Query 030800
Match_columns 171
No_of_seqs 113 out of 1028
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 04:45:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030800.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030800hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0233 Frr Ribosome recycling 100.0 1.9E-64 4.2E-69 397.8 18.3 170 1-170 15-186 (187)
2 PRK00083 frr ribosome recyclin 100.0 5.9E-63 1.3E-67 393.5 19.9 170 1-170 13-184 (185)
3 TIGR00496 frr ribosome recycli 100.0 1E-62 2.2E-67 389.3 20.0 170 1-170 4-175 (176)
4 cd00520 RRF Ribosome recycling 100.0 3.4E-61 7.3E-66 381.8 19.3 169 1-169 9-179 (179)
5 PF01765 RRF: Ribosome recycli 100.0 3.6E-56 7.9E-61 348.8 17.8 163 7-169 1-165 (165)
6 KOG4759 Ribosome recycling fac 100.0 1.5E-48 3.3E-53 320.2 17.2 170 1-170 92-262 (263)
7 PF12732 YtxH: YtxH-like prote 78.8 17 0.00036 24.3 8.3 33 90-122 20-52 (74)
8 PF03480 SBP_bac_7: Bacterial 76.1 26 0.00057 28.9 9.0 65 92-156 218-285 (286)
9 PRK13454 F0F1 ATP synthase sub 74.4 17 0.00038 28.6 7.1 24 106-129 82-105 (181)
10 CHL00118 atpG ATP synthase CF0 72.2 39 0.00085 25.8 8.5 78 90-167 44-126 (156)
11 TIGR00587 nfo apurinic endonuc 70.6 19 0.0004 30.0 6.8 73 42-114 27-99 (274)
12 PF06518 DUF1104: Protein of u 64.2 50 0.0011 23.5 7.0 59 95-157 24-83 (93)
13 KOG1664 Vacuolar H+-ATPase V1 63.3 34 0.00073 28.1 6.6 53 113-169 11-63 (220)
14 PRK13455 F0F1 ATP synthase sub 62.5 36 0.00078 26.6 6.7 26 104-129 120-145 (184)
15 TIGR02609 doc_partner putative 61.5 36 0.00078 22.8 5.6 38 82-119 35-72 (74)
16 PRK13461 F0F1 ATP synthase sub 59.4 76 0.0016 24.1 8.5 72 96-167 35-109 (159)
17 PRK05759 F0F1 ATP synthase sub 59.3 73 0.0016 23.9 8.5 25 141-165 82-106 (156)
18 PF00430 ATP-synt_B: ATP synth 59.3 64 0.0014 23.2 7.5 64 99-162 43-109 (132)
19 PRK05412 putative nucleotide-b 59.1 8.5 0.00018 30.2 2.4 31 59-89 101-131 (161)
20 PRK06231 F0F1 ATP synthase sub 59.0 91 0.002 25.1 8.5 19 110-128 103-121 (205)
21 PRK14473 F0F1 ATP synthase sub 58.9 79 0.0017 24.1 8.5 26 141-166 86-111 (164)
22 PRK07353 F0F1 ATP synthase sub 58.0 73 0.0016 23.5 8.5 73 96-168 35-110 (140)
23 TIGR00106 uncharacterized prot 57.8 25 0.00054 25.1 4.5 37 53-89 5-47 (97)
24 PRK13455 F0F1 ATP synthase sub 57.5 90 0.002 24.3 8.5 72 96-167 57-131 (184)
25 PRK14472 F0F1 ATP synthase sub 57.0 89 0.0019 24.2 8.5 21 109-129 72-92 (175)
26 PF14689 SPOB_a: Sensor_kinase 56.8 19 0.00041 23.3 3.5 46 109-154 9-54 (62)
27 PRK13460 F0F1 ATP synthase sub 56.0 93 0.002 24.0 8.5 28 141-168 94-121 (173)
28 PTZ00372 endonuclease 4-like p 55.3 28 0.0006 31.4 5.3 71 41-112 156-227 (413)
29 COG1638 DctP TRAP-type C4-dica 54.9 1.1E+02 0.0024 26.5 8.9 133 20-156 160-314 (332)
30 PRK14475 F0F1 ATP synthase sub 53.7 66 0.0014 24.8 6.7 34 96-129 95-128 (167)
31 PRK08475 F0F1 ATP synthase sub 53.6 1E+02 0.0022 23.8 8.5 69 96-164 52-123 (167)
32 PRK07352 F0F1 ATP synthase sub 52.7 1.1E+02 0.0023 23.7 8.5 59 109-167 62-123 (174)
33 PRK13428 F0F1 ATP synthase sub 51.9 1E+02 0.0023 27.8 8.5 72 96-167 31-105 (445)
34 PF05008 V-SNARE: Vesicle tran 51.5 69 0.0015 21.2 6.0 32 90-121 15-46 (79)
35 PF09388 SpoOE-like: Spo0E lik 51.0 53 0.0012 19.8 6.3 41 113-155 3-43 (45)
36 PRK13453 F0F1 ATP synthase sub 50.7 1.2E+02 0.0025 23.6 8.5 22 108-129 71-92 (173)
37 PRK14471 F0F1 ATP synthase sub 49.7 1.1E+02 0.0025 23.2 8.5 30 98-127 40-69 (164)
38 PF01910 DUF77: Domain of unkn 49.6 29 0.00064 24.4 3.8 38 53-90 3-46 (92)
39 TIGR01144 ATP_synt_b ATP synth 49.4 72 0.0016 23.7 6.2 32 98-129 82-113 (147)
40 PF00244 14-3-3: 14-3-3 protei 48.9 67 0.0015 26.3 6.4 72 90-161 31-105 (236)
41 PRK09174 F0F1 ATP synthase sub 48.6 1.4E+02 0.003 24.0 8.0 53 107-159 105-160 (204)
42 PRK14475 F0F1 ATP synthase sub 48.1 1.3E+02 0.0027 23.2 8.5 77 91-167 33-114 (167)
43 PRK13454 F0F1 ATP synthase sub 47.5 1.4E+02 0.003 23.5 8.0 77 90-166 53-134 (181)
44 PRK06569 F0F1 ATP synthase sub 47.1 1.1E+02 0.0025 23.7 7.0 48 111-162 73-120 (155)
45 PRK09173 F0F1 ATP synthase sub 46.9 96 0.0021 23.5 6.6 62 99-160 90-157 (159)
46 PRK09174 F0F1 ATP synthase sub 45.8 1.6E+02 0.0034 23.7 8.5 80 89-168 74-158 (204)
47 PF14085 DUF4265: Domain of un 45.7 1.2E+02 0.0025 22.2 6.9 51 44-95 46-98 (117)
48 TIGR02302 aProt_lowcomp conser 45.7 2E+02 0.0044 28.4 9.9 67 93-162 474-548 (851)
49 PF02216 B: B domain; InterPr 44.4 22 0.00047 22.9 2.1 21 88-108 17-37 (54)
50 PF12334 rOmpB: Rickettsia out 44.2 32 0.0007 27.8 3.6 32 26-57 116-147 (217)
51 PF12685 SpoIIIAH: SpoIIIAH-li 43.9 1.4E+02 0.003 23.7 7.3 60 105-164 84-147 (196)
52 PRK01919 tatB sec-independent 43.8 1.6E+02 0.0035 23.3 9.6 67 95-168 22-88 (169)
53 TIGR01144 ATP_synt_b ATP synth 43.6 1.3E+02 0.0029 22.2 8.5 59 109-167 38-99 (147)
54 cd02646 R3H_G-patch R3H domain 43.1 35 0.00075 21.7 3.1 23 87-109 18-40 (58)
55 CHL00019 atpF ATP synthase CF0 42.4 1.6E+02 0.0035 22.9 8.5 18 111-128 80-97 (184)
56 PF13740 ACT_6: ACT domain; PD 42.3 98 0.0021 20.3 5.6 57 52-111 2-68 (76)
57 PF08182 Pedibin: Pedibin/Hym- 41.9 72 0.0016 18.6 4.0 26 144-169 4-31 (35)
58 CHL00118 atpG ATP synthase CF0 41.9 1.5E+02 0.0033 22.4 8.0 65 99-163 66-133 (156)
59 PF00804 Syntaxin: Syntaxin; 40.9 1.1E+02 0.0024 20.5 9.0 57 96-155 45-101 (103)
60 PRK13022 secF preprotein trans 40.8 1.8E+02 0.0039 24.6 7.9 63 45-107 37-102 (289)
61 PF04461 DUF520: Protein of un 40.3 15 0.00033 28.8 1.2 32 59-90 101-132 (160)
62 PRK14474 F0F1 ATP synthase sub 40.3 2.1E+02 0.0046 23.7 8.5 24 142-165 84-107 (250)
63 KOG0871 Class 2 transcription 40.0 1.3E+02 0.0028 23.4 6.2 43 101-146 84-126 (156)
64 PLN02372 violaxanthin de-epoxi 39.5 1.1E+02 0.0023 27.9 6.4 72 58-129 327-405 (455)
65 PRK06231 F0F1 ATP synthase sub 39.1 2E+02 0.0044 23.0 7.9 73 96-168 78-153 (205)
66 PF10281 Ish1: Putative stress 38.6 19 0.00042 20.9 1.2 19 88-107 18-36 (38)
67 TIGR03321 alt_F1F0_F0_B altern 38.3 2.2E+02 0.0048 23.3 8.5 15 113-127 63-77 (246)
68 PRK05892 nucleoside diphosphat 37.0 1.9E+02 0.0042 22.2 9.1 64 92-163 7-72 (158)
69 PRK14472 F0F1 ATP synthase sub 35.2 2.1E+02 0.0045 22.1 8.0 79 90-168 40-123 (175)
70 PRK08476 F0F1 ATP synthase sub 34.7 2E+02 0.0042 21.6 8.0 8 115-122 67-74 (141)
71 PRK06569 F0F1 ATP synthase sub 34.2 2.2E+02 0.0049 22.1 9.6 41 90-130 32-74 (155)
72 PRK11127 autonomous glycyl rad 33.7 1.5E+02 0.0033 22.3 5.5 67 35-104 55-121 (127)
73 PRK10780 periplasmic chaperone 33.7 2.2E+02 0.0047 21.8 10.1 86 84-169 25-118 (165)
74 PRK09173 F0F1 ATP synthase sub 33.6 2.1E+02 0.0045 21.6 8.4 23 106-128 53-75 (159)
75 PRK01060 endonuclease IV; Prov 33.2 1.4E+02 0.003 24.3 5.9 57 57-114 43-100 (281)
76 cd07018 S49_SppA_67K_type Sign 32.8 2.4E+02 0.0051 22.6 7.1 118 4-127 63-187 (222)
77 PRK05759 F0F1 ATP synthase sub 32.2 2.1E+02 0.0046 21.3 8.0 57 104-160 53-112 (156)
78 PF09336 Vps4_C: Vps4 C termin 32.1 56 0.0012 21.3 2.7 25 120-144 32-56 (62)
79 PF02825 WWE: WWE domain; Int 32.1 25 0.00054 22.8 1.1 40 56-95 20-59 (72)
80 PF12614 RRF_GI: Ribosome recy 31.6 2.3E+02 0.005 21.4 6.9 45 85-129 4-48 (128)
81 cd06557 KPHMT-like Ketopantoat 31.3 1E+02 0.0022 25.8 4.8 50 62-111 115-170 (254)
82 cd04888 ACT_PheB-BS C-terminal 31.3 1.4E+02 0.003 18.9 5.2 56 52-107 2-65 (76)
83 PF02597 ThiS: ThiS family; I 31.1 88 0.0019 20.1 3.6 34 24-58 40-73 (77)
84 PRK00311 panB 3-methyl-2-oxobu 31.0 1.2E+02 0.0025 25.6 5.1 48 62-111 118-173 (264)
85 PRK08578 preprotein translocas 30.4 3E+02 0.0065 23.3 7.6 62 45-107 46-107 (292)
86 KOG0100 Molecular chaperones G 30.2 4.5E+02 0.0097 24.3 11.7 111 39-150 454-609 (663)
87 cd01119 Chemokine_CC_DCCL Chem 30.0 1.2E+02 0.0027 19.4 4.1 51 16-68 8-58 (61)
88 PF12298 Bot1p: Eukaryotic mit 29.9 2.3E+02 0.005 22.3 6.4 64 88-161 12-82 (172)
89 cd02640 R3H_NRF R3H domain of 29.4 73 0.0016 20.7 2.9 24 85-108 17-41 (60)
90 PF07564 DUF1542: Domain of Un 29.4 1E+02 0.0022 20.0 3.7 30 91-120 10-39 (70)
91 TIGR01461 greB transcription e 29.2 2.7E+02 0.0057 21.4 7.7 66 91-163 3-70 (156)
92 PLN02316 synthase/transferase 29.2 1.9E+02 0.0042 29.2 7.0 77 80-156 227-313 (1036)
93 cd04887 ACT_MalLac-Enz ACT_Mal 28.7 1.6E+02 0.0034 18.6 4.9 54 53-106 2-62 (74)
94 PRK06488 sulfur carrier protei 28.6 1.2E+02 0.0025 19.4 3.9 33 26-58 29-61 (65)
95 CHL00019 atpF ATP synthase CF0 28.5 2.8E+02 0.0061 21.5 8.0 72 96-167 54-128 (184)
96 COG3937 Uncharacterized conser 28.4 1.9E+02 0.0042 21.2 5.2 67 94-160 19-95 (108)
97 PTZ00400 DnaK-type molecular c 27.9 5.3E+02 0.011 24.5 9.5 61 91-151 539-608 (663)
98 PF07464 ApoLp-III: Apolipopho 27.8 2.1E+02 0.0045 22.2 5.7 63 99-161 84-149 (155)
99 PRK08476 F0F1 ATP synthase sub 27.5 2.6E+02 0.0057 20.8 8.5 35 96-130 37-71 (141)
100 PTZ00436 60S ribosomal protein 27.5 2.1E+02 0.0045 25.0 6.0 81 57-142 22-123 (357)
101 PF12592 DUF3763: Protein of u 27.4 1.8E+02 0.0038 18.8 6.3 47 104-152 4-50 (57)
102 COG1666 Uncharacterized protei 27.4 51 0.0011 25.8 2.2 46 44-89 85-135 (165)
103 PF08112 ATP-synt_E_2: ATP syn 27.2 85 0.0018 20.2 2.8 19 151-169 10-28 (56)
104 PF00430 ATP-synt_B: ATP synth 26.8 2.4E+02 0.0052 20.1 6.9 70 98-167 31-103 (132)
105 PF13732 DUF4162: Domain of un 26.3 1.9E+02 0.0042 18.9 5.3 52 26-78 13-67 (84)
106 cd01227 PH_Dbs Dbs (DBL's big 26.3 1.2E+02 0.0026 23.0 4.0 49 70-118 65-124 (133)
107 PF13779 DUF4175: Domain of un 26.3 6.4E+02 0.014 24.9 10.4 67 92-161 442-516 (820)
108 PRK07352 F0F1 ATP synthase sub 26.2 3E+02 0.0066 21.1 8.0 59 102-160 66-127 (174)
109 PRK00411 cdc6 cell division co 26.2 4.1E+02 0.0089 22.6 9.9 15 132-146 268-282 (394)
110 COG3290 CitA Signal transducti 25.9 2.8E+02 0.006 26.0 7.0 67 97-163 316-384 (537)
111 PRK08404 V-type ATP synthase s 25.8 2.5E+02 0.0054 20.0 9.9 30 100-129 3-32 (103)
112 PRK06568 F0F1 ATP synthase sub 25.7 3.2E+02 0.0069 21.1 8.5 25 105-129 54-78 (154)
113 PRK13453 F0F1 ATP synthase sub 25.5 3.2E+02 0.0069 21.1 8.5 79 90-168 40-123 (173)
114 PF12729 4HB_MCP_1: Four helix 25.4 2.6E+02 0.0056 20.0 7.3 26 138-163 106-131 (181)
115 PRK09579 multidrug efflux prot 25.4 93 0.002 31.1 4.1 31 18-48 753-784 (1017)
116 cd06007 R3H_DEXH_helicase R3H 25.2 1.1E+02 0.0024 19.8 3.2 25 85-109 16-41 (59)
117 PF07693 KAP_NTPase: KAP famil 25.2 1.2E+02 0.0027 25.0 4.3 53 50-105 203-262 (325)
118 PRK14473 F0F1 ATP synthase sub 24.8 3.1E+02 0.0067 20.7 7.9 55 105-159 58-115 (164)
119 KOG0225 Pyruvate dehydrogenase 24.5 1.8E+02 0.0039 25.8 5.2 38 121-158 314-354 (394)
120 KOG0262 RNA polymerase I, larg 24.5 1.3E+02 0.0029 31.2 4.9 48 60-107 486-536 (1640)
121 cd02049 bacterial_SERPIN SERin 24.4 26 0.00057 30.1 0.1 58 51-108 220-278 (364)
122 PF07946 DUF1682: Protein of u 24.4 3.6E+02 0.0079 23.1 7.2 18 112-129 256-273 (321)
123 PRK05783 hypothetical protein; 24.4 97 0.0021 21.6 3.0 51 58-112 16-67 (84)
124 PRK08178 acetolactate synthase 24.3 2.3E+02 0.005 20.3 5.0 59 48-108 6-72 (96)
125 cd07022 S49_Sppa_36K_type Sign 24.0 1.2E+02 0.0025 24.2 3.9 57 74-130 124-184 (214)
126 COG4847 Uncharacterized protei 24.0 58 0.0012 23.5 1.8 19 109-127 75-93 (103)
127 smart00678 WWE Domain in Delte 24.0 93 0.002 20.3 2.8 40 56-95 13-52 (73)
128 PF03982 DAGAT: Diacylglycerol 23.9 98 0.0021 26.4 3.5 21 143-163 261-281 (297)
129 PF10615 DUF2470: Protein of u 23.9 44 0.00096 22.6 1.2 23 82-104 57-82 (83)
130 PRK13460 F0F1 ATP synthase sub 23.7 3.4E+02 0.0074 20.8 8.0 55 105-159 66-123 (173)
131 PF06037 DUF922: Bacterial pro 23.5 3.5E+02 0.0076 20.9 10.5 73 85-160 60-141 (161)
132 PRK11895 ilvH acetolactate syn 23.5 2.2E+02 0.0048 22.1 5.1 62 51-113 3-72 (161)
133 PF00873 ACR_tran: AcrB/AcrD/A 23.3 1.7E+02 0.0037 29.0 5.5 54 19-72 769-835 (1021)
134 PF09036 Bcr-Abl_Oligo: Bcr-Ab 23.2 2E+02 0.0044 19.8 4.2 26 101-126 27-52 (79)
135 cd02641 R3H_Smubp-2_like R3H d 23.2 1.1E+02 0.0025 19.6 3.0 23 86-108 18-41 (60)
136 PF05529 Bap31: B-cell recepto 23.0 1.6E+02 0.0036 22.9 4.5 11 138-148 162-172 (192)
137 PF10296 DUF2404: Putative int 22.9 1.5E+02 0.0032 20.4 3.7 41 6-46 19-61 (91)
138 PF05920 Homeobox_KN: Homeobox 22.4 1.6E+02 0.0034 17.4 3.3 31 91-121 9-39 (40)
139 TIGR00013 taut 4-oxalocrotonat 22.4 2E+02 0.0044 17.7 4.3 25 86-110 3-29 (63)
140 COG3696 Putative silver efflux 22.3 31 0.00068 34.3 0.2 55 18-72 767-837 (1027)
141 PF03179 V-ATPase_G: Vacuolar 22.1 2.9E+02 0.0062 19.4 10.7 67 98-168 27-93 (105)
142 TIGR00119 acolac_sm acetolacta 22.1 2.6E+02 0.0056 21.6 5.3 60 51-111 2-69 (157)
143 PF11691 DUF3288: Protein of u 22.0 2E+02 0.0042 20.5 4.1 38 107-146 27-72 (90)
144 PF12699 phiKZ_IP: phiKZ-like 22.0 3.8E+02 0.0083 23.2 6.9 60 86-151 41-100 (339)
145 PF04026 SpoVG: SpoVG; InterP 21.7 84 0.0018 21.9 2.2 72 28-113 6-84 (84)
146 cd02056 alpha-1-antitrypsin_li 21.6 19 0.00042 30.8 -1.3 59 49-108 219-278 (361)
147 cd01793 Fubi Fubi ubiquitin-li 21.4 2E+02 0.0043 18.7 4.0 30 44-73 2-31 (74)
148 COG0011 Uncharacterized conser 21.3 2E+02 0.0044 20.7 4.2 30 61-90 21-50 (100)
149 PF01343 Peptidase_S49: Peptid 21.0 1.7E+02 0.0036 22.0 4.0 60 70-129 55-116 (154)
150 TIGR03561 organ_hyd_perox pero 20.9 1.1E+02 0.0023 22.5 2.8 25 85-109 94-118 (134)
151 PRK14471 F0F1 ATP synthase sub 20.8 3.8E+02 0.0082 20.3 8.0 30 100-129 53-82 (164)
152 cd02643 R3H_NF-X1 R3H domain o 20.6 49 0.0011 22.2 0.9 43 59-102 7-49 (74)
153 cd02043 plant_SERPIN SERine Pr 20.5 68 0.0015 27.8 1.9 58 51-108 230-290 (381)
154 PRK02289 4-oxalocrotonate taut 20.3 2.3E+02 0.0051 17.7 4.4 26 85-110 3-29 (60)
155 PF13257 DUF4048: Domain of un 20.2 1.6E+02 0.0034 24.9 3.9 29 87-118 71-99 (253)
No 1
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.9e-64 Score=397.77 Aligned_cols=170 Identities=44% Similarity=0.686 Sum_probs=167.4
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc
Q 030800 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPR 80 (171)
Q Consensus 1 M~~~v~~l~~~l~~ir~gr~~p~~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~ 80 (171)
|++++++|+++|+++|||||||++||+|.|+|||+++||+|||+|+++++|+|+|+|||++.+++|++||+.||||+||.
T Consensus 15 M~k~~e~l~~~l~~iRTGRanp~lld~i~VeyYG~~tPl~qvAsIsvpe~r~l~I~p~Dks~~~~IekaI~~snLglnP~ 94 (187)
T COG0233 15 MEKALEALKNELSKIRTGRANPSLLDRITVEYYGSPTPLNQLASISVPEARTLVIKPFDKSMVKAIEKAILASNLGLNPN 94 (187)
T ss_pred HHHHHHHHHHHHHhhhcCCCChHHhcceeeeecCCCCcHHHHhhccCCCcceEEeecCccchHHHHHHHHHHcCCCCCcC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCCChHHHHHHHHHHHHHHHHHHHHHH
Q 030800 81 VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEVDELTKKYVKSAD 158 (171)
Q Consensus 81 ~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~--~~iseD~~~~~~~~iq~ltd~~i~~id 158 (171)
+||+.|||+||++|+|+|++|+|.|++++|++|++|||+||++++.+||+. +.||||+.++++++||++||+|+++||
T Consensus 95 ~dG~~IRv~~P~lTeErRkelvK~~k~~~EeakvaiRniRrda~d~iKK~~K~~~isEDe~k~~e~~iQKlTd~yi~~iD 174 (187)
T COG0233 95 NDGNVIRVPLPPLTEERRKELVKVAKKYAEEAKVAVRNIRRDANDKIKKLEKDKEISEDEVKKAEEEIQKLTDEYIKKID 174 (187)
T ss_pred cCCCeEEecCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999985 459999999999999999999999999
Q ss_pred HHHHHHHHhhhc
Q 030800 159 DVCKAKEKEINE 170 (171)
Q Consensus 159 ~l~~~KeKel~~ 170 (171)
++++.||||||+
T Consensus 175 ~~~~~KEkEim~ 186 (187)
T COG0233 175 ELLKDKEKEIME 186 (187)
T ss_pred HHHHHHHHHHhc
Confidence 999999999997
No 2
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=100.00 E-value=5.9e-63 Score=393.46 Aligned_cols=170 Identities=46% Similarity=0.681 Sum_probs=167.3
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc
Q 030800 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPR 80 (171)
Q Consensus 1 M~~~v~~l~~~l~~ir~gr~~p~~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~ 80 (171)
|++++++|+.+|+++|+||+||++||+|+|+|||+++||++||+|+++||++|+|+|||++++++|++||++||||+||+
T Consensus 13 m~kai~~l~~~l~~irtGra~p~lld~I~V~~yg~~~pL~~lA~Isv~~~~~l~I~p~D~~~i~~I~kAI~~s~lgl~P~ 92 (185)
T PRK00083 13 MEKAVEALKRELAKIRTGRANPSLLDGIKVDYYGSPTPLNQVASISVPEARTLLIQPWDKSMLKAIEKAIRASDLGLNPS 92 (185)
T ss_pred HHHHHHHHHHHHHHHhcCCCCHHHcCCeEEEECCCCccHHHceeeecCCCCEEEEEeCCHhHHHHHHHHHHHCCCCCCcc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCCChHHHHHHHHHHHHHHHHHHHHHH
Q 030800 81 VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEVDELTKKYVKSAD 158 (171)
Q Consensus 81 ~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~--~~iseD~~~~~~~~iq~ltd~~i~~id 158 (171)
.||+.|+|+||+||+|+|++++|.|++++|+||++|||+|+++++.+|++. +++|||+.++++++||++||+|+++||
T Consensus 93 ~dg~~Iri~iP~lT~E~R~elvK~~k~~~E~aKv~iRniRr~~~~~iKk~~k~~~iseD~~k~~e~eiQkltd~~i~~id 172 (185)
T PRK00083 93 NDGTVIRLPIPPLTEERRKELVKQVKKEAEEAKVAIRNIRRDANDKLKKLEKDKEISEDELKRAEDEIQKLTDKYIKKID 172 (185)
T ss_pred cCCCEEEecCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999973 569999999999999999999999999
Q ss_pred HHHHHHHHhhhc
Q 030800 159 DVCKAKEKEINE 170 (171)
Q Consensus 159 ~l~~~KeKel~~ 170 (171)
+++++||||||+
T Consensus 173 ~~~~~Kekeim~ 184 (185)
T PRK00083 173 ELLAAKEKEIME 184 (185)
T ss_pred HHHHHHHHHHhc
Confidence 999999999996
No 3
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=100.00 E-value=1e-62 Score=389.34 Aligned_cols=170 Identities=42% Similarity=0.675 Sum_probs=167.4
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc
Q 030800 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPR 80 (171)
Q Consensus 1 M~~~v~~l~~~l~~ir~gr~~p~~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~ 80 (171)
|++++++|+++|+++|+||+||++||+|+|+|||+++||++||||++++|++|+|+|||++++++|++||++||||+||+
T Consensus 4 M~k~i~~~~~~l~~irtGra~p~ild~I~V~~yg~~~pL~~lA~vsv~~~~~l~I~p~D~~~~~~I~kAI~~s~lglnP~ 83 (176)
T TIGR00496 4 MDKSIQALKRELSKIRTGRANPSLLDRILVEYYGAPTPLRQLASVTVPDARTLVIQPFDKSNINAIEKAIQRSDLGLNPN 83 (176)
T ss_pred HHHHHHHHHHHHHHHhcCCCCHHHhCCeEEEeCCCcccHHHceeeecCCCCEEEEecCChhhHHHHHHHHHHCCCCCCcc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCCChHHHHHHHHHHHHHHHHHHHHHH
Q 030800 81 VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEVDELTKKYVKSAD 158 (171)
Q Consensus 81 ~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~--~~iseD~~~~~~~~iq~ltd~~i~~id 158 (171)
.||+.|+|+||+||+|+|++++|.|++++|+||++|||+|+++++++|+++ +++|||+.++++++||++||+|+++||
T Consensus 84 ~dg~~Iri~iP~lT~E~RkelvK~~k~~~E~aKv~iRniRr~~~~~iKk~~k~~~iseD~~k~~~~~iQkltd~~i~~id 163 (176)
T TIGR00496 84 NDGSVIRVNFPPLTEERRKELVKHAKKIAEQAKVAVRNVRRDANDKVKKLEKDKEISEDEERRLQEEIQKLTDEYIKKID 163 (176)
T ss_pred cCCCEEEecCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999874 579999999999999999999999999
Q ss_pred HHHHHHHHhhhc
Q 030800 159 DVCKAKEKEINE 170 (171)
Q Consensus 159 ~l~~~KeKel~~ 170 (171)
+++++||||||+
T Consensus 164 ~~~~~Kekeim~ 175 (176)
T TIGR00496 164 EILKDKEKELME 175 (176)
T ss_pred HHHHHHHHHHhc
Confidence 999999999997
No 4
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=100.00 E-value=3.4e-61 Score=381.82 Aligned_cols=169 Identities=42% Similarity=0.670 Sum_probs=166.4
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc
Q 030800 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPR 80 (171)
Q Consensus 1 M~~~v~~l~~~l~~ir~gr~~p~~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~ 80 (171)
|++++++|+++|+++|+||+||++||+|+|+|||+++||++||+|+++||++|+|+|||++++++|++||++|+||+||+
T Consensus 9 m~k~i~~~~~~l~~irtGrasp~lld~I~V~~yg~~~pL~~lA~Vsv~~~~~l~I~p~D~~~i~~I~kAI~~s~l~l~P~ 88 (179)
T cd00520 9 MEKSLEALKEELNKIRTGRANPALLDSITVEYYGAPTPLNQLASISVPEPRTIVINPFDKSAIKAIEKAILNSDLGLNPN 88 (179)
T ss_pred HHHHHHHHHHHHHHHhcCCCCHHHhCCeEEEeCCCCccHHHceeeecCCCCEEEEeecchhhHHHHHHHHHHCCCCCCcC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCCChHHHHHHHHHHHHHHHHHHHHHH
Q 030800 81 VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEVDELTKKYVKSAD 158 (171)
Q Consensus 81 ~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~--~~iseD~~~~~~~~iq~ltd~~i~~id 158 (171)
+||+.|+|+||+||+|+|++++|.||+++|+||++|||+|+++++++|+++ +.+|||+.++++++||++||+|++++|
T Consensus 89 ~dg~~iri~iP~lT~E~R~~lvK~~k~~~E~~Kv~iRniR~~~~~~lKk~~k~~~iseD~~k~~~~~iqkltd~~i~~id 168 (179)
T cd00520 89 NDGAVIRVNLPPLTEERRKELVKDAKKIAEEAKVAIRNIRRDANDKIKKLEKEKEISEDEVKKAEEDLQKLTDEYIKKID 168 (179)
T ss_pred cCCCEEEecCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999985 459999999999999999999999999
Q ss_pred HHHHHHHHhhh
Q 030800 159 DVCKAKEKEIN 169 (171)
Q Consensus 159 ~l~~~KeKel~ 169 (171)
++++.||||||
T Consensus 169 ~~~~~Kekeim 179 (179)
T cd00520 169 ELLKSKEKELL 179 (179)
T ss_pred HHHHHHHHhhC
Confidence 99999999997
No 5
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=100.00 E-value=3.6e-56 Score=348.78 Aligned_cols=163 Identities=46% Similarity=0.698 Sum_probs=157.2
Q ss_pred HHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCCeE
Q 030800 7 ALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPRVDGQRL 86 (171)
Q Consensus 7 ~l~~~l~~ir~gr~~p~~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~~dg~~i 86 (171)
||+++|+++|+||+||++||+|+|+|||+.+||++||||+++||++|+|+|||++++++|++||++|++|+||+.||+.|
T Consensus 1 ~~~~~l~~ir~gr~~p~~ld~i~V~~~g~~~~L~~lA~V~~~~~~~l~I~~~d~~~i~~I~kAI~~s~l~l~p~~d~~~i 80 (165)
T PF01765_consen 1 HFKEELSKIRTGRANPAILDNIKVEYYGSKVPLNELAQVSVKDPRTLVITPYDPSLIKAIEKAIQKSNLNLNPQNDGNTI 80 (165)
T ss_dssp HHHHHHHTSSSSSSSGGGGTTSEEEETTEEEEGGGTEEEEEEETTEEEEEESSTTHHHHHHHHHHHTTSSSEEEEETTEE
T ss_pred ChHHHHHHHhcCCCCHHHhCCeEEEECCCCccHHHceeeecCCCCEEEEEeccccchHHHHHHHHHCCCCCCcccCCcEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 87 IAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAK 164 (171)
Q Consensus 87 ~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~--~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~K 164 (171)
+|+||+||+|+|++++|.||+++|+||++||++|+++++.+|+++ +.+|+|+.++++++||++||+|++++|++++.|
T Consensus 81 ~v~iP~~T~E~R~~l~k~~k~~~E~~k~~iR~iR~~~~~~lkk~~~~~~~s~D~~~~~~~~iq~l~~~~~~~id~~~~~k 160 (165)
T PF01765_consen 81 RVPIPPPTEERRKELVKQAKKIAEEAKVSIRNIRRDAMKKLKKLKKSKEISEDDIKKLEKEIQKLTDKYIKKIDELLKKK 160 (165)
T ss_dssp EEE--SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999985 459999999999999999999999999999999
Q ss_pred HHhhh
Q 030800 165 EKEIN 169 (171)
Q Consensus 165 eKel~ 169 (171)
|||||
T Consensus 161 ekell 165 (165)
T PF01765_consen 161 EKELL 165 (165)
T ss_dssp HHHHC
T ss_pred HHhhC
Confidence 99997
No 6
>KOG4759 consensus Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.5e-48 Score=320.25 Aligned_cols=170 Identities=42% Similarity=0.647 Sum_probs=167.7
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecC-CCcHHHHHHHHhcCCCCCCc
Q 030800 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYD-PNTLKELESAIVSSPLGLNP 79 (171)
Q Consensus 1 M~~~v~~l~~~l~~ir~gr~~p~~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~d-~~~i~~I~kAI~~s~l~~~p 79 (171)
|+++++.|+++|.++++||+||++||.|.|.+||.+.||++||+||.+||++|+|+||| |..|++|++||.+|+||+||
T Consensus 92 mek~ie~lke~~~k~~~gr~~~~~~d~I~vk~~g~~~~L~~IA~vS~K~p~~ilIn~~d~p~~ikai~kAI~~S~lnltP 171 (263)
T KOG4759|consen 92 MEKTIEALKEDFNKIRQGRFNPGMLDKIVVKANGPKRPLNEIAQVSLKGPQTILINPFDFPVDIKAILKAIEASGLNLTP 171 (263)
T ss_pred HHHHHHHHHHHHHHhhccCCChhhhhheeeecCCCcccHHHHHHHhcCCCceEEEecccCchHHHHHHHHHHhCCCCCCc
Confidence 89999999999999999999999999999999999999999999999999999999999 99999999999999999999
Q ss_pred ccCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 80 RVDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSADD 159 (171)
Q Consensus 80 ~~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~id~ 159 (171)
++||..|+|+|||+|.|+|++++|.+++++|++|.+||++|+++++.+++.++.+++|++++++.++|+++|.|++++|+
T Consensus 172 ~~dg~~l~vsiP~~T~E~Re~laK~~~~~~ee~K~slr~ir~~~~kk~~k~~~~~~~D~vkkae~~l~~l~k~~v~~ld~ 251 (263)
T KOG4759|consen 172 NLDGTVLRVSIPPVTKESREKLAKVLKRYFEEYKQSLRKIRTKSIKKSKKNKKSLSEDEVKKAEAELQKLAKDAVNKLDD 251 (263)
T ss_pred CCCCcEEEecCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999877799999999999999999999999999
Q ss_pred HHHHHHHhhhc
Q 030800 160 VCKAKEKEINE 170 (171)
Q Consensus 160 l~~~KeKel~~ 170 (171)
+|+.|||||++
T Consensus 252 llkskeKellk 262 (263)
T KOG4759|consen 252 LLKSKEKELLK 262 (263)
T ss_pred HHHHHHHHHhc
Confidence 99999999986
No 7
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=78.81 E-value=17 Score=24.30 Aligned_cols=33 Identities=15% Similarity=0.213 Sum_probs=22.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 90 IPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQK 122 (171)
Q Consensus 90 iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~ 122 (171)
=|+--+|.|+.+...+..+.+++......++..
T Consensus 20 aP~sG~e~R~~l~~~~~~~~~~~~~~~~~~~~~ 52 (74)
T PF12732_consen 20 APKSGKETREKLKDKAEDLKDKAKDLYEEAKEK 52 (74)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 377778888888887776666665555554443
No 8
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=76.09 E-value=26 Score=28.92 Aligned_cols=65 Identities=11% Similarity=0.270 Sum_probs=54.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---CCChHHHHHHHHHHHHHHHHHHHH
Q 030800 92 ALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGS---SLPKDQMKRLEKEVDELTKKYVKS 156 (171)
Q Consensus 92 ~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~---~iseD~~~~~~~~iq~ltd~~i~~ 156 (171)
.+++|.|+.+...+.+........++....++.+.+.+..- .+|+++.....+..+.+.+++.++
T Consensus 218 ~L~~e~q~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~v~~~s~~~~~~~~~~~~~~~~e~~~~ 285 (286)
T PF03480_consen 218 SLPDEDQEALDDAADEAEARAREYYEAEDEEALKELEENGVTVVELSDEELAAWREAAAPVWEEFFEE 285 (286)
T ss_dssp HS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-EEEEGCHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCcCEEeCCCHHHHHHHHHHHHHHHHHHhhc
Confidence 47899999999999999999999999999999999988542 359999999999999888885543
No 9
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=74.39 E-value=17 Score=28.59 Aligned_cols=24 Identities=8% Similarity=0.271 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 106 AKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 106 k~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
....+++...+++.|.++...+..
T Consensus 82 ~~~~~eye~~L~~Ar~EA~~ii~~ 105 (181)
T PRK13454 82 VEAEKAYNKALADARAEAQRIVAE 105 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444455555555444443
No 10
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=72.25 E-value=39 Score=25.75 Aligned_cols=78 Identities=13% Similarity=0.090 Sum_probs=38.3
Q ss_pred CCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 90 IPALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAK 164 (171)
Q Consensus 90 iP~~T~--E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~K 164 (171)
+||++. +.|++.+..--..+++.+...-..+.++...+...+ ..+-+.-....+...+.+.+..-++++.+...-
T Consensus 44 ~~Pi~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~A~~ea~~ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~a 123 (156)
T CHL00118 44 YKPLLKVLDERKEYIRKNLTKASEILAKANELTKQYEQELSKARKEAQLEITQSQKEAKEIVENELKQAQKYIDSLLNEA 123 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345544 445555555555566666665555555555555442 112223333344444444555555555554444
Q ss_pred HHh
Q 030800 165 EKE 167 (171)
Q Consensus 165 eKe 167 (171)
+.+
T Consensus 124 ~~~ 126 (156)
T CHL00118 124 TKQ 126 (156)
T ss_pred HHH
Confidence 443
No 11
>TIGR00587 nfo apurinic endonuclease (APN1). All proteins in this family for which functions are known are 5' AP endonculeases that are used in base excision repair and the repair of abasic sites in DNA.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=70.60 E-value=19 Score=29.95 Aligned_cols=73 Identities=4% Similarity=-0.031 Sum_probs=55.5
Q ss_pred eeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHH
Q 030800 42 LAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQ 114 (171)
Q Consensus 42 lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~ 114 (171)
-.|+.+.+|+.+.-.++++..+..+.++....++.+.+..-.....+.+-.+.++.|+..++..++..+-|..
T Consensus 27 ~~qif~~~P~~w~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Hapy~iNlas~~~~~r~~sv~~~~~~i~~A~~ 99 (274)
T TIGR00587 27 AFMFFLKSPRWWRRPMLEEEVIDWFKAALETNKNLSQIVLVHAPYLINLASPDEEKEEKSLDVLDEELKRCEL 99 (274)
T ss_pred EEEEEecCccccCCCCCCHHHHHHHHHHHHHcCCCCcceeccCCeeeecCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3577888888887777778888889888888888876654444333888888999999988888877766543
No 12
>PF06518 DUF1104: Protein of unknown function (DUF1104); InterPro: IPR009488 This family consists of several hypothetical proteins of unknown function which appear to be found exclusively in Helicobacter pylori.; PDB: 2XRH_A.
Probab=64.17 E-value=50 Score=23.53 Aligned_cols=59 Identities=19% Similarity=0.240 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHH
Q 030800 95 KEHIQAMCKVVAKTSE-DVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSA 157 (171)
Q Consensus 95 ~E~R~~l~K~ak~~~e-~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~i 157 (171)
.+.+-++-|+++.+-. +++.--+..+..+.+.+.+ .|..+.....++|.+...+.++..
T Consensus 24 ~dy~~Ei~KR~~~m~~~~~k~f~~~~~~~~~kn~~~----ms~~e~~k~~~ev~k~~~~~~~~m 83 (93)
T PF06518_consen 24 PDYKMEIHKRLKKMKEKEAKDFKKQFKEAARKNLSK----MSVEERKKRREEVRKALEKRIKKM 83 (93)
T ss_dssp HHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHTT----S-HHHHHHHHHHHHHHHHHT----
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHH----CCHHHHHHHHHHHHHHHHHHHHhc
Confidence 5889999999998877 7888788888877777765 588888888888887777655544
No 13
>KOG1664 consensus Vacuolar H+-ATPase V1 sector, subunit E [Energy production and conversion]
Probab=63.27 E-value=34 Score=28.08 Aligned_cols=53 Identities=21% Similarity=0.211 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 030800 113 KQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKEIN 169 (171)
Q Consensus 113 K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKel~ 169 (171)
+-=++-||+++.++.+... ++-++.+.+++ -.+...-..+|+.-|..|+|++.
T Consensus 11 ~~M~aFI~qEA~EKA~EI~--~kAeeEfnIEK--~rlV~~q~~kI~~~yekKeKqve 63 (220)
T KOG1664|consen 11 KHMVAFIRQEAEEKAKEID--AKAEEEFNIEK--GRLVQEQRLKIMQYYEKKEKQVE 63 (220)
T ss_pred HHHHHHHHHHHHHHHHHhh--hhhHHHhhHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3347889999999998763 56667777765 24666667778888888888764
No 14
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=62.53 E-value=36 Score=26.64 Aligned_cols=26 Identities=12% Similarity=0.257 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 104 VVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 104 ~ak~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
.+..+.++++..|..-|..+.+.+++
T Consensus 120 ea~~~~~~A~~~I~~ek~~a~~~l~~ 145 (184)
T PRK13455 120 SIARRLAAAEDQIASAEAAAVKAVRD 145 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555555554
No 15
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=61.53 E-value=36 Score=22.83 Aligned_cols=38 Identities=13% Similarity=0.052 Sum_probs=28.5
Q ss_pred CCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 82 DGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRS 119 (171)
Q Consensus 82 dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~i 119 (171)
++..|.+.-.+.+++..+++.+.+.+.+++++..+|.+
T Consensus 35 ~~~~iii~~~~~~~~~~~~~~~~~~~~~~~y~~~l~~L 72 (74)
T TIGR02609 35 EEGGLKLKRFDEGKELEKKMQMAVERAMSKYDEALKEL 72 (74)
T ss_pred ECCEEEEEECCCCccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444334478999999999999999999998864
No 16
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=59.36 E-value=76 Score=24.07 Aligned_cols=72 Identities=15% Similarity=0.176 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKE 167 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKe 167 (171)
+.|++.+...=.-+++.+......+.++...+.... ..+-++-....+...+.+.+..-.+++.+...-..+
T Consensus 35 ~~R~~~I~~~l~~A~~~~~eA~~~~~e~~~~l~~a~~ea~~ii~~a~~~a~~~~~~i~~~A~~ea~~~~~~a~~~ 109 (159)
T PRK13461 35 DSRQSEIDNKIEKADEDQKKARELKLKNERELKNAKEEGKKIVEEYKSKAENVYEEIVKEAHEEADLIIERAKLE 109 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444333355555555555544544444332 112223334444555555555555555555544443
No 17
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=59.28 E-value=73 Score=23.87 Aligned_cols=25 Identities=12% Similarity=0.134 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 141 RLEKEVDELTKKYVKSADDVCKAKE 165 (171)
Q Consensus 141 ~~~~~iq~ltd~~i~~id~l~~~Ke 165 (171)
..+...+.+.+..-.+++.+.+..+
T Consensus 82 ea~~~~~~~~~~a~~ea~~~~~~a~ 106 (156)
T PRK05759 82 RAAQIIEEAKAEAEAEAARIKAQAQ 106 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444333
No 18
>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=59.27 E-value=64 Score=23.19 Aligned_cols=64 Identities=9% Similarity=0.217 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 99 QAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCK 162 (171)
Q Consensus 99 ~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~ 162 (171)
++..+.+....+++...+.+.|.++...++... ..+-+......+++++.+.+....++...-.
T Consensus 43 ~~~~~ea~~~~~e~~~~l~~a~~ea~~i~~~a~~~a~~~~~~~~~ea~~~~~~~~~~a~~~i~~e~~ 109 (132)
T PF00430_consen 43 EELKEEAEQLLAEYEEKLAEAREEAQEIIEEAKEEAEKEKEEILAEAEKEAERIIEQAEAEIEQEKE 109 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666677777777777777766666543 1123344444555555555555555554433
No 19
>PRK05412 putative nucleotide-binding protein; Reviewed
Probab=59.15 E-value=8.5 Score=30.24 Aligned_cols=31 Identities=19% Similarity=0.343 Sum_probs=29.3
Q ss_pred CCCcHHHHHHHHhcCCCCCCcccCCCeEEEe
Q 030800 59 DPNTLKELESAIVSSPLGLNPRVDGQRLIAA 89 (171)
Q Consensus 59 d~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~ 89 (171)
|....+.|.++|.+|.+-++++..|+.|||+
T Consensus 101 ~~e~AKkIvK~IKd~klKVqa~IQGd~vRVt 131 (161)
T PRK05412 101 DQELAKKIVKLIKDSKLKVQAQIQGDQVRVT 131 (161)
T ss_pred CHHHHHHHHHHHHhcCCceeEEecCcEEEEe
Confidence 7888999999999999999999999999984
No 20
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=58.97 E-value=91 Score=25.06 Aligned_cols=19 Identities=21% Similarity=0.331 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030800 110 EDVKQSIRRSRQKALDMMK 128 (171)
Q Consensus 110 e~~K~~iR~iR~~~~~~lK 128 (171)
++++..+.+.|.++...+.
T Consensus 103 ~e~e~~L~~A~~eA~~Ii~ 121 (205)
T PRK06231 103 ENAKQRHENALAQAKEIID 121 (205)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444433
No 21
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=58.95 E-value=79 Score=24.12 Aligned_cols=26 Identities=12% Similarity=0.198 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 141 RLEKEVDELTKKYVKSADDVCKAKEK 166 (171)
Q Consensus 141 ~~~~~iq~ltd~~i~~id~l~~~KeK 166 (171)
..+...+.+.+..-++++.+......
T Consensus 86 ~a~~~~~~~l~~A~~ea~~~~~~a~~ 111 (164)
T PRK14473 86 RARAQEAEIIAQARREAEKIKEEARA 111 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444433
No 22
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=58.03 E-value=73 Score=23.45 Aligned_cols=73 Identities=10% Similarity=0.063 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKEI 168 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKel 168 (171)
+.|++-+...=.-+++.+...-....++...+.... ..+-++-....+...+.+.+..-++++.+......+|
T Consensus 35 ~~R~~~I~~~l~~Ae~~~~ea~~~~~~~e~~L~~a~~ea~~i~~~a~~~a~~~~~~~~~~a~~ea~~~~~~a~~~i 110 (140)
T PRK07353 35 EEREDYIRTNRAEAKERLAEAEKLEAQYEQQLASARKQAQAVIAEAEAEADKLAAEALAEAQAEAQASKEKARREI 110 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444334455555554445555544444432 1233334444555555555555555555555544443
No 23
>TIGR00106 uncharacterized protein, MTH1187 family. This protein has been crystallized in both Methanobacterium thermoautotrophicum and yeast, but its function remains unknown. Both crystal structures showed sulfate ions bound at the interface of two dimers to form a tetramer.
Probab=57.77 E-value=25 Score=25.05 Aligned_cols=37 Identities=16% Similarity=0.122 Sum_probs=29.1
Q ss_pred EEEeecC------CCcHHHHHHHHhcCCCCCCcccCCCeEEEe
Q 030800 53 LSINPYD------PNTLKELESAIVSSPLGLNPRVDGQRLIAA 89 (171)
Q Consensus 53 l~I~p~d------~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~ 89 (171)
+.|.|.. ..++.++.+.|++|+|++....-|+.|.-.
T Consensus 5 isv~P~g~~~~s~s~yVa~~i~~l~~sGl~y~~~pm~T~IEGe 47 (97)
T TIGR00106 5 VSIIPIGTVGASVSSYVAAAIEVLKESGLKYELHPMGTLIEGD 47 (97)
T ss_pred EEEeecCCCCCcHHHHHHHHHHHHHHcCCCeEecCCccEEecC
Confidence 4455665 337888899999999999999999988853
No 24
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=57.48 E-value=90 Score=24.34 Aligned_cols=72 Identities=4% Similarity=0.006 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKE 167 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKe 167 (171)
+.|++-+..-=.-+++.+........++...+.... ..+-++-....+...+++.+....+++.+.+..+++
T Consensus 57 ~~R~~~I~~~l~~Ae~~~~eA~~~l~e~e~~L~~A~~ea~~Ii~~A~~~a~~~~e~~~~~a~~ea~~~~~~A~~~ 131 (184)
T PRK13455 57 DKRAEGIRSELEEARALREEAQTLLASYERKQREVQEQADRIVAAAKDEAQAAAEQAKADLEASIARRLAAAEDQ 131 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444443334455555555555555544444432 112222222233334444444444444444444433
No 25
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=57.02 E-value=89 Score=24.15 Aligned_cols=21 Identities=5% Similarity=0.215 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 030800 109 SEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 109 ~e~~K~~iR~iR~~~~~~lKk 129 (171)
.++++..+..+|.++...+..
T Consensus 72 ~~e~e~~L~~a~~ea~~ii~~ 92 (175)
T PRK14472 72 LRKNRELLAKADAEADKIIRE 92 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333455555555555544443
No 26
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=56.83 E-value=19 Score=23.35 Aligned_cols=46 Identities=20% Similarity=0.272 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHH
Q 030800 109 SEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYV 154 (171)
Q Consensus 109 ~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i 154 (171)
.++.=..+|.-|+|++.++.-..+-+.-.....+.+.|..+++..-
T Consensus 9 ~~~~~~~lR~~RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~~~~ 54 (62)
T PF14689_consen 9 LEELIDSLRAQRHDFLNHLQVIYGLLQLGKYEEAKEYIKELSKDLQ 54 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4555668999999999998754222333344555555555555443
No 27
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=56.00 E-value=93 Score=24.04 Aligned_cols=28 Identities=18% Similarity=0.057 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030800 141 RLEKEVDELTKKYVKSADDVCKAKEKEI 168 (171)
Q Consensus 141 ~~~~~iq~ltd~~i~~id~l~~~KeKel 168 (171)
..+...+.+.+..-++++.+....+.+|
T Consensus 94 ea~~~~~~~~~~A~~ea~~~~~~a~~~i 121 (173)
T PRK13460 94 DALKLKNKLLEETNNEVKAQKDQAVKEI 121 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444455555554444443
No 28
>PTZ00372 endonuclease 4-like protein; Provisional
Probab=55.26 E-value=28 Score=31.37 Aligned_cols=71 Identities=10% Similarity=0.085 Sum_probs=56.4
Q ss_pred ceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc-cCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHH
Q 030800 41 HLAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPR-VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDV 112 (171)
Q Consensus 41 ~lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~-~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~ 112 (171)
+.-||-+++||.+.-.|+++..+..+.+++...++++.|. .-+..+ +.+--+.++.|+..+....+.++.|
T Consensus 156 ~afqiF~~npr~w~~~~~~~~~~~~f~~~~~~~gi~~~~i~~HapYl-INLASpd~e~rekSv~~~~~eL~rA 227 (413)
T PTZ00372 156 QAFALFLKNQRTWNSPPLSDETIDKFKENCKKYNYDPKFILPHGSYL-INLANPDKEKREKSYDAFLDDLQRC 227 (413)
T ss_pred CEEEEEcCCCccCCCCCCCHHHHHHHHHHHHHcCCCcceEEeecCce-ecCCCCCHHHHHHHHHHHHHHHHHH
Confidence 5668899999999999999999999999999999987654 334444 7777788999988777666655543
No 29
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=54.89 E-value=1.1e+02 Score=26.52 Aligned_cols=133 Identities=13% Similarity=0.221 Sum_probs=86.1
Q ss_pred CCcCCCcceEEeeCC---------------ccccccceee---EEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCccc
Q 030800 20 ASPGMLDHIIVETGG---------------VKMPLNHLAV---VSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPRV 81 (171)
Q Consensus 20 ~~p~~ld~i~V~~~g---------------~~~pL~~lA~---I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~~ 81 (171)
.+|+=|.++++.+++ +++|..|+-+ -.+-||+.=.+.-+..+-.-.+.+-+..+|-.+.|..
T Consensus 160 ~~peDlkGlkiRv~~s~~~~~~~~a~GA~P~pm~f~Evy~aLqtGvVDGqEnp~~~i~~~k~~EVqky~t~tnH~~~~~~ 239 (332)
T COG1638 160 KTPEDLKGLKIRVPQSPLLLAMFKALGANPTPMPFAEVYTALQTGVVDGQENPLSNIYSAKLYEVQKYLTLTNHIYLPLA 239 (332)
T ss_pred CChHHhCCCeeecCCCHHHHHHHHHcCCCCCCCCHHHHHHHHHcCCcccccCCHHHHhhccHHHHhHHhhhcccccccee
Confidence 355666666666543 2456666643 2344666543333456677788888888887777652
Q ss_pred ---CCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHH-HHHHHHHHHHHHHHH
Q 030800 82 ---DGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKR-LEKEVDELTKKYVKS 156 (171)
Q Consensus 82 ---dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~-~~~~iq~ltd~~i~~ 156 (171)
.... .=.+++|.|+.+.+.+++..+..+..+...-++..+.+++..-.+-+.+... ..+-.+.+.+.|.+.
T Consensus 240 ~~~s~~~----w~~L~~e~q~il~~aa~e~~~~~~~~~~~~e~~~~e~lk~~Gv~v~~~~~~~~~~~~~~~~~~~~~~~ 314 (332)
T COG1638 240 VLVSKAF----WDSLPEEDQTILLEAAKEAAEEQRKLVEELEDELLEKLKEAGVEVVEPDAAEAFREAAKPVYDEFAKK 314 (332)
T ss_pred eEEcHHH----HhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEecCCchHHHHHHHHHHHHHHHhh
Confidence 2222 2378999999999999999999999888888888888887642222222222 555566666666655
No 30
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=53.67 E-value=66 Score=24.76 Aligned_cols=34 Identities=15% Similarity=0.211 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
+.+.+.-+.+..+.+.++..|..-|..++..+++
T Consensus 95 ~~~~~A~~ea~~~~~~A~~~I~~e~~~a~~el~~ 128 (167)
T PRK14475 95 EAKEKLEEQIKRRAEMAERKIAQAEAQAAADVKA 128 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555667777888888888888888888876
No 31
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=53.61 E-value=1e+02 Score=23.82 Aligned_cols=69 Identities=9% Similarity=0.076 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAK 164 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~K 164 (171)
+.|++.+..--..+++.+........++...+.... ..+-++-....+...+.+.++.-.+++.+....
T Consensus 52 ~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~Ar~eA~~Ii~~A~~eAe~~~~~ii~~A~~ea~~~~~~a 123 (167)
T PRK08475 52 KSRINKISKRLEEIQEKLKESKEKKEDALKKLEEAKEKAELIVETAKKEAYILTQKIEKQTKDDIENLIKSF 123 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555444444455555544444444444444332 112223333344444444444444444444433
No 32
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=52.72 E-value=1.1e+02 Score=23.71 Aligned_cols=59 Identities=14% Similarity=0.182 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 109 SEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKE 167 (171)
Q Consensus 109 ~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKe 167 (171)
+++.+...-....++...+.++. ..+-.+-....+...+.+.+..-++++.+....+.+
T Consensus 62 A~~~~~ea~~~~~~~~~~L~~a~~ea~~ii~~a~~~a~~~~~~~~~~A~~e~~~~~~~a~~~ 123 (174)
T PRK07352 62 AEERLRQAAQALAEAQQKLAQAQQEAERIRADAKARAEAIRAEIEKQAIEDMARLKQTAAAD 123 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444331 112222333344444444444445555544444433
No 33
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=51.85 E-value=1e+02 Score=27.75 Aligned_cols=72 Identities=10% Similarity=0.113 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKE 167 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKe 167 (171)
+.|++-+..-=..+++++..+...+.++.+.+...+ ..+-++-....++..+.+.++--.+++.+....+++
T Consensus 31 ~~R~~~I~~~L~eAe~a~~ea~~~~~~~e~~L~~Ak~ea~~Ii~~A~~~A~~~~~~~~~~A~~ea~~i~~~a~~~ 105 (445)
T PRK13428 31 AARQDTVRQQLAESATAADRLAEADQAHTKAVEDAKAEAARVVEEAREDAERIAEQLRAQADAEAERIKVQGARQ 105 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444456666666666666555555442 123333334444444444555555555554444333
No 34
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=51.55 E-value=69 Score=21.20 Aligned_cols=32 Identities=9% Similarity=0.308 Sum_probs=23.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 90 IPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQ 121 (171)
Q Consensus 90 iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~ 121 (171)
+|+.+.+.|...+..+....++|..-|...--
T Consensus 15 ~~~~~~~~r~~~i~~~e~~l~ea~~~l~qMe~ 46 (79)
T PF05008_consen 15 IKNLSGEQRKSLIREIERDLDEAEELLKQMEL 46 (79)
T ss_dssp GGGS-CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhccChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555678999999999999988887765543
No 35
>PF09388 SpoOE-like: Spo0E like sporulation regulatory protein; InterPro: IPR018540 Spore formation is an extreme response to starvation and can also be a component of disease transmission. Sporulation is controlled by an expanded two-component system where starvation signals result in sensor kinase activation and phosphorylation of the master sporulation response regulator Spo0A. Phosphatases such as Spo0E dephosphorylate Spo0A thereby inhibiting sporulation. This is a family of Spo0E-like phosphatases. The structure of a Bacillus anthracis member of this family has revealed an anti-parallel alpha-helical structure []. ; PDB: 2BZB_B 2C0S_A.
Probab=50.98 E-value=53 Score=19.76 Aligned_cols=41 Identities=27% Similarity=0.436 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHH
Q 030800 113 KQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVK 155 (171)
Q Consensus 113 K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~ 155 (171)
...|-..|++..+.+.+. +++.+++=....++|.+...|..
T Consensus 3 ~~~Ie~~R~~L~~~~~~~--~l~~~~vl~~Sq~LD~lI~~y~~ 43 (45)
T PF09388_consen 3 LEEIEELRQELNELAEKK--GLTDPEVLELSQELDKLINEYQK 43 (45)
T ss_dssp HHHHHHHHHHHHHHHHHC--CTTCHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHHHhh
Confidence 346778899999988764 68889999999999999999874
No 36
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=50.70 E-value=1.2e+02 Score=23.57 Aligned_cols=22 Identities=14% Similarity=0.407 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 030800 108 TSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 108 ~~e~~K~~iR~iR~~~~~~lKk 129 (171)
..++++..++.+|.++...+..
T Consensus 71 ~~~e~e~~l~~a~~ea~~ii~~ 92 (173)
T PRK13453 71 LEEENKQKLKETQEEVQKILED 92 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3334555666666655555544
No 37
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=49.74 E-value=1.1e+02 Score=23.21 Aligned_cols=30 Identities=7% Similarity=0.175 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMM 127 (171)
Q Consensus 98 R~~l~K~ak~~~e~~K~~iR~iR~~~~~~l 127 (171)
|++.+..--..+++++...-..+.++...+
T Consensus 40 R~~~I~~~l~~A~~~~~ea~~~~~e~e~~l 69 (164)
T PRK14471 40 REDSIKNALASAEEARKEMQNLQADNERLL 69 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 433333333334444444333333333333
No 38
>PF01910 DUF77: Domain of unknown function DUF77; InterPro: IPR002767 This entry contains several hypothetical proteins of unknown function found in archaebacteria, eukaryotes and eubacteria. The structures of YBL001c from Saccharomyces cerevisiae and its homologue MTH1187 from the archaea Methanobacterium thermoautotrophicum have been determined []. These proteins have a ferredoxin-like alpha/beta sandwich structure with anti-parallel beta-sheets. Generally, they have two domains that form a single beta-sheet dimer, where two dimers pack sheet-to-sheet into a tetramer, some proteins having an extra C-terminal helix. ; PDB: 1LXJ_A 1YQH_A 2EKY_G 2EPI_A 1VK8_D 2IBO_C 1LXN_B.
Probab=49.61 E-value=29 Score=24.39 Aligned_cols=38 Identities=18% Similarity=0.183 Sum_probs=30.0
Q ss_pred EEEeecCC------CcHHHHHHHHhcCCCCCCcccCCCeEEEeC
Q 030800 53 LSINPYDP------NTLKELESAIVSSPLGLNPRVDGQRLIAAI 90 (171)
Q Consensus 53 l~I~p~d~------~~i~~I~kAI~~s~l~~~p~~dg~~i~v~i 90 (171)
|.|.|+.. .++..+.+.|++|++.+.+..-|+.|.-.+
T Consensus 3 i~v~P~g~~~~s~~~~V~~~i~~i~~sgl~y~v~pm~T~iEGe~ 46 (92)
T PF01910_consen 3 ISVIPIGTGGESVSAYVAEAIEVIKESGLKYEVGPMGTTIEGEL 46 (92)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHHHHTSSSEEEEETTEEEEEEEH
T ss_pred EEEEeCCCCCCCHHHHHHHHHHHHHHcCCceEEcCCccEEEecH
Confidence 56667742 467778888999999999999999998765
No 39
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=49.37 E-value=72 Score=23.69 Aligned_cols=32 Identities=13% Similarity=0.189 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 98 R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
+.+.-+.+..+.++++..+..-|..+...++.
T Consensus 82 ~~~a~~e~~~~~~~a~~~i~~e~~~a~~~l~~ 113 (147)
T TIGR01144 82 KAEAREEREKIKAQARAEIEAEKEQAREELRK 113 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444455555566666666666665554
No 40
>PF00244 14-3-3: 14-3-3 protein; InterPro: IPR023410 The 14-3-3 proteins are a large family of approximately 30kDa acidic proteins which exist primarily as homo- and heterodimeric within all eukaryotic cells [, ]. There is a high degree of sequence identity and conservation between all the 14-3-3 isotypes, particularly in the regions which form the dimer interface or line the central ligand binding channel of the dimeric molecule. Each 14-3-3 protein sequence can be roughly divided into three sections: a divergent amino terminus, the conserved core region and a divergent carboxyl terminus. The conserved middle core region of the 14-3-3s encodes an amphipathic groove that forms the main functional domain, a cradle for interacting with client proteins. The monomer consists of nine helices organised in an antiparallel manner, forming an L-shaped structure. The interior of the L-structure is composed of four helices: H3 and H5, which contain many charged and polar amino acids, and H7 and H9, which contain hydrophobic amino acids. These four helices form the concave amphipathic groove that interacts with target peptides. 14-3-3 proteins mainly bind proteins containing phosphothreonine or phosphoserine motifs however exceptions to this rule do exist. Extensive investigation of the 14-3-3 binding site of the mammalian serine/threonine kinase Raf-1 has produced a consensus sequence for 14-3-3-binding, RSxpSxP (in the single-letter amino-acid code, where x denotes any amino acid and p indicates that the next residue is phosphorylated). 14-3-3 proteins appear to effect intracellular signalling in one of three ways - by direct regulation of the catalytic activity of the bound protein, by regulating interactions between the bound protein and other molecules in the cell by sequestration or modification or by controlling the subcellular localisation of the bound ligand. Proteins appear to initially bind to a single dominant site and then subsequently to many, much weaker secondary interaction sites. The 14-3-3 dimer is capable of changing the conformation of its bound ligand whilst itself undergoing minimal structural alteration. This entry represents the structural domain found in 14-3-3 proteins.; PDB: 2O8P_A 3AXY_D 2C74_A 2C63_A 4DX0_A 1YWT_A 3P1O_A 3P1N_A 4DAU_A 3U9X_A ....
Probab=48.86 E-value=67 Score=26.33 Aligned_cols=72 Identities=19% Similarity=0.199 Sum_probs=47.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 90 IPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVC 161 (171)
Q Consensus 90 iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~ 161 (171)
-|.+|.|-|.-|.-..|.....-|.++|.+..--.+.-.+.. ..+-++-.++++++|..+.+..+.-||..+
T Consensus 31 ~~eLt~eERnLlsvayKn~i~~~R~s~R~l~~~e~~~~~~~~~~~~~~i~~yk~kie~EL~~~C~eii~lId~~L 105 (236)
T PF00244_consen 31 NPELTEEERNLLSVAYKNVIGSRRASWRILSSIEQKEENKGNEKQVKLIKDYKKKIEDELIDICNEIIRLIDKSL 105 (236)
T ss_dssp SS---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred CCCCCHHHHHHHHHHHHhccccchHHHHhhhhHhhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367899999999999999999999999998764443322210 112335556667777777777777777643
No 41
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=48.57 E-value=1.4e+02 Score=24.05 Aligned_cols=53 Identities=13% Similarity=0.164 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 107 KTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADD 159 (171)
Q Consensus 107 ~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~ 159 (171)
...+++...|...|.++...+.... ....+.....++.+++.+....-++|..
T Consensus 105 ~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea~~~~e~~~~~a~~ea~~~l~~Ae~~I~~ 160 (204)
T PRK09174 105 AAVAAYEQELAQARAKAHSIAQAAREAAKAKAEAERAAIEASLEKKLKEAEARIAA 160 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444455555555555444321 1122333334444444444444444443
No 42
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=48.09 E-value=1.3e+02 Score=23.20 Aligned_cols=77 Identities=9% Similarity=0.078 Sum_probs=33.0
Q ss_pred CCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 91 PALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKE 165 (171)
Q Consensus 91 P~~T~--E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~Ke 165 (171)
||++. +.|++-+..-=.-+++++...-..+.++...+.... ..+-.+-....+...+.+.+..-++.+.+....+
T Consensus 33 ~pi~~~le~R~~~I~~~l~~Ae~~k~eAe~~~~~~e~~L~~A~~ea~~Ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~A~ 112 (167)
T PRK14475 33 KALAGALDAYAAKIQAELDEAQRLREEAQALLADVKAEREEAERQAAAMLAAAKADARRMEAEAKEKLEEQIKRRAEMAE 112 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44443 444444433333355555544444444444444331 1122223333444444444444445555554444
Q ss_pred Hh
Q 030800 166 KE 167 (171)
Q Consensus 166 Ke 167 (171)
.+
T Consensus 113 ~~ 114 (167)
T PRK14475 113 RK 114 (167)
T ss_pred HH
Confidence 43
No 43
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=47.50 E-value=1.4e+02 Score=23.45 Aligned_cols=77 Identities=14% Similarity=0.142 Sum_probs=48.2
Q ss_pred CCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 90 IPALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAK 164 (171)
Q Consensus 90 iP~~T~--E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~K 164 (171)
+||++. +.|++.+..--..+++.+...-..+.++...|.+.+ ..+-++-....++..+.+.+..-.+++...+.=
T Consensus 53 ~~PI~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~eye~~L~~Ar~EA~~ii~~A~~ea~~~~~~~~~~A~~e~~~~~aea 132 (181)
T PRK13454 53 LPRIGAVLAERQGTITNDLAAAEELKQKAVEAEKAYNKALADARAEAQRIVAETRAEIQAELDVAIAKADAEIAAKAAES 132 (181)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466665 556666666666788888888888888888887763 224444444455555555555555555555543
Q ss_pred HH
Q 030800 165 EK 166 (171)
Q Consensus 165 eK 166 (171)
++
T Consensus 133 ~~ 134 (181)
T PRK13454 133 EK 134 (181)
T ss_pred HH
Confidence 33
No 44
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=47.06 E-value=1.1e+02 Score=23.72 Aligned_cols=48 Identities=15% Similarity=0.233 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 111 DVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSADDVCK 162 (171)
Q Consensus 111 ~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~id~l~~ 162 (171)
+++...+.+|.++.+.+.. =.+.+.+.++.++-.+.+.-++++..+..
T Consensus 73 ~Ar~eA~~I~~e~~~~~~a----~~~~~~~~~ea~L~~~~~~~~~~~~~~~~ 120 (155)
T PRK06569 73 KTNTEIDRLKKEKIDSLES----EFLIKKKNLEQDLKNSINQNIEDINLAAK 120 (155)
T ss_pred HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444432 14456666777777777777766655443
No 45
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=46.95 E-value=96 Score=23.50 Aligned_cols=62 Identities=18% Similarity=0.254 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHH------HHHHHHHHHHHHHHHHHH
Q 030800 99 QAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRL------EKEVDELTKKYVKSADDV 160 (171)
Q Consensus 99 ~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~------~~~iq~ltd~~i~~id~l 160 (171)
.+.-+.+..+.+.++..|..-|+.+...+++.-..++-+-..++ ...-+.+.|+|+++++.-
T Consensus 90 ~~a~~~~~~~~~~a~~~I~~ek~~a~~el~~~~~~lA~~~A~kil~~~l~~~~~~~li~~~i~~~~~~ 157 (159)
T PRK09173 90 RKTEEYVARRNKLAEQKIAQAETDAINAVRSSAVDLAIAAAEKLLAEKVDAKAASELFKDALAQVKTR 157 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHhhh
Confidence 33333333444447777777777777777653111111111111 122356777777776653
No 46
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=45.82 E-value=1.6e+02 Score=23.72 Aligned_cols=80 Identities=13% Similarity=0.091 Sum_probs=48.1
Q ss_pred eCCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 89 AIPALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKA 163 (171)
Q Consensus 89 ~iP~~T~--E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~ 163 (171)
-+||+.. |.|++.+..-=..+++.+...-....++...|.+.+ ..+-++-....+...+...++-..+++.+++.
T Consensus 74 ~~~pI~~vLe~R~~~I~~~L~~Ae~~k~eAe~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea~~~~e~~~~~a~~ea~~~l~~ 153 (204)
T PRK09174 74 ILPRIGGIIETRRDRIAQDLDQAARLKQEADAAVAAYEQELAQARAKAHSIAQAAREAAKAKAEAERAAIEASLEKKLKE 153 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556655 556666665666688888888888888888887653 12333333444445555555555566666655
Q ss_pred HHHhh
Q 030800 164 KEKEI 168 (171)
Q Consensus 164 KeKel 168 (171)
-+++|
T Consensus 154 Ae~~I 158 (204)
T PRK09174 154 AEARI 158 (204)
T ss_pred HHHHH
Confidence 55544
No 47
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=45.71 E-value=1.2e+02 Score=22.15 Aligned_cols=51 Identities=14% Similarity=0.201 Sum_probs=36.6
Q ss_pred eEEecCCcEEEEeecCCCc--HHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCH
Q 030800 44 VVSVLDSKTLSINPYDPNT--LKELESAIVSSPLGLNPRVDGQRLIAAIPALTK 95 (171)
Q Consensus 44 ~I~v~~~~~l~I~p~d~~~--i~~I~kAI~~s~l~~~p~~dg~~i~v~iP~~T~ 95 (171)
.|...|..||-|.++++.. +..+...|.+-+..+--..+ ..+-+.||+-+.
T Consensus 46 ~v~~sGnsTiRv~~~~~~~~~~~~v~~~l~~lG~~~E~~~~-~~lav~VP~~~~ 98 (117)
T PF14085_consen 46 VVESSGNSTIRVIFDDPGPDDIEAVREELEALGCTVEGFSE-RMLAVDVPPSVD 98 (117)
T ss_pred EEecCCCEEEEEEEcCCcchhHHHHHHHHHHcCCeEEccCC-CEEEEEECCCCC
Confidence 3445678888888887666 88999998875554443344 789999988653
No 48
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=45.67 E-value=2e+02 Score=28.41 Aligned_cols=67 Identities=10% Similarity=0.271 Sum_probs=52.5
Q ss_pred CCHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 93 LTKEHIQAMCKVVAKTSE--------DVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSADDVCK 162 (171)
Q Consensus 93 ~T~E~R~~l~K~ak~~~e--------~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~id~l~~ 162 (171)
.|.+.+.+++-....++- .|...+|..+....+.++ .+-|++++.++-+++.+.+++|+..+-+-..
T Consensus 474 ~~~~~l~~v~~~LW~lAl~iEdG~ls~A~~~Lr~AQ~aL~eAL~---~gAsdeEI~~Lm~eLR~Am~~ym~~LAeq~~ 548 (851)
T TIGR02302 474 RTDDALRDVADNLWSLALGIEDGDLSDAERRLRAAQDALKDALE---RGASDEEIKQLTDKLRAAMQTYMRQLAQQLR 548 (851)
T ss_pred CCHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 677888888888887764 456667766666666665 4589999999999999999999998776443
No 49
>PF02216 B: B domain; InterPro: IPR003132 This entry represents the immunoglobulin-binding domain found in the Staphylococcus aureus virulence factor protein A (SpA). Protein A contains five highly homologous Ig-binding domains in tandem (designated domains E, D, A, B and C), which share a common structure consisting of three helices in a closed left-handed twist. Protein A can exist in both secreted and membrane-bound forms, and has two distinct Ig-binding activities: each domain can bind Fc-gamma (the constant region of IgG involved in effector functions) and Fab (the Ig fragment responsible for antigen recognition) [].; GO: 0019865 immunoglobulin binding, 0009405 pathogenesis; PDB: 1EDL_A 1EDI_A 1EDJ_A 1EDK_A 2B88_A 2B87_A 2B89_A 1FC2_C 1DEE_H 1ZXG_A ....
Probab=44.40 E-value=22 Score=22.89 Aligned_cols=21 Identities=19% Similarity=0.322 Sum_probs=16.5
Q ss_pred EeCCCCCHHHHHHHHHHHHHH
Q 030800 88 AAIPALTKEHIQAMCKVVAKT 108 (171)
Q Consensus 88 v~iP~~T~E~R~~l~K~ak~~ 108 (171)
+.+|-+|+|.|...++.+|.-
T Consensus 17 l~~~nLteeQrn~yI~~lKdd 37 (54)
T PF02216_consen 17 LHMPNLTEEQRNGYIQSLKDD 37 (54)
T ss_dssp HCSTTS-HHHHHHHHHHHHH-
T ss_pred HcCCCcCHHHHHhHHHHHhhC
Confidence 468999999999999988763
No 50
>PF12334 rOmpB: Rickettsia outer membrane protein B ; InterPro: IPR022095 This domain family is found in bacteria, and is approximately 220 amino acids in length. The family is found in association with PF03797 from PFAM. This family is the middle region of one of the outer membrane proteins of Rickettsia which is involved in adhesion to eukaryotic cells for uptake.
Probab=44.19 E-value=32 Score=27.77 Aligned_cols=32 Identities=28% Similarity=0.328 Sum_probs=28.8
Q ss_pred cceEEeeCCccccccceeeEEecCCcEEEEee
Q 030800 26 DHIIVETGGVKMPLNHLAVVSVLDSKTLSINP 57 (171)
Q Consensus 26 d~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p 57 (171)
+.|.|...++.-|...|.||.|.++-.++|+-
T Consensus 116 ~~ItVTlnkqa~~v~~LkqitvSG~gnVvine 147 (217)
T PF12334_consen 116 DPITVTLNKQAGPVNALKQITVSGPGNVVINE 147 (217)
T ss_pred CCeEEEEcCCcCcccceeEEEEeCCCcEEEec
Confidence 67899999999999999999999999888863
No 51
>PF12685 SpoIIIAH: SpoIIIAH-like protein; InterPro: IPR024232 Stage III sporulation protein AH (SpoIIIAH) is a protein that is involved in forespore engulfment. It forms a channel with SpoIIIAH that is open on the forespore end and closed (or gated) on the mother cell end. This allows sigma-E-directed gene expression in the mother-cell compartment of the sporangium to trigger the activation of sigma-G forespore-specific gene expression by a pathway of intercellular signaling. This family of proteins is found in bacteria, archaea and eukaryotes and so must have a wider function than in sporulation. Proteins in this family are typically between 174 and 223 amino acids in length.; PDB: 3UZ0_A 3TUF_A.
Probab=43.93 E-value=1.4e+02 Score=23.70 Aligned_cols=60 Identities=22% Similarity=0.313 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc--CCCCChHHHHHHHHHHHHHHHHHHH--HHHHHHHHH
Q 030800 105 VAKTSEDVKQSIRRSRQKALDMMKKA--GSSLPKDQMKRLEKEVDELTKKYVK--SADDVCKAK 164 (171)
Q Consensus 105 ak~~~e~~K~~iR~iR~~~~~~lKk~--~~~iseD~~~~~~~~iq~ltd~~i~--~id~l~~~K 164 (171)
...++.++|-..-..|.+.++.|+.. ....|++....+.+++.++++..-+ .|+.++++|
T Consensus 84 ~~~~f~~~rl~Re~~r~~~~e~L~~ii~~~~~s~~~k~~A~~~~~~l~~~~~kE~~iE~llkak 147 (196)
T PF12685_consen 84 GSDYFAEARLEREQSRSKQIETLKEIINNENASEEEKKEAQDKLLELTEKMEKEMEIENLLKAK 147 (196)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHHHHHT-TTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34579999999999999999999876 3568999999999999999987655 455666554
No 52
>PRK01919 tatB sec-independent translocase; Provisional
Probab=43.82 E-value=1.6e+02 Score=23.30 Aligned_cols=67 Identities=7% Similarity=0.238 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030800 95 KEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKEI 168 (171)
Q Consensus 95 ~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKel 168 (171)
+|.-=++++.+.+..-++|..+.+++.+....+. .|+.+...++++....+.-..+.+-+..=++++
T Consensus 22 PekLP~~aRtlGk~i~k~Rr~~~d~K~ev~~E~e-------~dElrk~~~~~e~~~~~v~~si~~~~~~~~~~~ 88 (169)
T PRK01919 22 PERLPRVARTAGALFGRAQRYINDVKAEVSREIE-------LDELRKMKTDFESAARDVENTIHDNLSEHESDL 88 (169)
T ss_pred chHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence 4555566777777777777777777766655542 245555556655555555555555544444443
No 53
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=43.56 E-value=1.3e+02 Score=22.22 Aligned_cols=59 Identities=17% Similarity=0.207 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 109 SEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKE 167 (171)
Q Consensus 109 ~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKe 167 (171)
+++.+...-..+.++...+.... ..+-++-....+...+.+.+..-.+++.+....+.+
T Consensus 38 A~~~~~ea~~~~~e~~~~l~~A~~ea~~i~~~a~~~a~~~~~~~~~~a~~e~~~~~~~a~~~ 99 (147)
T TIGR01144 38 AERAKKEAALAQKKAQVILKEAKDEAQEIIENANKRGSEILEEAKAEAREEREKIKAQARAE 99 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444332 112222333344444444444445555544444443
No 54
>cd02646 R3H_G-patch R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=43.14 E-value=35 Score=21.74 Aligned_cols=23 Identities=13% Similarity=0.203 Sum_probs=19.2
Q ss_pred EEeCCCCCHHHHHHHHHHHHHHH
Q 030800 87 IAAIPALTKEHIQAMCKVVAKTS 109 (171)
Q Consensus 87 ~v~iP~~T~E~R~~l~K~ak~~~ 109 (171)
.+.+|||+.+.|.-+-+.|..+.
T Consensus 18 ~~~fppm~~~~R~~vH~lA~~~~ 40 (58)
T cd02646 18 SLSFPPMDKHGRKTIHKLANCYN 40 (58)
T ss_pred eEecCCCCHHHHHHHHHHHHHcC
Confidence 56899999999998888877654
No 55
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=42.39 E-value=1.6e+02 Score=22.90 Aligned_cols=18 Identities=11% Similarity=0.246 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 030800 111 DVKQSIRRSRQKALDMMK 128 (171)
Q Consensus 111 ~~K~~iR~iR~~~~~~lK 128 (171)
+++..+...|..+...+.
T Consensus 80 e~e~~L~~A~~ea~~ii~ 97 (184)
T CHL00019 80 KARARLRQAELEADEIRV 97 (184)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444444443
No 56
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=42.34 E-value=98 Score=20.34 Aligned_cols=57 Identities=16% Similarity=0.397 Sum_probs=37.9
Q ss_pred EEEEeec--C-CCcHHHHHHHHhcCCCCCCcc---c-CCC---eEEEeCCCCCHHHHHHHHHHHHHHHHH
Q 030800 52 TLSINPY--D-PNTLKELESAIVSSPLGLNPR---V-DGQ---RLIAAIPALTKEHIQAMCKVVAKTSED 111 (171)
Q Consensus 52 ~l~I~p~--d-~~~i~~I~kAI~~s~l~~~p~---~-dg~---~i~v~iP~~T~E~R~~l~K~ak~~~e~ 111 (171)
.++|+.+ | |..+..+..++.+.+.|+--. . .|. .+.|.+| .+....+.+....++++
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~---~~~~~~l~~~L~~l~~~ 68 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIP---EDSLERLESALEELAEE 68 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEES---HHHHHHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeC---cccHHHHHHHHHHHHHH
Confidence 4677766 4 999999999999998766543 2 343 5667777 55666666666665544
No 57
>PF08182 Pedibin: Pedibin/Hym-346 family; InterPro: IPR012594 This family consists of the pedibin and Hym-346 signalling peptides. These two peptides have been isolated from Hydra attenuata (Hydra) (Hydra vulgaris) and Hydra magnipapillata (Hydra). Experiments have indicated that both cause a reduction in the positional value gradient, the principle patterning process governing the maintenance of form in the adult hydra. The peptides cause an increase in the rate of foot regeneration following bisection of the body column. Thus both play important signalling roles in patterning processes in cnidaria and maybe in more complex metazoans [].
Probab=41.88 E-value=72 Score=18.65 Aligned_cols=26 Identities=27% Similarity=0.342 Sum_probs=17.0
Q ss_pred HHHHHHHHHHH--HHHHHHHHHHHHhhh
Q 030800 144 KEVDELTKKYV--KSADDVCKAKEKEIN 169 (171)
Q Consensus 144 ~~iq~ltd~~i--~~id~l~~~KeKel~ 169 (171)
.+|..+.-.|. ..++..+..|||+|-
T Consensus 4 ~EI~~Lq~~~a~Gedv~~~LE~Kek~L~ 31 (35)
T PF08182_consen 4 AEIDVLQIQLADGEDVCKELEQKEKELS 31 (35)
T ss_pred HHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence 44555544444 467788888999874
No 58
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=41.86 E-value=1.5e+02 Score=22.43 Aligned_cols=65 Identities=12% Similarity=0.231 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 99 QAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKA 163 (171)
Q Consensus 99 ~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~ 163 (171)
++.-..+....++++..+...|.++.+.+.... ....++.....+.+.+.+....-..++.--+.
T Consensus 66 e~~~~ea~~~~~e~e~~L~~A~~ea~~ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~a~~~i~~ek~~ 133 (156)
T CHL00118 66 SEILAKANELTKQYEQELSKARKEAQLEITQSQKEAKEIVENELKQAQKYIDSLLNEATKQLEAQKEK 133 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555556666666666665555554432 22455667777788888887777777764443
No 59
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=40.86 E-value=1.1e+02 Score=20.53 Aligned_cols=57 Identities=11% Similarity=0.312 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHH
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVK 155 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~ 155 (171)
+.=+.+...++..+..++..|+.++.... .....+.+.-+.+-...+++.++.+|.+
T Consensus 45 ~el~~l~~~i~~~~~~~~~~lk~l~~~~~---~~~~~~~~~~~~ri~~nq~~~L~~kf~~ 101 (103)
T PF00804_consen 45 RELDELTDEIKQLFQKIKKRLKQLSKDNE---DSEGEEPSSNEVRIRKNQVQALSKKFQE 101 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHCTT--SHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh---hhcccCCCcHHHHHHHHHHHHHHHHHHH
Confidence 34567888899999999999999998765 2223456777888899999999998865
No 60
>PRK13022 secF preprotein translocase subunit SecF; Reviewed
Probab=40.79 E-value=1.8e+02 Score=24.57 Aligned_cols=63 Identities=11% Similarity=0.255 Sum_probs=41.3
Q ss_pred EEecCCcEEEEeecCCCcHHHHHHHHhcCCC-CCCccc--CCCeEEEeCCCCCHHHHHHHHHHHHH
Q 030800 45 VSVLDSKTLSINPYDPNTLKELESAIVSSPL-GLNPRV--DGQRLIAAIPALTKEHIQAMCKVVAK 107 (171)
Q Consensus 45 I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l-~~~p~~--dg~~i~v~iP~~T~E~R~~l~K~ak~ 107 (171)
|--.||..+.++.-.+-....+.+++.+.++ +.+.|. +++.+.+..|..+.|..+++....++
T Consensus 37 iDFtGG~~~~~~~~~~~~~~~v~~~~~~~~~~~~~v~~~~~~~~~~i~~~~~~~~~~~~~~~~l~~ 102 (289)
T PRK13022 37 IDFTGGTVIEVRFEQPADLEQVREALEKAGFEDAQVQNFGSSRDVLIRLPPASEELSEKVKKALNK 102 (289)
T ss_pred EeeCCCeEEEEEcCCCCCHHHHHHHHHhcCCCCceEEEcCCCCEEEEEeCCCChHHHHHHHHHHHh
Confidence 3456777777765556678889888887654 333343 44578888887777776665555543
No 61
>PF04461 DUF520: Protein of unknown function (DUF520); InterPro: IPR007551 This entry represents the UPF0234 family of uncharacterised proteins.; PDB: 1IN0_A.
Probab=40.35 E-value=15 Score=28.81 Aligned_cols=32 Identities=22% Similarity=0.339 Sum_probs=27.1
Q ss_pred CCCcHHHHHHHHhcCCCCCCcccCCCeEEEeC
Q 030800 59 DPNTLKELESAIVSSPLGLNPRVDGQRLIAAI 90 (171)
Q Consensus 59 d~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~i 90 (171)
|....+.|.++|.+|.+-++++..|+.+||+=
T Consensus 101 ~~d~AKkIvK~IKd~klKVqa~IQgd~vRVtg 132 (160)
T PF04461_consen 101 DQDTAKKIVKLIKDSKLKVQAQIQGDQVRVTG 132 (160)
T ss_dssp -HHHHHHHHHHHHHH--SEEEEEETTEEEEEE
T ss_pred CHHHHHHHHHHHHhcCCceeEEecCcEEEEec
Confidence 78899999999999999999999999999863
No 62
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=40.33 E-value=2.1e+02 Score=23.65 Aligned_cols=24 Identities=4% Similarity=-0.028 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 142 LEKEVDELTKKYVKSADDVCKAKE 165 (171)
Q Consensus 142 ~~~~iq~ltd~~i~~id~l~~~Ke 165 (171)
.+.+.+.+.++--.+++.+.....
T Consensus 84 A~~~~~~il~~A~~ea~~~~~~a~ 107 (250)
T PRK14474 84 ADEQRQHLLNEAREDVATARDEWL 107 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444433
No 63
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=39.99 E-value=1.3e+02 Score=23.43 Aligned_cols=43 Identities=19% Similarity=0.429 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHH
Q 030800 101 MCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEV 146 (171)
Q Consensus 101 l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~i 146 (171)
.+-.|....+++|...-. |+.-..++++ .|+|+++..+.+.++
T Consensus 84 Yiee~~~vl~~~K~~~~~-~~~kssk~e~--~Gi~eEEL~~qQqeL 126 (156)
T KOG0871|consen 84 YIEEAEEVLENCKEEAKK-RRRKSSKFEK--SGIPEEELLRQQQEL 126 (156)
T ss_pred HHHHHHHHHHHHHHHHHH-hhhhhhhHHh--cCCCHHHHHHHHHHH
Confidence 455677788888888777 4445566665 579999999877665
No 64
>PLN02372 violaxanthin de-epoxidase
Probab=39.52 E-value=1.1e+02 Score=27.86 Aligned_cols=72 Identities=14% Similarity=0.216 Sum_probs=49.8
Q ss_pred cCCCcHHHHHHHHhcCCCCCCcc--cCCC-----eEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 58 YDPNTLKELESAIVSSPLGLNPR--VDGQ-----RLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 58 ~d~~~i~~I~kAI~~s~l~~~p~--~dg~-----~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
|-++.+..+.+|..+.++.+.-- .|.+ .+-=.|++--+|--+.++|.+..+.++--..++.+++..++.+++
T Consensus 327 lP~~~~p~L~~Aa~kvG~df~~F~~tDNsCgpep~l~~~l~~~~e~~e~~i~~e~~~~~~e~~~~v~~~~~~~~~~~~~ 405 (455)
T PLN02372 327 LPESIVPELEKAAKKVGRDFSDFVRTDNTCGPEPPLLERLEKDVEEGEKTIVKEARQIEEELEKEVEKLGKEEESLFKR 405 (455)
T ss_pred CChhhhHHHHHHHHHcCCCHHHheeeCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34789999999999998877643 2332 111122233345566778888888888888899999988888876
No 65
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=39.15 E-value=2e+02 Score=23.04 Aligned_cols=73 Identities=14% Similarity=0.106 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKEI 168 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKel 168 (171)
+.|++.+..-=..+++.+........++...+.+.. ..+-++-....+...+.+.++.-.+++.+....+.+|
T Consensus 78 ~~R~~~I~~~L~~Ae~~~~eA~~~l~e~e~~L~~A~~eA~~Ii~~A~~eAe~~~e~i~~~A~~eae~ii~~A~~~I 153 (205)
T PRK06231 78 NKRKELIEAEINQANELKQQAQQLLENAKQRHENALAQAKEIIDQANYEALQLKSELEKEANRQANLIIFQARQEI 153 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444445577777777777777777776553 1233333444444445555555555555555544443
No 66
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=38.64 E-value=19 Score=20.92 Aligned_cols=19 Identities=16% Similarity=0.298 Sum_probs=13.5
Q ss_pred EeCCCCCHHHHHHHHHHHHH
Q 030800 88 AAIPALTKEHIQAMCKVVAK 107 (171)
Q Consensus 88 v~iP~~T~E~R~~l~K~ak~ 107 (171)
|+.|+.. ..|++|++.|+.
T Consensus 18 i~~~~~~-~~rd~Ll~~~k~ 36 (38)
T PF10281_consen 18 IPVPKSA-KTRDELLKLAKK 36 (38)
T ss_pred CCCCCCC-CCHHHHHHHHHH
Confidence 3444444 689999999886
No 67
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=38.29 E-value=2.2e+02 Score=23.27 Aligned_cols=15 Identities=7% Similarity=0.049 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHH
Q 030800 113 KQSIRRSRQKALDMM 127 (171)
Q Consensus 113 K~~iR~iR~~~~~~l 127 (171)
+..+..+|+++...+
T Consensus 63 e~~l~~a~~ea~~i~ 77 (246)
T TIGR03321 63 EEKNEELDQQREVLL 77 (246)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444443333
No 68
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=37.01 E-value=1.9e+02 Score=22.24 Aligned_cols=64 Identities=8% Similarity=-0.003 Sum_probs=48.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 92 ALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKA--GSSLPKDQMKRLEKEVDELTKKYVKSADDVCKA 163 (171)
Q Consensus 92 ~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~--~~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~ 163 (171)
+||+|-.+.|......+ +..|....+.++.. .+.+||.-....-++=|...+..|..++..+..
T Consensus 7 ~lT~eg~~~L~~EL~~L--------~~~r~~i~~~i~~Ar~~GDlsENaey~aak~~q~~~e~RI~~L~~~L~~ 72 (158)
T PRK05892 7 GLAPAARDHLEAELARL--------RARRDRLAVEVNDRGMIGDHGDQAEAIQRADELARLDDRINELDRRLRT 72 (158)
T ss_pred ccCHHHHHHHHHHHHHH--------HHHhHHHHHHHHHHHhCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 68999999888876664 22355555555433 356999998888888899999999999988764
No 69
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=35.25 E-value=2.1e+02 Score=22.06 Aligned_cols=79 Identities=16% Similarity=0.172 Sum_probs=49.7
Q ss_pred CCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 90 IPALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAK 164 (171)
Q Consensus 90 iP~~T~--E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~K 164 (171)
.||++. +.|++.+...=.-+++.+...-....++...+...+ ..+-++-....+...+.+.+..-.+++.+.+..
T Consensus 40 ~kpi~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~a~~ea~~ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~a 119 (175)
T PRK14472 40 WGPILSALEEREKGIQSSIDRAHSAKDEAEAILRKNRELLAKADAEADKIIREGKEYAEKLRAEITEKAHTEAKKMIASA 119 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444 556666666666677777777777777877777653 224444555556666666666666666666666
Q ss_pred HHhh
Q 030800 165 EKEI 168 (171)
Q Consensus 165 eKel 168 (171)
+.+|
T Consensus 120 ~~~I 123 (175)
T PRK14472 120 KEEI 123 (175)
T ss_pred HHHH
Confidence 5554
No 70
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=34.65 E-value=2e+02 Score=21.57 Aligned_cols=8 Identities=13% Similarity=0.530 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 030800 115 SIRRSRQK 122 (171)
Q Consensus 115 ~iR~iR~~ 122 (171)
.+++.|.+
T Consensus 67 ~l~~Ar~e 74 (141)
T PRK08476 67 ILKNAREE 74 (141)
T ss_pred HHHHHHHH
Confidence 33333333
No 71
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=34.16 E-value=2.2e+02 Score=22.09 Aligned_cols=41 Identities=7% Similarity=0.100 Sum_probs=27.6
Q ss_pred CCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030800 90 IPALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKA 130 (171)
Q Consensus 90 iP~~T~--E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~ 130 (171)
+||++. +.|++-+..-=..+++.+.....++.++...+++.
T Consensus 32 ~ppI~~iLe~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~~L~~A 74 (155)
T PRK06569 32 TPKAEEIFNNRQTNIQDNITQADTLTIEVEKLNKYYNEEIDKT 74 (155)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566665 55655555555567777777777777777777764
No 72
>PRK11127 autonomous glycyl radical cofactor GrcA; Provisional
Probab=33.74 E-value=1.5e+02 Score=22.34 Aligned_cols=67 Identities=21% Similarity=0.200 Sum_probs=46.3
Q ss_pred ccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHH
Q 030800 35 VKMPLNHLAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKV 104 (171)
Q Consensus 35 ~~~pL~~lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ 104 (171)
..+|+..-.+|.+.||..+.+++.|...+.+..+.=.+ -.++....-|= .+-|-.+|+|.+.+++.+
T Consensus 55 r~~~~~~~~~v~~~GG~Hlq~NVvd~etL~dAqk~PEk-YpdLiVRVsGY--Sa~F~~Lt~e~Q~eVI~R 121 (127)
T PRK11127 55 REVPVEVKPEVRVEGGQHLNVNVLRRETLEDAVKHPEK-YPQLTIRVSGY--AVRFNSLTPEQQRDVIAR 121 (127)
T ss_pred cccccccccceeecCceEEEEEecCHHHHHHHHhChhc-CCCeEEEEeeE--EeehhhCCHHHHHHHHHH
Confidence 46888888889999999999999998777655431110 12333333442 234668999999999875
No 73
>PRK10780 periplasmic chaperone; Provisional
Probab=33.72 E-value=2.2e+02 Score=21.80 Aligned_cols=86 Identities=14% Similarity=0.194 Sum_probs=54.3
Q ss_pred CeEEEeCCCCCHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHH
Q 030800 84 QRLIAAIPALTKEH--IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSAD 158 (171)
Q Consensus 84 ~~i~v~iP~~T~E~--R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id 158 (171)
..-.|.+..+-.++ .+.+.......+......+...+.++.+...++. ..+|++.....+.+|+.....|-....
T Consensus 25 KIg~Vd~q~il~~~p~~k~~~~~le~~~~~~q~el~~~~~elq~~~~~~q~~~~~ms~~~~~~~~~el~~~~~~~q~~~~ 104 (165)
T PRK10780 25 KIAIVNMGSIFQQVPQRTGVSKQLENEFKGRASELQRMETDLQAKMQKLQRDGSTMKGSDRTKLEKDVMAQRQTFSQKAQ 104 (165)
T ss_pred CeEEeeHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444333322 4455666777788888888888888777766652 458999988888888776666655544
Q ss_pred ---HHHHHHHHhhh
Q 030800 159 ---DVCKAKEKEIN 169 (171)
Q Consensus 159 ---~l~~~KeKel~ 169 (171)
.-+..++.|++
T Consensus 105 ~~qq~~~~~~~e~~ 118 (165)
T PRK10780 105 AFEQDRRRRSNEER 118 (165)
T ss_pred HHHHHHHHHHHHHH
Confidence 23334544443
No 74
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=33.59 E-value=2.1e+02 Score=21.59 Aligned_cols=23 Identities=9% Similarity=0.250 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 030800 106 AKTSEDVKQSIRRSRQKALDMMK 128 (171)
Q Consensus 106 k~~~e~~K~~iR~iR~~~~~~lK 128 (171)
....+++...+...|.++...+.
T Consensus 53 ~~~~~~~e~~L~~A~~ea~~ii~ 75 (159)
T PRK09173 53 QQLLAEYQRKRKEAEKEAADIVA 75 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444444443
No 75
>PRK01060 endonuclease IV; Provisional
Probab=33.25 E-value=1.4e+02 Score=24.34 Aligned_cols=57 Identities=11% Similarity=0.133 Sum_probs=35.2
Q ss_pred ecCCCcHHHHHHHHhcCCCCCCcc-cCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHH
Q 030800 57 PYDPNTLKELESAIVSSPLGLNPR-VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQ 114 (171)
Q Consensus 57 p~d~~~i~~I~kAI~~s~l~~~p~-~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~ 114 (171)
.+++..+..+.+++...++.+.+. .-+.. .+.+=.+.++.|+..++..++.++-|+.
T Consensus 43 ~~~~~~~~~lk~~~~~~gl~~~~~~~h~~~-~~nl~~~d~~~r~~s~~~~~~~i~~A~~ 100 (281)
T PRK01060 43 PLEELNIEAFKAACEKYGISPEDILVHAPY-LINLGNPNKEILEKSRDFLIQEIERCAA 100 (281)
T ss_pred CCCHHHHHHHHHHHHHcCCCCCceEEecce-EecCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 345567888888888888874321 12221 1334345567888877777777666543
No 76
>cd07018 S49_SppA_67K_type Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 67K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily contain an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown that members in this subfamily, mostly bacterial, are serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys
Probab=32.78 E-value=2.4e+02 Score=22.59 Aligned_cols=118 Identities=13% Similarity=0.091 Sum_probs=62.2
Q ss_pred HHHHHHHHHhhhc-cCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc--
Q 030800 4 AIVALSRELTKLR-TGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPR-- 80 (171)
Q Consensus 4 ~v~~l~~~l~~ir-~gr~~p~~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~-- 80 (171)
.++.+.+.+..++ +|+..-...+. +.+.-|-|.-.|...+-.+...+=..---...-.+..++. .+|+++.
T Consensus 63 ~~~el~~~i~~~~~~~kpVia~~~~----~~sggy~lasaad~I~a~p~~~vg~iGv~~~~~~~~~ll~--klGv~~~~~ 136 (222)
T cd07018 63 KLEELRQALERFRASGKPVIAYADG----YSQGQYYLASAADEIYLNPSGSVELTGLSAETLFFKGLLD--KLGVEVQVF 136 (222)
T ss_pred HHHHHHHHHHHHHHhCCeEEEEeCC----CCchhhhhhhhCCEEEECCCceEEeeccchhhhhHHHHHH--HcCCcEEEE
Confidence 3455666677776 56655444441 2333445555554443333322211100001112333343 3555554
Q ss_pred cCCCe--EEEeC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 81 VDGQR--LIAAI--PALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMM 127 (171)
Q Consensus 81 ~dg~~--i~v~i--P~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~l 127 (171)
.-|.. .-=|+ +++|+|.|+.+-..+..+.+.+...|..-|.-..+.+
T Consensus 137 ~~G~~K~~~~~~~~~~~s~~~r~~~~~~l~~~~~~f~~~Va~~R~~~~~~~ 187 (222)
T cd07018 137 RVGEYKSAVEPFTRDDMSPEAREQTQALLDSLWDQYLADVAASRGLSPDAL 187 (222)
T ss_pred EEeccccccchhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHH
Confidence 33321 11122 4799999999999999999999988888875333333
No 77
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=32.20 E-value=2.1e+02 Score=21.27 Aligned_cols=57 Identities=9% Similarity=0.190 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 104 VVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDV 160 (171)
Q Consensus 104 ~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l 160 (171)
.|....++++..+..+|.++...+.... ...-+........+++.+.+.....|+.-
T Consensus 53 ~a~~~~~e~~~~l~~a~~ea~~i~~~a~~ea~~~~~~~~~~a~~ea~~~~~~a~~~i~~e 112 (156)
T PRK05759 53 ELELAQAKYEAQLAEARAEAAEIIEQAKKRAAQIIEEAKAEAEAEAARIKAQAQAEIEQE 112 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444455555554444443321 11233445555566666666655555543
No 78
>PF09336 Vps4_C: Vps4 C terminal oligomerisation domain; InterPro: IPR015415 This domain is found at the C-terminal of ATPase proteins involved in vacuolar sorting. It forms an alpha helix structure and is required for oligomerisation []. ; PDB: 1XWI_A 3EIH_C 2QPA_C 3EIE_A 2RKO_A 2QP9_X 3MHV_C 3CF3_C 3CF1_A 3CF2_A ....
Probab=32.13 E-value=56 Score=21.28 Aligned_cols=25 Identities=20% Similarity=0.388 Sum_probs=19.3
Q ss_pred HHHHHHHHHhcCCCCChHHHHHHHH
Q 030800 120 RQKALDMMKKAGSSLPKDQMKRLEK 144 (171)
Q Consensus 120 R~~~~~~lKk~~~~iseD~~~~~~~ 144 (171)
+.++...|++.+..+|+++++++++
T Consensus 32 ~~DF~~Al~~~kpSVs~~dl~~ye~ 56 (62)
T PF09336_consen 32 MEDFEEALKKVKPSVSQEDLKKYEE 56 (62)
T ss_dssp HHHHHHHHHTCGGSS-HHHHHHHHH
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 6777888887777799999988875
No 79
>PF02825 WWE: WWE domain; InterPro: IPR004170 The WWE domain is named after three of its conserved residues and is predicted to mediate specific protein-protein interactions in ubiquitin and ADP ribose conjugation systems. This domain is found as a tandem repeat at the N-terminal of Deltex, a cytosolic effector of Notch signalling thought to bind the N-terminal of the Notch receptor []. It is also found as an interaction module in protein ubiquination and ADP ribosylation proteins [].; PDB: 2A90_A 1UJR_A 2DK6_A 3V3L_B.
Probab=32.09 E-value=25 Score=22.83 Aligned_cols=40 Identities=20% Similarity=0.382 Sum_probs=30.8
Q ss_pred eecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCH
Q 030800 56 NPYDPNTLKELESAIVSSPLGLNPRVDGQRLIAAIPALTK 95 (171)
Q Consensus 56 ~p~d~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~iP~~T~ 95 (171)
.|||+..-..|+.|-++-...+.....|..-.|.|..|++
T Consensus 20 ~~Y~~~~~~~IE~a~~~~~~~~~~~~~~~~Y~IDF~~M~Q 59 (72)
T PF02825_consen 20 HPYDPEVSEIIEEAYQNGKKSCQLSIGGRPYTIDFKSMTQ 59 (72)
T ss_dssp EE--HHHHHHHHHHHHTTTSEEEEEETTEEEEEETTTTEE
T ss_pred EeCCcHHHHHHHHHHHcCCcEEEEEeCCcEEEEEChhcEE
Confidence 5999999999999999876666666777788888888763
No 80
>PF12614 RRF_GI: Ribosome recycling factor ; InterPro: IPR022253 This family of proteins is found in bacteria and viruses. Proteins in this family are approximately 130 amino acids in length. There are two conserved sequence motifs: LPS and LKR. Overproduction of ribosome recycling factor (RRF) reduces tna operon expression and increases the rate of cleavage of TnaC-tRNA(2)(Pro), relieving the growth inhibition associated with plasmid-mediated tnaC overexpression.
Probab=31.56 E-value=2.3e+02 Score=21.44 Aligned_cols=45 Identities=11% Similarity=0.119 Sum_probs=34.7
Q ss_pred eEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 85 RLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 85 ~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
.|.|++|.+=.-.=.+-+|+++.++-++.-.+.+||+.-+-++..
T Consensus 4 ~i~I~LpSlIHRig~~~~k~~ka~A~q~~CeLKRVRRSRnWql~G 48 (128)
T PF12614_consen 4 DITIPLPSLIHRIGREAVKQAKALARQHGCELKRVRRSRNWQLSG 48 (128)
T ss_pred ceeeccHHHHHHhhHHHHHHHHHHHHHhCchHHHHHHhhhhHHhh
Confidence 456666655444447889999999999999999999987766653
No 81
>cd06557 KPHMT-like Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a precursor to coenzyme A and is required for penicillin biosynthesis.
Probab=31.34 E-value=1e+02 Score=25.80 Aligned_cols=50 Identities=20% Similarity=0.185 Sum_probs=34.3
Q ss_pred cHHHHHHHHhcCC------CCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHHHHH
Q 030800 62 TLKELESAIVSSP------LGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKTSED 111 (171)
Q Consensus 62 ~i~~I~kAI~~s~------l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~ 111 (171)
-.-+..+|+.+++ +|+|||.+...=-..+.--|.+..++++..++.+.+.
T Consensus 115 ~~~~~I~al~~agipV~gHiGL~pq~~~~~gg~~~~grt~~~a~~~i~ra~a~~~A 170 (254)
T cd06557 115 EVAETIRALVDAGIPVMGHIGLTPQSVNQLGGYKVQGKTEEEAERLLEDALALEEA 170 (254)
T ss_pred HHHHHHHHHHHcCCCeeccccccceeeeccCCceeccCCHHHHHHHHHHHHHHHHC
Confidence 4556667777777 7899998665321223356888888899988887654
No 82
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=31.33 E-value=1.4e+02 Score=18.88 Aligned_cols=56 Identities=18% Similarity=0.218 Sum_probs=36.6
Q ss_pred EEEEeecC-CCcHHHHHHHHhcCCCCCCcc---c--CC-CeEEEeCCCCCHH-HHHHHHHHHHH
Q 030800 52 TLSINPYD-PNTLKELESAIVSSPLGLNPR---V--DG-QRLIAAIPALTKE-HIQAMCKVVAK 107 (171)
Q Consensus 52 ~l~I~p~d-~~~i~~I~kAI~~s~l~~~p~---~--dg-~~i~v~iP~~T~E-~R~~l~K~ak~ 107 (171)
+|.|...| +..+..|.++|.+.+.++.-. . +| ..+.+.++.-..+ +-+.++...++
T Consensus 2 ~l~i~~~d~~g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~~~v~v~~~~~~l~~l~~~L~~ 65 (76)
T cd04888 2 TLSLLLEHRPGVLSKVLNTIAQVRGNVLTINQNIPIHGRANVTISIDTSTMNGDIDELLEELRE 65 (76)
T ss_pred EEEEEecCCCchHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEEEEEEcCchHHHHHHHHHHHhc
Confidence 35566554 889999999998887655432 2 22 2577777665555 66666665543
No 83
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=31.05 E-value=88 Score=20.15 Aligned_cols=34 Identities=21% Similarity=0.254 Sum_probs=28.1
Q ss_pred CCcceEEeeCCccccccceeeEEecCCcEEEEeec
Q 030800 24 MLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPY 58 (171)
Q Consensus 24 ~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~ 58 (171)
..+.+.|.++|...+- +-.+..++++-++.|-|.
T Consensus 40 ~~~~~~v~vN~~~v~~-~~~~~~l~~gD~V~i~pp 73 (77)
T PF02597_consen 40 LRDRVAVAVNGEIVPD-DGLDTPLKDGDEVAILPP 73 (77)
T ss_dssp TTTTEEEEETTEEEGG-GTTTSBEETTEEEEEEES
T ss_pred cCccEEEEECCEEcCC-ccCCcCcCCCCEEEEECC
Confidence 6789999999998888 777777888888888764
No 84
>PRK00311 panB 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed
Probab=30.96 E-value=1.2e+02 Score=25.61 Aligned_cols=48 Identities=17% Similarity=0.175 Sum_probs=34.4
Q ss_pred cHHHHHHHHhcCC------CCCCcccCCC--eEEEeCCCCCHHHHHHHHHHHHHHHHH
Q 030800 62 TLKELESAIVSSP------LGLNPRVDGQ--RLIAAIPALTKEHIQAMCKVVAKTSED 111 (171)
Q Consensus 62 ~i~~I~kAI~~s~------l~~~p~~dg~--~i~v~iP~~T~E~R~~l~K~ak~~~e~ 111 (171)
..-+..+|+.+++ +|+|||.+.. ..++ .--|.+..+++++.|+.+.+.
T Consensus 118 ~~~~~I~al~~agIpV~gHiGL~pq~~~~~gg~~i--~grt~~~a~~~i~ra~a~~eA 173 (264)
T PRK00311 118 EVAETIKRLVERGIPVMGHLGLTPQSVNVLGGYKV--QGRDEEAAEKLLEDAKALEEA 173 (264)
T ss_pred HHHHHHHHHHHCCCCEeeeecccceeecccCCeee--ecCCHHHHHHHHHHHHHHHHC
Confidence 4456667777777 6899997643 2344 356888888999999887654
No 85
>PRK08578 preprotein translocase subunit SecF; Reviewed
Probab=30.41 E-value=3e+02 Score=23.32 Aligned_cols=62 Identities=16% Similarity=0.230 Sum_probs=38.0
Q ss_pred EEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHH
Q 030800 45 VSVLDSKTLSINPYDPNTLKELESAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAK 107 (171)
Q Consensus 45 I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~ 107 (171)
|.-.||..+.++- ++..+.++.+++.+.+.+-.-..+++.+.+.+|..+.+.+.++....++
T Consensus 46 iDF~GGt~~~~~~-~~~~~~~vr~~l~~~~~~~~~~~~~~~~~ir~~~~~~~~~~~~~~~l~~ 107 (292)
T PRK08578 46 IDFTGGTEITIQT-NDASPDELESALSGEPGVDVRKGSGNGYIITFGSGDDTDVDKLADAVKE 107 (292)
T ss_pred eeecCceEEEEec-CCCCHHHHHHHHhhcCCCcceEecCCcEEEEecCCCchHHHHHHHHHHH
Confidence 4456776666653 3778899999998776532211244446677777776666655544433
No 86
>KOG0100 consensus Molecular chaperones GRP78/BiP/KAR2, HSP70 superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=30.22 E-value=4.5e+02 Score=24.34 Aligned_cols=111 Identities=21% Similarity=0.262 Sum_probs=69.9
Q ss_pred ccceeeEEecCCcEEEEeec--CCCcHHHHHHHHhcCCC-CCCcccCCC-eEEEe-------------------------
Q 030800 39 LNHLAVVSVLDSKTLSINPY--DPNTLKELESAIVSSPL-GLNPRVDGQ-RLIAA------------------------- 89 (171)
Q Consensus 39 L~~lA~I~v~~~~~l~I~p~--d~~~i~~I~kAI~~s~l-~~~p~~dg~-~i~v~------------------------- 89 (171)
=+|+=+...-+..|+.|++| +..+.++-- -+-.-+| |+-|-.-|. .|.|+
T Consensus 454 KSQvFsTa~DnQ~tV~I~vyEGER~mtkdn~-lLGkFdltGipPAPRGvpqIEVtFevDangiL~VsAeDKgtg~~~kit 532 (663)
T KOG0100|consen 454 KSQVFSTAQDNQPTVTIQVYEGERPMTKDNH-LLGKFDLTGIPPAPRGVPQIEVTFEVDANGILQVSAEDKGTGKKEKIT 532 (663)
T ss_pred ccceeeecccCCceEEEEEeecccccccccc-ccccccccCCCCCCCCCccEEEEEEEccCceEEEEeeccCCCCcceEE
Confidence 45666666777889999999 466665531 1222333 555544332 33332
Q ss_pred ----CCCCCHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHh-------cCCCCChHHHHHHHHHHHHHH
Q 030800 90 ----IPALTKEHIQAMCKVVAKTSEDVK-----QSIRRSRQKALDMMKK-------AGSSLPKDQMKRLEKEVDELT 150 (171)
Q Consensus 90 ----iP~~T~E~R~~l~K~ak~~~e~~K-----~~iR~iR~~~~~~lKk-------~~~~iseD~~~~~~~~iq~lt 150 (171)
=-++|+|.-+.+++.|.+.+|+-| +.-||-=..+--.+|. +...+++|+...++.-+....
T Consensus 533 ItNd~~rLt~EdIerMv~eAekFAeeDk~~KekieaRN~LE~YayslKnqi~dkekLg~Kl~~edKe~~e~av~e~~ 609 (663)
T KOG0100|consen 533 ITNDKGRLTPEDIERMVNEAEKFAEEDKKLKEKIEARNELESYAYSLKNQIGDKEKLGGKLSDEDKETIEDAVEEAL 609 (663)
T ss_pred EecCCCCCCHHHHHHHHHHHHHHhhhhHHHHHHHHhHHHHHHHHHHhhhccCchhHhcccCChhHHHHHHHHHHHHH
Confidence 247999999999999999998654 3445554444444443 224588888888777666544
No 87
>cd01119 Chemokine_CC_DCCL Chemokine_CC_DCCL: subgroup of the Chemokine_CC subgroup based on the presence of a DCCL motif involving the two N-terminal cysteine residues; includes a number of small inducible cytokines capable of reversibly inhibiting normal hematopoietic progenitor proliferation by blocking progression through the cell cycle; DCCL subgroup contains Exodus-1 (also known as CCL20, MIP-3alpha, LARC, ST38 (mouse)), Exodus-2 (also known as CCL21, SLC, 6-Ckine, TCA4, CKbeta9), and Exodus-3 (also known as CCL-19, ELC, MIP-3beta, CKbeta11). Exodus-3 was shown to inhibit the growth of human breast cancer cells in vivo in a mouse model; Exodus-1, -2, and -3 were all shown to significantly inhibit chronic myelogenous leukemia progenitor cell proliferation; Exodus-2 and -3 show potent immunotherapeutic activity toward solid tumors; chemotatic for T cells, B cells, dendritic cells, macrophage progenitor cells, and NK cells; exist as monomers and dimers, but are believed to be funct
Probab=29.96 E-value=1.2e+02 Score=19.37 Aligned_cols=51 Identities=6% Similarity=-0.025 Sum_probs=35.3
Q ss_pred ccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHH
Q 030800 16 RTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELES 68 (171)
Q Consensus 16 r~gr~~p~~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~d~~~i~~I~k 68 (171)
..++..+..+.+..+..-+..-|+..|==. .+.|+.+-+.|-++ -++.+++
T Consensus 8 ~~~~ip~~~I~~y~~q~t~~~C~~~aVIf~-tk~g~~iC~dP~~~-WVq~~~~ 58 (61)
T cd01119 8 TQHPIPWRVLRGYTYQEISESCDIPAIIFH-TRRGRKVCADPKQD-WVKRAIQ 58 (61)
T ss_pred cCccCChhheeEEEEEeCCCCCCCCEEEEE-EcCCCEEeCCCChH-HHHHHHH
Confidence 456788888888877666777888887744 44688998888543 4444444
No 88
>PF12298 Bot1p: Eukaryotic mitochondrial regulator protein ; InterPro: IPR021036 This entry represents Ribosomal protein S35, which localises to the mitochondria in live cells and co-fractionates with purified mitochondrial ribosomes. This group of proteins have a novel function in the control of cell respiration by acting on the mitochondrial protein synthesis machinery and a role in mitochondrial integrity. Observations also indicate that in Schizosaccharomyces pombe (Fission yeast), alterations of mitochondrial function are linked to changes in cell cycle and cell morphology control mechanisms [].
Probab=29.88 E-value=2.3e+02 Score=22.34 Aligned_cols=64 Identities=20% Similarity=0.292 Sum_probs=43.1
Q ss_pred EeCCCCCHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 88 AAIPALTKEHIQAMCKVV-------AKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSADDV 160 (171)
Q Consensus 88 v~iP~~T~E~R~~l~K~a-------k~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~id~l 160 (171)
.+=|+++.+.|+++...+ ++++.++.+.+++|. |+=.|+. ..++..++...+...|..-+..|
T Consensus 12 ~~~~~lse~~r~~Iy~~~~~~~~sv~~vS~~ygi~~~RV~--AIvrLke--------iE~~~~~~~k~l~~~~~~~m~~M 81 (172)
T PF12298_consen 12 RSNPVLSEELREQIYEDVMQDGKSVREVSQKYGIKIQRVE--AIVRLKE--------IEKRWKNKGKPLATPYARAMERM 81 (172)
T ss_pred CCCCcCCHHHHHHHHHHHHhCCCCHHHHHHHhCCCHHHHH--HHHHHHH--------HHHHHhcccChhhHHHHHHHHHH
Confidence 445789999999998866 456677777777665 3444443 23333666677777777777777
Q ss_pred H
Q 030800 161 C 161 (171)
Q Consensus 161 ~ 161 (171)
|
T Consensus 82 l 82 (172)
T PF12298_consen 82 L 82 (172)
T ss_pred h
Confidence 6
No 89
>cd02640 R3H_NRF R3H domain of the NF-kappaB-repression factor (NRF). NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=29.43 E-value=73 Score=20.68 Aligned_cols=24 Identities=13% Similarity=0.094 Sum_probs=19.0
Q ss_pred eEEEeCCC-CCHHHHHHHHHHHHHH
Q 030800 85 RLIAAIPA-LTKEHIQAMCKVVAKT 108 (171)
Q Consensus 85 ~i~v~iP~-~T~E~R~~l~K~ak~~ 108 (171)
.-.+.||| ||.+.|.-+=..|..+
T Consensus 17 ~~~l~f~p~lt~~eR~~vH~~a~~~ 41 (60)
T cd02640 17 IRDMVFSPEFSKEERALIHQIAQKY 41 (60)
T ss_pred cceEEcCCCCCHHHHHHHHHHHHHc
Confidence 45688999 9999998877766654
No 90
>PF07564 DUF1542: Domain of Unknown Function (DUF1542); InterPro: IPR011439 This domain is found in several cell surface proteins. Some are involved in antibiotic resistance (e.g. Q9RL69 from SWISSPROT and Q9LCJ9 from SWISSPROT) [] and/or cellular adhesion (e.g. Q931R6 from SWISSPROT) []. In some proteins it is repeated more than fifteen times.
Probab=29.43 E-value=1e+02 Score=20.04 Aligned_cols=30 Identities=23% Similarity=0.253 Sum_probs=26.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 91 PALTKEHIQAMCKVVAKTSEDVKQSIRRSR 120 (171)
Q Consensus 91 P~~T~E~R~~l~K~ak~~~e~~K~~iR~iR 120 (171)
|.+|.|-++.....+.....++...|-+..
T Consensus 10 ~~~T~eEK~~A~~~v~~~~~~a~~~I~~a~ 39 (70)
T PF07564_consen 10 PNATDEEKQAAKQKVDQILNQAINAINQAT 39 (70)
T ss_pred CcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 789999999999999999998888877664
No 91
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=29.21 E-value=2.7e+02 Score=21.41 Aligned_cols=66 Identities=11% Similarity=0.024 Sum_probs=47.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 91 PALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKA--GSSLPKDQMKRLEKEVDELTKKYVKSADDVCKA 163 (171)
Q Consensus 91 P~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~--~~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~ 163 (171)
+.||+|-.+.|......+-. .-|.+..+.|+.. .+.+||+-.+..-++-|...+..+..++..++.
T Consensus 3 ~~lT~~G~~~L~~El~~L~~-------~~r~~~~~~i~~Ar~~GDlsENaeY~aak~~~~~le~rI~~L~~~L~~ 70 (156)
T TIGR01461 3 PLITPEGYEKLKQELNYLWR-------EERPEVTQKVTWAASLGDRSENADYQYGKKRLREIDRRVRFLTKRLEN 70 (156)
T ss_pred cccCHHHHHHHHHHHHHHHh-------cccHHHHHHHHHHHHcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46899999888877665421 1233344444433 356899999999999999999999999887753
No 92
>PLN02316 synthase/transferase
Probab=29.20 E-value=1.9e+02 Score=29.23 Aligned_cols=77 Identities=17% Similarity=0.227 Sum_probs=48.8
Q ss_pred ccCCCeEEEeCCCC-C---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHH
Q 030800 80 RVDGQRLIAAIPAL-T---------KEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDEL 149 (171)
Q Consensus 80 ~~dg~~i~v~iP~~-T---------~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~l 149 (171)
+++++-..++++-= + +|.++++-+.|++.+|.-+..-+..|++..+.....+..--+-+.+.....+|.+
T Consensus 227 NN~~~Df~~~V~~~~~~~~~~~~l~ee~~~e~~~la~e~ae~~~~~ee~~r~~~~kaa~~a~~a~akae~~~~~~~~~~~ 306 (1036)
T PLN02316 227 NNDHKDFCVEIEGGMDEHSFEDFLLEEKRRELEKLAKEEAERERQAEEQRRREEEKAAMEADRAQAKAEVEKRREKLQNL 306 (1036)
T ss_pred cCCCCceEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHHHHH
Confidence 35666667776532 2 2456678888888888888888888888776654432112234555666677777
Q ss_pred HHHHHHH
Q 030800 150 TKKYVKS 156 (171)
Q Consensus 150 td~~i~~ 156 (171)
.++....
T Consensus 307 ~~~~~~~ 313 (1036)
T PLN02316 307 LKKASRS 313 (1036)
T ss_pred Hhhhhhc
Confidence 7665443
No 93
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.66 E-value=1.6e+02 Score=18.61 Aligned_cols=54 Identities=17% Similarity=0.183 Sum_probs=34.5
Q ss_pred EEEeecC-CCcHHHHHHHHhcCCCCCCc---cc-CCC--eEEEeCCCCCHHHHHHHHHHHH
Q 030800 53 LSINPYD-PNTLKELESAIVSSPLGLNP---RV-DGQ--RLIAAIPALTKEHIQAMCKVVA 106 (171)
Q Consensus 53 l~I~p~d-~~~i~~I~kAI~~s~l~~~p---~~-dg~--~i~v~iP~~T~E~R~~l~K~ak 106 (171)
|.|..+| |..+..|..+|.+.+.|+.- .. ++. .+.+.+--...++-+.+....+
T Consensus 2 l~v~~~d~~g~L~~i~~~i~~~~~nI~~v~~~~~~~~~~~~~~~vev~~~~~l~~i~~~L~ 62 (74)
T cd04887 2 LRLELPNRPGMLGRVTTAIGEAGGDIGAIDLVEQGRDYTVRDITVDAPSEEHAETIVAAVR 62 (74)
T ss_pred EEEEeCCCCchHHHHHHHHHHcCCcEEEEEEEEecCCEEEEEEEEEcCCHHHHHHHHHHHh
Confidence 5566665 78899999999888776642 22 222 4555565556666666665543
No 94
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=28.64 E-value=1.2e+02 Score=19.38 Aligned_cols=33 Identities=9% Similarity=0.076 Sum_probs=28.4
Q ss_pred cceEEeeCCccccccceeeEEecCCcEEEEeec
Q 030800 26 DHIIVETGGVKMPLNHLAVVSVLDSKTLSINPY 58 (171)
Q Consensus 26 d~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~ 58 (171)
+.+.|.++|.-+|-.+-++....++-.+.|-||
T Consensus 29 ~~vavavN~~iv~~~~~~~~~L~dgD~Ieiv~~ 61 (65)
T PRK06488 29 NWLATAVNGELVHKEARAQFVLHEGDRIEILSP 61 (65)
T ss_pred CeEEEEECCEEcCHHHcCccccCCCCEEEEEEe
Confidence 567899999999988888998999998888776
No 95
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=28.50 E-value=2.8e+02 Score=21.52 Aligned_cols=72 Identities=13% Similarity=0.194 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKE 167 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKe 167 (171)
+.|++.+...=.-+++.+...-....++.+.+.... ..+-++-....+...+.+.+..-.+++.+...-+.+
T Consensus 54 ~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~A~~ea~~ii~~A~~~ae~~~~~il~~A~~ea~~~~~~a~~~ 128 (184)
T CHL00019 54 DNRKQTILNTIRNSEERREEAIEKLEKARARLRQAELEADEIRVNGYSEIEREKENLINQAKEDLERLENYKNET 128 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444567777777777777777776553 123334444455555556666666666555554443
No 96
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=28.43 E-value=1.9e+02 Score=21.20 Aligned_cols=67 Identities=16% Similarity=0.247 Sum_probs=35.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHH-------HHHHHHHHHH
Q 030800 94 TKEHIQAMCKVVAKTSEDVKQSI---RRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELT-------KKYVKSADDV 160 (171)
Q Consensus 94 T~E~R~~l~K~ak~~~e~~K~~i---R~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~lt-------d~~i~~id~l 160 (171)
+.+.++.+-|.+..+..+++.+- |..=.+.++.++...+.+.+-..++++.-++++. +..-..||.+
T Consensus 19 ~a~~~ek~~klvDelVkkGeln~eEak~~vddl~~q~k~~~~e~e~K~~r~i~~ml~~~~~~r~~~~~~l~~rvd~L 95 (108)
T COG3937 19 AAETAEKVQKLVDELVKKGELNAEEAKRFVDDLLRQAKEAQGELEEKIPRKIEEMLSDLEVARQSEMDELTERVDAL 95 (108)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhhhHHHhhhHHHHHHHhhccccccchHHHHHHHHHHH
Confidence 45556666666666665555543 3333455555554434455545555555555555 4444555543
No 97
>PTZ00400 DnaK-type molecular chaperone; Provisional
Probab=27.92 E-value=5.3e+02 Score=24.45 Aligned_cols=61 Identities=15% Similarity=0.219 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHH
Q 030800 91 PALTKEHIQAMCKVVAKTSED---------VKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTK 151 (171)
Q Consensus 91 P~~T~E~R~~l~K~ak~~~e~---------~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd 151 (171)
+++|.|..+++.+.+.++.++ +|+.+...=-.+.+.+..+...+++++...+++.++.+-+
T Consensus 539 ~~ls~~ei~~~~~~~~~~~~~D~~~~~~~eakN~lEs~iy~~r~~l~e~~~~~s~~ere~i~~~l~~~~~ 608 (663)
T PTZ00400 539 GGLSDEEIEKMVKEAEEYKEQDEKKKELVDAKNEAETLIYSVEKQLSDLKDKISDADKDELKQKITKLRS 608 (663)
T ss_pred ccccHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCHHHHHHHHHHHHHHHH
Confidence 468988888888877755433 2222222111222222222234677777777766665444
No 98
>PF07464 ApoLp-III: Apolipophorin-III precursor (apoLp-III); InterPro: IPR010009 This family consists of several insect apolipoprotein-III sequences. Exchangeable apolipoproteins constitute a functionally important family of proteins that play critical roles in lipid transport and lipoprotein metabolism. Apolipophorin III (apoLp-III) is a prototypical exchangeable apolipoprotein found in many insect species that functions in transport of diacylglycerol (DAG) from the fat body lipid storage depot to flight muscles in the adult life stage [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0005576 extracellular region; PDB: 1EQ1_A.
Probab=27.82 E-value=2.1e+02 Score=22.24 Aligned_cols=63 Identities=11% Similarity=0.160 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 99 QAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVC 161 (171)
Q Consensus 99 ~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~ 161 (171)
-++.++|.++.++...+++.+=++..+.-+... .+..++....++.-++...+.+-+-.+.+-
T Consensus 84 Pev~~qa~~l~e~lQ~~vq~l~~E~qk~~k~v~~~~~~~~e~l~~~~K~~~D~~~k~~~~~~~~l~ 149 (155)
T PF07464_consen 84 PEVEKQANELQEKLQSAVQSLVQESQKLAKEVSENSEGANEKLQPAIKQAYDDAVKAAQKVQKQLH 149 (155)
T ss_dssp HHHHHT-SSSHHHHHHHHHHHHHHHHHHHHHHHS---SS-GGGHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677777778888888888777766665542 356666665555555555555544444443
No 99
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=27.48 E-value=2.6e+02 Score=20.84 Aligned_cols=35 Identities=11% Similarity=0.112 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030800 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKA 130 (171)
Q Consensus 96 E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~ 130 (171)
+.|++.+..-=..+++++..+-..+.++...+...
T Consensus 37 ~~R~~~I~~~l~~A~~~~~ea~~~~~e~e~~l~~A 71 (141)
T PRK08476 37 DNRNASIKNDLEKVKTNSSDVSEIEHEIETILKNA 71 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444445556666666666665555543
No 100
>PTZ00436 60S ribosomal protein L19-like protein; Provisional
Probab=27.45 E-value=2.1e+02 Score=25.03 Aligned_cols=81 Identities=17% Similarity=0.209 Sum_probs=49.9
Q ss_pred ec-CCCcHHHHHHHHhcCCC-CCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHH-------------------HHHHHHH
Q 030800 57 PY-DPNTLKELESAIVSSPL-GLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKT-------------------SEDVKQS 115 (171)
Q Consensus 57 p~-d~~~i~~I~kAI~~s~l-~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~-------------------~e~~K~~ 115 (171)
+| ||+.+.+|..||...++ .| ..||-.+.-++ ..+.-.|-...+..+.. =+.|-..
T Consensus 22 VWiDPnel~eIa~AiTReDIRkL--IkdGlIikKp~-KGhSRgRaRkr~eaKrKGRhrG~GsRKGTk~AR~P~K~~WIrR 98 (357)
T PTZ00436 22 VWLDPNEASEISNANSRKSVRKL--IKDGLIIRKPV-KVHSRSRWRHMKEAKSMGRHEGAGRREGTREARMPSKELWMRR 98 (357)
T ss_pred eeeCHHHHHHHHHhhhHHHHHHH--HHCCCeeecCc-ccCChHHHHHHHHHHHhCcCCCCCCCcCcccccCcHHHHHHHH
Confidence 55 99999999999987764 22 34666555555 44444454444444432 2678888
Q ss_pred HHHHHHHHHHHHHhcCCCCChHHHHHH
Q 030800 116 IRRSRQKALDMMKKAGSSLPKDQMKRL 142 (171)
Q Consensus 116 iR~iR~~~~~~lKk~~~~iseD~~~~~ 142 (171)
||.+|+ .++.++.. +.|+.-+++.+
T Consensus 99 IRaLRR-lLKklRd~-gKIDkh~YR~L 123 (357)
T PTZ00436 99 LRILRR-LLRKYREE-KKIDRHIYREL 123 (357)
T ss_pred HHHHHH-HHHHHHhc-CCCCHHHHHHH
Confidence 998887 44555543 34665555544
No 101
>PF12592 DUF3763: Protein of unknown function (DUF3763); InterPro: IPR022547 This domain is found in bacterial regulartory ATPases 3.6.3. from EC, and is approximately 60 amino acids in length. The domain is found C-terminal to PF07728 from PFAM. There is a single completely conserved residue F that may be functionally important. ; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances; PDB: 3NBX_X.
Probab=27.43 E-value=1.8e+02 Score=18.78 Aligned_cols=47 Identities=9% Similarity=0.193 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHH
Q 030800 104 VVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKK 152 (171)
Q Consensus 104 ~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~ 152 (171)
.+....+.+...||..|+.+.....-+ -|+.|-.-.++.-++.++++
T Consensus 4 e~~~qL~~~~~~l~~qR~~F~~~qPhl--FI~~~wl~~IE~Sl~~l~eq 50 (57)
T PF12592_consen 4 EALAQLDEAEHELRQQRSLFHQHQPHL--FIDSEWLAAIEASLQQLAEQ 50 (57)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT---T--TS-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCc--CcCHHHHHHHHHHHHHHHHH
Confidence 456678889999999999998877643 58889999999999988765
No 102
>COG1666 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.41 E-value=51 Score=25.84 Aligned_cols=46 Identities=17% Similarity=0.265 Sum_probs=36.9
Q ss_pred eEEecCCcEEEEeec-----CCCcHHHHHHHHhcCCCCCCcccCCCeEEEe
Q 030800 44 VVSVLDSKTLSINPY-----DPNTLKELESAIVSSPLGLNPRVDGQRLIAA 89 (171)
Q Consensus 44 ~I~v~~~~~l~I~p~-----d~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~ 89 (171)
-.....|.++-...- +....+.|.+-|.+|.+-++.+..|..+||+
T Consensus 85 ~~~~~sG~~~~~~~klkqGI~~e~AKKI~KlIkDsklKVqaqIQGdqVRVt 135 (165)
T COG1666 85 KEEVASGKTVRQEAKLKQGIESENAKKIVKLIKDSKLKVQAQIQGDQVRVT 135 (165)
T ss_pred chhhhcCCeEEEeehHhhhhhHHHHHHHHHHHHhcccceeeeeccceEEEe
Confidence 344556677665532 6778899999999999999999999999985
No 103
>PF08112 ATP-synt_E_2: ATP synthase epsilon subunit; InterPro: IPR012508 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. A-ATPases (or A1A0-ATPase) (3.6.3.14 from EC) are found exclusively in Archaea and display a close resemblance in structure and subunit composition with V-ATPases, although their function in both ATP synthesis and ATP hydrolysis is closer to that of F-ATPases []. A-ATPases are composed of two linked complexes: the A1 complex consisting of seven subunits contains the catalytic core that synthesizes/hydrolyses ATP, while the A0 complex consisting of at least two subunits forms the membrane-spanning pore []. The rotary motor in A-ATPases is composed of only two subunits, the stator subunit I and the rotor subunit C []. A-ATPases may have arisen as an adaptation to the different cellular needs and the more extreme environmental conditions faced by Archaeal species. The epsilon subunit is the smallest (7 kDa) of those found in the A1 complex. Unlike the A, B and C subunits, the epsilon subunit does not have a homologous counterpart in F- or V-ATPases []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0015986 ATP synthesis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain
Probab=27.16 E-value=85 Score=20.16 Aligned_cols=19 Identities=26% Similarity=0.337 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 030800 151 KKYVKSADDVCKAKEKEIN 169 (171)
Q Consensus 151 d~~i~~id~l~~~KeKel~ 169 (171)
|+|+..+..-+.+|.+||+
T Consensus 10 d~yI~~Lk~kLd~Kk~Eil 28 (56)
T PF08112_consen 10 DKYISILKSKLDEKKSEIL 28 (56)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5555555555555555554
No 104
>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=26.78 E-value=2.4e+02 Score=20.08 Aligned_cols=70 Identities=17% Similarity=0.216 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKE 167 (171)
Q Consensus 98 R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKe 167 (171)
|++-+...-.-+++.+...-....++.+.+.... ..+-++-....++..+......-++++.+...-+.+
T Consensus 31 R~~~I~~~~~~a~~~~~ea~~~~~e~~~~l~~a~~ea~~i~~~a~~~a~~~~~~~~~ea~~~~~~~~~~a~~~ 103 (132)
T PF00430_consen 31 RKAKIQSELEEAEELKEEAEQLLAEYEEKLAEAREEAQEIIEEAKEEAEKEKEEILAEAEKEAERIIEQAEAE 103 (132)
T ss_dssp -S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333334455566666666666666665542 122333334444455555555555555555444443
No 105
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=26.34 E-value=1.9e+02 Score=18.88 Aligned_cols=52 Identities=23% Similarity=0.288 Sum_probs=36.5
Q ss_pred cceEEeeCCccccccc---eeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCC
Q 030800 26 DHIIVETGGVKMPLNH---LAVVSVLDSKTLSINPYDPNTLKELESAIVSSPLGLN 78 (171)
Q Consensus 26 d~i~V~~~g~~~pL~~---lA~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s~l~~~ 78 (171)
+.+.|.+.|..-.|.+ +..+...+...+.|.+-|......|.+++..++. +.
T Consensus 13 ~~~~i~~~~~~~~l~~~~~v~~v~~~~~~~~~i~l~~~~~~~~ll~~l~~~g~-I~ 67 (84)
T PF13732_consen 13 NKITIETDGDLEELEELPGVESVEQDGDGKLRIKLEDEETANELLQELIEKGI-IR 67 (84)
T ss_pred CEEEEEECCCHHHHhhCCCeEEEEEeCCcEEEEEECCcccHHHHHHHHHhCCC-ee
Confidence 4477887776555555 4444444555588888888899999999998876 54
No 106
>cd01227 PH_Dbs Dbs (DBL's big sister) pleckstrin homology (PH) domain. Dbs (DBL's big sister) pleckstrin homology (PH) domain. Dbs is a guanine nucleotide exchange factor (GEF), which contains spectrin repeats, a rhoGEF (DH) domain and a PH domain. The Dbs PH domain participates in binding to both the Cdc42 and RhoA GTPases. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=26.32 E-value=1.2e+02 Score=22.96 Aligned_cols=49 Identities=18% Similarity=0.218 Sum_probs=32.8
Q ss_pred HhcCCCCCCcccCCCe-----------EEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 70 IVSSPLGLNPRVDGQR-----------LIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRR 118 (171)
Q Consensus 70 I~~s~l~~~p~~dg~~-----------i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~ 118 (171)
|.-|.+|++...+|+. -...+-..|.|.|+..++.++++..+=.+.|+.
T Consensus 65 ikls~lglte~v~gd~~kFeiw~~~~~~~yilqA~t~e~K~~Wv~~I~~iL~~Q~~~lk~ 124 (133)
T cd01227 65 LKMTAVGITENVKGDTKKFEIWYNAREEVYILQAPTPEIKAAWVNEIRKVLTSQLQACKE 124 (133)
T ss_pred EEeecccccccCCCCccEEEEEeCCCCcEEEEEcCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3446666666554432 133455679999999999999988876655543
No 107
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=26.30 E-value=6.4e+02 Score=24.90 Aligned_cols=67 Identities=15% Similarity=0.348 Sum_probs=54.3
Q ss_pred CCCHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 92 ALTKEHIQAMCKVVAKTSE--------DVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSADDVC 161 (171)
Q Consensus 92 ~~T~E~R~~l~K~ak~~~e--------~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~id~l~ 161 (171)
..|.+.+.+++-....++- .|...+|..+....+.+++ +-|.+++.++-+++.+.+++|+..+-+-.
T Consensus 442 ~~~~~~~~~v~~~LW~lAl~iEdG~ls~A~~~Lr~AQe~L~eAL~~---gAs~eEI~rLm~eLR~A~~~ym~~LAeq~ 516 (820)
T PF13779_consen 442 ARTDEALREVADLLWDLALRIEDGDLSDAERRLRAAQEALREALER---GASDEEIARLMQELREAMQDYMQALAEQA 516 (820)
T ss_pred cCCHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3678888888888887763 4566788888877777764 57999999999999999999999876543
No 108
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=26.25 E-value=3e+02 Score=21.11 Aligned_cols=59 Identities=12% Similarity=0.170 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 102 CKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDV 160 (171)
Q Consensus 102 ~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l 160 (171)
...|....++++..+...|.++...+.... ...-++.....+++++.+.......|+.-
T Consensus 66 ~~ea~~~~~~~~~~L~~a~~ea~~ii~~a~~~a~~~~~~~~~~A~~e~~~~~~~a~~~i~~e 127 (174)
T PRK07352 66 LRQAAQALAEAQQKLAQAQQEAERIRADAKARAEAIRAEIEKQAIEDMARLKQTAAADLSAE 127 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555566666666666666655555432 12344555566666666666666666653
No 109
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=26.25 E-value=4.1e+02 Score=22.65 Aligned_cols=15 Identities=0% Similarity=0.248 Sum_probs=11.7
Q ss_pred CCCChHHHHHHHHHH
Q 030800 132 SSLPKDQMKRLEKEV 146 (171)
Q Consensus 132 ~~iseD~~~~~~~~i 146 (171)
..++++++..+..++
T Consensus 268 ~~I~~~~v~~a~~~~ 282 (394)
T PRK00411 268 RKVTEEDVRKAYEKS 282 (394)
T ss_pred CCcCHHHHHHHHHHH
Confidence 458889988877776
No 110
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=25.88 E-value=2.8e+02 Score=26.01 Aligned_cols=67 Identities=6% Similarity=0.110 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 97 HIQAMCKVVAKTS--EDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSADDVCKA 163 (171)
Q Consensus 97 ~R~~l~K~ak~~~--e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~ 163 (171)
.|.++.+.+.++. .++=+++|..+|+++++|.-..+-+.=..+..+.+.|++....+-..++.++..
T Consensus 316 dktei~~L~eqLt~vr~ya~aLRaq~HEfmNkLhtI~GLlql~~yd~a~~~I~~~~~~qq~~~~~l~~~ 384 (537)
T COG3290 316 DKTEIKKLTEQLTGVRQYAEALRAQSHEFMNKLHTILGLLQLGEYDDALDYIQQESEEQQELIDSLSEK 384 (537)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhhccHHHHHHHHHHHHhhhhhhHHHHHHh
Confidence 4556666655443 456678999999999999865433455678888999999998888888877654
No 111
>PRK08404 V-type ATP synthase subunit H; Validated
Probab=25.79 E-value=2.5e+02 Score=20.01 Aligned_cols=30 Identities=17% Similarity=0.456 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 100 AMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 100 ~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
+.++.+|..=+++...|+..|.++...+..
T Consensus 3 e~i~~ik~aE~~~e~~L~~A~~Ea~~Ii~~ 32 (103)
T PRK08404 3 DVIKEIVKAEKEAEERIEKAKEEAKKIIRK 32 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666777777777666666554
No 112
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=25.67 E-value=3.2e+02 Score=21.13 Aligned_cols=25 Identities=16% Similarity=0.197 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 105 VAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 105 ak~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
+..+.++++..++..|+++...++.
T Consensus 54 A~~l~~e~e~~L~~Ar~EA~~Ii~~ 78 (154)
T PRK06568 54 AALLFEQTNAQIKKLETLRSQMIEE 78 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444555555555444443
No 113
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=25.45 E-value=3.2e+02 Score=21.07 Aligned_cols=79 Identities=10% Similarity=0.152 Sum_probs=44.3
Q ss_pred CCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 90 IPALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADDVCKAK 164 (171)
Q Consensus 90 iP~~T~--E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~K 164 (171)
+||++. +.|++.+...=.-+++.+...-..+.++...+.... ..+-+.-....+...+.+.++--++++.+....
T Consensus 40 ~~pi~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~ii~~a~~~a~~~~~~~~~~A~~ea~~~~~~A 119 (173)
T PRK13453 40 WGPLKDVMDKRERDINRDIDDAEQAKLNAQKLEEENKQKLKETQEEVQKILEDAKVQARQQQEQIIHEANVRANGMIETA 119 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344443 445555555445566666666666777766666553 223334444455555566666666666666655
Q ss_pred HHhh
Q 030800 165 EKEI 168 (171)
Q Consensus 165 eKel 168 (171)
+.+|
T Consensus 120 ~~~I 123 (173)
T PRK13453 120 QSEI 123 (173)
T ss_pred HHHH
Confidence 5554
No 114
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=25.38 E-value=2.6e+02 Score=20.03 Aligned_cols=26 Identities=35% Similarity=0.346 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 138 QMKRLEKEVDELTKKYVKSADDVCKA 163 (171)
Q Consensus 138 ~~~~~~~~iq~ltd~~i~~id~l~~~ 163 (171)
..+..-.++....+.|....++++..
T Consensus 106 ~~~~~~~~~~~~~~~y~~~~~~~~~~ 131 (181)
T PF12729_consen 106 EEKQLLEEFKEAWKAYRKLRDQVIEL 131 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556667777777777777666553
No 115
>PRK09579 multidrug efflux protein; Reviewed
Probab=25.35 E-value=93 Score=31.06 Aligned_cols=31 Identities=32% Similarity=0.481 Sum_probs=25.8
Q ss_pred CCCCcCCCcceEEee-CCccccccceeeEEec
Q 030800 18 GRASPGMLDHIIVET-GGVKMPLNHLAVVSVL 48 (171)
Q Consensus 18 gr~~p~~ld~i~V~~-~g~~~pL~~lA~I~v~ 48 (171)
.|.+|+-|.++.|.. .|..+||+++|++...
T Consensus 753 ~r~~~~~L~~l~i~~~~G~~VpL~~va~i~~~ 784 (1017)
T PRK09579 753 YRDNPGWLNNYYVKNEQGQLLPLSTLITLSDR 784 (1017)
T ss_pred HhCCHHHHhceEeECCCCCEEEhhHcEEEEEc
Confidence 367888999999976 4667999999999865
No 116
>cd06007 R3H_DEXH_helicase R3H domain of a group of proteins which also contain a DEXH-box helicase domain, and may function as ATP-dependent DNA or RNA helicases. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=25.17 E-value=1.1e+02 Score=19.79 Aligned_cols=25 Identities=16% Similarity=0.206 Sum_probs=19.4
Q ss_pred eEEEeCCC-CCHHHHHHHHHHHHHHH
Q 030800 85 RLIAAIPA-LTKEHIQAMCKVVAKTS 109 (171)
Q Consensus 85 ~i~v~iP~-~T~E~R~~l~K~ak~~~ 109 (171)
.-.+.||| ||.+.|.-+=..|.+..
T Consensus 16 ~~~l~Fpp~ls~~eR~~vH~~a~~~g 41 (59)
T cd06007 16 NEEYEFPSSLTNHERAVIHRLCRKLG 41 (59)
T ss_pred ccEEEcCCCCCHHHHHHHHHHHHHcC
Confidence 45678998 99999988877666543
No 117
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=25.16 E-value=1.2e+02 Score=25.03 Aligned_cols=53 Identities=19% Similarity=0.284 Sum_probs=33.3
Q ss_pred CcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCC-------eEEEeCCCCCHHHHHHHHHHH
Q 030800 50 SKTLSINPYDPNTLKELESAIVSSPLGLNPRVDGQ-------RLIAAIPALTKEHIQAMCKVV 105 (171)
Q Consensus 50 ~~~l~I~p~d~~~i~~I~kAI~~s~l~~~p~~dg~-------~i~v~iP~~T~E~R~~l~K~a 105 (171)
++...|-+||++.+ .+||...--+.....+|. .+.+.+|++.....+......
T Consensus 203 ~~i~~Il~~D~~~l---~~ai~~~~~~~~~~~~~~~yLeKiiq~~~~lP~~~~~~~~~~~~~~ 262 (325)
T PF07693_consen 203 PNIIFILAFDPEIL---EKAIEKNYGEGFDEIDGREYLEKIIQVPFSLPPPSPSDLERYLNEL 262 (325)
T ss_pred CCeEEEEEecHHHH---HHHHHhhcCcccccccHHHHHHhhcCeEEEeCCCCHHHHHHHHHHH
Confidence 78899999999666 444544321111233332 678889999987666555544
No 118
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=24.79 E-value=3.1e+02 Score=20.74 Aligned_cols=55 Identities=15% Similarity=0.323 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 105 VAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADD 159 (171)
Q Consensus 105 ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~ 159 (171)
|.....+++..+...|.++...+.... ...-++.......+.+.+....-..|+.
T Consensus 58 a~~~~~e~e~~l~~A~~ea~~ii~~A~~~a~~~~~~~l~~A~~ea~~~~~~a~~~I~~ 115 (164)
T PRK14473 58 LANAKRDYEAELAKARQEAAKIVAQAQERARAQEAEIIAQARREAEKIKEEARAQAEQ 115 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444455555555554444331 1133445555666666666666555554
No 119
>KOG0225 consensus Pyruvate dehydrogenase E1, alpha subunit [Energy production and conversion]
Probab=24.52 E-value=1.8e+02 Score=25.84 Aligned_cols=38 Identities=18% Similarity=0.316 Sum_probs=27.9
Q ss_pred HHHHHHHHhc--C-CCCChHHHHHHHHHHHHHHHHHHHHHH
Q 030800 121 QKALDMMKKA--G-SSLPKDQMKRLEKEVDELTKKYVKSAD 158 (171)
Q Consensus 121 ~~~~~~lKk~--~-~~iseD~~~~~~~~iq~ltd~~i~~id 158 (171)
||=+..+|+. . +-.+|++++.++++|.+..|.-++..+
T Consensus 314 RDPI~~lk~~li~~~late~ELKai~k~irkeVdeav~~A~ 354 (394)
T KOG0225|consen 314 RDPIEGLKKRLIELGLATEEELKAIDKEIRKEVDEAVAFAT 354 (394)
T ss_pred cChHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3445555553 1 346999999999999999998877654
No 120
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=24.51 E-value=1.3e+02 Score=31.17 Aligned_cols=48 Identities=21% Similarity=0.370 Sum_probs=36.0
Q ss_pred CCcHHHHHHHHhcCC---CCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHH
Q 030800 60 PNTLKELESAIVSSP---LGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAK 107 (171)
Q Consensus 60 ~~~i~~I~kAI~~s~---l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~ 107 (171)
+-.+....+|+..-. .|-+-.+|++.-..-++++|.|.|..++++.-.
T Consensus 486 ~~NV~elr~aViNGP~~hPGA~~iqd~dg~~t~l~~~~~~qR~alA~qLLt 536 (1640)
T KOG0262|consen 486 PWNVNELRKAVINGPDVHPGATYIQDEDGTLTLLSPMTDEQREALANQLLT 536 (1640)
T ss_pred cccHHHHHHHHhcCCCCCCCcceeecCCCceeecCCCCHHHHHHHHHHhhc
Confidence 447888999998643 466656677766667779999999999986543
No 121
>cd02049 bacterial_SERPIN SERine Proteinase INhibitors (serpins), prokaryotic subgroup. Little information about specific functions is available for this subgroup, most likely they are inhibitory members of the serpin superfamily. In general, serpins exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors.
Probab=24.43 E-value=26 Score=30.08 Aligned_cols=58 Identities=9% Similarity=0.075 Sum_probs=41.6
Q ss_pred cEEEEeecCCCcHHHHHHHHhcCCC-CCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHH
Q 030800 51 KTLSINPYDPNTLKELESAIVSSPL-GLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKT 108 (171)
Q Consensus 51 ~~l~I~p~d~~~i~~I~kAI~~s~l-~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~ 108 (171)
..++|.|-+...+..+++.+....+ .+..+.....+.|.||+.+-+..-+|....+++
T Consensus 220 sm~iiLP~~~~~l~~l~~~l~~~~~~~~~~~~~~~~v~v~lPkF~i~~~~~L~~~L~~m 278 (364)
T cd02049 220 SMYVFLPKENVSLREFVKTLTAEKWRKWIEQFRMREGSLSLPRFQLEYEIELRDALKAL 278 (364)
T ss_pred EEEEEecCCCCCHHHHHHHhCHHHHHHHHHhCceeEEEEEeeeEEccceechHHHHHHC
Confidence 5677789888889999988765543 222233445789999999998887777666554
No 122
>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=24.39 E-value=3.6e+02 Score=23.05 Aligned_cols=18 Identities=17% Similarity=0.374 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 030800 112 VKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 112 ~K~~iR~iR~~~~~~lKk 129 (171)
++..++..|.+..+.+.|
T Consensus 256 ~~~K~~k~R~~~~~~~~K 273 (321)
T PF07946_consen 256 AKKKAKKNREEEEEKILK 273 (321)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344445555555444444
No 123
>PRK05783 hypothetical protein; Provisional
Probab=24.36 E-value=97 Score=21.63 Aligned_cols=51 Identities=16% Similarity=0.210 Sum_probs=32.6
Q ss_pred cCCCcHHHHHHHHhcCCCC-CCcccCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHH
Q 030800 58 YDPNTLKELESAIVSSPLG-LNPRVDGQRLIAAIPALTKEHIQAMCKVVAKTSEDV 112 (171)
Q Consensus 58 ~d~~~i~~I~kAI~~s~l~-~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~~e~~ 112 (171)
.||+ -++|.+|+...+++ +.-..-|..|.+.|..-++ ++..+.+.++|++.
T Consensus 16 lDPq-G~aI~~aL~~lg~~~V~~VRvGK~iel~l~~~~~---e~a~~~v~~mc~~L 67 (84)
T PRK05783 16 RDPE-GETIQRYVIERYTGNIIEVRAGKYLVFKIEANSP---EEAKELALKIAREG 67 (84)
T ss_pred cCch-HHHHHHHHHHcCCCCcceEEeeEEEEEEEcCCCH---HHHHHHHHHHHHhc
Confidence 4664 36778888766664 3344688899998866554 44455566666653
No 124
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=24.31 E-value=2.3e+02 Score=20.29 Aligned_cols=59 Identities=15% Similarity=0.330 Sum_probs=41.0
Q ss_pred cCCcEEEEeecC-CCcHHHHHHHHhcCCCCCC-----cccCCC--eEEEeCCCCCHHHHHHHHHHHHHH
Q 030800 48 LDSKTLSINPYD-PNTLKELESAIVSSPLGLN-----PRVDGQ--RLIAAIPALTKEHIQAMCKVVAKT 108 (171)
Q Consensus 48 ~~~~~l~I~p~d-~~~i~~I~kAI~~s~l~~~-----p~~dg~--~i~v~iP~~T~E~R~~l~K~ak~~ 108 (171)
.+.++|++.+-+ |..+..|.--...-++|+. |..++. .+.+.++ +.+.-++++|++.++
T Consensus 6 ~~~~tisvlv~N~pGVL~RIaglFsRRgyNIeSLtvg~te~~~iSRmtivv~--~~~~i~Qi~kQL~KL 72 (96)
T PRK08178 6 HDNVILELTVRNHPGVMSHVCGLFARRAFNVEGILCLPIQDGDKSRIWLLVN--DDQRLEQMISQIEKL 72 (96)
T ss_pred CCCEEEEEEEECCcCHHHHHHHHHhcCCcCeeeEEEeecCCCCceEEEEEEc--CchHHHHHHHHHhCC
Confidence 456888888874 8999999887777777665 555554 5555554 556777777766654
No 125
>cd07022 S49_Sppa_36K_type Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 36K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily are all bacterial and include sohB peptidase and protein C. These are sometimes referred to as 36K type since they contain only one domain, unlike E. coli SppA that also contains an amino-terminal domain. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases.
Probab=24.04 E-value=1.2e+02 Score=24.19 Aligned_cols=57 Identities=14% Similarity=0.072 Sum_probs=40.9
Q ss_pred CCCCCcc--cCCC--eEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030800 74 PLGLNPR--VDGQ--RLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKA 130 (171)
Q Consensus 74 ~l~~~p~--~dg~--~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~ 130 (171)
++|+.++ .-|. ..-=|+.++|+|.|+.+-..+..+.+.+...|..-|..-.+.++.+
T Consensus 124 k~Gi~~~~~~~g~~K~~~~~~~~~s~~~re~~~~~l~~~~~~f~~~V~~~R~~~~~~~~~~ 184 (214)
T cd07022 124 KAGLKVTLIFAGAHKVDGNPDEPLSDEARARLQAEVDALYAMFVAAVARNRGLSAAAVRAT 184 (214)
T ss_pred hCCCeEEEEEcCCCccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence 4566655 2332 1222345899999999999999999999999988887665665543
No 126
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.02 E-value=58 Score=23.53 Aligned_cols=19 Identities=42% Similarity=0.587 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030800 109 SEDVKQSIRRSRQKALDMM 127 (171)
Q Consensus 109 ~e~~K~~iR~iR~~~~~~l 127 (171)
.|.+++++|++|+..-+..
T Consensus 75 seeake~irq~rq~~EklA 93 (103)
T COG4847 75 SEEAKESIRQVRQEVEKLA 93 (103)
T ss_pred cHHHHHHHHHHHHHHHHHH
Confidence 5789999999998765544
No 127
>smart00678 WWE Domain in Deltex and TRIP12 homologues. Possibly involved in regulation of ubiquitin-mediated proteolysis.
Probab=23.99 E-value=93 Score=20.27 Aligned_cols=40 Identities=23% Similarity=0.306 Sum_probs=29.8
Q ss_pred eecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCH
Q 030800 56 NPYDPNTLKELESAIVSSPLGLNPRVDGQRLIAAIPALTK 95 (171)
Q Consensus 56 ~p~d~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~iP~~T~ 95 (171)
.|||+..-..||+|-.+.+-++.....|..-.|.|-.|++
T Consensus 13 ~~Y~~~~~~~IE~ay~~~~~~~~v~~~g~~Y~IdF~~m~Q 52 (73)
T smart00678 13 WPYDPRVSEDIEEAYAAGKKLCELSICGFPYTIDFNAMTQ 52 (73)
T ss_pred eeCChHHHHHHHHHHHcCCCeEEEEECCeEEEEECcCCEE
Confidence 4899999999999999765455545567666777777654
No 128
>PF03982 DAGAT: Diacylglycerol acyltransferase ; InterPro: IPR007130 The terminal step of triacylglycerol (TAG) formation is catalysed by the enzyme diacylglycerol acyltransferase (DAGAT) [, ].; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups
Probab=23.91 E-value=98 Score=26.44 Aligned_cols=21 Identities=19% Similarity=0.578 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 030800 143 EKEVDELTKKYVKSADDVCKA 163 (171)
Q Consensus 143 ~~~iq~ltd~~i~~id~l~~~ 163 (171)
+++|+++++.|++.+.++|++
T Consensus 261 ~e~Vd~~H~~Y~~~L~~LFd~ 281 (297)
T PF03982_consen 261 QEDVDKLHARYIEALRELFDK 281 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 689999999999999999975
No 129
>PF10615 DUF2470: Protein of unknown function (DUF2470); InterPro: IPR019595 This entry represents a putative haem-iron utilisation family of proteins, as many members are annotated as being pyridoxamine 5'-phosphate oxidase-related, FMN-binding; however the function of this domain is not known. ; PDB: 3GAS_D 3SWJ_A 2ARZ_B.
Probab=23.90 E-value=44 Score=22.64 Aligned_cols=23 Identities=17% Similarity=0.255 Sum_probs=14.3
Q ss_pred CCCeEEEeCCCCCH---HHHHHHHHH
Q 030800 82 DGQRLIAAIPALTK---EHIQAMCKV 104 (171)
Q Consensus 82 dg~~i~v~iP~~T~---E~R~~l~K~ 104 (171)
++..++|+||++-. |.|..|+..
T Consensus 57 ~~~~~ripF~~p~~~~~e~r~~lV~m 82 (83)
T PF10615_consen 57 GDQDVRIPFPPPVTDPEEARDALVEM 82 (83)
T ss_dssp TTEEEEEE-SS---SHCCHHHHHHHH
T ss_pred CCcceEcCCCCCCCCHHHHHHHHHHh
Confidence 56689999998854 567777764
No 130
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=23.72 E-value=3.4e+02 Score=20.82 Aligned_cols=55 Identities=15% Similarity=0.198 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 105 VAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEVDELTKKYVKSADD 159 (171)
Q Consensus 105 ak~~~e~~K~~iR~iR~~~~~~lKk~~---~~iseD~~~~~~~~iq~ltd~~i~~id~ 159 (171)
|....++++..+...|.++...+.... ...-+.......++.+.+.+..-.+|+.
T Consensus 66 A~~~~~e~e~~l~~a~~ea~~ii~~A~~ea~~~~~~~~~~A~~ea~~~~~~a~~~ie~ 123 (173)
T PRK13460 66 AEALLKDYEARLNSAKDEANAIVAEAKSDALKLKNKLLEETNNEVKAQKDQAVKEIEL 123 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444455555555555554432 1233445555556666666665555554
No 131
>PF06037 DUF922: Bacterial protein of unknown function (DUF922); InterPro: IPR010321 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=23.55 E-value=3.5e+02 Score=20.88 Aligned_cols=73 Identities=14% Similarity=0.123 Sum_probs=44.1
Q ss_pred eEEEeCCCCC------HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHH
Q 030800 85 RLIAAIPALT------KEHIQAMCKVVAKTSE---DVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVK 155 (171)
Q Consensus 85 ~i~v~iP~~T------~E~R~~l~K~ak~~~e---~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~ 155 (171)
.|.+.+|+++ .+.|...-.-...+.. -...-.+..-++..+.++.+ -+..++..++.++.+.++...+
T Consensus 60 ~itytlPr~~~~~~~~~~~~~~W~~~~a~l~~HE~~H~~ia~~~a~~ie~~l~~L---~~~~~C~~l~~~~~~~~~~~l~ 136 (161)
T PF06037_consen 60 DITYTLPRWSRRAKAPPELRQRWDRFSAGLRRHEEVHGRIAREMAREIEKALKGL---PPDPDCQKLRAEANRRTDAILA 136 (161)
T ss_pred EEEEECCCccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc---CCCCCHHHHHHHHHHHHHHHHH
Confidence 5778899886 4666655444433322 22222333333344444433 2345899999999999999888
Q ss_pred HHHHH
Q 030800 156 SADDV 160 (171)
Q Consensus 156 ~id~l 160 (171)
..++.
T Consensus 137 ~~~~~ 141 (161)
T PF06037_consen 137 RHRQR 141 (161)
T ss_pred HHHHH
Confidence 87754
No 132
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=23.46 E-value=2.2e+02 Score=22.14 Aligned_cols=62 Identities=18% Similarity=0.228 Sum_probs=43.7
Q ss_pred cEEEEeec-CCCcHHHHHHHHhcCCCCCC-----cccCCCe--EEEeCCCCCHHHHHHHHHHHHHHHHHHH
Q 030800 51 KTLSINPY-DPNTLKELESAIVSSPLGLN-----PRVDGQR--LIAAIPALTKEHIQAMCKVVAKTSEDVK 113 (171)
Q Consensus 51 ~~l~I~p~-d~~~i~~I~kAI~~s~l~~~-----p~~dg~~--i~v~iP~~T~E~R~~l~K~ak~~~e~~K 113 (171)
++|.|..- .|..+..|-..+...++|+. |..++.. +.+.+. -+.+.-+++.|++.++.+=.+
T Consensus 3 ~~IsV~veN~pGvL~rI~~lf~rrg~NI~Sl~v~~te~~~~sriti~V~-~~~~~i~qi~kQl~KLidV~~ 72 (161)
T PRK11895 3 HTLSVLVENEPGVLSRVAGLFSRRGYNIESLTVGPTEDPGLSRMTIVTS-GDEQVIEQITKQLNKLIDVLK 72 (161)
T ss_pred EEEEEEEcCCCcHHHHHHHHHHhCCCcEEEEEeeecCCCCEEEEEEEEE-CCHHHHHHHHHHHhccccEEE
Confidence 56667655 59999999999999988774 5544443 444442 367888999998888765433
No 133
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=23.34 E-value=1.7e+02 Score=29.00 Aligned_cols=54 Identities=24% Similarity=0.402 Sum_probs=36.2
Q ss_pred CCCcCCCcceEEeeC-CccccccceeeEEec----------CCcEEEEeec--CCCcHHHHHHHHhc
Q 030800 19 RASPGMLDHIIVETG-GVKMPLNHLAVVSVL----------DSKTLSINPY--DPNTLKELESAIVS 72 (171)
Q Consensus 19 r~~p~~ld~i~V~~~-g~~~pL~~lA~I~v~----------~~~~l~I~p~--d~~~i~~I~kAI~~ 72 (171)
|.+++-|++++|... |..+||.++|++... ..+++.|..+ .......+.+++..
T Consensus 769 r~~~~~L~~l~i~~~~G~~VpL~~la~i~~~~~~~~I~r~n~~r~itV~a~~~~~~~~~~v~~~~~~ 835 (1021)
T PF00873_consen 769 RQSLEDLENLPIPTPDGRSVPLSQLATIEETQGPSQIRRENGQRTITVSADVAGGDSLGEVSEAVKE 835 (1021)
T ss_dssp SSSGGGGCT-EEEETTSEEEEGGGTEEEEEEEE-SEEEEETTCEEEEEEEEESSSSHHHHHHHHHHH
T ss_pred ccChhhhcceEEEeeccccccHHHHhccccccccceEecccCceeeeeccccccCccchhHHHHHHh
Confidence 778999999999984 778999999999843 2455666543 33334455444443
No 134
>PF09036 Bcr-Abl_Oligo: Bcr-Abl oncoprotein oligomerisation domain; InterPro: IPR015123 This entry represents the oligomerisation domain of the breakpoint cluster region oncoprotein Bcr, and the Bcr/Abl (Abelson-leukemia-virus) fusion protein created by a reciprocal (9;22) fusion []. Brc displays serine/threonine protein kinase activity (2.7.11.1 from EC), acting as a GTPase-activating protein for RAC1 and CDC42. Brc promotes the exchange of RAC or CDC42-bound GDP by GTP, thereby activating them []. The Bcr/Abl fusion protein loses some of the regulatory function of Bcr with regards to small Rho-like GTPases with negative consequences on cell motility, in particular on the capacity to adhere to endothelial cells []. The Bcr, Bcr/Abl oncoprotein oligomerisation domain consists of a short N-terminal helix (alpha-1), a flexible loop and a long C-terminal helix (alpha-2). Together these form an N-shaped structure, with the loop allowing the two helices to assume a parallel orientation. The monomeric domains associate into a dimer through the formation of an antiparallel coiled coil between the alpha-2 helices and domain swapping of two alpha-1 helices, where one alpha-1 helix swings back and packs against the alpha-2 helix from the second monomer. Two dimers then associate into a tetramer. The oligomerisation domain is essential for the oncogenicity of the Bcr-Abl protein []. ; GO: 0004674 protein serine/threonine kinase activity, 0005096 GTPase activator activity, 0006468 protein phosphorylation, 0007165 signal transduction; PDB: 1K1F_C.
Probab=23.18 E-value=2e+02 Score=19.77 Aligned_cols=26 Identities=27% Similarity=0.216 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 101 MCKVVAKTSEDVKQSIRRSRQKALDM 126 (171)
Q Consensus 101 l~K~ak~~~e~~K~~iR~iR~~~~~~ 126 (171)
.+-.....+|.||.+||++-++.++.
T Consensus 27 svgd~e~eLerCK~sirrLeqevnkE 52 (79)
T PF09036_consen 27 SVGDIEQELERCKASIRRLEQEVNKE 52 (79)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhccHHHHHHHHHHHHHHHHHHHHHH
Confidence 45557788999999999999887764
No 135
>cd02641 R3H_Smubp-2_like R3H domain of Smubp-2_like proteins. Smubp-2_like proteins also contain a helicase_like and an AN1-like Zinc finger domain and have been shown to bind single-stranded DNA. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.
Probab=23.18 E-value=1.1e+02 Score=19.61 Aligned_cols=23 Identities=9% Similarity=0.121 Sum_probs=18.0
Q ss_pred EEEeCCC-CCHHHHHHHHHHHHHH
Q 030800 86 LIAAIPA-LTKEHIQAMCKVVAKT 108 (171)
Q Consensus 86 i~v~iP~-~T~E~R~~l~K~ak~~ 108 (171)
-.+.||| ||...|.-+=..|..+
T Consensus 18 ~~l~F~p~ls~~eR~~vH~lA~~~ 41 (60)
T cd02641 18 TELEFPPTLSSHDRLLVHELAEEL 41 (60)
T ss_pred CcEECCCCCCHHHHHHHHHHHHHc
Confidence 4678999 9999998777666553
No 136
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=22.96 E-value=1.6e+02 Score=22.93 Aligned_cols=11 Identities=27% Similarity=0.782 Sum_probs=4.3
Q ss_pred HHHHHHHHHHH
Q 030800 138 QMKRLEKEVDE 148 (171)
Q Consensus 138 ~~~~~~~~iq~ 148 (171)
++..+++++.+
T Consensus 162 ei~~lk~el~~ 172 (192)
T PF05529_consen 162 EIEKLKKELEK 172 (192)
T ss_pred HHHHHHHHHHH
Confidence 33334444433
No 137
>PF10296 DUF2404: Putative integral membrane protein conserved region (DUF2404); InterPro: IPR019411 This is entry represents a domain of unknown function found in mitochondrial distribution and morphology proteins Mdm12 and Mdm34, and in maintenance of mitochondrial morphology protein Mmm1. These proteins are components of the ERMES/MDM complex, which serves as a molecular tether to connect the endoplasmic reticulum and mitochondria [].
Probab=22.92 E-value=1.5e+02 Score=20.42 Aligned_cols=41 Identities=22% Similarity=0.211 Sum_probs=25.7
Q ss_pred HHHHHHHhhhccCCCCcCCCcceEEee--CCccccccceeeEE
Q 030800 6 VALSRELTKLRTGRASPGMLDHIIVET--GGVKMPLNHLAVVS 46 (171)
Q Consensus 6 ~~l~~~l~~ir~gr~~p~~ld~i~V~~--~g~~~pL~~lA~I~ 46 (171)
+++++.|.+...+-..|+.++.|.|.- =|...|.-.-+.+-
T Consensus 19 ~~i~~~L~~kL~~i~~P~fl~~i~v~~~~lG~~~P~i~~~~~~ 61 (91)
T PF10296_consen 19 DKIKEKLQKKLNKIKLPSFLDEISVTELDLGDSPPIISNVRIP 61 (91)
T ss_pred HHHHHHHHHHHccccCCCccCcEEEEEEECCCCCCEEEecccc
Confidence 344444444444433999999999964 37777765554443
No 138
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=22.41 E-value=1.6e+02 Score=17.39 Aligned_cols=31 Identities=16% Similarity=0.270 Sum_probs=19.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 91 PALTKEHIQAMCKVVAKTSEDVKQSIRRSRQ 121 (171)
Q Consensus 91 P~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~ 121 (171)
|=||+|.+++|++...--..+...=.-|.|+
T Consensus 9 PYPs~~ek~~L~~~tgls~~Qi~~WF~NaRr 39 (40)
T PF05920_consen 9 PYPSKEEKEELAKQTGLSRKQISNWFINARR 39 (40)
T ss_dssp GS--HHHHHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHcCCCHHHHHHHHHHhHc
Confidence 6789999999988776555555555555554
No 139
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=22.41 E-value=2e+02 Score=17.74 Aligned_cols=25 Identities=16% Similarity=0.096 Sum_probs=18.1
Q ss_pred EEEeCC--CCCHHHHHHHHHHHHHHHH
Q 030800 86 LIAAIP--ALTKEHIQAMCKVVAKTSE 110 (171)
Q Consensus 86 i~v~iP--~~T~E~R~~l~K~ak~~~e 110 (171)
|.|.+. ..|.|.+++|++.+-+.+.
T Consensus 3 i~i~i~~~grt~eqK~~l~~~it~~l~ 29 (63)
T TIGR00013 3 VNIYILKEGRTDEQKRQLIEGVTEAMA 29 (63)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHH
Confidence 555555 4799999999987765543
No 140
>COG3696 Putative silver efflux pump [Inorganic ion transport and metabolism]
Probab=22.29 E-value=31 Score=34.26 Aligned_cols=55 Identities=24% Similarity=0.306 Sum_probs=39.9
Q ss_pred CCCCcCCCcceEEeeC-CccccccceeeEEecCC-cE---------EEE--eecC---CCcHHHHHHHHhc
Q 030800 18 GRASPGMLDHIIVETG-GVKMPLNHLAVVSVLDS-KT---------LSI--NPYD---PNTLKELESAIVS 72 (171)
Q Consensus 18 gr~~p~~ld~i~V~~~-g~~~pL~~lA~I~v~~~-~~---------l~I--~p~d---~~~i~~I~kAI~~ 72 (171)
-|.|++.|.+++|... |+.+||.++|.|.+.+| .+ ++| +|-+ .|++..+.++|..
T Consensus 767 ~R~~~~~i~~L~i~~p~g~~ipL~~VA~I~~~~Gp~~i~rEn~~r~~vV~~nvrgRDlgSfV~eaq~~i~~ 837 (1027)
T COG3696 767 YRNSIEALRNLPIPTPNGQQIPLADVADIEVVTGPNQIKRENGKRRSVVYANVRGRDLGSFVEEAQKAIAE 837 (1027)
T ss_pred hccCHHHHhcccccCCCCCEeehhHheeeEeccCcchhccccCeeEEEEEEccccCcHHHHHHHHHHHHHh
Confidence 4889999999999885 88999999999986543 22 222 3333 5667777777754
No 141
>PF03179 V-ATPase_G: Vacuolar (H+)-ATPase G subunit; InterPro: IPR005124 This family represents the eukaryotic vacuolar (H+)-ATPase (V-ATPase) G subunit. V-ATPases generate an acidic environment in several intracellular compartments. Correspondingly, they are found as membrane-attached proteins in several organelles. They are also found in the plasma membranes of some specialised cells. V-ATPases consist of peripheral (V1) and membrane integral (V0) heteromultimeric complexes. The G subunit is part of the V1 subunit, but is also thought to be strongly attached to the V0 complex. It may be involved in the coupling of ATP degradation to H+ translocation.; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015992 proton transport, 0016471 vacuolar proton-transporting V-type ATPase complex; PDB: 2KWY_A 2K88_A.
Probab=22.15 E-value=2.9e+02 Score=19.35 Aligned_cols=67 Identities=12% Similarity=0.198 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030800 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTKKYVKSADDVCKAKEKEI 168 (171)
Q Consensus 98 R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd~~i~~id~l~~~KeKel 168 (171)
|...++.|+.-++ .-|-..|...-..++....... -........|.+-|+..+..+...+......+
T Consensus 27 r~~~lk~Ak~eA~---~ei~~~r~~~e~~~~~~~~~~~-~~~~~~~~~l~~et~~~i~~i~~~~~~~~~~v 93 (105)
T PF03179_consen 27 REQRLKQAKEEAE---KEIEEFRAEAEEEFKEKEAEAE-GEAEQEAEELEKETEEKIEEIKKSASKNKDKV 93 (105)
T ss_dssp HHHHHHHHHHHHH---HHHHHHHHHHHHHHH-S-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 4444444444333 3344444444444444322111 13445566677777777777776666554433
No 142
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=22.11 E-value=2.6e+02 Score=21.61 Aligned_cols=60 Identities=13% Similarity=0.244 Sum_probs=41.7
Q ss_pred cEEEEeec-CCCcHHHHHHHHhcCCCCCC-----cccCCCe--EEEeCCCCCHHHHHHHHHHHHHHHHH
Q 030800 51 KTLSINPY-DPNTLKELESAIVSSPLGLN-----PRVDGQR--LIAAIPALTKEHIQAMCKVVAKTSED 111 (171)
Q Consensus 51 ~~l~I~p~-d~~~i~~I~kAI~~s~l~~~-----p~~dg~~--i~v~iP~~T~E~R~~l~K~ak~~~e~ 111 (171)
++|.|..- .|..+..|...+...++|+. |..++.. +.+.+.. ++..-+++.|++.++.+=
T Consensus 2 ~~isI~ven~pGvL~rI~~lf~rrg~NI~Sl~v~~t~~~~~sriti~V~~-d~~~i~qi~kQl~Kli~V 69 (157)
T TIGR00119 2 HILSVLVENEPGVLSRVAGLFTRRGFNIESLTVGPTEDPDLSRMTIVVVG-DDKVLEQITKQLNKLVDV 69 (157)
T ss_pred EEEEEEEcCCCcHHHHHHHHHHhCCceEEEEEEeecCCCCEEEEEEEEEC-CHHHHHHHHHHHhcCccE
Confidence 46777665 49999999999999998774 5554443 3334433 567778888887776543
No 143
>PF11691 DUF3288: Protein of unknown function (DUF3288); InterPro: IPR021705 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=22.04 E-value=2e+02 Score=20.50 Aligned_cols=38 Identities=16% Similarity=0.267 Sum_probs=28.3
Q ss_pred HHHHHHHHHH--------HHHHHHHHHHHHhcCCCCChHHHHHHHHHH
Q 030800 107 KTSEDVKQSI--------RRSRQKALDMMKKAGSSLPKDQMKRLEKEV 146 (171)
Q Consensus 107 ~~~e~~K~~i--------R~iR~~~~~~lKk~~~~iseD~~~~~~~~i 146 (171)
.++|-||-.| |.|+++..+.|+.| ++++|+.+.--.+|
T Consensus 27 ~L~eLARL~iRY~gFPGA~diq~DL~kiL~~W--~lteeeLf~kTR~I 72 (90)
T PF11691_consen 27 NLAELARLRIRYQGFPGARDIQKDLDKILQKW--GLTEEELFEKTREI 72 (90)
T ss_pred hHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHc--CCCHHHHHHHHHHH
Confidence 3566666665 56889999999998 49999988765554
No 144
>PF12699 phiKZ_IP: phiKZ-like phage internal head proteins; InterPro: IPR024413 Phage internal head proteins (IP) are proteins that are encoded by a bacteriophage and assembled into the mature virion inside the capsid head. The most analogous characterised IP proteins are those of bacteriophage T4, which are known to be proteolytically processed during phage maturation, and then subsequently injected into the host cell during infection. The phiKZ_IP family consists of internal head proteins encoded by phiKZ-like phages. Each phage encodes three to six members of this family []. Members of the family reside in the head [] and are cleaved during phage maturation to separate an N-terminal propeptide from a C-terminal domain. The C-terminal domain remains in the mature capsid. The N-terminal propeptide domain is either mostly or completely removed from the mature capsid. In one case, an unrelated polypeptide is embedded in the propeptide and also remains in the mature capsid. The phiKZ-like IP proteins are not discernibly homologous to the T4 IP proteins, and it is not known if the phiKZ-like IP proteins are injected into the host cell, or have some other function within the head.
Probab=21.96 E-value=3.8e+02 Score=23.20 Aligned_cols=60 Identities=17% Similarity=0.233 Sum_probs=42.7
Q ss_pred EEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHH
Q 030800 86 LIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEVDELTK 151 (171)
Q Consensus 86 i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk~~~~iseD~~~~~~~~iq~ltd 151 (171)
-+..+|..+. ..+.+-..++.+++.++..|+.+.........++.. -..++.+.+++|.+
T Consensus 41 ~~~~~~~~~~-s~Edlk~~~k~~~~k~~e~i~kl~~~l~~~~~~~~~-----~~~~~~~r~~~L~~ 100 (339)
T PF12699_consen 41 PRSAEESVAV-SLEDLKERAKEAGKKIKEFIKKLIADLKDYAVKFMS-----GIERVEERIDKLQE 100 (339)
T ss_pred cccchhhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-----cHHHHHHHHHHHHH
Confidence 4444444443 677888889999999999999999988888887743 33455555555544
No 145
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=21.68 E-value=84 Score=21.86 Aligned_cols=72 Identities=22% Similarity=0.220 Sum_probs=39.2
Q ss_pred eEEeeCCccccccceeeEEecCCcEEE-EeecCCCcHHHHHHHHhcCCCCC---Ccc---cCCCeEEEeCCCCCHHHHHH
Q 030800 28 IIVETGGVKMPLNHLAVVSVLDSKTLS-INPYDPNTLKELESAIVSSPLGL---NPR---VDGQRLIAAIPALTKEHIQA 100 (171)
Q Consensus 28 i~V~~~g~~~pL~~lA~I~v~~~~~l~-I~p~d~~~i~~I~kAI~~s~l~~---~p~---~dg~~i~v~iP~~T~E~R~~ 100 (171)
|+|......-.|.-+|+|+.-|.-++. |..- .+.-|+ .|+ .+|..-.+.. |+|.|.|++
T Consensus 6 Vri~~~~~~~~lka~asV~~dd~f~I~~ikVi-------------eg~~GlFVaMPs~k~~~g~y~Di~~-Pitke~Re~ 71 (84)
T PF04026_consen 6 VRIRKIEPEGKLKAFASVTFDDCFVIHDIKVI-------------EGEKGLFVAMPSRKSKDGEYKDICH-PITKEFREQ 71 (84)
T ss_dssp EEEEETTSSSSEEEEEEEEETTTEEEEEEEEE-------------EETTEEEEE--EEE-TTS-EEESEE-ESSHHHHHH
T ss_pred EEEEEecCCCCEEEEEEEEECCEEEEEeEEEE-------------ECCCCcEEECCCcCCCCCCEEEEEE-ECCHHHHHH
Confidence 445443333568888998886643332 2221 111111 132 2455444545 789999999
Q ss_pred HHHHHHHHHHHHH
Q 030800 101 MCKVVAKTSEDVK 113 (171)
Q Consensus 101 l~K~ak~~~e~~K 113 (171)
|-..+=+..+++|
T Consensus 72 i~~aVl~aY~~~~ 84 (84)
T PF04026_consen 72 IEEAVLDAYEEAK 84 (84)
T ss_dssp HHHHHHHHHHHS-
T ss_pred HHHHHHHHHHhcC
Confidence 9987776666543
No 146
>cd02056 alpha-1-antitrypsin_like alpha-1-antitrypsin_like. This family contains a variety of different members of clade A of the serpin superfamily. They include the classical serine proteinase inhibitors, alpha-1-antitrypsin and alpha-1-antichymotrypsin, protein C inhibitor, kallistatin, and noninhibitory serpins, like corticosteroid and thyroxin binding globulins. In general, SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate blood coagulation cascades. Non-inhibitory serpins perform many diverse functions such as chaperoning proteins or transporting hormones. Serpins are of medical interest because mutants have been associated with blood clotting disorders, emphysema, cirrhosis, and dementia.
Probab=21.56 E-value=19 Score=30.84 Aligned_cols=59 Identities=12% Similarity=0.236 Sum_probs=40.8
Q ss_pred CCcEEEEeecCCCcHHHHHHHHhcCCC-CCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHH
Q 030800 49 DSKTLSINPYDPNTLKELESAIVSSPL-GLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKT 108 (171)
Q Consensus 49 ~~~~l~I~p~d~~~i~~I~kAI~~s~l-~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~ 108 (171)
+..+++|.|.+. .+..+++.+....+ .+........+.|.||+.+-|..-+|.+..+.+
T Consensus 219 ~~sm~iiLP~~~-~l~~l~~~l~~~~l~~~~~~~~~~~v~v~lPkF~i~~~~~l~~~L~~~ 278 (361)
T cd02056 219 NATAFFVLPDEG-KMKQVEAALSRDTLKKWSKLLSKRSVDLYLPKFSISGTYNLKDILPKM 278 (361)
T ss_pred CcEEEEEecCcc-hHHHHHHhhCHHHHHHHHHhCceeEEEEEeeeEEEeeeechHHHHHhc
Confidence 346677788765 67888887755544 222233446899999999988887877776654
No 147
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=21.37 E-value=2e+02 Score=18.68 Aligned_cols=30 Identities=10% Similarity=0.171 Sum_probs=22.7
Q ss_pred eEEecCCcEEEEeecCCCcHHHHHHHHhcC
Q 030800 44 VVSVLDSKTLSINPYDPNTLKELESAIVSS 73 (171)
Q Consensus 44 ~I~v~~~~~l~I~p~d~~~i~~I~kAI~~s 73 (171)
+|.+++.+++.+.+..-..|..+...|...
T Consensus 2 qi~vk~~~~~~l~v~~~~tV~~lK~~i~~~ 31 (74)
T cd01793 2 QLFVRAQNTHTLEVTGQETVSDIKAHVAGL 31 (74)
T ss_pred EEEEECCCEEEEEECCcCcHHHHHHHHHhh
Confidence 577787788877777677888888877643
No 148
>COG0011 Uncharacterized conserved protein [Function unknown]
Probab=21.35 E-value=2e+02 Score=20.72 Aligned_cols=30 Identities=13% Similarity=0.056 Sum_probs=25.8
Q ss_pred CcHHHHHHHHhcCCCCCCcccCCCeEEEeC
Q 030800 61 NTLKELESAIVSSPLGLNPRVDGQRLIAAI 90 (171)
Q Consensus 61 ~~i~~I~kAI~~s~l~~~p~~dg~~i~v~i 90 (171)
.++..+.+.|.+|++.+.+..-|+.|...+
T Consensus 21 ~yVa~~i~~lk~~glky~~~pm~T~iEg~~ 50 (100)
T COG0011 21 KYVAEAIEILKESGLKYQLGPMGTVIEGEL 50 (100)
T ss_pred HHHHHHHHHHHHcCCceeecCcceEEEecH
Confidence 468888999999999999999999998755
No 149
>PF01343 Peptidase_S49: Peptidase family S49 peptidase classification.; InterPro: IPR002142 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S49 (protease IV family, clan S-). The predicted active site serine for members of this family occurs in a transmembrane domain. The domain defines sequences in viruses, archaea, bacteria and plants. These sequences are variously annotated in the different taxonomic groups, examples are: Viruses: capsid protein Archaea: proteinase IV homolog Bacteria: proteinase IV, sohB, SppA, pfaP, putative protease Plants: SppA, protease IV This group also contains proteins classified as non-peptidase homologues that either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of peptidases. Related proteins, non-peptidase homologs and unclassified S49 members are also to be found in IPR002810 from INTERPRO.; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3RST_B 3BEZ_D 3BF0_A.
Probab=21.02 E-value=1.7e+02 Score=22.02 Aligned_cols=60 Identities=7% Similarity=0.097 Sum_probs=39.3
Q ss_pred HhcCCCCCCcccCCC--eEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 70 IVSSPLGLNPRVDGQ--RLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 70 I~~s~l~~~p~~dg~--~i~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
+.+-++++....-|. ..--+.-++|+|.|+.+-..+..+.+.+...|..-|.-..+.++.
T Consensus 55 l~k~GV~~~~~~~g~~K~~~~~~~~~s~~~r~~~~~~l~~~~~~f~~~Va~~R~~~~~~v~~ 116 (154)
T PF01343_consen 55 LEKLGVKVEVVRSGEYKSAGFPRDPMSEEERENLQELLDELYDQFVNDVAEGRGLSPDDVEE 116 (154)
T ss_dssp HHHTT-EEEEEESSTTCCCCCTTSS--HHHHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHC
T ss_pred HHHCCCeEEEEecCccccccCcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHccCCCHHHHHH
Confidence 344444444434443 222677899999999999999999999999999888644444443
No 150
>TIGR03561 organ_hyd_perox peroxiredoxin, Ohr subfamily. Pfam model pfam02566, OsmC-like protein, contains several deeply split clades of homologous proteins. The clade modeled here includes the protein Ohr, or organic hydroperoxide resistance protein.
Probab=20.92 E-value=1.1e+02 Score=22.54 Aligned_cols=25 Identities=16% Similarity=0.376 Sum_probs=20.7
Q ss_pred eEEEeCCCCCHHHHHHHHHHHHHHH
Q 030800 85 RLIAAIPALTKEHIQAMCKVVAKTS 109 (171)
Q Consensus 85 ~i~v~iP~~T~E~R~~l~K~ak~~~ 109 (171)
.+++.+|.++.|..++++..|.+.|
T Consensus 94 ~l~i~~~~~~~e~~~~l~~~a~~~C 118 (134)
T TIGR03561 94 ELKVTLPGLDQAEAEALVEAAHQVC 118 (134)
T ss_pred EEEEECCCCCHHHHHHHHHHHhccC
Confidence 4667788899999999999888765
No 151
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=20.83 E-value=3.8e+02 Score=20.26 Aligned_cols=30 Identities=13% Similarity=0.225 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030800 100 AMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 100 ~l~K~ak~~~e~~K~~iR~iR~~~~~~lKk 129 (171)
+.-..+....+++...+...|+++...+..
T Consensus 53 ~~~~ea~~~~~e~e~~l~~A~~ea~~ii~~ 82 (164)
T PRK14471 53 EARKEMQNLQADNERLLKEARAERDAILKE 82 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555666666666665555544
No 152
>cd02643 R3H_NF-X1 R3H domain of the X1 box binding protein (NF-X1) and related proteins. Human NF-X1 is a transcription factor that regulates the expression of class II major histocompatibility complex (MHC) genes. The Drosophila homolog shuttle craft (STC) has been shown to be a DNA- or RNA-binding protein required for proper axon guidance in the central nervous system and, the yeast homolog FAP1 encodes a dosage suppressor of rapamycin toxicity. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=20.60 E-value=49 Score=22.25 Aligned_cols=43 Identities=16% Similarity=0.319 Sum_probs=25.2
Q ss_pred CCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHH
Q 030800 59 DPNTLKELESAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMC 102 (171)
Q Consensus 59 d~~~i~~I~kAI~~s~l~~~p~~dg~~i~v~iP~~T~E~R~~l~ 102 (171)
+++.++.++..+..-=.+.... .++.-.+.+|||+...|.-+=
T Consensus 7 ~~~~~~~vE~~l~~la~~~~~~-~~~~~~~~l~PM~~~eR~iIH 49 (74)
T cd02643 7 DPKFVKDVEKDLIELVESVNKG-KQTSRSHSFPPMNREKRRIVH 49 (74)
T ss_pred CHHHHHHHHHHHHHHHHHHHhc-cccCCeeECCCCCHHHHHHHH
Confidence 4555666666655432222111 233456789999999997654
No 153
>cd02043 plant_SERPIN SERine Proteinase INhibitors (serpins), plant specific subgroup. It has been suggested that plant serpins play a role in defense against insect predators. This subgroup corresponds to clade P of the serpin superfamily. In general, serpins exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate blood coagulation cascades. Non-inhibitory serpins perform many diverse functions such as chaperoning proteins or transporting hormones.
Probab=20.54 E-value=68 Score=27.80 Aligned_cols=58 Identities=21% Similarity=0.181 Sum_probs=41.4
Q ss_pred cEEEEeecCCCcHHHHHHHHhcCC--C-CCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHH
Q 030800 51 KTLSINPYDPNTLKELESAIVSSP--L-GLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKT 108 (171)
Q Consensus 51 ~~l~I~p~d~~~i~~I~kAI~~s~--l-~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~ 108 (171)
.+++|.|.+..-+..+++.+.... + .+.+......+.|.||+.+-+..-+|....+.+
T Consensus 230 sm~iiLP~~~~~L~~l~~~l~~~~~~~~~~~~~~~~~~v~l~lPKF~i~~~~dl~~~L~~m 290 (381)
T cd02043 230 SMYIYLPDKKDGLADLLEKLVSEPGFLDRHIPASEQEVGAFMIPKFKFSFGFEASEVLKKL 290 (381)
T ss_pred EEEEEccCCCCCHHHHHHhhccChhhhhhhcccceeeEEEEEcccEEEEeecchHHHHHHC
Confidence 567888998888999999886432 2 234444445689999999988877776655543
No 154
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=20.33 E-value=2.3e+02 Score=17.66 Aligned_cols=26 Identities=12% Similarity=0.169 Sum_probs=18.9
Q ss_pred eEEEeC-CCCCHHHHHHHHHHHHHHHH
Q 030800 85 RLIAAI-PALTKEHIQAMCKVVAKTSE 110 (171)
Q Consensus 85 ~i~v~i-P~~T~E~R~~l~K~ak~~~e 110 (171)
.|+|.+ |-.|.|.+++|++.+-+.+.
T Consensus 3 ~i~i~~~~Grs~EqK~~L~~~it~a~~ 29 (60)
T PRK02289 3 FVRIDLFEGRSQEQKNALAREVTEVVS 29 (60)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHH
Confidence 356665 45899999999987765543
No 155
>PF13257 DUF4048: Domain of unknown function (DUF4048)
Probab=20.25 E-value=1.6e+02 Score=24.90 Aligned_cols=29 Identities=17% Similarity=0.332 Sum_probs=24.2
Q ss_pred EEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 030800 87 IAAIPALTKEHIQAMCKVVAKTSEDVKQSIRR 118 (171)
Q Consensus 87 ~v~iP~~T~E~R~~l~K~ak~~~e~~K~~iR~ 118 (171)
+=.+|+ -.++.|++-.|+++|+.|..|+.
T Consensus 71 rr~lP~---~~~eal~rtgkQmAeDfK~GLWT 99 (253)
T PF13257_consen 71 RRSLPP---PQREALMRTGKQMAEDFKEGLWT 99 (253)
T ss_pred hhcCCc---hhHHHHHHHHHHHHHHHHHHHHH
Confidence 345666 56889999999999999999886
Done!