~~~~~~~~~~~~~~iI~lLLF~~LYi~S 30 (222)
--||+=.|.|.+..+||+|.+++||.+.
T Consensus 33 irdFvLVic~~lVfVii~lFi~ll~~i~ 60 (84)
T PF06143_consen 33 IRDFVLVICCFLVFVIIVLFILLLYNIN 60 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3477778888888888887777776543
No 19
>KOG4433|consensus
Probab=69.48 E-value=6.4 Score=39.40 Aligned_cols=30 Identities=27% Similarity=0.337 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHhhcccccccccccCCccc
Q psy9982 20 LLVFLLLNVLSYILIEKFKRKDLEDYLSTDEDE 52 (222)
Q Consensus 20 lLLF~~LYi~Sy~ii~~fkk~~~~~~~~~d~~d 52 (222)
++||++|++.++..+ +|+|+.| |.++||||
T Consensus 398 ~~lsilv~~~~haW~-~f~~r~d--y~dvdEda 427 (526)
T KOG4433|consen 398 LALSILVCSDPHAWI-YFTKRND--YDDVDEDA 427 (526)
T ss_pred HHHHHHHhccchhhh-hccCCcc--ccccccCC
Confidence 445556666666655 4666633 23455554
No 20
>PF10857 DUF2701: Protein of unknown function (DUF2701); InterPro: IPR022586 This entry represents viral proteins with unknown function. The entry contains ORF C51 from Swinepox virus (strain Kasza).
Probab=68.83 E-value=4.5 Score=30.10 Aligned_cols=20 Identities=30% Similarity=0.622 Sum_probs=15.0
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q psy9982 15 TVEIFLLVFLLLNVLSYILI 34 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii 34 (222)
..+||+++|++||++=...|
T Consensus 5 ~vvi~i~~~lllyLvkws~v 24 (63)
T PF10857_consen 5 VVVIVILAYLLLYLVKWSYV 24 (63)
T ss_pred eeHHHHHHHHHHHHHHHHHH
Confidence 34699999999998755443
No 21
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=68.70 E-value=8 Score=33.27 Aligned_cols=11 Identities=18% Similarity=0.724 Sum_probs=7.2
Q ss_pred CccccceeecC
Q psy9982 49 DEDEATVYTVS 59 (222)
Q Consensus 49 d~~da~V~~iS 59 (222)
||||-||+.+.
T Consensus 149 edeD~TvFd~~ 159 (163)
T PF06679_consen 149 EDEDSTVFDAN 159 (163)
T ss_pred cccccceeeec
Confidence 44577888763
No 22
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=67.61 E-value=3.7 Score=33.20 Aligned_cols=23 Identities=17% Similarity=0.176 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+.++++|+++| |+++++.||+..
T Consensus 8 l~lv~i~~i~y---F~~iRPQkKr~K 30 (109)
T PRK05886 8 LPFLLIMGGFM---YFASRRQRKAMQ 30 (109)
T ss_pred HHHHHHHHHHH---HHHccHHHHHHH
Confidence 34444555544 677888777653
No 23
>PHA02902 putative IMV membrane protein; Provisional
Probab=65.27 E-value=8.5 Score=29.06 Aligned_cols=24 Identities=13% Similarity=0.477 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHhhcccccc
Q psy9982 19 FLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 19 ~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
|++|-+|+-|+||+|+.-|||-+.
T Consensus 6 fvi~~v~v~Ivclliya~YrR~kc 29 (70)
T PHA02902 6 FVILAVIVIIFCLLIYAAYKRYKC 29 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcC
Confidence 455667778888899888888754
No 24
>COG1930 CbiN ABC-type cobalt transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=65.08 E-value=12 Score=30.05 Aligned_cols=40 Identities=18% Similarity=0.337 Sum_probs=23.8
Q ss_pred HHHhhcccccccccccCCcc-ccceeecCCCccc-CCCCccCCC
Q psy9982 32 ILIEKFKRKDLEDYLSTDED-EATVYTVSPAYTQ-VSPAYTQVS 73 (222)
Q Consensus 32 ~ii~~fkk~~~~~~~~~d~~-da~V~~iS~~lc~-~Sp~ysPtS 73 (222)
+|+--|.+..++. ..|++ +..+.+|.+.|.+ |.|-|+|.|
T Consensus 20 li~~~~~~~ge~g--GaD~~Ae~~I~ei~p~YePWF~Pl~EPpS 61 (97)
T COG1930 20 LIPFSFVTDGEFG--GADGEAEEVITEIKPGYEPWFQPLWEPPS 61 (97)
T ss_pred HHHheeccccccc--CCcchhhHHHHHhCCCCCcccccccCCCC
Confidence 3444444444442 23444 7788889888877 666676654
No 25
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=59.15 E-value=5.1 Score=32.54 Aligned_cols=20 Identities=15% Similarity=0.406 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHhhccccc
Q psy9982 22 VFLLLNVLSYILIEKFKRKD 41 (222)
Q Consensus 22 LF~~LYi~Sy~ii~~fkk~~ 41 (222)
+|++++++-|++|+..|||.
T Consensus 8 ~~vv~~~i~yf~iRPQkKr~ 27 (113)
T PRK06531 8 MFVVMLGLIFFMQRQQKKQA 27 (113)
T ss_pred HHHHHHHHHHheechHHHHH
Confidence 33444444467788888765
No 26
>PF13073 DUF3937: Protein of unknown function (DUF3937)
Probab=59.13 E-value=12 Score=28.31 Aligned_cols=32 Identities=31% Similarity=0.308 Sum_probs=19.8
Q ss_pred CCCccchhhccchhhHHHHHHHHHHHHHHHHH
Q psy9982 1 MFTPDFLGLIGGTLTVEIFLLVFLLLNVLSYI 32 (222)
Q Consensus 1 ~~~~~~~~~~~~~~~~iI~lLLF~~LYi~Sy~ 32 (222)
||+-.-|--+|-+++.+.+++=|.+=|+=.|+
T Consensus 1 mf~nkklir~gltlfv~L~vi~FtigYfq~Yl 32 (73)
T PF13073_consen 1 MFTNKKLIRFGLTLFVFLSVIDFTIGYFQTYL 32 (73)
T ss_pred CCccchhhhhhhHHHHHHHHHHhhHHHHHHHH
Confidence 66666665566666666666666666655554
No 27
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=58.49 E-value=8.4 Score=34.57 Aligned_cols=26 Identities=15% Similarity=0.050 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+|.+|||+++|++--.++.++|+..+
T Consensus 207 ~i~~~l~~~~Y~i~g~~~n~~~~g~~ 232 (268)
T PF09451_consen 207 FIILFLFLAAYLIFGSWYNYNRYGAR 232 (268)
T ss_pred HHHHHHHHHHHhhhhhheeeccCCCC
Confidence 35566677888888888887776554
No 28
>PF11857 DUF3377: Domain of unknown function (DUF3377); InterPro: IPR021805 This domain is functionally uncharacterised and found at the C terminus of peptidases belonging to MEROPS peptidase family M10A, membrane-type matrix metallopeptidases (clan MA). ; GO: 0004222 metalloendopeptidase activity
Probab=58.18 E-value=6.5 Score=30.09 Aligned_cols=28 Identities=39% Similarity=0.607 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 14 LTVEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 14 ~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+..+|=++|-+|+-++-|+|+. |||+..
T Consensus 32 vaVviPl~L~LCiLvl~yai~~-fkrkGt 59 (74)
T PF11857_consen 32 VAVVIPLVLLLCILVLIYAIFQ-FKRKGT 59 (74)
T ss_pred EEEeHHHHHHHHHHHHHHHhhe-eeecCC
Confidence 4455777788889999999998 888875
No 29
>PF15102 TMEM154: TMEM154 protein family
Probab=57.61 E-value=5.9 Score=33.74 Aligned_cols=27 Identities=30% Similarity=0.352 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
+|=++|+++|.++--++|.++|||...
T Consensus 62 lIP~VLLvlLLl~vV~lv~~~kRkr~K 88 (146)
T PF15102_consen 62 LIPLVLLVLLLLSVVCLVIYYKRKRTK 88 (146)
T ss_pred eHHHHHHHHHHHHHHHheeEEeecccC
Confidence 355555555555555666666666553
No 30
>TIGR01165 cbiN cobalt transport protein. This model describes the cobalt transporter in bacteria and its equivalents in archaea. It principally functions in the ion uptake mechanism. It is a multisubunit transporter with two integral membrane proteins and two closely associated cytoplasmic subunits. This transporter belongs to the ABC transporter superfamily (ATP stands for ATP Binding Cassette). This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=55.89 E-value=16 Score=28.94 Aligned_cols=54 Identities=19% Similarity=0.279 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccccccccCCcc-ccceeecCCCccc-CCCCccCC
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDLEDYLSTDED-EATVYTVSPAYTQ-VSPAYTQV 72 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~~~~~~~d~~-da~V~~iS~~lc~-~Sp~ysPt 72 (222)
+|.+|+-++|-++-.+++..-.+..++. ..||. ...+.+|.+.|.+ |+|-++|.
T Consensus 7 ~~ll~~v~~l~~~pl~~~~~~~~~~efg--GaD~~A~~~I~ei~p~Y~PWf~PlwEPp 62 (91)
T TIGR01165 7 IWLLAAVAALVVLPLLIYAGKGEEEEYG--GADGQAEEVIEEIGPDYKPWFSPLWEPP 62 (91)
T ss_pred HHHHHHHHHHHHHHHHhccCCCcccccc--CcchHHHHHHHHhCCCCcccccccccCC
Confidence 4444444444444444444322223442 23433 5566667766665 34555553
No 31
>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=55.62 E-value=14 Score=25.10 Aligned_cols=9 Identities=22% Similarity=0.515 Sum_probs=3.4
Q ss_pred HHHHHHHHH
Q psy9982 18 IFLLVFLLL 26 (222)
Q Consensus 18 I~lLLF~~L 26 (222)
|.+|+|+++
T Consensus 13 ~~~v~~~~~ 21 (49)
T PF05545_consen 13 IGTVLFFVF 21 (49)
T ss_pred HHHHHHHHH
Confidence 333333333
No 32
>PF02553 CbiN: Cobalt transport protein component CbiN; InterPro: IPR003705 The cobalt transport protein CbiN is part of the active cobalt transport system involved in uptake of cobalt in to the cell involved with cobalamin biosynthesis (vitamin B12). It has been suggested that CbiN may function as the periplasmic binding protein component of the active cobalt transport system [].; GO: 0015087 cobalt ion transmembrane transporter activity, 0006824 cobalt ion transport, 0009236 cobalamin biosynthetic process, 0016020 membrane
Probab=55.58 E-value=12 Score=28.50 Aligned_cols=51 Identities=22% Similarity=0.412 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHhhccccccccccc-CCcc-ccceeecCCCccc-CCCCccCC
Q psy9982 20 LLVFLLLNVLSYILIEKFKRKDLEDYLS-TDED-EATVYTVSPAYTQ-VSPAYTQV 72 (222)
Q Consensus 20 lLLF~~LYi~Sy~ii~~fkk~~~~~~~~-~d~~-da~V~~iS~~lc~-~Sp~ysPt 72 (222)
+++-++|-++..++....-+++++ +. .|+. ...+.+|.+.|.+ |.|-++|.
T Consensus 7 ~~~vv~l~~~pl~~~~~~~~~~~~--~GGaD~~A~~~I~~~~p~Y~PWf~plwePp 60 (74)
T PF02553_consen 7 LLLVVALAVVPLFLYPSSGNDAEE--FGGADDQAEEMIEEIDPDYEPWFEPLWEPP 60 (74)
T ss_pred HHHHHHHHHHHHHHhccccccccc--ccCccHHHHHHHHHhCCCCCccccccccCC
Confidence 333333444444443333444443 23 3333 4455667766665 44445543
No 33
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=55.50 E-value=9.1 Score=25.94 Aligned_cols=14 Identities=14% Similarity=0.332 Sum_probs=5.4
Q ss_pred chhhHHHHHHHHHH
Q psy9982 12 GTLTVEIFLLVFLL 25 (222)
Q Consensus 12 ~~~~~iI~lLLF~~ 25 (222)
|.+..+||+++|+|
T Consensus 15 g~~iiii~~~~YaC 28 (38)
T PF02439_consen 15 GMAIIIICMFYYAC 28 (38)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 34
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=55.35 E-value=19 Score=28.28 Aligned_cols=19 Identities=16% Similarity=0.128 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q psy9982 17 EIFLLVFLLLNVLSYILIE 35 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~ 35 (222)
+++.|||++|.+||-.+-.
T Consensus 7 llL~l~LA~lLlisSevaa 25 (95)
T PF07172_consen 7 LLLGLLLAALLLISSEVAA 25 (95)
T ss_pred HHHHHHHHHHHHHHhhhhh
Confidence 3444455555555554443
No 35
>PF05151 PsbM: Photosystem II reaction centre M protein (PsbM); InterPro: IPR007826 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 PsbM found in PSII. PsbM is one of the most hydrophobic proteins in the thylakoid membrane. The function of this protein is unknown.; GO: 0015979 photosynthesis, 0019684 photosynthesis, light reaction, 0009523 photosystem II, 0016021 integral to membrane; PDB: 3A0H_m 3ARC_m 3A0B_M 3PRR_M 3PRQ_M 1S5L_M 4FBY_e 3BZ2_M 3BZ1_M 2AXT_M ....
Probab=54.27 E-value=12 Score=24.42 Aligned_cols=24 Identities=25% Similarity=0.379 Sum_probs=19.2
Q ss_pred cchhhccchhhHHHHHHHHHHHHH
Q psy9982 5 DFLGLIGGTLTVEIFLLVFLLLNV 28 (222)
Q Consensus 5 ~~~~~~~~~~~~iI~lLLF~~LYi 28 (222)
..+|+|...++..|.....++||+
T Consensus 4 n~l~fiAtaLfi~iPt~FLiilyv 27 (31)
T PF05151_consen 4 NILAFIATALFILIPTAFLIILYV 27 (31)
T ss_dssp -TTHHHHHHHHHHHHHHHHHHHHH
T ss_pred chhhHHHHHHHHHHHHHHHhheEe
Confidence 357888888888888888888887
No 36
>PF14150 YesK: YesK-like protein
Probab=53.54 E-value=16 Score=28.20 Aligned_cols=26 Identities=19% Similarity=0.395 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccccc
Q psy9982 16 VEIFLLVFLLLNVLSYILIEKFKRKD 41 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~~fkk~~ 41 (222)
.++|...|++++.+|+++=+||++|.
T Consensus 2 ~llg~~~~ii~f~~S~~lr~r~p~k~ 27 (81)
T PF14150_consen 2 YLLGIVTFIIVFGVSVLLRKRFPKKQ 27 (81)
T ss_pred cHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 46788889999999999999999887
No 37
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=53.42 E-value=8.8 Score=30.72 Aligned_cols=26 Identities=8% Similarity=0.377 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
|++||.+++.|+-.+++.+=|||.+.
T Consensus 4 l~~iii~~i~l~~~~~~~~~rRR~r~ 29 (130)
T PF12273_consen 4 LFAIIIVAILLFLFLFYCHNRRRRRR 29 (130)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 45555555555555555555665554
No 38
>PRK10633 hypothetical protein; Provisional
Probab=52.68 E-value=19 Score=27.74 Aligned_cols=22 Identities=27% Similarity=0.464 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHhhccc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKR 39 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk 39 (222)
=|++++++.-++++++|+.+=|
T Consensus 49 sCi~~p~lfi~l~~~~Vk~vFk 70 (80)
T PRK10633 49 ACLLLPLLFILLCWLMVKFIFR 70 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 5667777777888999976554
No 39
>PF06129 Chordopox_G3: Chordopoxvirus G3 protein; InterPro: IPR010367 This family consists of several poxvirus specific G3 proteins. The function of this family is unknown.
Probab=51.65 E-value=14 Score=30.14 Aligned_cols=20 Identities=35% Similarity=0.640 Sum_probs=13.4
Q ss_pred hhhHHHHHHHHHHH-HHHHHH
Q psy9982 13 TLTVEIFLLVFLLL-NVLSYI 32 (222)
Q Consensus 13 ~~~~iI~lLLF~~L-Yi~Sy~ 32 (222)
++.++|++++|+|+ |.+.|.
T Consensus 2 ~ll~l~ffi~Fl~~~Y~~~y~ 22 (109)
T PF06129_consen 2 WLLYLIFFILFLVLCYFFNYY 22 (109)
T ss_pred cHHHHHHHHHHHHHHHHHhhc
Confidence 35667777777776 666653
No 40
>KOG4841|consensus
Probab=51.08 E-value=8.6 Score=30.55 Aligned_cols=33 Identities=30% Similarity=0.203 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHhhcccccccccccCCccccceeec
Q psy9982 22 VFLLLNVLSYILIEKFKRKDLEDYLSTDEDEATVYTV 58 (222)
Q Consensus 22 LF~~LYi~Sy~ii~~fkk~~~~~~~~~d~~da~V~~i 58 (222)
+|.+|..-||++++---+-+.+ .|++||.|+-+
T Consensus 46 ~~~~l~~G~Ya~~tv~Y~VATf----nDc~eA~veL~ 78 (95)
T KOG4841|consen 46 LYLLLSAGCYALGTVGYRVATF----NDCEEAAVELQ 78 (95)
T ss_pred HHHHHHHHhHhhhhheeeeecc----CCcHHHHHHHH
Confidence 5788889999999877666664 48999988643
No 41
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=50.91 E-value=19 Score=28.10 Aligned_cols=25 Identities=16% Similarity=0.301 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKD 41 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~ 41 (222)
+..++.|+++|++.++|+..|.+..
T Consensus 52 ~GIli~f~i~f~~~~~~~~e~~~~~ 76 (103)
T PF06422_consen 52 FGILIAFWIFFIVLTLLATEFIKFE 76 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3455666666666666666554443
No 42
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=50.58 E-value=13 Score=29.32 Aligned_cols=21 Identities=24% Similarity=0.651 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHhhccccc
Q psy9982 21 LVFLLLNVLSYILIEKFKRKD 41 (222)
Q Consensus 21 LLF~~LYi~Sy~ii~~fkk~~ 41 (222)
|+-+|+-|+||+|+.-|||-.
T Consensus 8 ~~~V~V~IVclliya~YRR~~ 28 (92)
T PHA02681 8 LTVIVISIVCYIVIMMYRRSC 28 (92)
T ss_pred HHHHHHHHHHHHHHHHHHhcc
Confidence 335566778888888887753
No 43
>PHA03030 hypothetical protein; Provisional
Probab=48.83 E-value=12 Score=30.67 Aligned_cols=27 Identities=26% Similarity=0.583 Sum_probs=19.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcccc
Q psy9982 14 LTVEIFLLVFLLLNVLSYILIEKFKRK 40 (222)
Q Consensus 14 ~~~iI~lLLF~~LYi~Sy~ii~~fkk~ 40 (222)
+.|||.+|+|+.++++-|+-|+.-||.
T Consensus 1 lnci~~ili~lfifl~iffYI~~IkRD 27 (122)
T PHA03030 1 LNCIFLILIFLFIFLFIFFYIRIIKRD 27 (122)
T ss_pred CceehHHHHHHHHHHHHHHHheeeecc
Confidence 356777777777777778878776654
No 44
>PHA02657 hypothetical protein; Provisional
Probab=47.68 E-value=22 Score=28.30 Aligned_cols=17 Identities=24% Similarity=0.788 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy9982 18 IFLLVFLLLNVLSYILI 34 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii 34 (222)
||+|.|++||++=...|
T Consensus 37 I~il~flLLYLvkWS~V 53 (95)
T PHA02657 37 VCILIYLLIYLVDWSLV 53 (95)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999998855443
No 45
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=47.47 E-value=92 Score=26.90 Aligned_cols=10 Identities=20% Similarity=0.172 Sum_probs=6.2
Q ss_pred ccccceeecC
Q psy9982 50 EDEATVYTVS 59 (222)
Q Consensus 50 ~~da~V~~iS 59 (222)
..++-.+.|+
T Consensus 99 ~~tt~in~v~ 108 (155)
T PF10873_consen 99 IRTTHINAVS 108 (155)
T ss_pred eecccccccc
Confidence 4566666666
No 46
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=45.95 E-value=13 Score=29.48 Aligned_cols=22 Identities=14% Similarity=0.492 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+++|+|++.| |+|++..||+..
T Consensus 14 ~~vl~~~ify---Fli~RPQrKr~K 35 (97)
T COG1862 14 PLVLIFAIFY---FLIIRPQRKRMK 35 (97)
T ss_pred HHHHHHHHHH---HhhcCHHHHHHH
Confidence 4444444444 347777777653
No 47
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=45.42 E-value=36 Score=28.70 Aligned_cols=41 Identities=20% Similarity=0.198 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHhhcccccccccccCCccccceeecCCCcccCCC
Q psy9982 23 FLLLNVLSYILIEKFKRKDLEDYLSTDEDEATVYTVSPAYTQVSP 67 (222)
Q Consensus 23 F~~LYi~Sy~ii~~fkk~~~~~~~~~d~~da~V~~iS~~lc~~Sp 67 (222)
.+++-|--|+-++. ||.+.. -.|++|+.|...+-.+.-|||
T Consensus 46 ~l~~mig~yl~~~~-rr~~~r---PED~~daEI~dgAGe~GfFsP 86 (137)
T PF12270_consen 46 GLALMIGFYLRFTA-RRIGPR---PEDREDAEIADGAGELGFFSP 86 (137)
T ss_pred HHHHHHHHHHHHHH-hhCCCC---CccccccccccCCCCcCcCCC
Confidence 34445555665553 443332 457889999999999988887
No 48
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=44.94 E-value=26 Score=29.29 Aligned_cols=13 Identities=38% Similarity=0.585 Sum_probs=6.0
Q ss_pred CCCccchhhccch
Q psy9982 1 MFTPDFLGLIGGT 13 (222)
Q Consensus 1 ~~~~~~~~~~~~~ 13 (222)
|.|-..+-+.||.
T Consensus 1 ~~~~~~~~~~~~~ 13 (175)
T PRK14472 1 MLTSGIILLSGGL 13 (175)
T ss_pred CccchhhhhcCCc
Confidence 4444444444554
No 49
>PF15339 Afaf: Acrosome formation-associated factor
Probab=44.55 E-value=19 Score=31.99 Aligned_cols=27 Identities=19% Similarity=0.307 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
+.-||||++|-++|.+.+.+.|+-...
T Consensus 138 LmTl~lfv~Ll~~c~atlyklk~l~~k 164 (200)
T PF15339_consen 138 LMTLFLFVILLAFCSATLYKLKHLSYK 164 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 356789999999999999988876654
No 50
>PF05434 Tmemb_9: TMEM9; InterPro: IPR008853 This family contains several eukaryotic transmembrane proteins which are homologous to Homo sapiens transmembrane protein 9 Q9P0T7 from SWISSPROT. The TMEM9 gene encodes a 183 amino-acid protein that contains an N-terminal signal peptide, a single transmembrane region, three potential N-glycosylation sites and three conserved cys-rich domains in the N terminus, but no known functional domains. The protein is highly conserved between species from Caenorhabditis elegans to H. sapiens and belongs to a novel family of transmembrane proteins. The exact function of TMEM9 is unknown although it has been found to be widely expressed and localised to the late endosomes and lysosomes []. Members of this family contain CXCXC repeats IPR004153 from INTERPRO in their N-terminal region.; GO: 0016021 integral to membrane
Probab=44.41 E-value=18 Score=30.93 Aligned_cols=27 Identities=15% Similarity=0.301 Sum_probs=15.4
Q ss_pred hhccchhhHHHHHHHHHHHHHHHHHHH
Q psy9982 8 GLIGGTLTVEIFLLVFLLLNVLSYILI 34 (222)
Q Consensus 8 ~~~~~~~~~iI~lLLF~~LYi~Sy~ii 34 (222)
++|-.+|..+|++|--++|||+=-.++
T Consensus 52 ~tikVvVIivl~Vi~lLvlYM~fL~~l 78 (149)
T PF05434_consen 52 TTIKVVVIIVLWVIGLLVLYMLFLMCL 78 (149)
T ss_pred eEEEEEEEEeHHHHHHHHHHHHHHHHH
Confidence 455566666666666666666544344
No 51
>PF08135 EPV_E5: Major transforming protein E5 family; InterPro: IPR012555 This family consists of the major transforming proteins (E5) of the bovine papilloma virus (BPV). The equine sarcoid is one of the most common dermatological lesion in equids. It is a benign, locally invasive dermal fibroblastic lesion and studies have shown an association of the lesions with BPV. E5 is a short hydrophobic membrane protein localising to the Golgi apparatus and other intracellular membranes. It binds to and constitutively activates the platelet-derived growth factor-beta in transformed cells. This stimulation activates a receptor signalling cascade which results in an intracellular growth stimulatory signal [].
Probab=42.83 E-value=35 Score=23.78 Aligned_cols=28 Identities=39% Similarity=0.673 Sum_probs=18.2
Q ss_pred cchhhccchhhHHHHHHHHHHHHHHHHH
Q psy9982 5 DFLGLIGGTLTVEIFLLVFLLLNVLSYI 32 (222)
Q Consensus 5 ~~~~~~~~~~~~iI~lLLF~~LYi~Sy~ 32 (222)
.++-..|-+......+|+|++++.+-|+
T Consensus 5 glllflgl~~~lQL~LL~FlL~fFLV~W 32 (44)
T PF08135_consen 5 GLLLFLGLTFALQLLLLVFLLFFFLVYW 32 (44)
T ss_pred eeHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455556666778888877777665
No 52
>COG1766 fliF Flagellar basal body M-ring protein [Cell motility and secretion]
Probab=42.82 E-value=25 Score=35.40 Aligned_cols=30 Identities=30% Similarity=0.551 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcccccccc
Q psy9982 15 TVEIFLLVFLLLNVLSYILIEKFKRKDLED 44 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~~ 44 (222)
-..+.+|.|++|+++.+-|++++++|..++
T Consensus 447 ~~~~~l~~~lv~~~~~r~~i~~~~~~~~e~ 476 (545)
T COG1766 447 PVALYLVVFLVLFIIVRPVIRPRRRRGAEA 476 (545)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccchh
Confidence 345778889999999999999999998753
No 53
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=42.66 E-value=24 Score=32.06 Aligned_cols=13 Identities=31% Similarity=0.386 Sum_probs=6.6
Q ss_pred hhhHHHHHHHHHH
Q psy9982 13 TLTVEIFLLVFLL 25 (222)
Q Consensus 13 ~~~~iI~lLLF~~ 25 (222)
.|-.+||.|||+.
T Consensus 138 AVLfLICT~LfLS 150 (227)
T PF05399_consen 138 AVLFLICTLLFLS 150 (227)
T ss_pred HHHHHHHHHHHHH
Confidence 3444555555543
No 54
>PF11119 DUF2633: Protein of unknown function (DUF2633); InterPro: IPR022576 This family is conserved largely in Proteobacteria. Several members are named as YfgG. The function is not known.
Probab=42.63 E-value=23 Score=26.11 Aligned_cols=30 Identities=23% Similarity=0.349 Sum_probs=21.6
Q ss_pred hhhHHHHHHHHHHHHH-HHHHHHhhcccccc
Q psy9982 13 TLTVEIFLLVFLLLNV-LSYILIEKFKRKDL 42 (222)
Q Consensus 13 ~~~~iI~lLLF~~LYi-~Sy~ii~~fkk~~~ 42 (222)
.++-||.|+-|++|+. ++|..|.-+.++.+
T Consensus 8 ~mtriVLLISfiIlfgRl~Y~~I~a~~hHq~ 38 (59)
T PF11119_consen 8 RMTRIVLLISFIILFGRLIYSAIGAWVHHQD 38 (59)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 4566777777888887 88888776666554
No 55
>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=42.32 E-value=21 Score=34.24 Aligned_cols=31 Identities=16% Similarity=0.254 Sum_probs=20.1
Q ss_pred chhhccchhh-HHHHHHHHHHHHHHHHHHHhh
Q psy9982 6 FLGLIGGTLT-VEIFLLVFLLLNVLSYILIEK 36 (222)
Q Consensus 6 ~~~~~~~~~~-~iI~lLLF~~LYi~Sy~ii~~ 36 (222)
.||++|+... +.++.|||+++|+++..--++
T Consensus 18 sL~~la~v~~~~l~l~Ll~ll~yl~~~CC~r~ 49 (406)
T PF04906_consen 18 SLLILASVAAACLALSLLFLLIYLICRCCCRR 49 (406)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC
Confidence 3555554322 446778899999988885443
No 56
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=40.93 E-value=35 Score=28.57 Aligned_cols=23 Identities=43% Similarity=0.661 Sum_probs=10.4
Q ss_pred hhhccchh--hHHHHHHHHHHHHHH
Q psy9982 7 LGLIGGTL--TVEIFLLVFLLLNVL 29 (222)
Q Consensus 7 ~~~~~~~~--~~iI~lLLF~~LYi~ 29 (222)
||..||.- +.++-++.|++|+++
T Consensus 10 ~~~~~~~~~~t~~~~iInFliL~~l 34 (173)
T PRK13453 10 LGAAGGVEWGTVIVTVLTFIVLLAL 34 (173)
T ss_pred HHhhcCCCHHHHHHHHHHHHHHHHH
Confidence 56666652 233334444444433
No 57
>PF13134 DUF3948: Protein of unknown function (DUF3948)
Probab=40.55 E-value=17 Score=24.14 Aligned_cols=12 Identities=42% Similarity=0.650 Sum_probs=9.8
Q ss_pred ccchhhccchhh
Q psy9982 4 PDFLGLIGGTLT 15 (222)
Q Consensus 4 ~~~~~~~~~~~~ 15 (222)
-||||+.||++.
T Consensus 12 ~D~lgsasga~~ 23 (35)
T PF13134_consen 12 MDFLGSASGAAV 23 (35)
T ss_pred hhhhhcccchHH
Confidence 489999999753
No 58
>PF02157 Man-6-P_recep: Mannose-6-phosphate receptor; PDB: 2RLB_A 3K42_A 2RL9_A 3K43_A 1C39_A 1M6P_A 3CY4_A 1KEO_B 2RL7_D 2RL8_B ....
Probab=39.91 E-value=9.6 Score=35.49 Aligned_cols=35 Identities=23% Similarity=0.348 Sum_probs=0.0
Q ss_pred hhhccchhhHHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 7 LGLIGGTLTVEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 7 ~~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
-||.+|.|++||++.+.+ +|++.=+|..|+...++
T Consensus 185 ~~lS~GsVflIIf~iav~-vYfiGG~lYqR~v~gar 219 (278)
T PF02157_consen 185 SGLSVGSVFLIIFFIAVA-VYFIGGILYQRFVMGAR 219 (278)
T ss_dssp ------------------------------------
T ss_pred cCCchhHHHHHHHHHHHH-HHHHhHHHHHHHHhcCc
Confidence 466778888777766654 78887788888766655
No 59
>TIGR01432 QOXA cytochrome aa3 quinol oxidase, subunit II. This enzyme catalyzes the oxidation of quinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. This subunit contains two transmembrane helices and a large external domain responsible for the binding and oxidation of quinol. QuoX is (presently) only found in gram positive bacteria of the Bacillus/Staphylococcus group. Like CyoA, the ubiquinol oxidase found in proteobacteria, the residues responsible for the ligation of Cu(a) and cytochrome c (found in the related cyt. c oxidases) are absent. Unlike CyoA, QoxA is in complex with a subunit I which contains cytochromes a similar to the cyt. c oxidases (as opposed to cytochromes b).
Probab=39.89 E-value=31 Score=30.02 Aligned_cols=26 Identities=19% Similarity=0.388 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
.|++++++++|++...++.|||++.+
T Consensus 28 ~i~~iI~lvv~~lli~~~~kyr~r~~ 53 (217)
T TIGR01432 28 VFMLVIVFVVFVLFTIFLVKYRYRKD 53 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 35566667777777777777776654
No 60
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=39.75 E-value=25 Score=27.25 Aligned_cols=38 Identities=18% Similarity=0.373 Sum_probs=14.9
Q ss_pred CCCccchhhccchhhHHHHHHHHHHHHHHHHHHHhhccc
Q psy9982 1 MFTPDFLGLIGGTLTVEIFLLVFLLLNVLSYILIEKFKR 39 (222)
Q Consensus 1 ~~~~~~~~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk 39 (222)
|-.-+.+|+|+..|..||..++.+++|+- |.-++++||
T Consensus 1 M~~l~i~~iialiv~~iiaIvvW~iv~ie-Yrk~~rqrk 38 (81)
T PF00558_consen 1 MQSLEILAIIALIVALIIAIVVWTIVYIE-YRKIKRQRK 38 (81)
T ss_dssp -------HHHHHHHHHHHHHHHHHHH-------------
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHh
Confidence 44556778888888777777777777654 444444443
No 61
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=39.69 E-value=40 Score=24.78 Aligned_cols=23 Identities=13% Similarity=0.170 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHhhccccc
Q psy9982 19 FLLVFLLLNVLSYILIEKFKRKD 41 (222)
Q Consensus 19 ~lLLF~~LYi~Sy~ii~~fkk~~ 41 (222)
.+.+++|++.+-|++.++-||+.
T Consensus 15 t~~~~l~fiavi~~ayr~~~K~~ 37 (60)
T COG4736 15 TIAFTLFFIAVIYFAYRPGKKGE 37 (60)
T ss_pred HHHHHHHHHHHHHHHhcccchhh
Confidence 34445555555566666555443
No 62
>PF15471 TMEM171: Transmembrane protein family 171
Probab=39.60 E-value=22 Score=33.54 Aligned_cols=32 Identities=22% Similarity=0.449 Sum_probs=23.1
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 10 IGGTLTVEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 10 ~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
|-|.|+..|.-= .|.|--+||++|.|.|||.+
T Consensus 156 ~CGFLslQImGP-lIVl~GLCFFVVAHvKKr~n 187 (319)
T PF15471_consen 156 ICGFLSLQIMGP-LIVLVGLCFFVVAHVKKRNN 187 (319)
T ss_pred ccceeehhhhhh-HHHHHhhhhhheeeeeeccC
Confidence 445566665433 35666889999999999987
No 63
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=38.93 E-value=43 Score=24.02 Aligned_cols=20 Identities=20% Similarity=0.368 Sum_probs=15.7
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q psy9982 15 TVEIFLLVFLLLNVLSYILI 34 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii 34 (222)
..+||+.||.+.|.+-++.-
T Consensus 14 ~~lIC~Fl~~~~~F~~F~~K 33 (54)
T PF06716_consen 14 GFLICLFLFCLVVFIWFVYK 33 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45799999999888877653
No 64
>TIGR02762 TraL_TIGR type IV conjugative transfer system protein TraL. This protein is part of the type IV secretion system for conjugative plasmid transfer. The function of the TraL protein is unknown.
Probab=38.84 E-value=31 Score=26.75 Aligned_cols=24 Identities=17% Similarity=0.104 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHhhccccccc
Q psy9982 19 FLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 19 ~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
++++-+.+. +.+..++|+||..-+
T Consensus 42 g~~lg~~~~-~~~~~lrr~K~g~~~ 65 (95)
T TIGR02762 42 GLILGAAVM-LIWKRLRRIKGGEGE 65 (95)
T ss_pred HHHHHHHHH-HHHHHHHHHHcCCCh
Confidence 333333334 334448899887754
No 65
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=38.74 E-value=23 Score=29.09 Aligned_cols=30 Identities=20% Similarity=0.367 Sum_probs=16.8
Q ss_pred ccchhhccchhhHHHHHHHHHHHHHHHHHHH
Q psy9982 4 PDFLGLIGGTLTVEIFLLVFLLLNVLSYILI 34 (222)
Q Consensus 4 ~~~~~~~~~~~~~iI~lLLF~~LYi~Sy~ii 34 (222)
+...|+|.|.+.-||.++| +++|+|..++=
T Consensus 64 ~~i~~Ii~gv~aGvIg~Il-li~y~irR~~K 93 (122)
T PF01102_consen 64 PAIIGIIFGVMAGVIGIIL-LISYCIRRLRK 93 (122)
T ss_dssp TCHHHHHHHHHHHHHHHHH-HHHHHHHHHS-
T ss_pred cceeehhHHHHHHHHHHHH-HHHHHHHHHhc
Confidence 4456666666666655444 45566655443
No 66
>KOG1094|consensus
Probab=38.33 E-value=4.1e+02 Score=28.23 Aligned_cols=13 Identities=15% Similarity=0.240 Sum_probs=7.0
Q ss_pred cccCCCCccCCCC
Q psy9982 62 YTQVSPAYTQVSP 74 (222)
Q Consensus 62 lc~~Sp~ysPtSP 74 (222)
.|.+.|.-.+.++
T Consensus 443 ~~hv~pS~~~~~q 455 (807)
T KOG1094|consen 443 LIHVRPSPREPPQ 455 (807)
T ss_pred eeccCCCCCCCCC
Confidence 4556665555444
No 67
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=37.81 E-value=30 Score=29.33 Aligned_cols=17 Identities=18% Similarity=0.467 Sum_probs=7.7
Q ss_pred HHHHHHHH-HHHHHHHhh
Q psy9982 20 LLVFLLLN-VLSYILIEK 36 (222)
Q Consensus 20 lLLF~~LY-i~Sy~ii~~ 36 (222)
++.|++|| +++++++.+
T Consensus 38 lI~F~iL~~ll~k~l~~P 55 (181)
T PRK13454 38 LVTLVAIYFVLTRVALPR 55 (181)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 33344443 345664443
No 68
>PF15468 DUF4636: Domain of unknown function (DUF4636)
Probab=37.65 E-value=40 Score=30.85 Aligned_cols=13 Identities=38% Similarity=0.309 Sum_probs=9.3
Q ss_pred cchhhccchhhHH
Q psy9982 5 DFLGLIGGTLTVE 17 (222)
Q Consensus 5 ~~~~~~~~~~~~i 17 (222)
|.-|.||..|+-.
T Consensus 33 dsc~~iG~fLlWy 45 (243)
T PF15468_consen 33 DSCGAIGSFLLWY 45 (243)
T ss_pred CccchhhhHHHHH
Confidence 6778888777644
No 69
>TIGR02866 CoxB cytochrome c oxidase, subunit II. Cytochrome c oxidase is the terminal electron acceptor of mitochondria (and one of several possible acceptors in prokaryotes) in the electron transport chain of aerobic respiration. The enzyme couples the oxidation of reduced cytochrome c with the reduction of molecular oxygen to water. This process results in the pumping of four protons across the membrane which are used in the proton gradient powered synthesis of ATP. The oxidase contains two heme a cofactors and three copper atoms as well as other bound ions.
Probab=35.82 E-value=70 Score=27.39 Aligned_cols=23 Identities=35% Similarity=0.641 Sum_probs=10.8
Q ss_pred HHHHHHHHH-HHHHHHHHhhccccc
Q psy9982 18 IFLLVFLLL-NVLSYILIEKFKRKD 41 (222)
Q Consensus 18 I~lLLF~~L-Yi~Sy~ii~~fkk~~ 41 (222)
|++++|+++ +++-| .+.|||+++
T Consensus 19 i~~iI~v~V~~~l~~-~~~k~r~~~ 42 (201)
T TIGR02866 19 VATTISLLVAALLAY-VVWKFRRKG 42 (201)
T ss_pred HHHHHHHHHHHHHHH-hhhhhhccc
Confidence 333343333 34444 444777753
No 70
>TIGR00869 sec62 protein translocation protein, Sec62 family. protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins has been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.
Probab=35.68 E-value=27 Score=31.76 Aligned_cols=10 Identities=40% Similarity=0.717 Sum_probs=4.7
Q ss_pred HHHHHHHHHH
Q psy9982 25 LLNVLSYILI 34 (222)
Q Consensus 25 ~LYi~Sy~ii 34 (222)
+||++.+++.
T Consensus 170 ilF~i~~~~~ 179 (232)
T TIGR00869 170 ILFVLTLIVV 179 (232)
T ss_pred HHHHHHHHHh
Confidence 4444554443
No 71
>PF12409 P5-ATPase: P5-type ATPase cation transporter
Probab=35.56 E-value=43 Score=26.43 Aligned_cols=26 Identities=15% Similarity=0.083 Sum_probs=21.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHhhc
Q psy9982 12 GTLTVEIFLLVFLLLNVLSYILIEKF 37 (222)
Q Consensus 12 ~~~~~iI~lLLF~~LYi~Sy~ii~~f 37 (222)
-.+..+.|+|-+++||+++++.-.-+
T Consensus 17 ~~l~~~l~ilT~Gll~L~~~W~p~~~ 42 (119)
T PF12409_consen 17 TILYYFLCILTLGLLYLVFRWFPKWW 42 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHhh
Confidence 45677899999999999999987543
No 72
>PF11457 DUF3021: Protein of unknown function (DUF3021); InterPro: IPR021560 This is a bacterial family of uncharacterised proteins.
Probab=33.91 E-value=34 Score=26.89 Aligned_cols=28 Identities=21% Similarity=0.704 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 15 TVEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
..++++++|+++|++-+++.....|++-
T Consensus 102 ~~~~~~~~fi~IYliIw~~~y~~~k~~i 129 (136)
T PF11457_consen 102 SLLIFILIFIIIYLIIWLIFYLYWKKDI 129 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4457777888888888888777666654
No 73
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=33.90 E-value=31 Score=26.97 Aligned_cols=34 Identities=18% Similarity=0.199 Sum_probs=27.2
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHhhcccccccc
Q psy9982 11 GGTLTVEIFLLVFLLLNVLSYILIEKFKRKDLED 44 (222)
Q Consensus 11 ~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~~ 44 (222)
+++...+|.+|.|+|+.++=|+|..-+=-|++..
T Consensus 59 ~~~~iili~lls~v~IlVily~IyYFVILRer~~ 92 (101)
T PF06024_consen 59 NNGNIILISLLSFVCILVILYAIYYFVILRERQK 92 (101)
T ss_pred ccccchHHHHHHHHHHHHHHhhheEEEEEecccc
Confidence 4456778999999999999999987777777653
No 74
>PF03821 Mtp: Golgi 4-transmembrane spanning transporter; InterPro: IPR004687 LAPTM4 and 5 are lysosome-associated transmembrane proteins, found in mammals, insects and nematodes. ; GO: 0016021 integral to membrane
Probab=33.45 E-value=32 Score=31.36 Aligned_cols=26 Identities=31% Similarity=0.517 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHH-HHHhhccccccc
Q psy9982 18 IFLLVFLLLNVLSY-ILIEKFKRKDLE 43 (222)
Q Consensus 18 I~lLLF~~LYi~Sy-~ii~~fkk~~~~ 43 (222)
-++||-+.|+++|+ .+++.+|+|++.
T Consensus 38 s~~~li~~lf~is~~~l~g~~~~re~~ 64 (233)
T PF03821_consen 38 SSFLLIAMLFVISYSLLIGVYKNRERY 64 (233)
T ss_pred hhHHHHHHHHHhhHHHHhhhhhhhccc
Confidence 46777799999999 999999999984
No 75
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=33.27 E-value=43 Score=25.41 Aligned_cols=27 Identities=26% Similarity=0.411 Sum_probs=14.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 15 TVEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+.+|=+++| ++++.=-+++.||++|..
T Consensus 5 fl~~Pliif-~ifVap~wl~lHY~~k~~ 31 (75)
T TIGR02976 5 FLAIPLIIF-VIFVAPLWLILHYRSKRK 31 (75)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHhhhc
Confidence 344445555 444445556666664443
No 76
>PRK02898 cobalt transport protein CbiN; Provisional
Probab=33.23 E-value=58 Score=26.21 Aligned_cols=55 Identities=20% Similarity=0.348 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcc-cccccccccCCcc-ccceeecCCCccc-CCCCccCC
Q psy9982 16 VEIFLLVFLLLNVLSYILIEKFK-RKDLEDYLSTDED-EATVYTVSPAYTQ-VSPAYTQV 72 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~~fk-k~~~~~~~~~d~~-da~V~~iS~~lc~-~Sp~ysPt 72 (222)
++|.+++-++|-++-.+++..-- +.++|. ..||. +..+.+|.+.|.+ |.|-++|-
T Consensus 5 ~~~L~~~vi~l~~~pl~~~~~~~~~~~eFg--GaD~~A~~~I~ei~p~Y~PWf~PlwEPP 62 (100)
T PRK02898 5 NLLLLLLVILLAVLPLFIYSGSGEDGGEFG--GADGQAEEAITEIAPDYEPWFEPLWEPP 62 (100)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCcCcccccc--CccHHHHHHHHHhCCCCcccccccccCC
Confidence 44445554455555544444211 112232 23333 5556667776666 34555553
No 77
>PF13179 DUF4006: Family of unknown function (DUF4006)
Probab=32.76 E-value=44 Score=25.09 Aligned_cols=38 Identities=24% Similarity=0.316 Sum_probs=29.6
Q ss_pred chhhccchhhHHHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 6 FLGLIGGTLTVEIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
..||=|-+-..|+.+||-.+|-++.|.-|.-++..+..
T Consensus 7 ~f~LnGi~G~LIAvvLLLsIl~~lt~~ai~~Qq~~At~ 44 (66)
T PF13179_consen 7 VFGLNGITGMLIAVVLLLSILAFLTYWAIKVQQEQATN 44 (66)
T ss_pred eeeecchHhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 35666666677888888899999999888887776664
No 78
>PRK14780 lipoprotein signal peptidase; Provisional
Probab=32.67 E-value=45 Score=30.96 Aligned_cols=52 Identities=17% Similarity=0.347 Sum_probs=26.9
Q ss_pred cchhhccchhhHH--HHHHHHHHHHHHHHH--HHhhcccccccccc-c--CCccccceee
Q psy9982 5 DFLGLIGGTLTVE--IFLLVFLLLNVLSYI--LIEKFKRKDLEDYL-S--TDEDEATVYT 57 (222)
Q Consensus 5 ~~~~~~~~~~~~i--I~lLLF~~LYi~Sy~--ii~~fkk~~~~~~~-~--~d~~da~V~~ 57 (222)
||+.+- ..++++ ||+.+=++|.++..+ ++..|||.+|...- - .||.|.+.++
T Consensus 191 Dfi~~~-~~iFNlADi~I~~G~~llv~~~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (263)
T PRK14780 191 DYWKFV-NSIINLFDVYIVVGVCVLVVILIISFIIKWKKDKDSEDNKKKIADENDLEINE 249 (263)
T ss_pred EEEecC-CceeEHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhccCcccccccccccC
Confidence 444432 345665 555555555555555 67777777663111 1 2555666554
No 79
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=32.30 E-value=29 Score=30.13 Aligned_cols=50 Identities=16% Similarity=0.214 Sum_probs=29.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcccccccccccCCccccceeecCCCcccC
Q psy9982 14 LTVEIFLLVFLLLNVLSYILIEKFKRKDLEDYLSTDEDEATVYTVSPAYTQV 65 (222)
Q Consensus 14 ~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~~~~~~d~~da~V~~iS~~lc~~ 65 (222)
...+++.|||++|.+++|+++.-=-++--+ ...++|-++|..+...+-+|
T Consensus 79 ~~~l~~~llcl~~~~i~~~l~~~~i~~~~~--~~~~~~~~~~~~~~~~~~p~ 128 (162)
T PHA02825 79 DSAIVNSLLCLIVGGITYLLVSFNIKKLIE--SEENSDLIKLFLVVAYLLPF 128 (162)
T ss_pred hHHHHHHHHHHHHhhhhheeeehhhhhhhh--cccccchhheeeeehhcccc
Confidence 456788888888988988776532222211 12345566666665555443
No 80
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=32.23 E-value=15 Score=31.53 Aligned_cols=20 Identities=20% Similarity=0.305 Sum_probs=10.0
Q ss_pred ccccccccccCCccccceeecC
Q psy9982 38 KRKDLEDYLSTDEDEATVYTVS 59 (222)
Q Consensus 38 kk~~~~~~~~~d~~da~V~~iS 59 (222)
+||.+| ..-|.--.+.|+-.
T Consensus 77 ~kktdf--idSdGkvvtay~~n 96 (154)
T PF04478_consen 77 RKKTDF--IDSDGKVVTAYRSN 96 (154)
T ss_pred cccCcc--ccCCCcEEEEEcCc
Confidence 344444 34444466666653
No 81
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=32.23 E-value=29 Score=31.46 Aligned_cols=17 Identities=18% Similarity=0.669 Sum_probs=11.3
Q ss_pred chhhccchhhHHHHHHH
Q psy9982 6 FLGLIGGTLTVEIFLLV 22 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLL 22 (222)
.+|+|+|+++.|+++|+
T Consensus 40 ~iaiVAG~~tVILVI~i 56 (221)
T PF08374_consen 40 MIAIVAGIMTVILVIFI 56 (221)
T ss_pred eeeeecchhhhHHHHHH
Confidence 46788888877654443
No 82
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=32.08 E-value=90 Score=24.98 Aligned_cols=26 Identities=19% Similarity=0.378 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
.+.|||.++..|+.+....+.+|..+
T Consensus 8 ~llLll~l~asl~~wr~~~rq~k~~~ 33 (107)
T PF15330_consen 8 ALLLLLSLAASLLAWRMKQRQKKAGQ 33 (107)
T ss_pred HHHHHHHHHHHHHHHHHHhhhccccC
Confidence 34455555556666555554444433
No 83
>PF11057 Cortexin: Cortexin of kidney; InterPro: IPR020066 Cortexin is a neuron-specific, 82-residue membrane protein which is found especially in vertebrate brain cortex tissue. It may mediate extracellular or intracellular signalling of cortical neurons during forebrain development. Cortexin is present at significant levels in the foetal brain, suggesting that it may be important to neurons of both the developing and adult cerebral cortex. Cortexin has a conserved single membrane-spanning region in the middle of each sequence []. In humans, there is selective expression of Cortexin 3 (CTXN3) in the kidney as well as the brain []. This entry contains Cortexins 1, 2 and 3.; GO: 0031224 intrinsic to membrane
Probab=31.71 E-value=42 Score=26.11 Aligned_cols=30 Identities=20% Similarity=0.397 Sum_probs=18.2
Q ss_pred chhhHHHHHHHHHHHHHH-HH-HHHhhccccc
Q psy9982 12 GTLTVEIFLLVFLLLNVL-SY-ILIEKFKRKD 41 (222)
Q Consensus 12 ~~~~~iI~lLLF~~LYi~-Sy-~ii~~fkk~~ 41 (222)
.++.++|+|+||+++-|+ |+ +++-.|++--
T Consensus 29 t~faFV~~L~~fL~~liVRCfrIllDPYssmP 60 (81)
T PF11057_consen 29 TAFAFVGLLCLFLGLLIVRCFRILLDPYSSMP 60 (81)
T ss_pred eeehHHHHHHHHHHHHHHHHHHHHcChhhcCC
Confidence 345667888888877665 44 3444555543
No 84
>PF13073 DUF3937: Protein of unknown function (DUF3937)
Probab=31.26 E-value=42 Score=25.49 Aligned_cols=16 Identities=25% Similarity=0.625 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHH
Q psy9982 18 IFLLVFLLLNVLSYIL 33 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~i 33 (222)
++|-||+||+|+-+.|
T Consensus 10 ~gltlfv~L~vi~Fti 25 (73)
T PF13073_consen 10 FGLTLFVFLSVIDFTI 25 (73)
T ss_pred hhhHHHHHHHHHHhhH
Confidence 7889999999998765
No 85
>PRK04989 psbM photosystem II reaction center protein M; Provisional
Probab=31.18 E-value=31 Score=23.02 Aligned_cols=22 Identities=23% Similarity=0.354 Sum_probs=10.1
Q ss_pred chhhccchhhHHHHHHHHHHHH
Q psy9982 6 FLGLIGGTLTVEIFLLVFLLLN 27 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLLF~~LY 27 (222)
-||+|...|+.+|=...-++||
T Consensus 5 ~lgfiAt~Lfi~iPt~FLlilY 26 (35)
T PRK04989 5 DLGFVASLLFVLVPTVFLIILY 26 (35)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3555555554444433333444
No 86
>PF13800 Sigma_reg_N: Sigma factor regulator N-terminal
Probab=31.02 E-value=41 Score=25.42 Aligned_cols=21 Identities=14% Similarity=0.396 Sum_probs=11.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q psy9982 14 LTVEIFLLVFLLLNVLSYILI 34 (222)
Q Consensus 14 ~~~iI~lLLF~~LYi~Sy~ii 34 (222)
++.++|++|++++++++.+.+
T Consensus 19 isi~~~lvi~~i~~~~~~l~y 39 (96)
T PF13800_consen 19 ISIISALVIFIISFIISALYY 39 (96)
T ss_pred HHHhhhhhhHHHHHHhhhhee
Confidence 344455666665665655433
No 87
>CHL00080 psbM photosystem II protein M
Probab=30.80 E-value=31 Score=22.94 Aligned_cols=22 Identities=18% Similarity=0.315 Sum_probs=10.8
Q ss_pred chhhccchhhHHHHHHHHHHHH
Q psy9982 6 FLGLIGGTLTVEIFLLVFLLLN 27 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLLF~~LY 27 (222)
.||+|...|+.+|=...-++||
T Consensus 5 ~lgfiAt~LFi~iPt~FLlily 26 (34)
T CHL00080 5 ILAFIATALFILVPTAFLLIIY 26 (34)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 3566655555554443333444
No 88
>COG3462 Predicted membrane protein [Function unknown]
Probab=30.74 E-value=85 Score=25.98 Aligned_cols=36 Identities=22% Similarity=0.526 Sum_probs=21.3
Q ss_pred hhhccc-----hhhHH--HHHHHHHHHHHHHHHHHhhcccccccc
Q psy9982 7 LGLIGG-----TLTVE--IFLLVFLLLNVLSYILIEKFKRKDLED 44 (222)
Q Consensus 7 ~~~~~~-----~~~~i--I~lLLF~~LYi~Sy~ii~~fkk~~~~~ 44 (222)
.|..|| .+.-| ++.|+|++++ -|.|+.++|+..+.|
T Consensus 40 ~gm~GG~yGm~lImpI~~~vvli~lvvf--m~~~~g~~r~~~~~d 82 (117)
T COG3462 40 RGMMGGLYGMWLIMPIFWAVVLIFLVVF--MFYILGAVRRGSDDD 82 (117)
T ss_pred cccccchhhhHHHHHHHHHHHHHHHHHH--HHHHHHHhcccchhc
Confidence 366677 23333 3344444444 478899999887754
No 89
>PRK13682 hypothetical protein; Provisional
Probab=30.72 E-value=56 Score=23.41 Aligned_cols=16 Identities=44% Similarity=0.854 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHH
Q psy9982 18 IFLLVFLLLNVLSYIL 33 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~i 33 (222)
|.+++|++|.+++.+.
T Consensus 33 iLF~iflvl~vvslv~ 48 (51)
T PRK13682 33 ILFFIFLVLFVVSLLL 48 (51)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 8888899999998765
No 90
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=29.86 E-value=66 Score=24.41 Aligned_cols=19 Identities=5% Similarity=0.079 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q psy9982 17 EIFLLVFLLLNVLSYILIE 35 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~ 35 (222)
++..||..++.+++.++-+
T Consensus 20 ~fL~lLi~~i~~~~~~~~~ 38 (82)
T TIGR01195 20 LFLSLLIYAVRGMGKVVGR 38 (82)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3344445555555554443
No 91
>TIGR03063 srtB_target sortase B cell surface sorting signal. Two different classes of sorting signal, both analogous to the sortase A signal LPXTG, may be recognized by the sortase SrtB. These are given as NXZTN and NPKXZ. Proteins sorted by this class of sortase are less common than the sortase A and LPXTG system. This model describes a number of cell surface protein C-terminal regions from Gram-positive bacteria that appear to be sortase B (SrtB) sorting signals.
Probab=29.64 E-value=64 Score=20.64 Aligned_cols=12 Identities=17% Similarity=0.069 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHH
Q psy9982 21 LVFLLLNVLSYI 32 (222)
Q Consensus 21 LLF~~LYi~Sy~ 32 (222)
-||++|.++|-+
T Consensus 11 ~ly~~l~~~s~~ 22 (29)
T TIGR03063 11 GLYAVLFLGSGL 22 (29)
T ss_pred HHHHHHHHHHHH
Confidence 456666677633
No 92
>PF02790 COX2_TM: Cytochrome C oxidase subunit II, transmembrane domain This family corresponds to chains b and o.; InterPro: IPR011759 Cytochrome c oxidase (1.9.3.1 from EC) [, ] is an oligomeric enzymatic complex which is a component of the respiratory chain 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. The enzyme complex consists of 3-4 subunits (prokaryotes) to up to 13 polypeptides (mammals). Subunit 2 (CO II) transfers the electrons from cytochrome c to the catalytic subunit 1. It contains two adjacent transmembrane regions in its N terminus and the major part of the protein is exposed to the periplasmic or to the mitochondrial intermembrane space, respectively. CO II provides the substrate-binding site and contains a copper centre called Cu(A) (see IPR001505 from INTERPRO), probably the primary acceptor in cytochrome c oxidase. An exception is the corresponding subunit of the cbb3-type oxidase which lacks the copper A redox-centre. Several bacterial CO II have a C-terminal extension that contains a covalently bound haem c. The N-terminal domain of cytochrome C oxidase contains two transmembrane alpha-helices. ; GO: 0004129 cytochrome-c oxidase activity, 0005507 copper ion binding, 0009055 electron carrier activity, 0022900 electron transport chain, 0016021 integral to membrane; PDB: 3VRJ_C 2EIN_B 3AG3_B 2DYR_O 3AG1_B 2EIK_O 3ASN_B 1OCR_B 2EIJ_B 1OCC_O ....
Probab=29.59 E-value=84 Score=22.51 Aligned_cols=21 Identities=14% Similarity=0.472 Sum_probs=12.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHh
Q psy9982 15 TVEIFLLVFLLLNVLSYILIE 35 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii~ 35 (222)
..++++++++++|++-|++.+
T Consensus 28 ~~i~~~I~~~V~~~l~~~~~~ 48 (84)
T PF02790_consen 28 MIIMIFIFVFVFYFLIYFLFN 48 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhheeeeEeeeccccccc
Confidence 344555556666666666666
No 93
>KOG4433|consensus
Probab=29.50 E-value=46 Score=33.58 Aligned_cols=20 Identities=20% Similarity=0.228 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q psy9982 16 VEIFLLVFLLLNVLSYILIE 35 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~ 35 (222)
+.|..|||+++|.++..-=+
T Consensus 53 ~l~l~Ll~ll~yli~~cC~R 72 (526)
T KOG4433|consen 53 CLGLSLLFLLFYLICRCCCR 72 (526)
T ss_pred HHHHHHHHHHHHHHHHHHcC
Confidence 45677777777777766543
No 94
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 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 PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=29.37 E-value=80 Score=21.22 Aligned_cols=17 Identities=18% Similarity=0.509 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy9982 16 VEIFLLVFLLLNVLSYI 32 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ 32 (222)
.-+|+++|++|+|-.++
T Consensus 8 Vy~vV~ffv~LFifGfl 24 (36)
T PF02532_consen 8 VYTVVIFFVSLFIFGFL 24 (36)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred ehhhHHHHHHHHhcccc
Confidence 44778888888888775
No 95
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=29.18 E-value=46 Score=30.69 Aligned_cols=21 Identities=43% Similarity=0.771 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q psy9982 16 VEIFLLVFLLLNVLSYILIEK 36 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~~ 36 (222)
.-||+|.|++||++.|++=++
T Consensus 6 ~E~~~l~~l~~y~~~y~~G~~ 26 (321)
T PF07946_consen 6 LEIIFLAFLLLYVVNYFIGKS 26 (321)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 347788888888888887554
No 96
>PF08370 PDR_assoc: Plant PDR ABC transporter associated; InterPro: IPR013581 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This domain is found on the C terminus of ABC-2 type transporter domains (IPR013525 from INTERPRO). It seems to be associated with the plant pleiotropic drug resistance (PDR) protein family of ABC transporters. Like in yeast, plant PDR ABC transporters may also play a role in the transport of antifungal agents [] (see also IPR010929 from INTERPRO). The PDR family is characterised by a configuration in which the ABC domain is nearer the N terminus of the protein than the transmembrane domain [].
Probab=29.15 E-value=77 Score=23.44 Aligned_cols=27 Identities=15% Similarity=0.352 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhccccc
Q psy9982 15 TVEIFLLVFLLLNVLSYILIEKFKRKD 41 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii~~fkk~~ 41 (222)
..+-+.+||-+||+++-..+..++|..
T Consensus 35 aL~G~~vlFNil~~laL~yL~p~~k~~ 61 (65)
T PF08370_consen 35 ALLGFIVLFNILFTLALTYLNPLGKSQ 61 (65)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCcCCCC
Confidence 345667788888888877777776653
No 97
>PF14851 FAM176: FAM176 family
Probab=29.02 E-value=63 Score=27.61 Aligned_cols=19 Identities=32% Similarity=0.114 Sum_probs=10.2
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q psy9982 15 TVEIFLLVFLLLNVLSYIL 33 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~i 33 (222)
..|+-|||.+||.++--..
T Consensus 29 gVC~GLlLtLcllV~risc 47 (153)
T PF14851_consen 29 GVCAGLLLTLCLLVIRISC 47 (153)
T ss_pred HHHHHHHHHHHHHHhhhee
Confidence 3445566666666554444
No 98
>PF06196 DUF997: Protein of unknown function (DUF997); InterPro: IPR010398 This is a family of predicted bacterial membrane protein with unknown function.
Probab=28.96 E-value=74 Score=24.23 Aligned_cols=22 Identities=14% Similarity=0.273 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHhhccc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKR 39 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk 39 (222)
=|++++++.-++++++++++=|
T Consensus 49 SCi~~~il~~~l~~~~vk~~Fk 70 (80)
T PF06196_consen 49 SCIGGPILFIILVWLMVKFFFK 70 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 4566666666778888877654
No 99
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=28.81 E-value=40 Score=26.28 Aligned_cols=26 Identities=19% Similarity=0.304 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
||++++|+++-+++++...+.++..+
T Consensus 1 ~i~~~i~~lii~~~~~~~~~l~~~~~ 26 (121)
T PF14276_consen 1 IIVIIIFILIIALSIFSNNYLNNSTD 26 (121)
T ss_pred ChHHHHHHHHHHHHHHHHhhhhhHHH
Confidence 35566666666666666666655443
No 100
>PRK10983 putative inner membrane protein; Provisional
Probab=28.74 E-value=55 Score=30.77 Aligned_cols=38 Identities=24% Similarity=0.289 Sum_probs=29.7
Q ss_pred chhhccchh-hHHHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 6 FLGLIGGTL-TVEIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 6 ~~~~~~~~~-~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
++|++||.. +-++-++|.-.+..+.+.+++.+++..+.
T Consensus 312 l~~~~~G~~~fG~~G~~lgp~i~a~~~~l~~~~~~~~~~ 350 (368)
T PRK10983 312 LSGVIGGLIAFGMIGLFIGPVVLAVSYRLFSAWVHEVPP 350 (368)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 467777766 77888888888999999999999865443
No 101
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=28.74 E-value=62 Score=24.07 Aligned_cols=17 Identities=24% Similarity=0.739 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy9982 19 FLLVFLLLNVLSYILIE 35 (222)
Q Consensus 19 ~lLLF~~LYi~Sy~ii~ 35 (222)
|.|+|++|-|++++||+
T Consensus 18 FtLi~M~lti~~~~Iv~ 34 (64)
T PF03579_consen 18 FTLIFMMLTIGFFFIVT 34 (64)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45666666666666554
No 102
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=28.47 E-value=52 Score=26.21 Aligned_cols=24 Identities=25% Similarity=0.351 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHhhccccccc
Q psy9982 20 LLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 20 lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
+|..+...+++|+++++|+|+-+.
T Consensus 100 ~l~~l~~l~~~~~~~~~~~~~~~~ 123 (135)
T PF04246_consen 100 ILGGLLGLALGFLILRLFDRRLKK 123 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhcc
Confidence 344445556777788877776553
No 103
>TIGR03038 PS_II_psbM photosystem II reaction center protein PsbM. Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles Pfam model pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic.
Probab=28.45 E-value=37 Score=22.39 Aligned_cols=23 Identities=26% Similarity=0.467 Sum_probs=11.4
Q ss_pred chhhccchhhHHHHHHHHHHHHH
Q psy9982 6 FLGLIGGTLTVEIFLLVFLLLNV 28 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLLF~~LYi 28 (222)
.+|+|...|+..|=...-++|||
T Consensus 5 ~l~fiAt~Lfi~iPt~FLiilYv 27 (33)
T TIGR03038 5 ILGFIATLLFILVPTVFLLILYI 27 (33)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhe
Confidence 45666555555544444444443
No 104
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=28.23 E-value=18 Score=28.38 Aligned_cols=18 Identities=33% Similarity=0.551 Sum_probs=14.7
Q ss_pred hhccchhhHHHHHHHHHH
Q psy9982 8 GLIGGTLTVEIFLLVFLL 25 (222)
Q Consensus 8 ~~~~~~~~~iI~lLLF~~ 25 (222)
||.-|.+|-+||+|-.++
T Consensus 25 GLf~GAIFQliCilAiI~ 42 (85)
T PF06783_consen 25 GLFVGAIFQLICILAIIL 42 (85)
T ss_pred HHHHHHHHHHHHHHheee
Confidence 788899999999886554
No 105
>PF13858 DUF4199: Protein of unknown function (DUF4199)
Probab=28.17 E-value=56 Score=26.21 Aligned_cols=15 Identities=20% Similarity=0.576 Sum_probs=9.6
Q ss_pred HHHHHHHhhcccccc
Q psy9982 28 VLSYILIEKFKRKDL 42 (222)
Q Consensus 28 i~Sy~ii~~fkk~~~ 42 (222)
++-|+-+++||++..
T Consensus 43 ~~i~~~i~~~R~~~~ 57 (163)
T PF13858_consen 43 IFIYFAIRRYRKKYN 57 (163)
T ss_pred HHHHHHHHHHHHHcc
Confidence 344677788886654
No 106
>PF12669 P12: Virus attachment protein p12 family
Probab=27.96 E-value=55 Score=23.43 Aligned_cols=9 Identities=22% Similarity=0.239 Sum_probs=3.8
Q ss_pred HHHHhhccc
Q psy9982 31 YILIEKFKR 39 (222)
Q Consensus 31 y~ii~~fkk 39 (222)
+-+++.+|+
T Consensus 18 r~~~k~~K~ 26 (58)
T PF12669_consen 18 RKFIKDKKK 26 (58)
T ss_pred HHHHHHhhc
Confidence 444444333
No 107
>TIGR02736 cbb3_Q_epsi cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial. Members of this protein family are restricted to the epsilon branch of the Proteobacteria. All members are found in operons containing the other three structural subunits of the cbb3 type of cytochrome c oxidase. These small proteins show remote sequence similarity to the CcoQ subunit in other cytochrome c oxidase systems, so this family is assumed to represent the epsilonproteobacterial variant of CcoQ.
Probab=27.91 E-value=1.1e+02 Score=22.44 Aligned_cols=24 Identities=25% Similarity=0.400 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHhhccccc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKRKD 41 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk~~ 41 (222)
+.++|+++||.--|-|-+..||-+
T Consensus 7 ~ti~lvv~LYgY~yhLYrsek~G~ 30 (56)
T TIGR02736 7 FTLLLVIFLYAYIYHLYRSQKKGE 30 (56)
T ss_pred HHHHHHHHHHHHHHHhhhhhcccc
Confidence 344455555555555555555443
No 108
>COG4395 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.83 E-value=31 Score=32.29 Aligned_cols=21 Identities=29% Similarity=0.551 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFK 38 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fk 38 (222)
|+|||-++|=.+..+.++.|+
T Consensus 61 ~~l~l~~lig~~~~~~~r~f~ 81 (281)
T COG4395 61 IFLLLITLIGFVIMLEMRFFD 81 (281)
T ss_pred HHHHHHHHHHHHHHHhccccc
Confidence 333333333333344444443
No 109
>PLN03207 stomagen; Provisional
Probab=27.36 E-value=67 Score=26.24 Aligned_cols=20 Identities=35% Similarity=0.805 Sum_probs=11.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q psy9982 13 TLTVEIFLLVFLLLNVLSYIL 33 (222)
Q Consensus 13 ~~~~iI~lLLF~~LYi~Sy~i 33 (222)
+..+.+|+|||.+| +..|+|
T Consensus 10 t~~~~lffLl~~ll-la~~v~ 29 (113)
T PLN03207 10 TRCLTLFFLLFFLL-LGAYVI 29 (113)
T ss_pred chhHHHHHHHHHHH-HHHHHH
Confidence 44555777777666 444444
No 110
>PF13131 DUF3951: Protein of unknown function (DUF3951)
Probab=27.36 E-value=99 Score=22.38 Aligned_cols=39 Identities=21% Similarity=0.289 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccccccccCCcccccee
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKRKDLEDYLSTDEDEATVY 56 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk~~~~~~~~~d~~da~V~ 56 (222)
|+++.-.++.++.++--+-|-||+.-+-++.-+|.+++-
T Consensus 8 ~~~~~~~I~~lIgfity~mfV~K~s~q~~YTP~d~iTgQ 46 (53)
T PF13131_consen 8 IILFTIFIFFLIGFITYKMFVKKASPQIYYTPFDSITGQ 46 (53)
T ss_pred HHHHHHHHHHHHHHHHHHhheecCCCceeeccchheeee
Confidence 344444455666666667777777766566667776654
No 111
>PLN00090 photosystem II reaction center M protein; Provisional
Probab=26.73 E-value=44 Score=27.18 Aligned_cols=22 Identities=18% Similarity=0.108 Sum_probs=9.6
Q ss_pred chhhccchhhHHHHHHHHHHHH
Q psy9982 6 FLGLIGGTLTVEIFLLVFLLLN 27 (222)
Q Consensus 6 ~~~~~~~~~~~iI~lLLF~~LY 27 (222)
+||+|...|+.+|=.+.-++||
T Consensus 75 iLafIATaLFIlIPTaFLLILY 96 (113)
T PLN00090 75 FGAYLAVALGTFLPCLFLINLF 96 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4555544444444333333344
No 112
>PF10332 DUF2418: Protein of unknown function (DUF2418); InterPro: IPR018819 This entry represents the conserved 100 residue central region from a family of proteins found in fungi. It carries a characteristic EYD sequence motif. The function is not known.
Probab=26.01 E-value=66 Score=25.38 Aligned_cols=32 Identities=25% Similarity=0.314 Sum_probs=22.6
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 11 GGTLTVEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 11 ~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+++.+..+++++-+++-+.-|+++.+|..+-.
T Consensus 35 ~~s~~~~~~~~~~~l~s~~l~~li~~f~~~ik 66 (99)
T PF10332_consen 35 LPSVTSFTTLFLMVLLSFQLYFLISRFEQLIK 66 (99)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44666777777777777777888888876543
No 113
>KOG2417|consensus
Probab=25.69 E-value=37 Score=33.36 Aligned_cols=25 Identities=24% Similarity=0.542 Sum_probs=21.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhc
Q psy9982 13 TLTVEIFLLVFLLLNVLSYILIEKF 37 (222)
Q Consensus 13 ~~~~iI~lLLF~~LYi~Sy~ii~~f 37 (222)
.++|||.+|+|++-|-.||+||.--
T Consensus 80 ~l~~ill~lv~~ip~Y~~y~ii~~i 104 (462)
T KOG2417|consen 80 CLSLILLTLVFMIPYYHCYLIIRNI 104 (462)
T ss_pred hHHHHHHHHHHHHHHHhheeeeecc
Confidence 4788999999999999999998643
No 114
>cd00922 Cyt_c_Oxidase_IV Cytochrome c oxidase subunit IV. 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 IV is the largest of the nuclear-encoded subunits. It binds ATP at the matrix side, leading to an allosteric inhibition of enzyme activity at high intramitochondrial ATP/ADP ratios. In mammals, subunit IV has a lung-specific isoform and a ubiquitously expressed isoform.
Probab=25.51 E-value=49 Score=27.38 Aligned_cols=23 Identities=30% Similarity=0.449 Sum_probs=11.1
Q ss_pred CccchhhccchhhHH-HHHHHHHH
Q psy9982 3 TPDFLGLIGGTLTVE-IFLLVFLL 25 (222)
Q Consensus 3 ~~~~~~~~~~~~~~i-I~lLLF~~ 25 (222)
+++....+||++..| |.+++|+.
T Consensus 71 ~~ewk~v~~~~~~~i~~s~~~~~~ 94 (136)
T cd00922 71 TGEWKTVFGGVLAFIGITGVIFGL 94 (136)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHH
Confidence 345555566655444 34444433
No 115
>TIGR01433 CyoA cytochrome o ubiquinol oxidase subunit II. This enzyme catalyzes the oxidation of ubiquinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. Subunit II is responsible for binding and oxidation of the ubiquinone substrate. This sequence is closely related to QoxA, which oxidizes quinol in gram positive bacteria but which is in complex with subunits which utilize cytochromes a in the reduction of molecular oxygen. Slightly more distantly related is subunit II of cytochrome c oxidase which uses cyt. c as the oxidant.
Probab=25.51 E-value=50 Score=29.30 Aligned_cols=29 Identities=14% Similarity=0.376 Sum_probs=18.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 15 TVEIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
..+|++++|+++.++-...+.||||+++.
T Consensus 35 ~~~~~~ii~v~v~~~~~~~~~r~r~~~~~ 63 (226)
T TIGR01433 35 AFGLMLLVVIPVILMTLFFAWKYRATNKD 63 (226)
T ss_pred HHHHHHHHHHHHHHHHheeeEEEeccCCc
Confidence 34566667777666655666778877553
No 116
>PF03620 IBV_3C: IBV 3C protein; InterPro: IPR005296 These proteins are the product of ORF 3C from Infectious bronchitis virus. Currently, the function of this protein remains unknown.
Probab=25.13 E-value=91 Score=24.76 Aligned_cols=27 Identities=37% Similarity=0.357 Sum_probs=21.7
Q ss_pred hhhccchhhHHHHHHHHHHHHHHHHHH
Q psy9982 7 LGLIGGTLTVEIFLLVFLLLNVLSYIL 33 (222)
Q Consensus 7 ~~~~~~~~~~iI~lLLF~~LYi~Sy~i 33 (222)
|--=|+.++++-.+|-|+.||++.-.+
T Consensus 9 leeNG~Flt~lYv~~gfialYllgk~L 35 (93)
T PF03620_consen 9 LEENGSFLTALYVLLGFIALYLLGKAL 35 (93)
T ss_pred HHhcCcHHHHHHHHHHHHHHHHHHHHH
Confidence 334578899999999999999987654
No 117
>PF10063 DUF2301: Uncharacterized integral membrane protein (DUF2301); InterPro: IPR019275 This family contains uncharacterised integral membrane proteins.
Probab=25.03 E-value=1.3e+02 Score=25.34 Aligned_cols=37 Identities=14% Similarity=0.098 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccccccccCCccccceeec
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDLEDYLSTDEDEATVYTV 58 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~~~~~~~d~~da~V~~i 58 (222)
+++.||.+.--+.-.+-++||+..-.+ |-.|..||.+
T Consensus 99 ~~~~ll~~~~~L~~i~A~rK~~mPl~~-----DIGDKSvf~~ 135 (135)
T PF10063_consen 99 VELALLGIWALLFLIFAIRKWRMPLHF-----DIGDKSVFQY 135 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCc-----ccCccccccC
Confidence 345555533333445667888866655 5678888763
No 118
>PRK09697 protein secretion protein GspB; Provisional
Probab=25.02 E-value=37 Score=28.38 Aligned_cols=21 Identities=24% Similarity=0.091 Sum_probs=13.4
Q ss_pred ccchhhHHHHHHHHHHHHHHH
Q psy9982 10 IGGTLTVEIFLLVFLLLNVLS 30 (222)
Q Consensus 10 ~~~~~~~iI~lLLF~~LYi~S 30 (222)
.-||+.++||||+..+.+.-+
T Consensus 24 ~~~TI~~Vi~L~~~~L~~AG~ 44 (139)
T PRK09697 24 KHSTIIYVICLLLICLWFAGM 44 (139)
T ss_pred hccchHHHHHHHHHHHHHhcc
Confidence 347778889988754444333
No 119
>PHA02909 hypothetical protein; Provisional
Probab=24.85 E-value=85 Score=23.44 Aligned_cols=14 Identities=50% Similarity=0.688 Sum_probs=8.0
Q ss_pred hhhHHHHHHHHHHH
Q psy9982 13 TLTVEIFLLVFLLL 26 (222)
Q Consensus 13 ~~~~iI~lLLF~~L 26 (222)
.++.||||-.|.+|
T Consensus 39 ilfviiflsmftil 52 (72)
T PHA02909 39 ILFVIIFLSMFTIL 52 (72)
T ss_pred HHHHHHHHHHHHHH
Confidence 45556666666554
No 120
>PF03839 Sec62: Translocation protein Sec62; InterPro: IPR004728 Members of the NSCC2 family have been sequenced from various yeast, fungal and animals species including Saccharomyces cerevisiae, Drosophila melanogaster and Homo sapiens. These proteins are the Sec62 proteins, believed to be associated with the Sec61 and Sec63 constituents of the general protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins have been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane
Probab=24.65 E-value=55 Score=29.50 Aligned_cols=25 Identities=28% Similarity=0.541 Sum_probs=0.0
Q ss_pred chhhccchhhHH-HHHHHHHHHHHHH
Q psy9982 6 FLGLIGGTLTVE-IFLLVFLLLNVLS 30 (222)
Q Consensus 6 ~~~~~~~~~~~i-I~lLLF~~LYi~S 30 (222)
+|||||..+... |=++||++++++.
T Consensus 146 ~lgll~~~~~laivRlilf~i~w~~~ 171 (224)
T PF03839_consen 146 ALGLLGLFFALAIVRLILFLITWFFT 171 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
No 121
>COG5487 Small integral membrane protein [Function unknown]
Probab=24.63 E-value=87 Score=22.70 Aligned_cols=16 Identities=31% Similarity=0.675 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHH
Q psy9982 18 IFLLVFLLLNVLSYIL 33 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~i 33 (222)
|.+.+|++|+++|.+.
T Consensus 33 IlF~i~~vlf~vsL~~ 48 (54)
T COG5487 33 ILFFIFLVLFLVSLFA 48 (54)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 8888999999998654
No 122
>PRK09459 pspG phage shock protein G; Reviewed
Probab=24.62 E-value=1.3e+02 Score=23.30 Aligned_cols=36 Identities=31% Similarity=0.468 Sum_probs=30.3
Q ss_pred hhccchhhHHHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 8 GLIGGTLTVEIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 8 ~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
.++||.+..+|=+|=.++|-++.-+++++++|+...
T Consensus 35 M~l~Gm~~lviKLLPWLil~~v~vW~~r~~~~~~~~ 70 (76)
T PRK09459 35 MFLGGMFALMIKLLPWLLLAVVVVWVIRAIKAPKVP 70 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence 457788888888999999999999999998887654
No 123
>PRK14094 psbM photosystem II reaction center protein M; Provisional
Probab=24.25 E-value=27 Score=24.92 Aligned_cols=11 Identities=27% Similarity=0.537 Sum_probs=5.1
Q ss_pred hhhccchhhHH
Q psy9982 7 LGLIGGTLTVE 17 (222)
Q Consensus 7 ~~~~~~~~~~i 17 (222)
||+|...|+.+
T Consensus 6 lgfiAtaLFi~ 16 (50)
T PRK14094 6 FGFVASLLFVG 16 (50)
T ss_pred HHHHHHHHHHH
Confidence 55554444433
No 124
>PRK13707 conjugal transfer pilus assembly protein TraL; Provisional
Probab=23.69 E-value=67 Score=25.37 Aligned_cols=17 Identities=29% Similarity=0.301 Sum_probs=11.9
Q ss_pred HHHHHHHHHhhcccccc
Q psy9982 26 LNVLSYILIEKFKRKDL 42 (222)
Q Consensus 26 LYi~Sy~ii~~fkk~~~ 42 (222)
+=++-+.+++|+|+...
T Consensus 51 ~g~~~~~~~r~lK~g~g 67 (101)
T PRK13707 51 AAVLVWFGIRKLKKGRG 67 (101)
T ss_pred HHHHHHHHHHHHHcCCC
Confidence 33445778899887765
No 125
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=23.60 E-value=93 Score=23.45 Aligned_cols=18 Identities=39% Similarity=0.674 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHHh
Q psy9982 18 IFLLVFLLLNVLSYILIE 35 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~ 35 (222)
|++.+++.+-++.|+|.+
T Consensus 73 i~~~~~~f~~~v~yI~~r 90 (92)
T PF03908_consen 73 IFFAFLFFLLVVLYILWR 90 (92)
T ss_pred HHHHHHHHHHHHHHHhhh
Confidence 444444444445555544
No 126
>PF09680 Tiny_TM_bacill: Protein of unknown function (Tiny_TM_bacill); InterPro: IPR010070 This entry represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=23.56 E-value=74 Score=19.68 Aligned_cols=13 Identities=23% Similarity=0.756 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHH
Q psy9982 18 IFLLVFLLLNVLS 30 (222)
Q Consensus 18 I~lLLF~~LYi~S 30 (222)
..++||++|-|+.
T Consensus 8 livVLFILLiIvG 20 (24)
T PF09680_consen 8 LIVVLFILLIIVG 20 (24)
T ss_pred hHHHHHHHHHHhc
Confidence 3456777776653
No 127
>COG3339 Uncharacterized conserved protein [Function unknown]
Probab=23.30 E-value=63 Score=26.53 Aligned_cols=39 Identities=26% Similarity=0.435 Sum_probs=28.4
Q ss_pred CCccchhhccchhhHHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 2 FTPDFLGLIGGTLTVEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 2 ~~~~~~~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+.|||++.||-+==.+|+-+++..+-- |.+..+.++.++
T Consensus 66 iIPD~lp~iG~iDDi~V~~~~v~~i~~--~~~~~~~~~~a~ 104 (116)
T COG3339 66 IIPDFLPVIGFIDDIAVLTLAVTAISK--YLLLEEHWEAAE 104 (116)
T ss_pred hchhhhhccchHHHHHHHHHHHHHHHH--HHhhHHHHHHHH
Confidence 469999999976555566666655444 788888887775
No 128
>PF15347 PAG: Phosphoprotein associated with glycosphingolipid-enriched
Probab=23.13 E-value=45 Score=32.76 Aligned_cols=22 Identities=27% Similarity=0.413 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHhhccccc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKRKD 41 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk~~ 41 (222)
.||||-++|+++|=. .|-||..
T Consensus 26 ~f~lis~LifLCsSC--~reKK~~ 47 (428)
T PF15347_consen 26 TFLLISFLIFLCSSC--DREKKPK 47 (428)
T ss_pred HHHHHHHHHHHhhcc--cccccCC
Confidence 455555455555444 4555555
No 129
>PF06837 Fijivirus_P9-2: Fijivirus P9-2 protein; InterPro: IPR009650 This family consists of several Fijivirus specific P9-2 proteins from Rice black streaked dwarf virus (RBSDV) and Fiji disease virus. The function of this family is unknown.
Probab=23.11 E-value=82 Score=28.36 Aligned_cols=17 Identities=29% Similarity=0.368 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHhhcc
Q psy9982 22 VFLLLNVLSYILIEKFK 38 (222)
Q Consensus 22 LF~~LYi~Sy~ii~~fk 38 (222)
+|++|++++|+++-.|.
T Consensus 125 fy~~~~V~iyLv~~ffg 141 (214)
T PF06837_consen 125 FYTLLFVSIYLVYFFFG 141 (214)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 33444455665554443
No 130
>PHA02975 hypothetical protein; Provisional
Probab=23.05 E-value=76 Score=24.08 Aligned_cols=11 Identities=27% Similarity=0.341 Sum_probs=5.1
Q ss_pred HHHHHHHHHHH
Q psy9982 17 EIFLLVFLLLN 27 (222)
Q Consensus 17 iI~lLLF~~LY 27 (222)
++|+++|+.||
T Consensus 54 v~~~~~~~flY 64 (69)
T PHA02975 54 ITCIAVFTFLY 64 (69)
T ss_pred HHHHHHHHHHH
Confidence 34444444444
No 131
>PHA02815 hypothetical protein; Provisional
Probab=23.02 E-value=64 Score=24.10 Aligned_cols=17 Identities=18% Similarity=0.561 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy9982 16 VEIFLLVFLLLNVLSYI 32 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ 32 (222)
..|++++|++||++=..
T Consensus 5 ~~I~~~~ylLl~Lv~ws 21 (64)
T PHA02815 5 IVIVISLYLLFQLVNCF 21 (64)
T ss_pred EeHHHHHHHHHHHHHHH
Confidence 45899999999987443
No 132
>PF07178 TraL: TraL protein; InterPro: IPR009838 This entry represents bacterial TraL proteins. TraL is a predicted peripheral membrane protein involved in bacterial sex pilus assembly []. TraL is part of the type IV secretion system for conjugative plasmid transfer []. The exact function of TraL is unknown.; GO: 0000746 conjugation, 0019867 outer membrane
Probab=22.97 E-value=78 Score=24.22 Aligned_cols=24 Identities=25% Similarity=0.365 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHhhccccccc
Q psy9982 20 LLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 20 lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
+++.+++=++...+++|+||....
T Consensus 39 ~~~g~i~g~~~~~~~~k~K~~~~~ 62 (95)
T PF07178_consen 39 FLIGLILGIVLWWGYRKFKKGRGR 62 (95)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCc
Confidence 345566667778888999987764
No 133
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=22.54 E-value=84 Score=23.89 Aligned_cols=17 Identities=24% Similarity=0.180 Sum_probs=9.5
Q ss_pred HHHHHHHHHhhcccccc
Q psy9982 26 LNVLSYILIEKFKRKDL 42 (222)
Q Consensus 26 LYi~Sy~ii~~fkk~~~ 42 (222)
++|.=-+|+.||++|..
T Consensus 15 ifVap~WL~lHY~sk~~ 31 (75)
T PF06667_consen 15 IFVAPIWLILHYRSKWK 31 (75)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 34445566667665543
No 134
>PRK09702 PTS system arbutin-specific transporter subunit IIB; Provisional
Probab=22.51 E-value=1e+02 Score=26.30 Aligned_cols=25 Identities=40% Similarity=0.280 Sum_probs=18.3
Q ss_pred hhHH-HHHHHHHHHHHHHHHHHhhcc
Q psy9982 14 LTVE-IFLLVFLLLNVLSYILIEKFK 38 (222)
Q Consensus 14 ~~~i-I~lLLF~~LYi~Sy~ii~~fk 38 (222)
|..+ |-++.|++-|++-|++|++|.
T Consensus 10 ~~~i~iGl~~f~iYyfvF~flI~kfn 35 (161)
T PRK09702 10 LTQIAIGLCFTLLYFVVFRTLILQFN 35 (161)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4444 555667778888999999994
No 135
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=22.41 E-value=43 Score=28.06 Aligned_cols=24 Identities=29% Similarity=0.398 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHhhccccccc
Q psy9982 20 LLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 20 lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
.|+++++.+.+|..+..|||++|.
T Consensus 60 ~l~~ll~~~~~~~~~~~~~kK~eK 83 (130)
T PF10864_consen 60 HLFWLLALAFSYWAMYYLKKKEEK 83 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHH
Confidence 456667777888888888888874
No 136
>PF05978 UNC-93: Ion channel regulatory protein UNC-93; InterPro: IPR010291 The proteins in this family are represented by UNC-93 from Caenorhabditis elegans. UNC-93 colocalizes with SUP-10 and SUP-9 within muscle cells. Genetic studies suggest that these three proteins forms complex that coordinates muscle contraction. The function of UNC-93 is not known but is most likely an ion channel regulatory protein [].
Probab=22.36 E-value=60 Score=27.09 Aligned_cols=32 Identities=16% Similarity=0.350 Sum_probs=21.2
Q ss_pred CCccchhhccchhhHHHHHHHHHHHHHHHHHHH
Q psy9982 2 FTPDFLGLIGGTLTVEIFLLVFLLLNVLSYILI 34 (222)
Q Consensus 2 ~~~~~~~~~~~~~~~iI~lLLF~~LYi~Sy~ii 34 (222)
|+|-++.++|.=.+.+|..++|+ +|+++++-.
T Consensus 56 ~~P~iv~~lg~K~sm~lg~~~y~-~y~~~~~~~ 87 (156)
T PF05978_consen 56 FAPSIVNKLGPKWSMILGSLGYA-IYIASFFYP 87 (156)
T ss_pred hHHHHHHHHhhHHHHHHHHHHHH-HHHHHHHhh
Confidence 45556677777777777777665 677776544
No 137
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=22.17 E-value=70 Score=31.73 Aligned_cols=28 Identities=7% Similarity=0.156 Sum_probs=19.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 15 TVEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+.||.++|.+++|++.|++=+++.|+=+
T Consensus 5 ~ii~i~ii~i~~~~~~~~~rr~~~~~i~ 32 (569)
T PRK04778 5 LIIAIVVIIIIAYLAGLILRKRNYKRID 32 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456667778888888877777666544
No 138
>COG1585 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=22.02 E-value=87 Score=25.96 Aligned_cols=25 Identities=32% Similarity=0.506 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKD 41 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~ 41 (222)
.+-+++|++|-+++.++.++|.|+-
T Consensus 48 ~~q~v~f~~lsv~~~~l~rr~~~~~ 72 (140)
T COG1585 48 WLQLVLFAILSVLLALLGRRFVRRR 72 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3567789999999999999998863
No 139
>PTZ00404 cytochrome P450; Provisional
Probab=22.00 E-value=95 Score=28.97 Aligned_cols=27 Identities=15% Similarity=0.257 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 17 EIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 17 iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
+.|.|||..||.+-....++|+|+...
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 (482)
T PTZ00404 3 LFNIILFLFIFYIIHNAYKKYKKIHKN 29 (482)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhhccCC
Confidence 457778888888866777777765543
No 140
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=21.87 E-value=1.1e+02 Score=24.44 Aligned_cols=29 Identities=21% Similarity=0.224 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccc
Q psy9982 16 VEIFLLVFLLLNVLSYILIEKFKRKDLED 44 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~~fkk~~~~~ 44 (222)
..||.||++++-+.+-+.-+..||++...
T Consensus 4 l~il~llLll~l~asl~~wr~~~rq~k~~ 32 (107)
T PF15330_consen 4 LGILALLLLLSLAASLLAWRMKQRQKKAG 32 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcccc
Confidence 46888888888787777777777777763
No 141
>PRK09458 pspB phage shock protein B; Provisional
Probab=21.78 E-value=1.1e+02 Score=23.55 Aligned_cols=16 Identities=19% Similarity=0.125 Sum_probs=10.1
Q ss_pred HHHHHHHHhhcccccc
Q psy9982 27 NVLSYILIEKFKRKDL 42 (222)
Q Consensus 27 Yi~Sy~ii~~fkk~~~ 42 (222)
+|.=-+|+.||+.|..
T Consensus 16 fVaPiWL~LHY~sk~~ 31 (75)
T PRK09458 16 FVAPIWLWLHYRSKRQ 31 (75)
T ss_pred HHHHHHHHHhhccccc
Confidence 4455677778876544
No 142
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=21.72 E-value=1.2e+02 Score=27.97 Aligned_cols=25 Identities=24% Similarity=0.276 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
-|-|-.+.|-++.++|+.+++||++
T Consensus 235 AiALG~v~ll~l~Gii~~~~~r~~~ 259 (281)
T PF12768_consen 235 AIALGTVFLLVLIGIILAYIRRRRQ 259 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 3445556667778888888888855
No 143
>PHA02867 C-type lectin protein; Provisional
Probab=21.55 E-value=63 Score=27.79 Aligned_cols=19 Identities=26% Similarity=0.354 Sum_probs=15.0
Q ss_pred chhhHHHHHHHHHHHHHHH
Q psy9982 12 GTLTVEIFLLVFLLLNVLS 30 (222)
Q Consensus 12 ~~~~~iI~lLLF~~LYi~S 30 (222)
-|+..+|+|+||++|=|+.
T Consensus 17 ~~~~~~~~~~~~~~~~v~~ 35 (167)
T PHA02867 17 ITVLGILCLILFTILVVVT 35 (167)
T ss_pred hHHHHHHHHHHHHHhhhee
Confidence 4777889999999887664
No 144
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=21.52 E-value=84 Score=24.40 Aligned_cols=34 Identities=21% Similarity=0.317 Sum_probs=14.0
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 10 IGGTLTVEIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 10 ~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
|-+.+..++.+++-+++..+.|.--++-||..+.
T Consensus 6 i~~iialiv~~iiaIvvW~iv~ieYrk~~rqrkI 39 (81)
T PF00558_consen 6 ILAIIALIVALIIAIVVWTIVYIEYRKIKRQRKI 39 (81)
T ss_dssp --HHHHHHHHHHHHHHHHHHH------------C
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 3455666677777777777777777777777773
No 145
>PF05620 DUF788: Protein of unknown function (DUF788); InterPro: IPR008506 This family consists of several eukaryotic proteins of unknown function.
Probab=21.45 E-value=1.2e+02 Score=25.57 Aligned_cols=27 Identities=26% Similarity=0.400 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccc
Q psy9982 16 VEIFLLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
.++.++|+.+++++||.+|.+.-|..-
T Consensus 47 ~~~~~~~~~~~~~~~~~~l~~~~rp~~ 73 (170)
T PF05620_consen 47 SWFGYLLFSLPAIFCYYFLEKMARPKY 73 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence 677788899999999999999887553
No 146
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=21.39 E-value=1.1e+02 Score=20.72 Aligned_cols=9 Identities=22% Similarity=0.589 Sum_probs=5.4
Q ss_pred HHHHHHHhh
Q psy9982 28 VLSYILIEK 36 (222)
Q Consensus 28 i~Sy~ii~~ 36 (222)
+++|.+.+|
T Consensus 30 li~ytl~th 38 (38)
T PF09125_consen 30 LIGYTLATH 38 (38)
T ss_dssp HHHHHHHSG
T ss_pred HHHHHHhcC
Confidence 366766654
No 147
>PF10954 DUF2755: Protein of unknown function (DUF2755); InterPro: IPR020513 This entry contains membrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=21.39 E-value=88 Score=25.15 Aligned_cols=33 Identities=27% Similarity=0.202 Sum_probs=23.0
Q ss_pred hhhccchhhHHHHHHHHHHHHHHHHHHHhhcccc
Q psy9982 7 LGLIGGTLTVEIFLLVFLLLNVLSYILIEKFKRK 40 (222)
Q Consensus 7 ~~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~fkk~ 40 (222)
+||--||++-+|=+ |+.|+.+.--.+|.|+|++
T Consensus 67 igl~VgTlFgLiPF-L~Gc~~~~v~~l~lrwr~r 99 (100)
T PF10954_consen 67 IGLGVGTLFGLIPF-LAGCLILGVIALILRWRHR 99 (100)
T ss_pred EeehhHHHHHHHHH-HHHHHHHHHHHHHHHHHhc
Confidence 46777888877765 4677777666677777765
No 148
>PHA02650 hypothetical protein; Provisional
Probab=21.23 E-value=85 Score=24.49 Aligned_cols=10 Identities=20% Similarity=0.703 Sum_probs=3.7
Q ss_pred HHHHHhhccc
Q psy9982 30 SYILIEKFKR 39 (222)
Q Consensus 30 Sy~ii~~fkk 39 (222)
+++.++-.||
T Consensus 66 ~flYLK~~~r 75 (81)
T PHA02650 66 SFFVFKGYTR 75 (81)
T ss_pred HHHHHHHhcc
Confidence 3333333343
No 149
>PF03208 PRA1: PRA1 family protein; InterPro: IPR004895 This family includes yeast hypothetical proteins and the uncharacterised rat prenylated rab acceptor protein PRA1.
Probab=21.18 E-value=93 Score=24.98 Aligned_cols=20 Identities=20% Similarity=0.009 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q psy9982 16 VEIFLLVFLLLNVLSYILIE 35 (222)
Q Consensus 16 ~iI~lLLF~~LYi~Sy~ii~ 35 (222)
.+++.+++.++.++.|+.++
T Consensus 118 ~l~~~l~~~~~lvl~HA~~r 137 (153)
T PF03208_consen 118 TLFWSLGASVLLVLLHASFR 137 (153)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 34455555555566666554
No 150
>PF06678 DUF1179: Protein of unknown function (DUF1179); InterPro: IPR009564 This family consists of several hypothetical Caenorhabditis elegans proteins of around 106 residues in length. The function of the family is unknown.
Probab=21.14 E-value=3.8e+02 Score=21.83 Aligned_cols=20 Identities=15% Similarity=0.004 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHhhccccccc
Q psy9982 23 FLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 23 F~~LYi~Sy~ii~~fkk~~~~ 43 (222)
|+..+++...|+.-. +|+.|
T Consensus 14 ~g~~lll~~~iv~C~-sKKKF 33 (103)
T PF06678_consen 14 FGPFLLLIVSIVQCQ-SKKKF 33 (103)
T ss_pred hhHHHHHHHHHHHhh-hcccc
Confidence 333334444444332 44444
No 151
>PHA02819 hypothetical protein; Provisional
Probab=21.13 E-value=88 Score=23.88 Aligned_cols=9 Identities=22% Similarity=1.032 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q psy9982 19 FLLVFLLLN 27 (222)
Q Consensus 19 ~lLLF~~LY 27 (222)
|++||+.||
T Consensus 58 ~~~~~~flY 66 (71)
T PHA02819 58 FVIIFIIFY 66 (71)
T ss_pred HHHHHHHHH
Confidence 333333333
No 152
>PTZ00358 hypothetical protein; Provisional
Probab=21.08 E-value=1.2e+02 Score=29.45 Aligned_cols=38 Identities=24% Similarity=0.425 Sum_probs=24.3
Q ss_pred chhhccchhhH---------------------HHHHHHHHHHHHHHHHHHhhccccccc
Q psy9982 6 FLGLIGGTLTV---------------------EIFLLVFLLLNVLSYILIEKFKRKDLE 43 (222)
Q Consensus 6 ~~~~~~~~~~~---------------------iI~lLLF~~LYi~Sy~ii~~fkk~~~~ 43 (222)
.||+.|||+.| .|.+.|-+++-+..-.-+.+|..++++
T Consensus 116 lL~ILggTLyCGWKCnLFcRPCCkSQyiCYgSaiVvVLviL~vlavt~sl~~~~~~~~~ 174 (367)
T PTZ00358 116 LLGILGGTLYCGWKCNLFCRPCCKSQYICYGSAIVVVLVILIVLAVTASLIAFVGRSEF 174 (367)
T ss_pred HHHHHHhhhhcccccCcccccccccceeeehhhHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 47889999875 255555555555555566677766654
No 153
>PHA03049 IMV membrane protein; Provisional
Probab=21.05 E-value=1.2e+02 Score=22.91 Aligned_cols=23 Identities=17% Similarity=0.452 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHhhcccccc
Q psy9982 20 LLVFLLLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 20 lLLF~~LYi~Sy~ii~~fkk~~~ 42 (222)
+|+-+|+=|+.-++-.-|+|+.+
T Consensus 6 ~l~iICVaIi~lIvYgiYnkk~~ 28 (68)
T PHA03049 6 ILVIICVVIIGLIVYGIYNKKTT 28 (68)
T ss_pred HHHHHHHHHHHHHHHHHHhcccc
Confidence 33344444444455555555554
No 154
>PHA03054 IMV membrane protein; Provisional
Probab=20.97 E-value=89 Score=23.91 Aligned_cols=9 Identities=33% Similarity=0.674 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q psy9982 19 FLLVFLLLN 27 (222)
Q Consensus 19 ~lLLF~~LY 27 (222)
|++||+.||
T Consensus 60 ~~~l~~flY 68 (72)
T PHA03054 60 ILLLLIYLY 68 (72)
T ss_pred HHHHHHHHH
Confidence 333333333
No 155
>PF11466 Doppel: Prion-like protein Doppel; InterPro: IPR021566 Dpl is a homologue related to the prion protein (PrP). Dpl is toxic to neurons and is expressed in the brains of mice that do not express PrP. In DHPC and SDS micelles, Dpl shoes about 40% alpha-helical structure however in aqueous solution it consists of a random coil. The alpha helical segment can adopt a transmembrane localisation also in a membrane. The unprocessed Dpl protein is thought to posses a possible channel formation mechanism which may be related to toxicity through direct interaction with cell membranes and damage to the cell membrane. ; PDB: 1Z65_A.
Probab=20.74 E-value=77 Score=20.52 Aligned_cols=17 Identities=29% Similarity=0.487 Sum_probs=11.5
Q ss_pred ccchhhHHHHHHHHHHH
Q psy9982 10 IGGTLTVEIFLLVFLLL 26 (222)
Q Consensus 10 ~~~~~~~iI~lLLF~~L 26 (222)
+|+-.--|.|+|||-=|
T Consensus 5 Lg~~~lAi~c~LL~s~L 21 (30)
T PF11466_consen 5 LGGWWLAIVCVLLFSHL 21 (30)
T ss_dssp -SSHHHHHHHHHHHHHT
T ss_pred hhhHHHHHHHHHHHHHh
Confidence 45666678888888644
No 156
>PF11045 YbjM: Putative inner membrane protein of Enterobacteriaceae; InterPro: IPR020368 This entry contains membrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=20.69 E-value=86 Score=26.18 Aligned_cols=18 Identities=11% Similarity=0.224 Sum_probs=13.9
Q ss_pred hhHHHHHHHHHHHHHHHH
Q psy9982 14 LTVEIFLLVFLLLNVLSY 31 (222)
Q Consensus 14 ~~~iI~lLLF~~LYi~Sy 31 (222)
+..|.|++||+++++.--
T Consensus 8 ~g~i~cfvLf~vVfl~~~ 25 (125)
T PF11045_consen 8 AGVICCFVLFIVVFLFLK 25 (125)
T ss_pred hHHHHHHHHHHHHHHHhh
Confidence 467889999998887643
No 157
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=20.57 E-value=81 Score=25.02 Aligned_cols=27 Identities=22% Similarity=0.386 Sum_probs=12.8
Q ss_pred hhccchhhHHHHHHHHHHHHHHHHHHHhhcc
Q psy9982 8 GLIGGTLTVEIFLLVFLLLNVLSYILIEKFK 38 (222)
Q Consensus 8 ~~~~~~~~~iI~lLLF~~LYi~Sy~ii~~fk 38 (222)
||+-..|+.|+..+++.++| .+-+|+.
T Consensus 2 gl~Da~~~~V~V~IVclliy----a~YRR~~ 28 (92)
T PHA02681 2 GLLDALLTVIVISIVCYIVI----MMYRRSC 28 (92)
T ss_pred chHHHHHHHHHHHHHHHHHH----HHHHhcc
Confidence 66666666443333333333 3345555
No 158
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 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. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=20.46 E-value=1.2e+02 Score=23.19 Aligned_cols=7 Identities=0% Similarity=0.078 Sum_probs=1.7
Q ss_pred hcccccc
Q psy9982 36 KFKRKDL 42 (222)
Q Consensus 36 ~fkk~~~ 42 (222)
-+.+|++
T Consensus 27 ~l~~R~~ 33 (132)
T PF00430_consen 27 FLDERKA 33 (132)
T ss_dssp HCS--S-
T ss_pred HHHHHHH
Confidence 3444444
No 159
>PF11845 DUF3365: Protein of unknown function (DUF3365); InterPro: IPR021796 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 198 to 657 amino acids in length.
Probab=20.46 E-value=72 Score=26.12 Aligned_cols=21 Identities=24% Similarity=0.423 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q psy9982 18 IFLLVFLLLNVLSYILIEKFK 38 (222)
Q Consensus 18 I~lLLF~~LYi~Sy~ii~~fk 38 (222)
|++|||++|.++.++...+.+
T Consensus 2 ~~~ll~~~~~~~~~~~~~~~~ 22 (188)
T PF11845_consen 2 IVALLFVILFLALFISYSQQQ 22 (188)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555444433
No 160
>PF05821 NDUF_B8: NADH-ubiquinone oxidoreductase ASHI subunit (CI-ASHI or NDUFB8); InterPro: IPR008699 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This family consists of several eukaryotic NADH-ubiquinone oxidoreductase ASHI subunit (CI-ASHI) proteins. NADH:ubiquinone oxidoreductase (complex I) is an extremely complicated multiprotein complex located in the inner mitochondrial membrane. Its main function is the transport of electrons from NADH to ubiquinone, which is accompanied by translocation of protons from the mitochondrial matrix to the intermembrane space. Human complex I appears to consist of 41 subunits [].; GO: 0003954 NADH dehydrogenase activity, 0008137 NADH dehydrogenase (ubiquinone) activity, 0005739 mitochondrion
Probab=20.27 E-value=1.2e+02 Score=26.32 Aligned_cols=37 Identities=22% Similarity=0.312 Sum_probs=20.5
Q ss_pred CCCccchhhccchh---hHHHHHHHHHHHHHHHHHHHhhc
Q psy9982 1 MFTPDFLGLIGGTL---TVEIFLLVFLLLNVLSYILIEKF 37 (222)
Q Consensus 1 ~~~~~~~~~~~~~~---~~iI~lLLF~~LYi~Sy~ii~~f 37 (222)
|+++|.+......+ ..+++|++|+.+-++.|.+...|
T Consensus 106 m~s~dr~d~~~~~~~w~~~~~~l~~flg~~~~~~~~~~~~ 145 (179)
T PF05821_consen 106 MYSPDRYDTSPTPVSWQSMLKQLFGFLGFMLFMFYLGEMY 145 (179)
T ss_pred ceeecccccCCCcccHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 45666555433222 34566666666666666666554
No 161
>PF11359 gpUL132: Glycoprotein UL132; InterPro: IPR021023 Glycoprotein UL132 is a low-abundance structural component of Human herpesvirus 5 []. The function of this protein is not fully understood.
Probab=20.27 E-value=88 Score=28.61 Aligned_cols=9 Identities=11% Similarity=-0.097 Sum_probs=4.9
Q ss_pred HHHHHHHHH
Q psy9982 22 VFLLLNVLS 30 (222)
Q Consensus 22 LF~~LYi~S 30 (222)
|+..||..|
T Consensus 70 tvaalYsSC 78 (235)
T PF11359_consen 70 TVAALYSSC 78 (235)
T ss_pred HHHHHHHHH
Confidence 445556555
No 162
>PF07019 Rab5ip: Rab5-interacting protein (Rab5ip)
Probab=20.23 E-value=1e+02 Score=22.66 Aligned_cols=18 Identities=17% Similarity=-0.025 Sum_probs=9.9
Q ss_pred HHHHHHHHHHhhcccccc
Q psy9982 25 LLNVLSYILIEKFKRKDL 42 (222)
Q Consensus 25 ~LYi~Sy~ii~~fkk~~~ 42 (222)
+..++++++..++++.++
T Consensus 35 ~~~~~s~~~~~~~~~~~~ 52 (81)
T PF07019_consen 35 SSFLVSLLYYAKAGFPDE 52 (81)
T ss_pred HHHHHHHHHHHHhcCChh
Confidence 334455566666666554
No 163
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=20.19 E-value=1.3e+02 Score=23.25 Aligned_cols=20 Identities=30% Similarity=0.564 Sum_probs=9.7
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q psy9982 15 TVEIFLLVFLLLNVLSYILI 34 (222)
Q Consensus 15 ~~iI~lLLF~~LYi~Sy~ii 34 (222)
+.++++++|++||++--+|.
T Consensus 19 ~~~~l~~~~~~l~ll~~ll~ 38 (108)
T PF07219_consen 19 ALILLLLLFVVLYLLLRLLR 38 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33445555555555544443
Done!