Query 030790
Match_columns 171
No_of_seqs 107 out of 1029
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 04:37:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030790.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030790hhsearch_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 1.4E-63 3E-68 391.9 18.3 170 1-170 15-186 (187)
2 TIGR00496 frr ribosome recycli 100.0 2.6E-62 5.6E-67 386.2 20.0 170 1-170 4-175 (176)
3 PRK00083 frr ribosome recyclin 100.0 2.6E-62 5.6E-67 388.9 19.8 170 1-170 13-184 (185)
4 cd00520 RRF Ribosome recycling 100.0 7.4E-61 1.6E-65 379.1 19.4 169 1-169 9-179 (179)
5 PF01765 RRF: Ribosome recycli 100.0 1.3E-55 2.7E-60 345.1 17.9 163 7-169 1-165 (165)
6 KOG4759 Ribosome recycling fac 100.0 5.3E-49 1.1E-53 322.1 17.3 170 1-170 92-262 (263)
7 PF12732 YtxH: YtxH-like prote 78.7 17 0.00036 24.2 8.3 33 90-122 20-52 (74)
8 TIGR00587 nfo apurinic endonuc 77.9 9.3 0.0002 31.7 6.7 73 41-113 26-98 (274)
9 PF03480 SBP_bac_7: Bacterial 76.5 24 0.00052 29.1 8.9 65 92-156 218-285 (286)
10 PRK13454 F0F1 ATP synthase sub 70.8 24 0.00052 27.7 7.1 27 104-130 80-106 (181)
11 PTZ00372 endonuclease 4-like p 69.2 11 0.00023 33.9 5.3 71 41-112 156-227 (413)
12 TIGR02609 doc_partner putative 67.4 24 0.00052 23.7 5.6 38 82-119 35-72 (74)
13 CHL00118 atpG ATP synthase CF0 67.1 54 0.0012 24.9 8.5 39 91-129 45-85 (156)
14 PRK01919 tatB sec-independent 65.0 68 0.0015 25.4 9.6 67 95-168 22-88 (169)
15 PF00430 ATP-synt_B: ATP synth 63.7 52 0.0011 23.6 7.5 65 99-163 43-110 (132)
16 PF06518 DUF1104: Protein of u 63.5 51 0.0011 23.4 7.0 59 95-157 24-83 (93)
17 PF05008 V-SNARE: Vesicle tran 62.0 41 0.00088 22.3 6.0 32 90-121 15-46 (79)
18 PRK13455 F0F1 ATP synthase sub 60.5 42 0.00091 26.2 6.7 24 106-129 122-145 (184)
19 TIGR02302 aProt_lowcomp conser 56.8 1.3E+02 0.0029 29.6 10.5 67 93-162 474-548 (851)
20 PRK05412 putative nucleotide-b 55.9 10 0.00022 29.7 2.4 32 59-90 101-132 (161)
21 TIGR00106 uncharacterized prot 54.6 29 0.00064 24.6 4.5 37 53-89 5-47 (97)
22 PF09388 SpoOE-like: Spo0E lik 54.0 47 0.001 20.0 6.0 40 114-155 4-43 (45)
23 PRK05759 F0F1 ATP synthase sub 54.0 91 0.002 23.3 8.5 24 142-165 83-106 (156)
24 PRK06231 F0F1 ATP synthase sub 53.9 1.1E+02 0.0025 24.4 8.6 54 106-159 99-155 (205)
25 PRK13461 F0F1 ATP synthase sub 53.5 96 0.0021 23.5 8.6 28 140-167 82-109 (159)
26 PF14689 SPOB_a: Sensor_kinase 52.9 25 0.00054 22.7 3.6 46 109-154 9-54 (62)
27 COG1638 DctP TRAP-type C4-dica 52.6 1.3E+02 0.0028 26.0 8.9 132 21-156 161-314 (332)
28 PRK14473 F0F1 ATP synthase sub 52.4 1E+02 0.0022 23.4 8.5 21 108-128 61-81 (164)
29 PRK09174 F0F1 ATP synthase sub 52.3 1.1E+02 0.0025 24.5 8.1 55 105-159 103-160 (204)
30 PF00804 Syntaxin: Syntaxin; 52.1 71 0.0015 21.5 8.3 56 97-155 46-101 (103)
31 PRK14475 F0F1 ATP synthase sub 51.1 79 0.0017 24.3 6.8 35 96-130 95-129 (167)
32 PRK07353 F0F1 ATP synthase sub 50.3 99 0.0022 22.7 8.5 30 139-168 81-110 (140)
33 TIGR01144 ATP_synt_b ATP synth 50.1 71 0.0015 23.7 6.2 31 99-129 83-113 (147)
34 PRK13454 F0F1 ATP synthase sub 49.7 1.2E+02 0.0027 23.6 8.1 76 90-165 53-133 (181)
35 PRK11127 autonomous glycyl rad 49.5 59 0.0013 24.4 5.4 68 34-104 54-121 (127)
36 PRK13460 F0F1 ATP synthase sub 49.1 1.2E+02 0.0026 23.3 8.5 53 108-168 69-121 (173)
37 PRK14472 F0F1 ATP synthase sub 49.0 1.2E+02 0.0026 23.3 8.6 24 106-129 69-92 (175)
38 PRK13428 F0F1 ATP synthase sub 48.8 1.3E+02 0.0027 27.2 8.6 69 98-166 33-104 (445)
39 PRK13455 F0F1 ATP synthase sub 48.3 1.3E+02 0.0028 23.4 8.5 18 111-128 83-100 (184)
40 PRK08404 V-type ATP synthase s 47.8 1E+02 0.0022 22.0 9.1 31 100-130 3-33 (103)
41 PRK08475 F0F1 ATP synthase sub 47.7 1.3E+02 0.0028 23.2 8.6 24 141-164 100-123 (167)
42 CHL00118 atpG ATP synthase CF0 47.4 1.2E+02 0.0027 22.9 8.1 64 98-161 65-131 (156)
43 KOG1664 Vacuolar H+-ATPase V1 46.5 93 0.002 25.5 6.6 52 114-169 12-63 (220)
44 PRK07352 F0F1 ATP synthase sub 45.8 1.4E+02 0.003 23.0 8.6 26 142-167 98-123 (174)
45 PRK06569 F0F1 ATP synthase sub 45.8 1.4E+02 0.0031 23.2 9.6 52 107-162 69-120 (155)
46 PF01910 DUF77: Domain of unkn 44.8 40 0.00086 23.7 3.8 50 53-110 3-58 (92)
47 PRK09173 F0F1 ATP synthase sub 43.8 1.2E+02 0.0025 23.0 6.7 32 98-129 89-120 (159)
48 PRK14475 F0F1 ATP synthase sub 42.7 1.5E+02 0.0033 22.7 8.5 53 107-167 62-114 (167)
49 PF12685 SpoIIIAH: SpoIIIAH-li 42.6 1.7E+02 0.0037 23.1 7.7 60 105-164 84-147 (196)
50 PRK01060 endonuclease IV; Prov 42.2 81 0.0018 25.7 5.9 64 49-113 35-99 (281)
51 PRK06231 F0F1 ATP synthase sub 42.0 1.8E+02 0.0039 23.3 7.9 73 96-168 78-153 (205)
52 PRK14471 F0F1 ATP synthase sub 40.9 1.6E+02 0.0034 22.4 8.5 19 110-128 63-81 (164)
53 PF13779 DUF4175: Domain of un 40.9 3.3E+02 0.0072 26.8 10.5 67 92-161 442-516 (820)
54 PF02216 B: B domain; InterPr 40.4 27 0.00059 22.4 2.1 22 88-109 17-38 (54)
55 PRK06569 F0F1 ATP synthase sub 40.4 1.7E+02 0.0036 22.7 7.0 41 90-130 32-74 (155)
56 PRK14472 F0F1 ATP synthase sub 40.2 1.7E+02 0.0037 22.5 8.1 73 96-168 48-123 (175)
57 cd02646 R3H_G-patch R3H domain 39.7 39 0.00084 21.5 2.9 23 87-109 18-40 (58)
58 PF12334 rOmpB: Rickettsia out 39.7 42 0.0009 27.1 3.5 31 26-56 116-146 (217)
59 PF14085 DUF4265: Domain of un 39.0 1.5E+02 0.0033 21.5 6.9 51 44-95 46-98 (117)
60 PRK13453 F0F1 ATP synthase sub 38.8 1.8E+02 0.0039 22.4 9.7 24 107-130 70-93 (173)
61 KOG0871 Class 2 transcription 38.1 1.5E+02 0.0032 23.0 6.2 43 101-146 84-126 (156)
62 CHL00019 atpF ATP synthase CF0 38.0 1.9E+02 0.0042 22.5 8.6 23 107-129 76-98 (184)
63 PRK05892 nucleoside diphosphat 37.8 1.9E+02 0.0041 22.3 8.8 65 91-163 6-72 (158)
64 PF09336 Vps4_C: Vps4 C termin 37.8 40 0.00087 21.9 2.7 25 120-144 32-56 (62)
65 PF04461 DUF520: Protein of un 37.7 11 0.00025 29.4 0.1 32 59-90 101-132 (160)
66 PF13740 ACT_6: ACT domain; PD 37.6 1.2E+02 0.0026 19.9 5.7 57 52-111 2-68 (76)
67 PRK09174 F0F1 ATP synthase sub 37.5 2.2E+02 0.0047 22.9 8.6 80 89-168 74-158 (204)
68 PRK13453 F0F1 ATP synthase sub 37.5 1.7E+02 0.0037 22.5 6.8 23 107-129 114-136 (173)
69 PRK13022 secF preprotein trans 37.4 2.3E+02 0.0049 24.0 8.0 62 46-107 38-102 (289)
70 COG3937 Uncharacterized conser 37.2 1.4E+02 0.003 21.9 5.7 57 94-150 19-78 (108)
71 TIGR01144 ATP_synt_b ATP synth 36.5 1.7E+02 0.0038 21.5 8.5 27 141-167 73-99 (147)
72 KOG2008 BTK-associated SH3-dom 36.3 2.6E+02 0.0057 24.6 8.1 89 61-165 56-144 (426)
73 PF10281 Ish1: Putative stress 35.9 23 0.0005 20.5 1.2 20 88-108 18-37 (38)
74 PLN02316 synthase/transferase 35.6 1.3E+02 0.0029 30.3 7.0 77 81-157 228-314 (1036)
75 PRK08476 F0F1 ATP synthase sub 35.3 1.9E+02 0.0041 21.6 8.0 14 111-124 63-76 (141)
76 PRK10780 periplasmic chaperone 34.7 2.1E+02 0.0045 21.9 10.1 86 84-169 25-118 (165)
77 PRK05759 F0F1 ATP synthase sub 34.7 1.9E+02 0.0042 21.5 8.1 56 105-160 54-112 (156)
78 PRK14474 F0F1 ATP synthase sub 34.0 2.7E+02 0.0059 23.0 8.6 24 142-165 84-107 (250)
79 cd07018 S49_SppA_67K_type Sign 33.7 2.3E+02 0.0051 22.6 7.2 118 5-128 64-188 (222)
80 PF12614 RRF_GI: Ribosome recy 33.5 2.1E+02 0.0046 21.6 6.8 45 85-129 4-48 (128)
81 TIGR01461 greB transcription e 33.3 2.2E+02 0.0048 21.8 7.7 66 91-163 3-70 (156)
82 CHL00019 atpF ATP synthase CF0 32.9 2.3E+02 0.0051 22.0 8.1 71 98-168 56-129 (184)
83 PF12298 Bot1p: Eukaryotic mit 31.9 1.9E+02 0.0041 22.8 6.2 65 87-161 11-82 (172)
84 cd06557 KPHMT-like Ketopantoat 31.5 1E+02 0.0022 25.7 4.8 49 62-110 115-169 (254)
85 PRK00311 panB 3-methyl-2-oxobu 31.5 1.1E+02 0.0025 25.6 5.2 48 62-111 118-173 (264)
86 TIGR03321 alt_F1F0_F0_B altern 31.3 2.9E+02 0.0063 22.5 8.6 19 110-128 60-78 (246)
87 PRK07352 F0F1 ATP synthase sub 31.2 2.4E+02 0.0053 21.6 8.1 56 105-160 69-127 (174)
88 PF07564 DUF1542: Domain of Un 31.0 96 0.0021 20.1 3.8 30 91-120 10-39 (70)
89 cd02640 R3H_NRF R3H domain of 29.6 73 0.0016 20.6 2.9 24 85-108 17-41 (60)
90 PF02825 WWE: WWE domain; Int 29.1 30 0.00064 22.4 1.0 40 56-95 20-59 (72)
91 PRK13460 F0F1 ATP synthase sub 28.8 2.7E+02 0.0058 21.4 8.1 19 107-125 75-93 (173)
92 PRK08578 preprotein translocas 28.0 3.6E+02 0.0077 22.8 7.7 62 46-108 47-108 (292)
93 PF08112 ATP-synt_E_2: ATP syn 27.8 82 0.0018 20.2 2.8 20 150-169 9-28 (56)
94 PF12729 4HB_MCP_1: Four helix 27.7 2.3E+02 0.005 20.3 7.3 26 138-163 106-131 (181)
95 PF03982 DAGAT: Diacylglycerol 27.6 76 0.0017 27.0 3.5 21 143-163 261-281 (297)
96 PTZ00436 60S ribosomal protein 27.2 2.6E+02 0.0057 24.4 6.6 83 57-143 22-124 (357)
97 PRK00411 cdc6 cell division co 26.9 4E+02 0.0086 22.7 9.7 35 112-146 248-282 (394)
98 cd07022 S49_Sppa_36K_type Sign 26.9 98 0.0021 24.6 3.9 57 74-130 124-184 (214)
99 PTZ00400 DnaK-type molecular c 26.8 5.5E+02 0.012 24.3 9.5 61 91-151 539-608 (663)
100 PRK14473 F0F1 ATP synthase sub 26.8 2.8E+02 0.0061 20.9 8.1 71 98-168 40-113 (164)
101 PF00430 ATP-synt_B: ATP synth 26.6 2.4E+02 0.0052 20.0 7.0 63 106-168 39-104 (132)
102 PF03179 V-ATPase_G: Vacuolar 26.3 2.3E+02 0.005 19.8 10.8 57 111-168 37-93 (105)
103 PF10615 DUF2470: Protein of u 26.2 40 0.00086 22.8 1.3 23 82-104 57-82 (83)
104 smart00101 14_3_3 14-3-3 homol 26.1 3.8E+02 0.0082 22.2 7.9 30 92-121 35-64 (244)
105 PF11691 DUF3288: Protein of u 25.9 2.5E+02 0.0053 19.9 5.7 38 107-146 27-72 (90)
106 COG1666 Uncharacterized protei 25.7 57 0.0012 25.5 2.2 88 3-90 20-136 (165)
107 KOG0262 RNA polymerase I, larg 25.7 1.2E+02 0.0027 31.3 4.9 48 59-106 485-535 (1640)
108 PLN02372 violaxanthin de-epoxi 25.6 5.1E+02 0.011 23.6 8.3 72 58-129 327-405 (455)
109 PF08182 Pedibin: Pedibin/Hym- 25.4 1.5E+02 0.0032 17.3 4.0 26 144-169 4-31 (35)
110 KOG0225 Pyruvate dehydrogenase 25.4 1.4E+02 0.0031 26.4 4.8 37 122-158 315-354 (394)
111 cd01227 PH_Dbs Dbs (DBL's big 25.2 1.3E+02 0.0028 22.7 4.0 49 70-118 65-124 (133)
112 PF12592 DUF3763: Protein of u 25.1 2E+02 0.0042 18.5 6.3 47 104-152 4-50 (57)
113 COG3290 CitA Signal transducti 25.0 2.4E+02 0.0053 26.3 6.4 68 97-164 316-385 (537)
114 cd06007 R3H_DEXH_helicase R3H 25.0 1.1E+02 0.0024 19.7 3.2 24 85-108 16-40 (59)
115 PRK09173 F0F1 ATP synthase sub 24.9 3E+02 0.0066 20.6 8.5 26 104-129 51-76 (159)
116 PRK14471 F0F1 ATP synthase sub 24.8 3.1E+02 0.0067 20.7 8.1 72 97-168 39-113 (164)
117 PF04026 SpoVG: SpoVG; InterP 24.7 68 0.0015 22.3 2.2 73 28-113 6-84 (84)
118 PRK08476 F0F1 ATP synthase sub 24.4 3E+02 0.0066 20.5 8.5 32 98-129 39-70 (141)
119 PRK09579 multidrug efflux prot 24.1 1E+02 0.0022 30.8 4.1 31 18-48 753-784 (1017)
120 cd01793 Fubi Fubi ubiquitin-li 23.8 1.6E+02 0.0035 19.0 3.9 30 44-73 2-31 (74)
121 PF01343 Peptidase_S49: Peptid 23.7 1.4E+02 0.003 22.4 4.1 60 70-129 55-116 (154)
122 PF07946 DUF1682: Protein of u 23.5 3.9E+02 0.0086 22.8 7.2 19 111-129 255-273 (321)
123 PF10296 DUF2404: Putative int 23.4 1.6E+02 0.0034 20.2 4.0 40 6-45 19-60 (91)
124 PF12699 phiKZ_IP: phiKZ-like 23.4 3.3E+02 0.0071 23.5 6.7 62 85-152 40-101 (339)
125 smart00678 WWE Domain in Delte 23.2 98 0.0021 20.1 2.8 40 56-95 13-52 (73)
126 PRK06568 F0F1 ATP synthase sub 23.2 3.5E+02 0.0077 20.8 9.7 26 104-129 53-78 (154)
127 PF02597 ThiS: ThiS family; I 23.0 1.5E+02 0.0033 18.9 3.7 34 24-58 40-73 (77)
128 cd04932 ACT_AKiii-LysC-EC_1 AC 22.9 2.3E+02 0.0051 18.6 5.0 36 57-92 12-48 (75)
129 PRK04098 sec-independent trans 22.4 3.8E+02 0.0083 20.9 7.3 56 95-153 22-77 (158)
130 PF05920 Homeobox_KN: Homeobox 22.4 1.5E+02 0.0032 17.4 3.1 31 91-121 9-39 (40)
131 PF07464 ApoLp-III: Apolipopho 22.3 3.1E+02 0.0067 21.2 5.7 57 99-155 84-143 (155)
132 PF13732 DUF4162: Domain of un 22.2 2.4E+02 0.0051 18.4 5.5 52 26-78 13-67 (84)
133 COG4847 Uncharacterized protei 22.0 68 0.0015 23.1 1.8 20 108-127 74-93 (103)
134 PF07693 KAP_NTPase: KAP famil 21.9 1.5E+02 0.0033 24.4 4.3 53 50-105 203-262 (325)
135 PRK13210 putative L-xylulose 5 21.8 2E+02 0.0043 23.2 4.9 58 57-114 48-105 (284)
136 TIGR00013 taut 4-oxalocrotonat 21.8 2.1E+02 0.0045 17.6 4.4 25 86-110 3-29 (63)
137 cd02641 R3H_Smubp-2_like R3H d 21.5 1.3E+02 0.0028 19.3 3.0 23 86-108 18-41 (60)
138 cd04887 ACT_MalLac-Enz ACT_Mal 21.5 2.2E+02 0.0048 17.8 4.9 54 53-106 2-62 (74)
139 PF05529 Bap31: B-cell recepto 21.4 1.9E+02 0.0041 22.6 4.5 12 137-148 161-172 (192)
140 PRK13461 F0F1 ATP synthase sub 20.9 3.7E+02 0.008 20.2 8.1 55 105-159 55-112 (159)
141 cd02049 bacterial_SERPIN SERin 20.9 35 0.00075 29.3 0.2 58 51-108 220-278 (364)
142 PF00873 ACR_tran: AcrB/AcrD/A 20.7 2E+02 0.0043 28.5 5.4 54 18-71 768-834 (1021)
143 COG4575 ElaB Uncharacterized c 20.7 3.4E+02 0.0073 19.7 5.2 46 110-155 33-80 (104)
144 PF09036 Bcr-Abl_Oligo: Bcr-Ab 20.5 2.5E+02 0.0055 19.2 4.3 26 101-126 27-52 (79)
145 PF06037 DUF922: Bacterial pro 20.1 4.1E+02 0.0089 20.4 10.5 73 85-160 60-141 (161)
No 1
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-63 Score=391.88 Aligned_cols=170 Identities=45% Similarity=0.685 Sum_probs=167.4
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc
Q 030790 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPR 80 (171)
Q Consensus 1 M~~~i~~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 030790 81 VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEIDELTKKYVKSAD 158 (171)
Q Consensus 81 ~dg~~i~v~iP~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~--~~lseD~~~~~~~~iq~l~d~~~~~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 030790 159 DICKAKEKEINE 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 999999999996
No 2
>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=2.6e-62 Score=386.23 Aligned_cols=170 Identities=44% Similarity=0.673 Sum_probs=167.4
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc
Q 030790 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPR 80 (171)
Q Consensus 1 M~~~i~~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 030790 81 VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEIDELTKKYVKSAD 158 (171)
Q Consensus 81 ~dg~~i~v~iP~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~--~~lseD~~~~~~~~iq~l~d~~~~~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 030790 159 DICKAKEKEINE 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 999999999996
No 3
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=100.00 E-value=2.6e-62 Score=388.92 Aligned_cols=170 Identities=47% Similarity=0.679 Sum_probs=167.4
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc
Q 030790 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPR 80 (171)
Q Consensus 1 M~~~i~~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 030790 81 VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEIDELTKKYVKSAD 158 (171)
Q Consensus 81 ~dg~~i~v~iP~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~--~~lseD~~~~~~~~iq~l~d~~~~~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 579999999999999999999999999
Q ss_pred HHHHHHHHhhhc
Q 030790 159 DICKAKEKEINE 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 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=7.4e-61 Score=379.09 Aligned_cols=169 Identities=42% Similarity=0.668 Sum_probs=166.5
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc
Q 030790 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPR 80 (171)
Q Consensus 1 M~~~i~~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 030790 81 VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEIDELTKKYVKSAD 158 (171)
Q Consensus 81 ~dg~~i~v~iP~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~--~~lseD~~~~~~~~iq~l~d~~~~~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 030790 159 DICKAKEKEIN 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=1.3e-55 Score=345.07 Aligned_cols=163 Identities=47% Similarity=0.696 Sum_probs=157.3
Q ss_pred HHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCCeE
Q 030790 7 ALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPRVDGQRL 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 030790 87 IAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG--SSLPKDQMKRLEKEIDELTKKYVKSADDICKAK 164 (171)
Q Consensus 87 ~v~iP~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~--~~lseD~~~~~~~~iq~l~d~~~~~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 999999999999999999999999999999999999999999986 459999999999999999999999999999999
Q ss_pred HHhhh
Q 030790 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=5.3e-49 Score=322.12 Aligned_cols=170 Identities=42% Similarity=0.645 Sum_probs=167.8
Q ss_pred CHHHHHHHHHHHhhhccCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecC-CCcHHHHHHHHhcCCCCCCc
Q 030790 1 MEAAIVALSRELTKLRTGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYD-PNTLKELECAIVSSPLGLNP 79 (171)
Q Consensus 1 M~~~i~~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 030790 80 RVDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADD 159 (171)
Q Consensus 80 ~~dg~~i~v~iP~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~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 030790 160 ICKAKEKEINE 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=78.71 E-value=17 Score=24.24 Aligned_cols=33 Identities=15% Similarity=0.213 Sum_probs=22.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 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 377788889888887776666665555554443
No 8
>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=77.85 E-value=9.3 Score=31.71 Aligned_cols=73 Identities=4% Similarity=-0.027 Sum_probs=56.0
Q ss_pred ceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHH
Q 030790 41 HLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVK 113 (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~~k 113 (171)
+-.|+.+.+|+.+.-.++++..+..+.++....++.+.+..-.....+.+-.+.++.|+..++..++..+.|.
T Consensus 26 ~~~qif~~~P~~w~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Hapy~iNlas~~~~~r~~sv~~~~~~i~~A~ 98 (274)
T TIGR00587 26 TAFMFFLKSPRWWRRPMLEEEVIDWFKAALETNKNLSQIVLVHAPYLINLASPDEEKEEKSLDVLDEELKRCE 98 (274)
T ss_pred CEEEEEecCccccCCCCCCHHHHHHHHHHHHHcCCCCcceeccCCeeeecCCCCHHHHHHHHHHHHHHHHHHH
Confidence 3457788899988777778888999989888888887665444333388888899999998888777666543
No 9
>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=76.55 E-value=24 Score=29.12 Aligned_cols=65 Identities=11% Similarity=0.265 Sum_probs=54.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---CCChHHHHHHHHHHHHHHHHHHHH
Q 030790 92 ALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGS---SLPKDQMKRLEKEIDELTKKYVKS 156 (171)
Q Consensus 92 ~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~---~lseD~~~~~~~~iq~l~d~~~~~ 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 57899999999999999999999999999999999988542 369999999999988888885543
No 10
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=70.85 E-value=24 Score=27.72 Aligned_cols=27 Identities=7% Similarity=0.229 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030790 104 VVAKTSEDVKQSIRRSRQKALDMMKKA 130 (171)
Q Consensus 104 ~ak~~~E~~k~~iR~iR~~~~~~lkk~ 130 (171)
.+....+++...+++.|.++...+...
T Consensus 80 eA~~~~~eye~~L~~Ar~EA~~ii~~A 106 (181)
T PRK13454 80 KAVEAEKAYNKALADARAEAQRIVAET 106 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445555666666555555443
No 11
>PTZ00372 endonuclease 4-like protein; Provisional
Probab=69.22 E-value=11 Score=33.90 Aligned_cols=71 Identities=10% Similarity=0.070 Sum_probs=57.3
Q ss_pred ceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc-cCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHH
Q 030790 41 HLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPR-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 5668889999999999999999999999999999987665 344555 8888889999988777666655543
No 12
>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=67.44 E-value=24 Score=23.66 Aligned_cols=38 Identities=13% Similarity=0.052 Sum_probs=28.2
Q ss_pred CCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 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 44434444333478999999999999999999998864
No 13
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=67.11 E-value=54 Score=24.94 Aligned_cols=39 Identities=8% Similarity=0.086 Sum_probs=17.5
Q ss_pred CCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 91 PALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 91 P~~T~--E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
||++. +.|++.+..--..+++.+......+.++...+..
T Consensus 45 ~Pi~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~ 85 (156)
T CHL00118 45 KPLLKVLDERKEYIRKNLTKASEILAKANELTKQYEQELSK 85 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44443 3444444433334555554444444444444443
No 14
>PRK01919 tatB sec-independent translocase; Provisional
Probab=64.98 E-value=68 Score=25.36 Aligned_cols=67 Identities=7% Similarity=0.239 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 95 KEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 95 ~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~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 3444566777777777777777777777665542 256666667776666666666666665555554
No 15
>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=63.74 E-value=52 Score=23.63 Aligned_cols=65 Identities=9% Similarity=0.203 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 99 QAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKA 163 (171)
Q Consensus 99 ~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~ 163 (171)
++..+.+....+++...+.+.|.++...+.... ...-+.-....+++++.+.+....++...-..
T Consensus 43 ~~~~~ea~~~~~e~~~~l~~a~~ea~~i~~~a~~~a~~~~~~~~~ea~~~~~~~~~~a~~~i~~e~~~ 110 (132)
T PF00430_consen 43 EELKEEAEQLLAEYEEKLAEAREEAQEIIEEAKEEAEKEKEEILAEAEKEAERIIEQAEAEIEQEKEK 110 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666777777777777777777666543 11233344445555555555555555544333
No 16
>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=63.48 E-value=51 Score=23.42 Aligned_cols=59 Identities=17% Similarity=0.238 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHH
Q 030790 95 KEHIQAMCKVVAKTSE-DVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSA 157 (171)
Q Consensus 95 ~E~R~~l~K~ak~~~E-~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~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 4788999999998777 7777777777777777765 588888888888888777755544
No 17
>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=61.99 E-value=41 Score=22.29 Aligned_cols=32 Identities=9% Similarity=0.308 Sum_probs=24.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 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 44555688999999999999999888775543
No 18
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=60.47 E-value=42 Score=26.19 Aligned_cols=24 Identities=13% Similarity=0.249 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 106 AKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 106 k~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
....++++..|..-|..+...++.
T Consensus 122 ~~~~~~A~~~I~~ek~~a~~~l~~ 145 (184)
T PRK13455 122 ARRLAAAEDQIASAEAAAVKAVRD 145 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555555544
No 19
>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=56.80 E-value=1.3e+02 Score=29.64 Aligned_cols=67 Identities=10% Similarity=0.289 Sum_probs=54.4
Q ss_pred CCHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 93 LTKEHIQAMCKVVAKTSE--------DVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADDICK 162 (171)
Q Consensus 93 ~T~E~R~~l~K~ak~~~E--------~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~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 RTDDALRDVADNLWSLALGIEDGDLSDAERRLRAAQDALKDALER---GASDEEIKQLTDKLRAAMQTYMRQLAQQLR 548 (851)
T ss_pred CCHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 677888888888887764 5677788777777777764 589999999999999999999998876544
No 20
>PRK05412 putative nucleotide-binding protein; Reviewed
Probab=55.86 E-value=10 Score=29.68 Aligned_cols=32 Identities=19% Similarity=0.256 Sum_probs=29.7
Q ss_pred CCCcHHHHHHHHhcCCCCCCcccCCCeEEEeC
Q 030790 59 DPNTLKELECAIVSSPLGLNPRVDGQRLIAAI 90 (171)
Q Consensus 59 d~~~i~~I~kaI~~s~l~~~p~~dg~~i~v~i 90 (171)
|....+.|.++|.++.+-++++..|..|||+=
T Consensus 101 ~~e~AKkIvK~IKd~klKVqa~IQGd~vRVtg 132 (161)
T PRK05412 101 DQELAKKIVKLIKDSKLKVQAQIQGDQVRVTG 132 (161)
T ss_pred CHHHHHHHHHHHHhcCCceeEEecCcEEEEec
Confidence 78889999999999999999999999999753
No 21
>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=54.63 E-value=29 Score=24.63 Aligned_cols=37 Identities=16% Similarity=0.093 Sum_probs=28.5
Q ss_pred EEEeecC------CCcHHHHHHHHhcCCCCCCcccCCCeEEEe
Q 030790 53 LSINPYD------PNTLKELECAIVSSPLGLNPRVDGQRLIAA 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 4455664 337888889999999998888889988843
No 22
>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=54.03 E-value=47 Score=19.98 Aligned_cols=40 Identities=28% Similarity=0.473 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHH
Q 030790 114 QSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVK 155 (171)
Q Consensus 114 ~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~ 155 (171)
..|-..|++....+.+. +++.+++=....+++.+...|..
T Consensus 4 ~~Ie~~R~~L~~~~~~~--~l~~~~vl~~Sq~LD~lI~~y~~ 43 (45)
T PF09388_consen 4 EEIEELRQELNELAEKK--GLTDPEVLELSQELDKLINEYQK 43 (45)
T ss_dssp HHHHHHHHHHHHHHHHC--CTTCHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHHHhh
Confidence 46778899999888874 78899999999999999998864
No 23
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=54.02 E-value=91 Score=23.31 Aligned_cols=24 Identities=17% Similarity=0.100 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 142 LEKEIDELTKKYVKSADDICKAKE 165 (171)
Q Consensus 142 ~~~~iq~l~d~~~~~id~l~~~Ke 165 (171)
.+...+.+.+..-.+++.+.....
T Consensus 83 a~~~~~~~~~~a~~ea~~~~~~a~ 106 (156)
T PRK05759 83 AAQIIEEAKAEAEAEAARIKAQAQ 106 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444333
No 24
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=53.86 E-value=1.1e+02 Score=24.43 Aligned_cols=54 Identities=13% Similarity=0.177 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 106 AKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADD 159 (171)
Q Consensus 106 k~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~ 159 (171)
....++++..+.++|.++...+.... ..+-++....+..+...+..+.-.+++.
T Consensus 99 ~~~l~e~e~~L~~A~~eA~~Ii~~A~~eAe~~~e~i~~~A~~eae~ii~~A~~~Ie~ 155 (205)
T PRK06231 99 QQLLENAKQRHENALAQAKEIIDQANYEALQLKSELEKEANRQANLIIFQARQEIEK 155 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444445555555544444332 1112233344444444444444444443
No 25
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=53.49 E-value=96 Score=23.45 Aligned_cols=28 Identities=25% Similarity=0.276 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 140 KRLEKEIDELTKKYVKSADDICKAKEKE 167 (171)
Q Consensus 140 ~~~~~~iq~l~d~~~~~id~l~~~Keke 167 (171)
...+...+.+.++.-.+++.+...-..+
T Consensus 82 ~~a~~~~~~i~~~A~~ea~~~~~~a~~~ 109 (159)
T PRK13461 82 SKAENVYEEIVKEAHEEADLIIERAKLE 109 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444555555555555554444433
No 26
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=52.93 E-value=25 Score=22.74 Aligned_cols=46 Identities=22% Similarity=0.278 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHH
Q 030790 109 SEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYV 154 (171)
Q Consensus 109 ~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~ 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 4555667899999999998764322223344555555555555443
No 27
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=52.62 E-value=1.3e+02 Score=26.04 Aligned_cols=132 Identities=13% Similarity=0.214 Sum_probs=85.3
Q ss_pred CcCCCcceEEeeCC---------------ccccccceee---EEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCccc-
Q 030790 21 SPGMLDHIIVETGG---------------VKMPLNHLAV---VSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPRV- 81 (171)
Q Consensus 21 ~p~~ld~i~V~~~g---------------~~~pL~~lA~---I~v~~~~~l~I~p~d~~~i~~I~kaI~~s~l~~~p~~- 81 (171)
+|+=|.++++.+++ .++|..|+-+ -.+-||+.=.+.-+..+-.-.+.+-+..+|..+.|..
T Consensus 161 ~peDlkGlkiRv~~s~~~~~~~~a~GA~P~pm~f~Evy~aLqtGvVDGqEnp~~~i~~~k~~EVqky~t~tnH~~~~~~~ 240 (332)
T COG1638 161 TPEDLKGLKIRVPQSPLLLAMFKALGANPTPMPFAEVYTALQTGVVDGQENPLSNIYSAKLYEVQKYLTLTNHIYLPLAV 240 (332)
T ss_pred ChHHhCCCeeecCCCHHHHHHHHHcCCCCCCCCHHHHHHHHHcCCcccccCCHHHHhhccHHHHhHHhhhccccccceee
Confidence 45556666665543 2455565543 2344665443344456677788888888888888752
Q ss_pred --CCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHH-HHHHHHHHHHHHHHH
Q 030790 82 --DGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKR-LEKEIDELTKKYVKS 156 (171)
Q Consensus 82 --dg~~i~v~iP~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~-~~~~iq~l~d~~~~~ 156 (171)
.... .-.+++|.|+.+.+.+++..+..+......-++..+.+++.+-.+-+.+... ..+-.+.+.+.|.+.
T Consensus 241 ~~s~~~----w~~L~~e~q~il~~aa~e~~~~~~~~~~~~e~~~~e~lk~~Gv~v~~~~~~~~~~~~~~~~~~~~~~~ 314 (332)
T COG1638 241 LVSKAF----WDSLPEEDQTILLEAAKEAAEEQRKLVEELEDELLEKLKEAGVEVVEPDAAEAFREAAKPVYDEFAKK 314 (332)
T ss_pred EEcHHH----HhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEecCCchHHHHHHHHHHHHHHHhh
Confidence 2222 3378999999999999999999999888888888888888642222212222 455555566666555
No 28
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=52.41 E-value=1e+02 Score=23.43 Aligned_cols=21 Identities=19% Similarity=0.412 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 030790 108 TSEDVKQSIRRSRQKALDMMK 128 (171)
Q Consensus 108 ~~E~~k~~iR~iR~~~~~~lk 128 (171)
...+++..+..+|.++...+.
T Consensus 61 ~~~e~e~~l~~A~~ea~~ii~ 81 (164)
T PRK14473 61 AKRDYEAELAKARQEAAKIVA 81 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444443
No 29
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=52.29 E-value=1.1e+02 Score=24.49 Aligned_cols=55 Identities=13% Similarity=0.163 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 105 VAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADD 159 (171)
Q Consensus 105 ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~ 159 (171)
+....+++...|...|.++...+.... ....+.....++.+++.+..+.-.+|..
T Consensus 103 Ae~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea~~~~e~~~~~a~~ea~~~l~~Ae~~I~~ 160 (204)
T PRK09174 103 ADAAVAAYEQELAQARAKAHSIAQAAREAAKAKAEAERAAIEASLEKKLKEAEARIAA 160 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445556666666655554431 1123333444444444444444444443
No 30
>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=52.09 E-value=71 Score=21.51 Aligned_cols=56 Identities=9% Similarity=0.313 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHH
Q 030790 97 HIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVK 155 (171)
Q Consensus 97 ~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~ 155 (171)
.=+.+...++..+..++..|+.++.... .....+.+.-+.+-...+++.++.++..
T Consensus 46 el~~l~~~i~~~~~~~~~~lk~l~~~~~---~~~~~~~~~~~~ri~~nq~~~L~~kf~~ 101 (103)
T PF00804_consen 46 ELDELTDEIKQLFQKIKKRLKQLSKDNE---DSEGEEPSSNEVRIRKNQVQALSKKFQE 101 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHCTT--SHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh---hhcccCCCcHHHHHHHHHHHHHHHHHHH
Confidence 3467788888999999999999988755 2223456777888999999999988865
No 31
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=51.14 E-value=79 Score=24.28 Aligned_cols=35 Identities=17% Similarity=0.228 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030790 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKA 130 (171)
Q Consensus 96 E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~ 130 (171)
+.+.+.-+.+.++.+.|+..|..-|..++..+++.
T Consensus 95 ~~~~~A~~ea~~~~~~A~~~I~~e~~~a~~el~~e 129 (167)
T PRK14475 95 EAKEKLEEQIKRRAEMAERKIAQAEAQAAADVKAA 129 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555677777788888888888888887763
No 32
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=50.30 E-value=99 Score=22.68 Aligned_cols=30 Identities=17% Similarity=0.072 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 139 MKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 139 ~~~~~~~iq~l~d~~~~~id~l~~~Kekel 168 (171)
....+...+.+.+....+++.+......+|
T Consensus 81 ~~~a~~~~~~~~~~a~~ea~~~~~~a~~~i 110 (140)
T PRK07353 81 EAEADKLAAEALAEAQAEAQASKEKARREI 110 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555555555444443
No 33
>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=50.13 E-value=71 Score=23.69 Aligned_cols=31 Identities=13% Similarity=0.218 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 99 QAMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 99 ~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
.+.-+.+..+.++++..+..-|..+...++.
T Consensus 83 ~~a~~e~~~~~~~a~~~i~~e~~~a~~~l~~ 113 (147)
T TIGR01144 83 AEAREEREKIKAQARAEIEAEKEQAREELRK 113 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444445555555555555555555554
No 34
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=49.65 E-value=1.2e+02 Score=23.63 Aligned_cols=76 Identities=13% Similarity=0.133 Sum_probs=43.5
Q ss_pred CCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 90 IPALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKAK 164 (171)
Q Consensus 90 iP~~T~--E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~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 455555555556677777777777777777777653 123333334444455555555555555554443
Q ss_pred H
Q 030790 165 E 165 (171)
Q Consensus 165 e 165 (171)
+
T Consensus 133 ~ 133 (181)
T PRK13454 133 E 133 (181)
T ss_pred H
Confidence 3
No 35
>PRK11127 autonomous glycyl radical cofactor GrcA; Provisional
Probab=49.50 E-value=59 Score=24.44 Aligned_cols=68 Identities=21% Similarity=0.163 Sum_probs=45.7
Q ss_pred CccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHH
Q 030790 34 GVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKV 104 (171)
Q Consensus 34 g~~~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 54 ~r~~~~~~~~~v~~~GG~Hlq~NVvd~etL~dAqk~PEk-YpdLiVRVsGY--Sa~F~~Lt~e~Q~eVI~R 121 (127)
T PRK11127 54 YREVPVEVKPEVRVEGGQHLNVNVLRRETLEDAVKHPEK-YPQLTIRVSGY--AVRFNSLTPEQQRDVIAR 121 (127)
T ss_pred ccccccccccceeecCceEEEEEecCHHHHHHHHhChhc-CCCeEEEEeeE--EeehhhCCHHHHHHHHHH
Confidence 346788888889999999999999998666555331110 12333333332 233678999999999875
No 36
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=49.10 E-value=1.2e+02 Score=23.34 Aligned_cols=53 Identities=15% Similarity=0.127 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 108 TSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 108 ~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Kekel 168 (171)
..++++..+..+|.++...+... ...++...+.+.++.-.+++.+....+.+|
T Consensus 69 ~~~e~e~~l~~a~~ea~~ii~~A--------~~ea~~~~~~~~~~A~~ea~~~~~~a~~~i 121 (173)
T PRK13460 69 LLKDYEARLNSAKDEANAIVAEA--------KSDALKLKNKLLEETNNEVKAQKDQAVKEI 121 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444555555554444432 233444444444444444444444444443
No 37
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=49.03 E-value=1.2e+02 Score=23.34 Aligned_cols=24 Identities=4% Similarity=0.174 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 106 AKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 106 k~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
....++++..+..+|.++...+..
T Consensus 69 ~~~~~e~e~~L~~a~~ea~~ii~~ 92 (175)
T PRK14472 69 EAILRKNRELLAKADAEADKIIRE 92 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444555666666666555554
No 38
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=48.78 E-value=1.3e+02 Score=27.16 Aligned_cols=69 Identities=12% Similarity=0.114 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEK 166 (171)
Q Consensus 98 R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Kek 166 (171)
|++.+..-=..+++++..+...+.++.+.+...+ ..+-++-....++..+.+.++.-.+++.+....++
T Consensus 33 R~~~I~~~L~eAe~a~~ea~~~~~~~e~~L~~Ak~ea~~Ii~~A~~~A~~~~~~~~~~A~~ea~~i~~~a~~ 104 (445)
T PRK13428 33 RQDTVRQQLAESATAADRLAEADQAHTKAVEDAKAEAARVVEEAREDAERIAEQLRAQADAEAERIKVQGAR 104 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4443333333355555555555555555444432 11222223334444444444444444444444333
No 39
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=48.31 E-value=1.3e+02 Score=23.41 Aligned_cols=18 Identities=11% Similarity=0.204 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 030790 111 DVKQSIRRSRQKALDMMK 128 (171)
Q Consensus 111 ~~k~~iR~iR~~~~~~lk 128 (171)
+++..+...|.++...+.
T Consensus 83 e~e~~L~~A~~ea~~Ii~ 100 (184)
T PRK13455 83 SYERKQREVQEQADRIVA 100 (184)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333344444444444443
No 40
>PRK08404 V-type ATP synthase subunit H; Validated
Probab=47.80 E-value=1e+02 Score=22.04 Aligned_cols=31 Identities=19% Similarity=0.467 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030790 100 AMCKVVAKTSEDVKQSIRRSRQKALDMMKKA 130 (171)
Q Consensus 100 ~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~ 130 (171)
+.++.+|..=+++...|+..|.++...+...
T Consensus 3 e~i~~ik~aE~~~e~~L~~A~~Ea~~Ii~~A 33 (103)
T PRK08404 3 DVIKEIVKAEKEAEERIEKAKEEAKKIIRKA 33 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677766777777777777766666543
No 41
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=47.65 E-value=1.3e+02 Score=23.22 Aligned_cols=24 Identities=8% Similarity=0.068 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 141 RLEKEIDELTKKYVKSADDICKAK 164 (171)
Q Consensus 141 ~~~~~iq~l~d~~~~~id~l~~~K 164 (171)
..+...+.+.++.-.+++.+....
T Consensus 100 eAe~~~~~ii~~A~~ea~~~~~~a 123 (167)
T PRK08475 100 EAYILTQKIEKQTKDDIENLIKSF 123 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444433
No 42
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=47.44 E-value=1.2e+02 Score=22.92 Aligned_cols=64 Identities=14% Similarity=0.229 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDIC 161 (171)
Q Consensus 98 R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l~ 161 (171)
-++.-..+....++++..+...|.++.+.+.... ....++....++.+.+.+....-.+++.--
T Consensus 65 Ae~~~~ea~~~~~e~e~~L~~A~~ea~~ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~a~~~i~~ek 131 (156)
T CHL00118 65 ASEILAKANELTKQYEQELSKARKEAQLEITQSQKEAKEIVENELKQAQKYIDSLLNEATKQLEAQK 131 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455556666666666666666665555432 123445555566666666666666665533
No 43
>KOG1664 consensus Vacuolar H+-ATPase V1 sector, subunit E [Energy production and conversion]
Probab=46.52 E-value=93 Score=25.49 Aligned_cols=52 Identities=19% Similarity=0.197 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 030790 114 QSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEIN 169 (171)
Q Consensus 114 ~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Kekel~ 169 (171)
.=++=||+++..+.+... ++-++.|.+|+ -.++..-..+|+.-|..|+|++.
T Consensus 12 ~M~aFI~qEA~EKA~EI~--~kAeeEfnIEK--~rlV~~q~~kI~~~yekKeKqve 63 (220)
T KOG1664|consen 12 HMVAFIRQEAEEKAKEID--AKAEEEFNIEK--GRLVQEQRLKIMQYYEKKEKQVE 63 (220)
T ss_pred HHHHHHHHHHHHHHHHhh--hhhHHHhhHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 346778899999988763 55667777765 35666777788888888888763
No 44
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=45.81 E-value=1.4e+02 Score=23.02 Aligned_cols=26 Identities=12% Similarity=0.167 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 142 LEKEIDELTKKYVKSADDICKAKEKE 167 (171)
Q Consensus 142 ~~~~iq~l~d~~~~~id~l~~~Keke 167 (171)
.+...+.+.++.-++++.+....+.+
T Consensus 98 a~~~~~~~~~~A~~e~~~~~~~a~~~ 123 (174)
T PRK07352 98 AEAIRAEIEKQAIEDMARLKQTAAAD 123 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444433
No 45
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=45.77 E-value=1.4e+02 Score=23.15 Aligned_cols=52 Identities=13% Similarity=0.247 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 107 KTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADDICK 162 (171)
Q Consensus 107 ~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~id~l~~ 162 (171)
+...+||...+.+|.++.+.+..- .+.+.+..+.++-.+.+.-++++..+.+
T Consensus 69 ~~L~~Ar~eA~~I~~e~~~~~~a~----~~~~~~~~ea~L~~~~~~~~~~~~~~~~ 120 (155)
T PRK06569 69 EEIDKTNTEIDRLKKEKIDSLESE----FLIKKKNLEQDLKNSINQNIEDINLAAK 120 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444555555555555432 4466677777777777777776655543
No 46
>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=44.83 E-value=40 Score=23.66 Aligned_cols=50 Identities=16% Similarity=0.191 Sum_probs=35.2
Q ss_pred EEEeecCC------CcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHHHH
Q 030790 53 LSINPYDP------NTLKELECAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKTSE 110 (171)
Q Consensus 53 l~I~p~d~------~~i~~I~kaI~~s~l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~~E 110 (171)
|.|.|+.. .+|..+.+.|++|++.+.+..-|+.|.-.+ +++...+++..+
T Consensus 3 i~v~P~g~~~~s~~~~V~~~i~~i~~sgl~y~v~pm~T~iEGe~--------dev~~~i~~~~e 58 (92)
T PF01910_consen 3 ISVIPIGTGGESVSAYVAEAIEVIKESGLKYEVGPMGTTIEGEL--------DEVMALIKEAHE 58 (92)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHHHHTSSSEEEEETTEEEEEEEH--------HHHHHHHHHHHH
T ss_pred EEEEeCCCCCCCHHHHHHHHHHHHHHcCCceEEcCCccEEEecH--------HHHHHHHHHHHH
Confidence 56677742 356777788889999988888899998765 455555554443
No 47
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=43.84 E-value=1.2e+02 Score=22.96 Aligned_cols=32 Identities=16% Similarity=0.252 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 98 R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
+.+.-+.+....+.++..|..-|+.+...+++
T Consensus 89 ~~~a~~~~~~~~~~a~~~I~~ek~~a~~el~~ 120 (159)
T PRK09173 89 KRKTEEYVARRNKLAEQKIAQAETDAINAVRS 120 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333444444777777777777777765
No 48
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=42.71 E-value=1.5e+02 Score=22.66 Aligned_cols=53 Identities=17% Similarity=0.167 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 107 KTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKE 167 (171)
Q Consensus 107 ~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Keke 167 (171)
...++++..+.+.|.++...+... ....+...+.+.++.-++++.+...-+.+
T Consensus 62 ~~~~~~e~~L~~A~~ea~~Ii~~A--------~~~a~~~~~~~~~~A~~ea~~~~~~A~~~ 114 (167)
T PRK14475 62 ALLADVKAEREEAERQAAAMLAAA--------KADARRMEAEAKEKLEEQIKRRAEMAERK 114 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444555555444444432 23333444444444444444444444433
No 49
>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=42.56 E-value=1.7e+02 Score=23.12 Aligned_cols=60 Identities=22% Similarity=0.324 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc--CCCCChHHHHHHHHHHHHHHHHHHH--HHHHHHHHH
Q 030790 105 VAKTSEDVKQSIRRSRQKALDMMKKA--GSSLPKDQMKRLEKEIDELTKKYVK--SADDICKAK 164 (171)
Q Consensus 105 ak~~~E~~k~~iR~iR~~~~~~lkk~--~~~lseD~~~~~~~~iq~l~d~~~~--~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 34679999999999999999999885 3568999999999999999987655 455555544
No 50
>PRK01060 endonuclease IV; Provisional
Probab=42.22 E-value=81 Score=25.68 Aligned_cols=64 Identities=9% Similarity=0.127 Sum_probs=38.0
Q ss_pred CCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc-cCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHH
Q 030790 49 DSKTLSINPYDPNTLKELECAIVSSPLGLNPR-VDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVK 113 (171)
Q Consensus 49 ~~~~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 35 ~p~~~~~~~~~~~~~~~lk~~~~~~gl~~~~~~~h~~~-~~nl~~~d~~~r~~s~~~~~~~i~~A~ 99 (281)
T PRK01060 35 NPQQWKRKPLEELNIEAFKAACEKYGISPEDILVHAPY-LINLGNPNKEILEKSRDFLIQEIERCA 99 (281)
T ss_pred CCCCCcCCCCCHHHHHHHHHHHHHcCCCCCceEEecce-EecCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 33333333456667888888888888874322 12222 234444566778887777777666654
No 51
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=42.02 E-value=1.8e+02 Score=23.28 Aligned_cols=73 Identities=15% Similarity=0.109 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 96 E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~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 344444444444577777777777777777776653 2233344444555556666666667777666665554
No 52
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=40.94 E-value=1.6e+02 Score=22.35 Aligned_cols=19 Identities=16% Similarity=0.342 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030790 110 EDVKQSIRRSRQKALDMMK 128 (171)
Q Consensus 110 E~~k~~iR~iR~~~~~~lk 128 (171)
+++...+...|+++...+.
T Consensus 63 ~e~e~~l~~A~~ea~~ii~ 81 (164)
T PRK14471 63 ADNERLLKEARAERDAILK 81 (164)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333444455554444443
No 53
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=40.87 E-value=3.3e+02 Score=26.77 Aligned_cols=67 Identities=15% Similarity=0.366 Sum_probs=55.6
Q ss_pred CCCHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 92 ALTKEHIQAMCKVVAKTS--------EDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADDIC 161 (171)
Q Consensus 92 ~~T~E~R~~l~K~ak~~~--------E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~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 378888889988888775 45667788888888888875 57999999999999999999999877644
No 54
>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=40.44 E-value=27 Score=22.35 Aligned_cols=22 Identities=18% Similarity=0.314 Sum_probs=16.9
Q ss_pred EeCCCCCHHHHHHHHHHHHHHH
Q 030790 88 AAIPALTKEHIQAMCKVVAKTS 109 (171)
Q Consensus 88 v~iP~~T~E~R~~l~K~ak~~~ 109 (171)
+.+|-+|+|.|...++.+|.-=
T Consensus 17 l~~~nLteeQrn~yI~~lKddP 38 (54)
T PF02216_consen 17 LHMPNLTEEQRNGYIQSLKDDP 38 (54)
T ss_dssp HCSTTS-HHHHHHHHHHHHH-G
T ss_pred HcCCCcCHHHHHhHHHHHhhCh
Confidence 4689999999999999888643
No 55
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=40.42 E-value=1.7e+02 Score=22.73 Aligned_cols=41 Identities=7% Similarity=0.100 Sum_probs=25.4
Q ss_pred CCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030790 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 456655 44555555444557777777777777777776654
No 56
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=40.19 E-value=1.7e+02 Score=22.50 Aligned_cols=73 Identities=18% Similarity=0.195 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 96 EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 96 E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Kekel 168 (171)
+.|++.+...=..+++.+........++...+...+ ..+-++-....+...+.+.++.-.+++.+....+.+|
T Consensus 48 ~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~a~~ea~~ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~a~~~I 123 (175)
T PRK14472 48 EEREKGIQSSIDRAHSAKDEAEAILRKNRELLAKADAEADKIIREGKEYAEKLRAEITEKAHTEAKKMIASAKEEI 123 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555577777777777777777776653 2233344444555555666666666666666655554
No 57
>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=39.73 E-value=39 Score=21.47 Aligned_cols=23 Identities=13% Similarity=0.203 Sum_probs=18.9
Q ss_pred EEeCCCCCHHHHHHHHHHHHHHH
Q 030790 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 56899999999998888777643
No 58
>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=39.66 E-value=42 Score=27.06 Aligned_cols=31 Identities=29% Similarity=0.343 Sum_probs=28.0
Q ss_pred cceEEeeCCccccccceeeEEecCCcEEEEe
Q 030790 26 DHIIVETGGVKMPLNHLAVVSVLDSKTLSIN 56 (171)
Q Consensus 26 d~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~ 56 (171)
+.|.|...+..-|.+.|.||++.+|-.++|+
T Consensus 116 ~~ItVTlnkqa~~v~~LkqitvSG~gnVvin 146 (217)
T PF12334_consen 116 DPITVTLNKQAGPVNALKQITVSGPGNVVIN 146 (217)
T ss_pred CCeEEEEcCCcCcccceeEEEEeCCCcEEEe
Confidence 5688999999999999999999999888876
No 59
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=38.96 E-value=1.5e+02 Score=21.50 Aligned_cols=51 Identities=14% Similarity=0.180 Sum_probs=36.1
Q ss_pred eEEecCCcEEEEeecCCCc--HHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCH
Q 030790 44 VVSVLDSKTLSINPYDPNT--LKELECAIVSSPLGLNPRVDGQRLIAAIPALTK 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 88999988875544443344 788899987653
No 60
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=38.80 E-value=1.8e+02 Score=22.41 Aligned_cols=24 Identities=21% Similarity=0.451 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Q 030790 107 KTSEDVKQSIRRSRQKALDMMKKA 130 (171)
Q Consensus 107 ~~~E~~k~~iR~iR~~~~~~lkk~ 130 (171)
...++++..++.+|.++...+...
T Consensus 70 ~~~~e~e~~l~~a~~ea~~ii~~a 93 (173)
T PRK13453 70 KLEEENKQKLKETQEEVQKILEDA 93 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344446666666666666665543
No 61
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=38.12 E-value=1.5e+02 Score=23.04 Aligned_cols=43 Identities=19% Similarity=0.437 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHH
Q 030790 101 MCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEI 146 (171)
Q Consensus 101 l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~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 4444556665 579999998877554
No 62
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=38.03 E-value=1.9e+02 Score=22.45 Aligned_cols=23 Identities=13% Similarity=0.245 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 030790 107 KTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 107 ~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
....+++..+...|..+...+..
T Consensus 76 ~~~~e~e~~L~~A~~ea~~ii~~ 98 (184)
T CHL00019 76 EKLEKARARLRQAELEADEIRVN 98 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444455555555544443
No 63
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=37.77 E-value=1.9e+02 Score=22.28 Aligned_cols=65 Identities=6% Similarity=-0.037 Sum_probs=48.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 91 PALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKA--GSSLPKDQMKRLEKEIDELTKKYVKSADDICKA 163 (171)
Q Consensus 91 P~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~--~~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~ 163 (171)
..||+|-.+.|...+..+- ..|......++.. .+.+||.-...+-++=|...+..+..++..+..
T Consensus 6 ~~lT~eg~~~L~~EL~~L~--------~~r~~i~~~i~~Ar~~GDlsENaey~aak~~q~~~e~RI~~L~~~L~~ 72 (158)
T PRK05892 6 KGLAPAARDHLEAELARLR--------ARRDRLAVEVNDRGMIGDHGDQAEAIQRADELARLDDRINELDRRLRT 72 (158)
T ss_pred CccCHHHHHHHHHHHHHHH--------HHhHHHHHHHHHHHhCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3689999998888776652 2345555555433 356999888888888899999999999988764
No 64
>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=37.76 E-value=40 Score=21.92 Aligned_cols=25 Identities=20% Similarity=0.388 Sum_probs=19.2
Q ss_pred HHHHHHHHHhcCCCCChHHHHHHHH
Q 030790 120 RQKALDMMKKAGSSLPKDQMKRLEK 144 (171)
Q Consensus 120 R~~~~~~lkk~~~~lseD~~~~~~~ 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 5677778887777899999988875
No 65
>PF04461 DUF520: Protein of unknown function (DUF520); InterPro: IPR007551 This entry represents the UPF0234 family of uncharacterised proteins.; PDB: 1IN0_A.
Probab=37.71 E-value=11 Score=29.44 Aligned_cols=32 Identities=22% Similarity=0.309 Sum_probs=27.2
Q ss_pred CCCcHHHHHHHHhcCCCCCCcccCCCeEEEeC
Q 030790 59 DPNTLKELECAIVSSPLGLNPRVDGQRLIAAI 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 78899999999999999999999999999874
No 66
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=37.63 E-value=1.2e+02 Score=19.90 Aligned_cols=57 Identities=14% Similarity=0.351 Sum_probs=37.3
Q ss_pred EEEEeec--C-CCcHHHHHHHHhcCCCCCCccc----CCC---eEEEeCCCCCHHHHHHHHHHHHHHHHH
Q 030790 52 TLSINPY--D-PNTLKELECAIVSSPLGLNPRV----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 4667766 4 9999999999999987665432 333 6667777 55566666655555443
No 67
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=37.48 E-value=2.2e+02 Score=22.89 Aligned_cols=80 Identities=13% Similarity=0.086 Sum_probs=43.7
Q ss_pred eCCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 89 AIPALTK--EHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKA 163 (171)
Q Consensus 89 ~iP~~T~--E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~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 3455554 455555555555577777777777777777777653 12222223334444444555555555555555
Q ss_pred HHHhh
Q 030790 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 55444
No 68
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=37.47 E-value=1.7e+02 Score=22.54 Aligned_cols=23 Identities=13% Similarity=0.284 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 030790 107 KTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 107 ~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
+..++|+..|..-|..+...+++
T Consensus 114 ~~~~~A~~~I~~ek~~a~~~l~~ 136 (173)
T PRK13453 114 GMIETAQSEINSQKERAIADINN 136 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444443
No 69
>PRK13022 secF preprotein translocase subunit SecF; Reviewed
Probab=37.40 E-value=2.3e+02 Score=23.95 Aligned_cols=62 Identities=11% Similarity=0.225 Sum_probs=40.4
Q ss_pred EecCCcEEEEeecCCCcHHHHHHHHhcCCC-CCCccc--CCCeEEEeCCCCCHHHHHHHHHHHHH
Q 030790 46 SVLDSKTLSINPYDPNTLKELECAIVSSPL-GLNPRV--DGQRLIAAIPALTKEHIQAMCKVVAK 107 (171)
Q Consensus 46 ~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 38 DFtGG~~~~~~~~~~~~~~~v~~~~~~~~~~~~~v~~~~~~~~~~i~~~~~~~~~~~~~~~~l~~ 102 (289)
T PRK13022 38 DFTGGTVIEVRFEQPADLEQVREALEKAGFEDAQVQNFGSSRDVLIRLPPASEELSEKVKKALNK 102 (289)
T ss_pred eeCCCeEEEEEcCCCCCHHHHHHHHHhcCCCCceEEEcCCCCEEEEEeCCCChHHHHHHHHHHHh
Confidence 345677677665556678889998887654 333333 34578888887777776666555543
No 70
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=37.19 E-value=1.4e+02 Score=21.86 Aligned_cols=57 Identities=18% Similarity=0.243 Sum_probs=28.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHH
Q 030790 94 TKEHIQAMCKVVAKTSEDVKQSI---RRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELT 150 (171)
Q Consensus 94 T~E~R~~l~K~ak~~~E~~k~~i---R~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~ 150 (171)
+.+.++.+-|.+..+..+.+.+- |..=.+.+..++...+.+.+-.-++++.-++++.
T Consensus 19 ~a~~~ek~~klvDelVkkGeln~eEak~~vddl~~q~k~~~~e~e~K~~r~i~~ml~~~~ 78 (108)
T COG3937 19 AAETAEKVQKLVDELVKKGELNAEEAKRFVDDLLRQAKEAQGELEEKIPRKIEEMLSDLE 78 (108)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhhhHHHhhhHHHHHHHhhcc
Confidence 44555566666666655554443 3333444555554434444444455555555554
No 71
>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=36.49 E-value=1.7e+02 Score=21.53 Aligned_cols=27 Identities=15% Similarity=0.143 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 141 RLEKEIDELTKKYVKSADDICKAKEKE 167 (171)
Q Consensus 141 ~~~~~iq~l~d~~~~~id~l~~~Keke 167 (171)
..+...+.+.++.-.+++.+....+.+
T Consensus 73 ~a~~~~~~~~~~a~~e~~~~~~~a~~~ 99 (147)
T TIGR01144 73 RGSEILEEAKAEAREEREKIKAQARAE 99 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444433
No 72
>KOG2008 consensus BTK-associated SH3-domain binding protein SAB [Signal transduction mechanisms]
Probab=36.34 E-value=2.6e+02 Score=24.60 Aligned_cols=89 Identities=13% Similarity=0.129 Sum_probs=61.2
Q ss_pred CcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHH
Q 030790 61 NTLKELECAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMK 140 (171)
Q Consensus 61 ~~i~~I~kaI~~s~l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~ 140 (171)
.+++.+-++|.+|..=|-- -....+.|.+..|.| ..+|.++..+|.+|....= + ...|++|+..
T Consensus 56 el~Kk~~k~I~ksrpf~el-----------k~~er~~r~e~QkAa-~~FeRat~vl~~AkeqVsl-~---~~sL~~~~~~ 119 (426)
T KOG2008|consen 56 ELVKKIGKAIEKSRPFWEL-----------KRVERQARLEAQKAA-QDFERATEVLRAAKEQVSL-A---EQSLLEDDKR 119 (426)
T ss_pred HHHHHHHHHHhhcccHHHH-----------HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH-H---HHHhhcchhh
Confidence 4677888888887643321 123345566655544 5589999999988874322 2 2358999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 141 RLEKEIDELTKKYVKSADDICKAKE 165 (171)
Q Consensus 141 ~~~~~iq~l~d~~~~~id~l~~~Ke 165 (171)
....+-+.+.+..+..|.+.-..+.
T Consensus 120 ~~~~~~~evlnh~~qrV~EaE~e~t 144 (426)
T KOG2008|consen 120 QFDSAWQEVLNHATQRVMEAEQEKT 144 (426)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999998888876554443
No 73
>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=35.90 E-value=23 Score=20.55 Aligned_cols=20 Identities=15% Similarity=0.291 Sum_probs=14.0
Q ss_pred EeCCCCCHHHHHHHHHHHHHH
Q 030790 88 AAIPALTKEHIQAMCKVVAKT 108 (171)
Q Consensus 88 v~iP~~T~E~R~~l~K~ak~~ 108 (171)
|+.|+.. ..|++|++.|+..
T Consensus 18 i~~~~~~-~~rd~Ll~~~k~~ 37 (38)
T PF10281_consen 18 IPVPKSA-KTRDELLKLAKKN 37 (38)
T ss_pred CCCCCCC-CCHHHHHHHHHHh
Confidence 3444444 6899999988863
No 74
>PLN02316 synthase/transferase
Probab=35.64 E-value=1.3e+02 Score=30.30 Aligned_cols=77 Identities=18% Similarity=0.240 Sum_probs=50.7
Q ss_pred cCCCeEEEeCCCC-C---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHH
Q 030790 81 VDGQRLIAAIPAL-T---------KEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELT 150 (171)
Q Consensus 81 ~dg~~i~v~iP~~-T---------~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~ 150 (171)
++++...++++-= + +|.++++-+.|+..+|.-+..-+..|++..+.....+..--+-+.++....+|.+.
T Consensus 228 N~~~Df~~~V~~~~~~~~~~~~l~ee~~~e~~~la~e~ae~~~~~ee~~r~~~~kaa~~a~~a~akae~~~~~~~~~~~~ 307 (1036)
T PLN02316 228 NDHKDFCVEIEGGMDEHSFEDFLLEEKRRELEKLAKEEAERERQAEEQRRREEEKAAMEADRAQAKAEVEKRREKLQNLL 307 (1036)
T ss_pred CCCCceEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHHHHHH
Confidence 4566666666532 2 24566788888888999888888888887776655432223346666677777777
Q ss_pred HHHHHHH
Q 030790 151 KKYVKSA 157 (171)
Q Consensus 151 d~~~~~i 157 (171)
++....+
T Consensus 308 ~~~~~~~ 314 (1036)
T PLN02316 308 KKASRSA 314 (1036)
T ss_pred hhhhhcc
Confidence 7664443
No 75
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=35.27 E-value=1.9e+02 Score=21.60 Aligned_cols=14 Identities=14% Similarity=0.456 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHHHH
Q 030790 111 DVKQSIRRSRQKAL 124 (171)
Q Consensus 111 ~~k~~iR~iR~~~~ 124 (171)
++...+++.|.++.
T Consensus 63 e~e~~l~~Ar~eA~ 76 (141)
T PRK08476 63 EIETILKNAREEAN 76 (141)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333444443333
No 76
>PRK10780 periplasmic chaperone; Provisional
Probab=34.71 E-value=2.1e+02 Score=21.87 Aligned_cols=86 Identities=13% Similarity=0.190 Sum_probs=54.8
Q ss_pred CeEEEeCCCCCHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHH
Q 030790 84 QRLIAAIPALTKEH--IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSAD 158 (171)
Q Consensus 84 ~~i~v~iP~~T~E~--R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~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 44455544443332 4555667777788888888888888777766653 468999988888888776666655544
Q ss_pred ---HHHHHHHHhhh
Q 030790 159 ---DICKAKEKEIN 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 77
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=34.67 E-value=1.9e+02 Score=21.48 Aligned_cols=56 Identities=9% Similarity=0.194 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 105 VAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDI 160 (171)
Q Consensus 105 ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l 160 (171)
+....++++..+..+|.++...+.... ...-+.....+..+++.+.+.....+...
T Consensus 54 a~~~~~e~~~~l~~a~~ea~~i~~~a~~ea~~~~~~~~~~a~~ea~~~~~~a~~~i~~e 112 (156)
T PRK05759 54 LELAQAKYEAQLAEARAEAAEIIEQAKKRAAQIIEEAKAEAEAEAARIKAQAQAEIEQE 112 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444555555555444444321 11233444555566666666555555543
No 78
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=33.98 E-value=2.7e+02 Score=22.99 Aligned_cols=24 Identities=4% Similarity=-0.046 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 142 LEKEIDELTKKYVKSADDICKAKE 165 (171)
Q Consensus 142 ~~~~iq~l~d~~~~~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 333444444444444444444333
No 79
>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=33.69 E-value=2.3e+02 Score=22.57 Aligned_cols=118 Identities=13% Similarity=0.089 Sum_probs=61.9
Q ss_pred HHHHHHHHhhhc-cCCCCcCCCcceEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcc--c
Q 030790 5 IVALSRELTKLR-TGRASPGMLDHIIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPR--V 81 (171)
Q Consensus 5 i~~l~~~l~~ir-~gr~~p~~ld~i~V~~~g~~~pL~~lA~I~v~~~~~l~I~p~d~~~i~~I~kaI~~s~l~~~p~--~ 81 (171)
++.+.+.+..++ +|+.--...+. +.+.-|-|.-.|...+-.|...+=..---...-.+...+. .+|+++. .
T Consensus 64 ~~el~~~i~~~~~~~kpVia~~~~----~~sggy~lasaad~I~a~p~~~vg~iGv~~~~~~~~~ll~--klGv~~~~~~ 137 (222)
T cd07018 64 LEELRQALERFRASGKPVIAYADG----YSQGQYYLASAADEIYLNPSGSVELTGLSAETLFFKGLLD--KLGVEVQVFR 137 (222)
T ss_pred HHHHHHHHHHHHHhCCeEEEEeCC----CCchhhhhhhhCCEEEECCCceEEeeccchhhhhHHHHHH--HcCCcEEEEE
Confidence 445556666665 45544333331 2334455555555444443332221100001112333343 3555554 3
Q ss_pred CCCe--EEEeC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 82 DGQR--LIAAI--PALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMK 128 (171)
Q Consensus 82 dg~~--i~v~i--P~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lk 128 (171)
-|.. --=|+ +++|+|.|+.+-..+..+.+.+...|..-|.-..+.++
T Consensus 138 ~G~~K~~~~~~~~~~~s~~~r~~~~~~l~~~~~~f~~~Va~~R~~~~~~~~ 188 (222)
T cd07018 138 VGEYKSAVEPFTRDDMSPEAREQTQALLDSLWDQYLADVAASRGLSPDALE 188 (222)
T ss_pred EeccccccchhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHH
Confidence 3321 11122 47999999999999999999999998888863333333
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=33.51 E-value=2.1e+02 Score=21.59 Aligned_cols=45 Identities=11% Similarity=0.119 Sum_probs=34.7
Q ss_pred eEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 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 466666665544447889999999999999999999987766653
No 81
>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=33.26 E-value=2.2e+02 Score=21.79 Aligned_cols=66 Identities=11% Similarity=0.020 Sum_probs=46.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 91 PALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKA--GSSLPKDQMKRLEKEIDELTKKYVKSADDICKA 163 (171)
Q Consensus 91 P~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~--~~~lseD~~~~~~~~iq~l~d~~~~~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 46899999888887766422 1233334444333 357899998998999999999999999887753
No 82
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=32.94 E-value=2.3e+02 Score=21.95 Aligned_cols=71 Identities=14% Similarity=0.200 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 98 R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Kekel 168 (171)
|++.+...=.-+++.+...-....++...+.... ..+-++-...++...+.+.++.-.+++.+...-+.+|
T Consensus 56 R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~A~~ea~~ii~~A~~~ae~~~~~il~~A~~ea~~~~~~a~~~i 129 (184)
T CHL00019 56 RKQTILNTIRNSEERREEAIEKLEKARARLRQAELEADEIRVNGYSEIEREKENLINQAKEDLERLENYKNETI 129 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333334466666666666666666665543 1233334444555555555565666665555444433
No 83
>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=31.90 E-value=1.9e+02 Score=22.79 Aligned_cols=65 Identities=20% Similarity=0.297 Sum_probs=45.0
Q ss_pred EEeCCCCCHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 87 IAAIPALTKEHIQAMCKVV-------AKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADD 159 (171)
Q Consensus 87 ~v~iP~~T~E~R~~l~K~a-------k~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~id~ 159 (171)
..+=|.++.+.|+.+...+ +.++.++.+.+++|. |+=.|+.. .++..++...+...|..-+..
T Consensus 11 f~~~~~lse~~r~~Iy~~~~~~~~sv~~vS~~ygi~~~RV~--AIvrLkei--------E~~~~~~~k~l~~~~~~~m~~ 80 (172)
T PF12298_consen 11 FRSNPVLSEELREQIYEDVMQDGKSVREVSQKYGIKIQRVE--AIVRLKEI--------EKRWKNKGKPLATPYARAMER 80 (172)
T ss_pred CCCCCcCCHHHHHHHHHHHHhCCCCHHHHHHHhCCCHHHHH--HHHHHHHH--------HHHHhcccChhhHHHHHHHHH
Confidence 3455789999999998876 456777777777665 34444432 233466777777888888777
Q ss_pred HH
Q 030790 160 IC 161 (171)
Q Consensus 160 l~ 161 (171)
||
T Consensus 81 Ml 82 (172)
T PF12298_consen 81 ML 82 (172)
T ss_pred Hh
Confidence 76
No 84
>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=31.54 E-value=1e+02 Score=25.75 Aligned_cols=49 Identities=20% Similarity=0.177 Sum_probs=33.0
Q ss_pred cHHHHHHHHhcCC------CCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHHHH
Q 030790 62 TLKELECAIVSSP------LGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKTSE 110 (171)
Q Consensus 62 ~i~~I~kaI~~s~------l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~~E 110 (171)
..-...+++.+++ +|+|||.+...=-.-+.--|.+..++++..++.+.+
T Consensus 115 ~~~~~I~al~~agipV~gHiGL~pq~~~~~gg~~~~grt~~~a~~~i~ra~a~~~ 169 (254)
T cd06557 115 EVAETIRALVDAGIPVMGHIGLTPQSVNQLGGYKVQGKTEEEAERLLEDALALEE 169 (254)
T ss_pred HHHHHHHHHHHcCCCeeccccccceeeeccCCceeccCCHHHHHHHHHHHHHHHH
Confidence 4556667777776 799999765432122335678878888888888755
No 85
>PRK00311 panB 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed
Probab=31.45 E-value=1.1e+02 Score=25.60 Aligned_cols=48 Identities=17% Similarity=0.155 Sum_probs=33.5
Q ss_pred cHHHHHHHHhcCC------CCCCcccCCC--eEEEeCCCCCHHHHHHHHHHHHHHHHH
Q 030790 62 TLKELECAIVSSP------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 4556667777776 6899997643 2333 366888888888888887553
No 86
>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=31.29 E-value=2.9e+02 Score=22.53 Aligned_cols=19 Identities=5% Similarity=0.076 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030790 110 EDVKQSIRRSRQKALDMMK 128 (171)
Q Consensus 110 E~~k~~iR~iR~~~~~~lk 128 (171)
++++..+..+|+++...+.
T Consensus 60 ~e~e~~l~~a~~ea~~i~~ 78 (246)
T TIGR03321 60 REYEEKNEELDQQREVLLT 78 (246)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344445555554444443
No 87
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=31.16 E-value=2.4e+02 Score=21.60 Aligned_cols=56 Identities=13% Similarity=0.182 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 105 VAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDI 160 (171)
Q Consensus 105 ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l 160 (171)
|....++++..+..+|.++...+.... ...-++....++++++.+.......++.-
T Consensus 69 a~~~~~~~~~~L~~a~~ea~~ii~~a~~~a~~~~~~~~~~A~~e~~~~~~~a~~~i~~e 127 (174)
T PRK07352 69 AAQALAEAQQKLAQAQQEAERIRADAKARAEAIRAEIEKQAIEDMARLKQTAAADLSAE 127 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445555555555555444432 12334455556666666666666665543
No 88
>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=30.99 E-value=96 Score=20.14 Aligned_cols=30 Identities=23% Similarity=0.253 Sum_probs=25.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 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 789999999999999999998888877654
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=29.58 E-value=73 Score=20.63 Aligned_cols=24 Identities=13% Similarity=0.094 Sum_probs=19.0
Q ss_pred eEEEeCCC-CCHHHHHHHHHHHHHH
Q 030790 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
>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=29.10 E-value=30 Score=22.41 Aligned_cols=40 Identities=20% Similarity=0.355 Sum_probs=30.3
Q ss_pred eecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCH
Q 030790 56 NPYDPNTLKELECAIVSSPLGLNPRVDGQRLIAAIPALTK 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 5999999999999999876666666677788888888763
No 91
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=28.82 E-value=2.7e+02 Score=21.37 Aligned_cols=19 Identities=11% Similarity=0.003 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030790 107 KTSEDVKQSIRRSRQKALD 125 (171)
Q Consensus 107 ~~~E~~k~~iR~iR~~~~~ 125 (171)
+...+++...+.++..+..
T Consensus 75 ~~l~~a~~ea~~ii~~A~~ 93 (173)
T PRK13460 75 ARLNSAKDEANAIVAEAKS 93 (173)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333
No 92
>PRK08578 preprotein translocase subunit SecF; Reviewed
Probab=27.98 E-value=3.6e+02 Score=22.81 Aligned_cols=62 Identities=15% Similarity=0.191 Sum_probs=37.5
Q ss_pred EecCCcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHH
Q 030790 46 SVLDSKTLSINPYDPNTLKELECAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKT 108 (171)
Q Consensus 46 ~v~~~~~l~I~p~d~~~i~~I~kaI~~s~l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~~ 108 (171)
--.||..+.++- ++..+..+.+++.+.+.+-.-..+++.+.+.+|..+.+.+.++....++.
T Consensus 47 DF~GGt~~~~~~-~~~~~~~vr~~l~~~~~~~~~~~~~~~~~ir~~~~~~~~~~~~~~~l~~~ 108 (292)
T PRK08578 47 DFTGGTEITIQT-NDASPDELESALSGEPGVDVRKGSGNGYIITFGSGDDTDVDKLADAVKEF 108 (292)
T ss_pred eecCceEEEEec-CCCCHHHHHHHHhhcCCCcceEecCCcEEEEecCCCchHHHHHHHHHHHH
Confidence 445676565543 37788999999987765321112444466777777766666555544433
No 93
>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=27.78 E-value=82 Score=20.18 Aligned_cols=20 Identities=25% Similarity=0.303 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 030790 150 TKKYVKSADDICKAKEKEIN 169 (171)
Q Consensus 150 ~d~~~~~id~l~~~Kekel~ 169 (171)
.|+|+..+..-+..|.+||+
T Consensus 9 ~d~yI~~Lk~kLd~Kk~Eil 28 (56)
T PF08112_consen 9 IDKYISILKSKLDEKKSEIL 28 (56)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 35666666666666666665
No 94
>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=27.74 E-value=2.3e+02 Score=20.27 Aligned_cols=26 Identities=31% Similarity=0.354 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 138 QMKRLEKEIDELTKKYVKSADDICKA 163 (171)
Q Consensus 138 ~~~~~~~~iq~l~d~~~~~id~l~~~ 163 (171)
+.+..-.++....+.|....++++..
T Consensus 106 ~~~~~~~~~~~~~~~y~~~~~~~~~~ 131 (181)
T PF12729_consen 106 EEKQLLEEFKEAWKAYRKLRDQVIEL 131 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677777777777777766553
No 95
>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=27.60 E-value=76 Score=27.05 Aligned_cols=21 Identities=14% Similarity=0.589 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 030790 143 EKEIDELTKKYVKSADDICKA 163 (171)
Q Consensus 143 ~~~iq~l~d~~~~~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 96
>PTZ00436 60S ribosomal protein L19-like protein; Provisional
Probab=27.18 E-value=2.6e+02 Score=24.36 Aligned_cols=83 Identities=16% Similarity=0.165 Sum_probs=50.4
Q ss_pred ec-CCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHH-------------------HHHHHHHHH
Q 030790 57 PY-DPNTLKELECAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAK-------------------TSEDVKQSI 116 (171)
Q Consensus 57 p~-d~~~i~~I~kaI~~s~l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak~-------------------~~E~~k~~i 116 (171)
+| ||+.+..|..||...++- .-..||..+.-++ ..+.-.|-...+..+. .=+.|-..|
T Consensus 22 VWiDPnel~eIa~AiTReDIR-kLIkdGlIikKp~-KGhSRgRaRkr~eaKrKGRhrG~GsRKGTk~AR~P~K~~WIrRI 99 (357)
T PTZ00436 22 VWLDPNEASEISNANSRKSVR-KLIKDGLIIRKPV-KVHSRSRWRHMKEAKSMGRHEGAGRREGTREARMPSKELWMRRL 99 (357)
T ss_pred eeeCHHHHHHHHHhhhHHHHH-HHHHCCCeeecCc-ccCChHHHHHHHHHHHhCcCCCCCCCcCcccccCcHHHHHHHHH
Confidence 55 999999999999877642 1135777666666 4433334433333332 237788889
Q ss_pred HHHHHHHHHHHHhcCCCCChHHHHHHH
Q 030790 117 RRSRQKALDMMKKAGSSLPKDQMKRLE 143 (171)
Q Consensus 117 R~iR~~~~~~lkk~~~~lseD~~~~~~ 143 (171)
|.+|+. +..++.. +.|+.-+++.+-
T Consensus 100 RaLRRl-LKklRd~-gKIDkh~YR~LY 124 (357)
T PTZ00436 100 RILRRL-LRKYREE-KKIDRHIYRELY 124 (357)
T ss_pred HHHHHH-HHHHHhc-CCCCHHHHHHHH
Confidence 999884 4444432 346665555443
No 97
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=26.92 E-value=4e+02 Score=22.71 Aligned_cols=35 Identities=9% Similarity=0.199 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHH
Q 030790 112 VKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEI 146 (171)
Q Consensus 112 ~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~i 146 (171)
++..+.-+++-+.-........++++++..+..++
T Consensus 248 ~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~ 282 (394)
T PRK00411 248 ARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS 282 (394)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 33334444433322322223458888888877776
No 98
>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=26.88 E-value=98 Score=24.59 Aligned_cols=57 Identities=14% Similarity=0.072 Sum_probs=41.1
Q ss_pred CCCCCcc--cCCC--eEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030790 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 4566654 2332 2222355899999999999999999999999998887665555543
No 99
>PTZ00400 DnaK-type molecular chaperone; Provisional
Probab=26.80 E-value=5.5e+02 Score=24.29 Aligned_cols=61 Identities=16% Similarity=0.224 Sum_probs=33.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHH
Q 030790 91 PALTKEHIQAMCKVVAKTSED---------VKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTK 151 (171)
Q Consensus 91 P~~T~E~R~~l~K~ak~~~E~---------~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d 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 468988888888877654332 2332222222223333223345677777777666655443
No 100
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=26.77 E-value=2.8e+02 Score=20.94 Aligned_cols=71 Identities=11% Similarity=0.163 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 98 R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Kekel 168 (171)
|++.+..-=..+++++...-....++...+.... ..+-++-...++...+.+.++.-.+++.+......+|
T Consensus 40 R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~l~~A~~ea~~ii~~A~~~a~~~~~~~l~~A~~ea~~~~~~a~~~I 113 (164)
T PRK14473 40 RTRRIEESLRDAEKVREQLANAKRDYEAELAKARQEAAKIVAQAQERARAQEAEIIAQARREAEKIKEEARAQA 113 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444433334455555555555566655555542 1233333344445555555555555555555544443
No 101
>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=26.55 E-value=2.4e+02 Score=20.03 Aligned_cols=63 Identities=21% Similarity=0.276 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 106 AKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 106 k~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Kekel 168 (171)
-..+++.+...-....++.+.+.... ..+-++-...+++..+....+.-++++.+...-+.+|
T Consensus 39 ~~~a~~~~~ea~~~~~e~~~~l~~a~~ea~~i~~~a~~~a~~~~~~~~~ea~~~~~~~~~~a~~~i 104 (132)
T PF00430_consen 39 LEEAEELKEEAEQLLAEYEEKLAEAREEAQEIIEEAKEEAEKEKEEILAEAEKEAERIIEQAEAEI 104 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455555555555556665555542 1222333334444555555555555555554444433
No 102
>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=26.29 E-value=2.3e+02 Score=19.79 Aligned_cols=57 Identities=11% Similarity=0.239 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 111 DVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 111 ~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Kekel 168 (171)
+|..-|-..|...-..++....... -........|.+-|+..+..+...+......+
T Consensus 37 eA~~ei~~~r~~~e~~~~~~~~~~~-~~~~~~~~~l~~et~~~i~~i~~~~~~~~~~v 93 (105)
T PF03179_consen 37 EAEKEIEEFRAEAEEEFKEKEAEAE-GEAEQEAEELEKETEEKIEEIKKSASKNKDKV 93 (105)
T ss_dssp HHHHHHHHHHHHHHHHHH-S-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 3334444444554555554322111 12345566666777777777766666554443
No 103
>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=26.16 E-value=40 Score=22.82 Aligned_cols=23 Identities=17% Similarity=0.255 Sum_probs=14.4
Q ss_pred CCCeEEEeCCCCCH---HHHHHHHHH
Q 030790 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 66789999998854 567777764
No 104
>smart00101 14_3_3 14-3-3 homologues. 14-3-3 homologues mediates signal transduction by binding to phosphoserine-containing proteins. They are involved in growth factor signalling and also interact with MEK kinases.
Probab=26.14 E-value=3.8e+02 Score=22.21 Aligned_cols=30 Identities=17% Similarity=0.058 Sum_probs=27.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 92 ALTKEHIQAMCKVVAKTSEDVKQSIRRSRQ 121 (171)
Q Consensus 92 ~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~ 121 (171)
.+|.|-|.-|.-.-|.....-|.++|-+..
T Consensus 35 eLt~EERnLLSvayKn~i~~~R~s~R~i~s 64 (244)
T smart00101 35 ELTVEERNLLSVAYKNVIGARRASWRIISS 64 (244)
T ss_pred cCCHHHHHHHHHHHhhhhcccHHHHHHHhH
Confidence 699999999999999999999999998875
No 105
>PF11691 DUF3288: Protein of unknown function (DUF3288); InterPro: IPR021705 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=25.87 E-value=2.5e+02 Score=19.93 Aligned_cols=38 Identities=18% Similarity=0.274 Sum_probs=28.8
Q ss_pred HHHHHHHHHH--------HHHHHHHHHHHHhcCCCCChHHHHHHHHHH
Q 030790 107 KTSEDVKQSI--------RRSRQKALDMMKKAGSSLPKDQMKRLEKEI 146 (171)
Q Consensus 107 ~~~E~~k~~i--------R~iR~~~~~~lkk~~~~lseD~~~~~~~~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 4566666666 57888988999988 49999998766555
No 106
>COG1666 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.70 E-value=57 Score=25.51 Aligned_cols=88 Identities=16% Similarity=0.218 Sum_probs=56.2
Q ss_pred HHHHHHHHHHhhh---ccCCCCcCCCcceEEeeCC-cccccc--------------------ceeeEEecCCcEEEEee-
Q 030790 3 AAIVALSRELTKL---RTGRASPGMLDHIIVETGG-VKMPLN--------------------HLAVVSVLDSKTLSINP- 57 (171)
Q Consensus 3 ~~i~~l~~~l~~i---r~gr~~p~~ld~i~V~~~g-~~~pL~--------------------~lA~I~v~~~~~l~I~p- 57 (171)
.|++.-..+|+.= +.-.++-++-|+-.|...+ +.+.|. ++.-.....|.|+....
T Consensus 20 NAve~A~kel~sR~Dfkg~~~~iel~e~e~i~l~s~sdf~l~ql~DIl~~kliKRgi~~k~~d~~~~~~~sG~~~~~~~k 99 (165)
T COG1666 20 NAVENANKELASRFDFKGVKASIELKENETIKLTSESDFQLEQLKDILRSKLIKRGISGKALDIPKEEVASGKTVRQEAK 99 (165)
T ss_pred HHHHHHHHHHHhhhccCCCcceEecCCCceEEEeecchhhHHHHHHHHHHHHHHcCCChhhccccchhhhcCCeEEEeeh
Confidence 4556666666543 3336666666644444322 123332 23334455666666554
Q ss_pred ----cCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeC
Q 030790 58 ----YDPNTLKELECAIVSSPLGLNPRVDGQRLIAAI 90 (171)
Q Consensus 58 ----~d~~~i~~I~kaI~~s~l~~~p~~dg~~i~v~i 90 (171)
-+....+.|.+-|.+|.+-++.+..|..|||+=
T Consensus 100 lkqGI~~e~AKKI~KlIkDsklKVqaqIQGdqVRVtg 136 (165)
T COG1666 100 LKQGIESENAKKIVKLIKDSKLKVQAQIQGDQVRVTG 136 (165)
T ss_pred HhhhhhHHHHHHHHHHHHhcccceeeeeccceEEEec
Confidence 267788999999999999999999999999763
No 107
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=25.69 E-value=1.2e+02 Score=31.32 Aligned_cols=48 Identities=21% Similarity=0.349 Sum_probs=36.6
Q ss_pred CCCcHHHHHHHHhcCC---CCCCcccCCCeEEEeCCCCCHHHHHHHHHHHH
Q 030790 59 DPNTLKELECAIVSSP---LGLNPRVDGQRLIAAIPALTKEHIQAMCKVVA 106 (171)
Q Consensus 59 d~~~i~~I~kaI~~s~---l~~~p~~dg~~i~v~iP~~T~E~R~~l~K~ak 106 (171)
.+-.+....+|+.+-. .|-+-.+|++.-..-++++|.|.|.++++++-
T Consensus 485 t~~NV~elr~aViNGP~~hPGA~~iqd~dg~~t~l~~~~~~qR~alA~qLL 535 (1640)
T KOG0262|consen 485 TPWNVNELRKAVINGPDVHPGATYIQDEDGTLTLLSPMTDEQREALANQLL 535 (1640)
T ss_pred CcccHHHHHHHHhcCCCCCCCcceeecCCCceeecCCCCHHHHHHHHHHhh
Confidence 3447889999998753 46666677776667777999999999998654
No 108
>PLN02372 violaxanthin de-epoxidase
Probab=25.65 E-value=5.1e+02 Score=23.62 Aligned_cols=72 Identities=14% Similarity=0.202 Sum_probs=50.0
Q ss_pred cCCCcHHHHHHHHhcCCCCCCcc--cCCC-----eEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 58 YDPNTLKELECAIVSSPLGLNPR--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 34789999999999998887643 2322 111122233345566778888888888888899999988888877
No 109
>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=25.43 E-value=1.5e+02 Score=17.27 Aligned_cols=26 Identities=31% Similarity=0.344 Sum_probs=15.9
Q ss_pred HHHHHHHHHHH--HHHHHHHHHHHHhhh
Q 030790 144 KEIDELTKKYV--KSADDICKAKEKEIN 169 (171)
Q Consensus 144 ~~iq~l~d~~~--~~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 34444444443 357778888888874
No 110
>KOG0225 consensus Pyruvate dehydrogenase E1, alpha subunit [Energy production and conversion]
Probab=25.38 E-value=1.4e+02 Score=26.41 Aligned_cols=37 Identities=22% Similarity=0.320 Sum_probs=27.1
Q ss_pred HHHHHHHhc--C-CCCChHHHHHHHHHHHHHHHHHHHHHH
Q 030790 122 KALDMMKKA--G-SSLPKDQMKRLEKEIDELTKKYVKSAD 158 (171)
Q Consensus 122 ~~~~~lkk~--~-~~lseD~~~~~~~~iq~l~d~~~~~id 158 (171)
|=+..+|+. . +-.+|++++.++++|.+.+|+-++.++
T Consensus 315 DPI~~lk~~li~~~late~ELKai~k~irkeVdeav~~A~ 354 (394)
T KOG0225|consen 315 DPIEGLKKRLIELGLATEEELKAIDKEIRKEVDEAVAFAT 354 (394)
T ss_pred ChHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 444455542 1 346999999999999999998887665
No 111
>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=25.18 E-value=1.3e+02 Score=22.69 Aligned_cols=49 Identities=18% Similarity=0.218 Sum_probs=33.2
Q ss_pred HhcCCCCCCcccCCCe-----------EEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 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 3346667666554432 244455779999999999999988876655543
No 112
>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=25.09 E-value=2e+02 Score=18.51 Aligned_cols=47 Identities=9% Similarity=0.200 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHH
Q 030790 104 VVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKK 152 (171)
Q Consensus 104 ~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~ 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 456778899999999999888877643 57889999999999888765
No 113
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=25.02 E-value=2.4e+02 Score=26.31 Aligned_cols=68 Identities=7% Similarity=0.095 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 97 HIQAMCKVVAKT--SEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVKSADDICKAK 164 (171)
Q Consensus 97 ~R~~l~K~ak~~--~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~K 164 (171)
.|.++.+.+.++ .-++=.++|..+|+++.+|.-..+-+.=..+..+.+.|++....+-..++.++.+=
T Consensus 316 dktei~~L~eqLt~vr~ya~aLRaq~HEfmNkLhtI~GLlql~~yd~a~~~I~~~~~~qq~~~~~l~~~i 385 (537)
T COG3290 316 DKTEIKKLTEQLTGVRQYAEALRAQSHEFMNKLHTILGLLQLGEYDDALDYIQQESEEQQELIDSLSEKI 385 (537)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhhccHHHHHHHHHHHHhhhhhhHHHHHHhc
Confidence 355555555543 34566789999999999998754434556778888999999988888888776553
No 114
>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=24.98 E-value=1.1e+02 Score=19.70 Aligned_cols=24 Identities=17% Similarity=0.209 Sum_probs=19.0
Q ss_pred eEEEeCCC-CCHHHHHHHHHHHHHH
Q 030790 85 RLIAAIPA-LTKEHIQAMCKVVAKT 108 (171)
Q Consensus 85 ~i~v~iP~-~T~E~R~~l~K~ak~~ 108 (171)
.-.+.||| +|.+.|.-+=..|.+.
T Consensus 16 ~~~l~Fpp~ls~~eR~~vH~~a~~~ 40 (59)
T cd06007 16 NEEYEFPSSLTNHERAVIHRLCRKL 40 (59)
T ss_pred ccEEEcCCCCCHHHHHHHHHHHHHc
Confidence 46678998 9999998887776654
No 115
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=24.90 E-value=3e+02 Score=20.65 Aligned_cols=26 Identities=8% Similarity=0.193 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 104 VVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 104 ~ak~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
.|....++++..+..+|.++...+..
T Consensus 51 eA~~~~~~~e~~L~~A~~ea~~ii~~ 76 (159)
T PRK09173 51 EAQQLLAEYQRKRKEAEKEAADIVAA 76 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444555555555555555443
No 116
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=24.76 E-value=3.1e+02 Score=20.71 Aligned_cols=72 Identities=14% Similarity=0.208 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030790 97 HIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADDICKAKEKEI 168 (171)
Q Consensus 97 ~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~l~~~Kekel 168 (171)
.|++.+..--..+++++...-..+.++...+.... ..+-++-....+...+.+.++.-.+++.+....+.+|
T Consensus 39 ~R~~~I~~~l~~A~~~~~ea~~~~~e~e~~l~~A~~ea~~ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~a~~~i 113 (164)
T PRK14471 39 EREDSIKNALASAEEARKEMQNLQADNERLLKEARAERDAILKEAREIKEKMIADAKEEAQVEGDKMIEQAKASI 113 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444466666666666666666665542 1122222223333444444444445555554444433
No 117
>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=24.69 E-value=68 Score=22.26 Aligned_cols=73 Identities=23% Similarity=0.275 Sum_probs=40.0
Q ss_pred eEEeeCCccccccceeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCC---Ccc---cCCCeEEEeCCCCCHHHHHHH
Q 030790 28 IIVETGGVKMPLNHLAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGL---NPR---VDGQRLIAAIPALTKEHIQAM 101 (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~~l 101 (171)
|+|......-.|.-+|+|+.-|. ++|+=. + |.++.-|+ .|+ .+|..--+.. |+|.|.|+++
T Consensus 6 Vri~~~~~~~~lka~asV~~dd~--f~I~~i-----k-----Vieg~~GlFVaMPs~k~~~g~y~Di~~-Pitke~Re~i 72 (84)
T PF04026_consen 6 VRIRKIEPEGKLKAFASVTFDDC--FVIHDI-----K-----VIEGEKGLFVAMPSRKSKDGEYKDICH-PITKEFREQI 72 (84)
T ss_dssp EEEEETTSSSSEEEEEEEEETTT--EEEEEE-----E-----EEEETTEEEEE--EEE-TTS-EEESEE-ESSHHHHHHH
T ss_pred EEEEEecCCCCEEEEEEEEECCE--EEEEeE-----E-----EEECCCCcEEECCCcCCCCCCEEEEEE-ECCHHHHHHH
Confidence 45544433366888888888664 443310 0 01111121 133 2345444555 7899999999
Q ss_pred HHHHHHHHHHHH
Q 030790 102 CKVVAKTSEDVK 113 (171)
Q Consensus 102 ~K~ak~~~E~~k 113 (171)
-..+=+..+++|
T Consensus 73 ~~aVl~aY~~~~ 84 (84)
T PF04026_consen 73 EEAVLDAYEEAK 84 (84)
T ss_dssp HHHHHHHHHHS-
T ss_pred HHHHHHHHHhcC
Confidence 998877766653
No 118
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=24.44 E-value=3e+02 Score=20.48 Aligned_cols=32 Identities=9% Similarity=0.057 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 98 IQAMCKVVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 98 R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
|++.+..-=..+++++......+.++...+..
T Consensus 39 R~~~I~~~l~~A~~~~~ea~~~~~e~e~~l~~ 70 (141)
T PRK08476 39 RNASIKNDLEKVKTNSSDVSEIEHEIETILKN 70 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44433333344555555555555555555544
No 119
>PRK09579 multidrug efflux protein; Reviewed
Probab=24.11 E-value=1e+02 Score=30.76 Aligned_cols=31 Identities=32% Similarity=0.481 Sum_probs=25.7
Q ss_pred CCCCcCCCcceEEee-CCccccccceeeEEec
Q 030790 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 4667999999999855
No 120
>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=23.81 E-value=1.6e+02 Score=19.04 Aligned_cols=30 Identities=10% Similarity=0.164 Sum_probs=23.0
Q ss_pred eEEecCCcEEEEeecCCCcHHHHHHHHhcC
Q 030790 44 VVSVLDSKTLSINPYDPNTLKELECAIVSS 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 577787778888777777888888887653
No 121
>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=23.72 E-value=1.4e+02 Score=22.40 Aligned_cols=60 Identities=7% Similarity=0.097 Sum_probs=39.4
Q ss_pred HhcCCCCCCcccCCC--eEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 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 344444444433332 222678899999999999999999999999999888644445543
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=23.53 E-value=3.9e+02 Score=22.78 Aligned_cols=19 Identities=16% Similarity=0.401 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 030790 111 DVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 111 ~~k~~iR~iR~~~~~~lkk 129 (171)
+++..++..|.+..+.+.|
T Consensus 255 e~~~K~~k~R~~~~~~~~K 273 (321)
T PF07946_consen 255 EAKKKAKKNREEEEEKILK 273 (321)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444555555544444
No 123
>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=23.45 E-value=1.6e+02 Score=20.20 Aligned_cols=40 Identities=23% Similarity=0.213 Sum_probs=25.1
Q ss_pred HHHHHHHhhhccCCCCcCCCcceEEee--CCccccccceeeE
Q 030790 6 VALSRELTKLRTGRASPGMLDHIIVET--GGVKMPLNHLAVV 45 (171)
Q Consensus 6 ~~l~~~l~~ir~gr~~p~~ld~i~V~~--~g~~~pL~~lA~I 45 (171)
+++++.|.+...+-..|++++.|.|.- =|...|.-.-+.+
T Consensus 19 ~~i~~~L~~kL~~i~~P~fl~~i~v~~~~lG~~~P~i~~~~~ 60 (91)
T PF10296_consen 19 DKIKEKLQKKLNKIKLPSFLDEISVTELDLGDSPPIISNVRI 60 (91)
T ss_pred HHHHHHHHHHHccccCCCccCcEEEEEEECCCCCCEEEeccc
Confidence 444445554444433999999999964 3788885444443
No 124
>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=23.36 E-value=3.3e+02 Score=23.55 Aligned_cols=62 Identities=18% Similarity=0.251 Sum_probs=43.7
Q ss_pred eEEEeCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHH
Q 030790 85 RLIAAIPALTKEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKK 152 (171)
Q Consensus 85 ~i~v~iP~~T~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~ 152 (171)
.-+..+|..+. ..+.+...++..++.++..|+.+.........++..+ ..++.+.+++|.+.
T Consensus 40 ~~~~~~~~~~~-s~Edlk~~~k~~~~k~~e~i~kl~~~l~~~~~~~~~~-----~~~~~~r~~~L~~~ 101 (339)
T PF12699_consen 40 TPRSAEESVAV-SLEDLKERAKEAGKKIKEFIKKLIADLKDYAVKFMSG-----IERVEERIDKLQER 101 (339)
T ss_pred Ccccchhhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-----HHHHHHHHHHHHHH
Confidence 34445544443 6778888899999999999999999888888877532 34555555555443
No 125
>smart00678 WWE Domain in Deltex and TRIP12 homologues. Possibly involved in regulation of ubiquitin-mediated proteolysis.
Probab=23.20 E-value=98 Score=20.11 Aligned_cols=40 Identities=23% Similarity=0.279 Sum_probs=29.5
Q ss_pred eecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCH
Q 030790 56 NPYDPNTLKELECAIVSSPLGLNPRVDGQRLIAAIPALTK 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 4999999999999999765444444556666677777654
No 126
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=23.16 E-value=3.5e+02 Score=20.81 Aligned_cols=26 Identities=15% Similarity=0.152 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030790 104 VVAKTSEDVKQSIRRSRQKALDMMKK 129 (171)
Q Consensus 104 ~ak~~~E~~k~~iR~iR~~~~~~lkk 129 (171)
.+..+.++++..++..|+++...+..
T Consensus 53 eA~~l~~e~e~~L~~Ar~EA~~Ii~~ 78 (154)
T PRK06568 53 DAALLFEQTNAQIKKLETLRSQMIEE 78 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555556666655555544
No 127
>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=23.00 E-value=1.5e+02 Score=18.92 Aligned_cols=34 Identities=21% Similarity=0.254 Sum_probs=27.4
Q ss_pred CCcceEEeeCCccccccceeeEEecCCcEEEEeec
Q 030790 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 6789999999998887 666677788888887764
No 128
>cd04932 ACT_AKiii-LysC-EC_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The E. coli AKIII (LysC) binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.88 E-value=2.3e+02 Score=18.65 Aligned_cols=36 Identities=3% Similarity=-0.022 Sum_probs=27.5
Q ss_pred ecCCCcHHHHHHHHhcCCCCCCccc-CCCeEEEeCCC
Q 030790 57 PYDPNTLKELECAIVSSPLGLNPRV-DGQRLIAAIPA 92 (171)
Q Consensus 57 p~d~~~i~~I~kaI~~s~l~~~p~~-dg~~i~v~iP~ 92 (171)
|.++..+..|..++.+.++++--.. ....+.+++|.
T Consensus 12 ~~~~g~~~~IF~~La~~~I~VDmI~~s~~~iSftv~~ 48 (75)
T cd04932 12 LHAQGFLAKVFGILAKHNISVDLITTSEISVALTLDN 48 (75)
T ss_pred CCCcCHHHHHHHHHHHcCCcEEEEeecCCEEEEEEec
Confidence 5679999999999999987665331 33678888876
No 129
>PRK04098 sec-independent translocase; Provisional
Probab=22.43 E-value=3.8e+02 Score=20.91 Aligned_cols=56 Identities=14% Similarity=0.191 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHH
Q 030790 95 KEHIQAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKY 153 (171)
Q Consensus 95 ~E~R~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~ 153 (171)
.++-=++++.+.+..-.+|..+..++......++-.. -.++...+++.++......
T Consensus 22 P~KLP~~~r~lGk~ir~~K~~~~~~k~~l~~Ei~~~e---lk~e~~k~k~~l~~~~~~l 77 (158)
T PRK04098 22 PDKLPQAMVDIAKFFKAVKKTINDAKSTLDKEINIEE---IKEEALKYKKEFESAVESL 77 (158)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH---HHHHHHHHHHHHHHHHHHH
Confidence 3444566777777777777777777777666664211 1233345555555555543
No 130
>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=22.40 E-value=1.5e+02 Score=17.44 Aligned_cols=31 Identities=16% Similarity=0.270 Sum_probs=19.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 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 6689999999998876555555555555554
No 131
>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=22.31 E-value=3.1e+02 Score=21.19 Aligned_cols=57 Identities=12% Similarity=0.175 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHH
Q 030790 99 QAMCKVVAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVK 155 (171)
Q Consensus 99 ~~l~K~ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~ 155 (171)
-++.+.|.++.++...+++.+=++..+.-+... .+..++.....+.-++...+.+-+
T Consensus 84 Pev~~qa~~l~e~lQ~~vq~l~~E~qk~~k~v~~~~~~~~e~l~~~~K~~~D~~~k~~~~ 143 (155)
T PF07464_consen 84 PEVEKQANELQEKLQSAVQSLVQESQKLAKEVSENSEGANEKLQPAIKQAYDDAVKAAQK 143 (155)
T ss_dssp HHHHHT-SSSHHHHHHHHHHHHHHHHHHHHHHHS---SS-GGGHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence 356667777777777777777766666555542 345555554444444444443333
No 132
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=22.16 E-value=2.4e+02 Score=18.40 Aligned_cols=52 Identities=23% Similarity=0.272 Sum_probs=36.4
Q ss_pred cceEEeeCCccccccc---eeeEEecCCcEEEEeecCCCcHHHHHHHHhcCCCCCC
Q 030790 26 DHIIVETGGVKMPLNH---LAVVSVLDSKTLSINPYDPNTLKELECAIVSSPLGLN 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 4477888776555554 4444444555588888888899999999998876 44
No 133
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.03 E-value=68 Score=23.08 Aligned_cols=20 Identities=40% Similarity=0.556 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 030790 108 TSEDVKQSIRRSRQKALDMM 127 (171)
Q Consensus 108 ~~E~~k~~iR~iR~~~~~~l 127 (171)
..|.++.++|++|+..-+..
T Consensus 74 eseeake~irq~rq~~EklA 93 (103)
T COG4847 74 ESEEAKESIRQVRQEVEKLA 93 (103)
T ss_pred ccHHHHHHHHHHHHHHHHHH
Confidence 35789999999998755443
No 134
>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=21.94 E-value=1.5e+02 Score=24.39 Aligned_cols=53 Identities=19% Similarity=0.266 Sum_probs=32.9
Q ss_pred CcEEEEeecCCCcHHHHHHHHhcCCCCCCcccCCC-------eEEEeCCCCCHHHHHHHHHHH
Q 030790 50 SKTLSINPYDPNTLKELECAIVSSPLGLNPRVDGQ-------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 78999999999665 455554321111223332 677889999987655555544
No 135
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=21.81 E-value=2e+02 Score=23.25 Aligned_cols=58 Identities=7% Similarity=-0.022 Sum_probs=36.2
Q ss_pred ecCCCcHHHHHHHHhcCCCCCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHHHHHHHH
Q 030790 57 PYDPNTLKELECAIVSSPLGLNPRVDGQRLIAAIPALTKEHIQAMCKVVAKTSEDVKQ 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 48 ~~~~~~~~~l~~~l~~~Gl~i~~~~~~~~~~~~~~~~d~~~r~~~~~~~~~~i~~a~~ 105 (284)
T PRK13210 48 DWSKEERLSLVKAIYETGVRIPSMCLSGHRRFPFGSRDPATRERALEIMKKAIRLAQD 105 (284)
T ss_pred cCCHHHHHHHHHHHHHcCCCceEEecccccCcCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3566678899999999988765322111111223345667787777777777766654
No 136
>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=21.80 E-value=2.1e+02 Score=17.64 Aligned_cols=25 Identities=16% Similarity=0.096 Sum_probs=18.1
Q ss_pred EEEeCC--CCCHHHHHHHHHHHHHHHH
Q 030790 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 455554 4799999999997766544
No 137
>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=21.54 E-value=1.3e+02 Score=19.29 Aligned_cols=23 Identities=9% Similarity=0.121 Sum_probs=17.9
Q ss_pred EEEeCCC-CCHHHHHHHHHHHHHH
Q 030790 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 9999998776666553
No 138
>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=21.47 E-value=2.2e+02 Score=17.84 Aligned_cols=54 Identities=17% Similarity=0.171 Sum_probs=34.0
Q ss_pred EEEeecC-CCcHHHHHHHHhcCCCCCCc---cc-CCC--eEEEeCCCCCHHHHHHHHHHHH
Q 030790 53 LSINPYD-PNTLKELECAIVSSPLGLNP---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 5566664 88999999999888766642 22 222 4555565555666666555443
No 139
>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=21.38 E-value=1.9e+02 Score=22.56 Aligned_cols=12 Identities=25% Similarity=0.819 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHH
Q 030790 137 DQMKRLEKEIDE 148 (171)
Q Consensus 137 D~~~~~~~~iq~ 148 (171)
.++..+++++++
T Consensus 161 ~ei~~lk~el~~ 172 (192)
T PF05529_consen 161 EEIEKLKKELEK 172 (192)
T ss_pred HHHHHHHHHHHH
Confidence 344444444444
No 140
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=20.94 E-value=3.7e+02 Score=20.17 Aligned_cols=55 Identities=7% Similarity=0.171 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 105 VAKTSEDVKQSIRRSRQKALDMMKKAG---SSLPKDQMKRLEKEIDELTKKYVKSADD 159 (171)
Q Consensus 105 ak~~~E~~k~~iR~iR~~~~~~lkk~~---~~lseD~~~~~~~~iq~l~d~~~~~id~ 159 (171)
|....++++..+...|.++...+.... ....+.....+..+.+.+..+....+..
T Consensus 55 A~~~~~e~~~~l~~a~~ea~~ii~~a~~~a~~~~~~i~~~A~~ea~~~~~~a~~~i~~ 112 (159)
T PRK13461 55 ARELKLKNERELKNAKEEGKKIVEEYKSKAENVYEEIVKEAHEEADLIIERAKLEAQR 112 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555554444332 1234445555666666666665555554
No 141
>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=20.92 E-value=35 Score=29.30 Aligned_cols=58 Identities=9% Similarity=0.059 Sum_probs=41.1
Q ss_pred cEEEEeecCCCcHHHHHHHHhcCCC-CCCcccCCCeEEEeCCCCCHHHHHHHHHHHHHH
Q 030790 51 KTLSINPYDPNTLKELECAIVSSPL-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 6677788888889999888765443 222233445789999999988887777666553
No 142
>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=20.74 E-value=2e+02 Score=28.49 Aligned_cols=54 Identities=24% Similarity=0.368 Sum_probs=35.8
Q ss_pred CCCCcCCCcceEEeeC-CccccccceeeEEec----------CCcEEEEeec-CCC-cHHHHHHHHh
Q 030790 18 GRASPGMLDHIIVETG-GVKMPLNHLAVVSVL----------DSKTLSINPY-DPN-TLKELECAIV 71 (171)
Q Consensus 18 gr~~p~~ld~i~V~~~-g~~~pL~~lA~I~v~----------~~~~l~I~p~-d~~-~i~~I~kaI~ 71 (171)
-|.+++-|++++|... |..+||.++|++... ..+++.|... .+. ....+.+.+.
T Consensus 768 ~r~~~~~L~~l~i~~~~G~~VpL~~la~i~~~~~~~~I~r~n~~r~itV~a~~~~~~~~~~v~~~~~ 834 (1021)
T PF00873_consen 768 DRQSLEDLENLPIPTPDGRSVPLSQLATIEETQGPSQIRRENGQRTITVSADVAGGDSLGEVSEAVK 834 (1021)
T ss_dssp GSSSGGGGCT-EEEETTSEEEEGGGTEEEEEEEE-SEEEEETTCEEEEEEEEESSSSHHHHHHHHHH
T ss_pred hccChhhhcceEEEeeccccccHHHHhccccccccceEecccCceeeeeccccccCccchhHHHHHH
Confidence 3778999999999984 778999999998843 2455666543 333 3344444443
No 143
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=20.70 E-value=3.4e+02 Score=19.75 Aligned_cols=46 Identities=24% Similarity=0.281 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCC--ChHHHHHHHHHHHHHHHHHHH
Q 030790 110 EDVKQSIRRSRQKALDMMKKAGSSL--PKDQMKRLEKEIDELTKKYVK 155 (171)
Q Consensus 110 E~~k~~iR~iR~~~~~~lkk~~~~l--seD~~~~~~~~iq~l~d~~~~ 155 (171)
..+....-++|.++...|++....+ ..|.+...-++.=..||.|+.
T Consensus 33 ~~a~~e~~~lR~r~~~~Lk~~r~rl~~~~d~v~~~sk~a~~~tD~yV~ 80 (104)
T COG4575 33 SLAGDEAEELRSKAESALKEARDRLGDTGDAVVQRSKAAADATDDYVR 80 (104)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Confidence 3445556667777777777653211 235556666666667777764
No 144
>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=20.55 E-value=2.5e+02 Score=19.22 Aligned_cols=26 Identities=27% Similarity=0.216 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030790 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 44557788999999999998887654
No 145
>PF06037 DUF922: Bacterial protein of unknown function (DUF922); InterPro: IPR010321 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=20.14 E-value=4.1e+02 Score=20.43 Aligned_cols=73 Identities=14% Similarity=0.136 Sum_probs=43.5
Q ss_pred eEEEeCCCCC------HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHH
Q 030790 85 RLIAAIPALT------KEHIQAMCKVVAKTSEDVKQS---IRRSRQKALDMMKKAGSSLPKDQMKRLEKEIDELTKKYVK 155 (171)
Q Consensus 85 ~i~v~iP~~T------~E~R~~l~K~ak~~~E~~k~~---iR~iR~~~~~~lkk~~~~lseD~~~~~~~~iq~l~d~~~~ 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 466655544444332222222 222333344444433 2445889999999999999888
Q ss_pred HHHHH
Q 030790 156 SADDI 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 77754
Done!