Query 027638
Match_columns 221
No_of_seqs 123 out of 153
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 12:57:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027638.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027638hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0718 Molecular chaperone (D 100.0 1.3E-56 2.9E-61 411.3 24.6 211 2-220 280-493 (546)
2 PF11875 DUF3395: Domain of un 100.0 1E-29 2.2E-34 207.2 12.4 103 117-220 1-104 (151)
3 PRK08476 F0F1 ATP synthase sub 96.0 0.1 2.2E-06 41.9 10.3 69 91-159 5-89 (141)
4 PRK13454 F0F1 ATP synthase sub 95.4 0.23 4.9E-06 41.6 10.5 26 94-119 32-57 (181)
5 PRK14472 F0F1 ATP synthase sub 95.4 0.21 4.6E-06 41.3 10.2 69 91-159 16-100 (175)
6 PRK09174 F0F1 ATP synthase sub 94.9 0.31 6.7E-06 41.7 10.0 27 93-119 53-79 (204)
7 PRK14471 F0F1 ATP synthase sub 94.7 0.49 1.1E-05 38.6 10.3 27 93-119 8-34 (164)
8 PRK13461 F0F1 ATP synthase sub 94.6 0.54 1.2E-05 38.1 10.4 29 91-119 3-31 (159)
9 PRK13460 F0F1 ATP synthase sub 94.5 0.53 1.1E-05 38.9 10.3 29 91-119 14-42 (173)
10 PRK13453 F0F1 ATP synthase sub 94.3 0.63 1.4E-05 38.5 10.3 30 90-119 15-44 (173)
11 PRK14473 F0F1 ATP synthase sub 94.1 0.79 1.7E-05 37.4 10.3 29 91-119 6-34 (164)
12 PRK06568 F0F1 ATP synthase sub 93.1 1.3 2.7E-05 36.4 9.9 26 94-119 5-30 (154)
13 PRK14474 F0F1 ATP synthase sub 93.1 1.2 2.5E-05 39.3 10.3 29 91-119 3-31 (250)
14 CHL00118 atpG ATP synthase CF0 92.7 1.4 3.1E-05 35.7 9.8 25 95-119 24-48 (156)
15 PRK05759 F0F1 ATP synthase sub 92.7 1.8 4E-05 34.6 10.2 30 90-120 2-31 (156)
16 TIGR03321 alt_F1F0_F0_B altern 92.6 1.5 3.2E-05 38.3 10.3 29 91-119 3-31 (246)
17 PRK06569 F0F1 ATP synthase sub 91.6 2.5 5.5E-05 34.8 9.9 57 92-148 9-81 (155)
18 PRK06231 F0F1 ATP synthase sub 91.5 2.4 5.3E-05 36.1 10.1 64 96-159 51-130 (205)
19 PRK07352 F0F1 ATP synthase sub 91.1 3.4 7.4E-05 34.0 10.3 29 91-119 17-45 (174)
20 PRK09173 F0F1 ATP synthase sub 91.1 2.7 6E-05 34.0 9.7 27 131-157 56-82 (159)
21 PRK07353 F0F1 ATP synthase sub 90.3 4.6 9.9E-05 31.8 10.0 24 96-119 8-31 (140)
22 PRK08475 F0F1 ATP synthase sub 90.0 3.9 8.4E-05 33.7 9.7 66 94-159 23-104 (167)
23 CHL00019 atpF ATP synthase CF0 88.7 6.6 0.00014 32.6 10.3 29 91-119 22-50 (184)
24 KOG0718 Molecular chaperone (D 87.0 14 0.0003 35.7 12.3 109 2-112 255-383 (546)
25 PRK13455 F0F1 ATP synthase sub 87.0 8.2 0.00018 32.0 9.9 21 97-117 30-50 (184)
26 PRK06531 yajC preprotein trans 86.6 1.1 2.4E-05 35.0 4.1 23 99-121 4-26 (113)
27 TIGR01144 ATP_synt_b ATP synth 84.9 8.8 0.00019 30.4 8.7 16 104-119 6-21 (147)
28 PRK14475 F0F1 ATP synthase sub 84.2 13 0.00029 30.3 9.7 27 131-157 64-90 (167)
29 PRK13428 F0F1 ATP synthase sub 84.2 9.3 0.0002 36.4 9.9 24 96-119 4-27 (445)
30 PF00430 ATP-synt_B: ATP synth 83.8 9.7 0.00021 29.2 8.4 23 97-119 3-25 (132)
31 COG1862 YajC Preprotein transl 83.5 1.9 4E-05 32.8 4.0 26 96-121 7-33 (97)
32 COG0711 AtpF F0F1-type ATP syn 83.1 15 0.00032 30.0 9.5 24 96-119 9-32 (161)
33 KOG4326 Mitochondrial F1F0-ATP 79.6 19 0.00042 26.0 7.7 61 84-146 5-65 (81)
34 PF13568 OMP_b-brl_2: Outer me 78.0 30 0.00066 26.9 9.8 82 2-92 8-99 (173)
35 PRK05886 yajC preprotein trans 76.9 4.8 0.0001 31.3 4.3 23 99-121 5-28 (109)
36 TIGR00739 yajC preprotein tran 76.0 4.9 0.00011 29.6 4.1 20 162-181 36-56 (84)
37 PF06936 Selenoprotein_S: Sele 71.5 14 0.00029 31.5 6.2 12 101-112 42-53 (190)
38 cd07303 Porin3 Eukaryotic pori 69.2 81 0.0017 27.8 11.0 56 2-60 172-231 (274)
39 PF02462 Opacity: Opacity fami 67.0 51 0.0011 26.5 8.2 65 14-78 37-112 (132)
40 PRK00247 putative inner membra 66.9 21 0.00046 34.0 7.1 15 135-149 347-361 (429)
41 PRK05585 yajC preprotein trans 63.5 14 0.0003 28.4 4.3 25 97-121 17-42 (106)
42 PF10669 Phage_Gp23: Protein g 60.7 74 0.0016 24.4 8.3 17 148-164 80-96 (121)
43 PF01459 Porin_3: Eukaryotic p 59.8 1.1E+02 0.0024 26.0 11.4 71 2-74 176-251 (273)
44 PRK09174 F0F1 ATP synthase sub 55.5 1.3E+02 0.0028 25.6 9.7 34 126-159 102-135 (204)
45 PRK13453 F0F1 ATP synthase sub 54.7 1.2E+02 0.0026 24.8 9.5 30 131-160 72-101 (173)
46 PF03895 YadA_anchor: YadA-lik 54.6 75 0.0016 22.5 7.1 38 27-64 24-63 (78)
47 PF02937 COX6C: Cytochrome c o 53.9 41 0.00089 24.2 5.1 31 94-124 19-49 (73)
48 PF07271 Cytadhesin_P30: Cytad 53.3 48 0.001 29.8 6.4 12 117-128 93-104 (279)
49 PRK06568 F0F1 ATP synthase sub 50.6 1.4E+02 0.003 24.4 9.3 32 126-157 53-84 (154)
50 TIGR02962 hdxy_isourate hydrox 49.1 17 0.00037 28.2 2.7 25 66-90 80-104 (112)
51 PRK14474 F0F1 ATP synthase sub 48.8 1.8E+02 0.0039 25.5 9.4 29 131-159 59-87 (250)
52 PRK06569 F0F1 ATP synthase sub 48.7 1.5E+02 0.0033 24.3 10.0 53 89-142 2-54 (155)
53 cd05822 TLP_HIUase HIUase (5-h 46.2 20 0.00044 27.8 2.7 84 4-90 7-104 (112)
54 PF02699 YajC: Preprotein tran 45.9 24 0.00052 25.6 2.9 23 99-121 3-26 (82)
55 COG2351 Transthyretin-like pro 45.0 23 0.0005 28.0 2.8 45 45-89 68-115 (124)
56 PF03179 V-ATPase_G: Vacuolar 44.6 1.2E+02 0.0026 22.5 6.8 42 122-163 15-56 (105)
57 PF00576 Transthyretin: HIUase 44.5 24 0.00053 27.3 2.9 25 66-90 81-105 (112)
58 PF06305 DUF1049: Protein of u 43.6 1E+02 0.0022 20.8 7.3 9 79-87 5-13 (68)
59 PRK14472 F0F1 ATP synthase sub 42.3 1.9E+02 0.0041 23.6 9.5 15 138-152 90-104 (175)
60 cd05469 Transthyretin_like Tra 42.3 22 0.00048 27.7 2.4 25 66-90 80-105 (113)
61 PF10883 DUF2681: Protein of u 42.3 1.4E+02 0.0031 22.2 9.0 23 143-165 44-66 (87)
62 TIGR03321 alt_F1F0_F0_B altern 40.3 2.4E+02 0.0053 24.3 9.6 27 131-157 59-85 (246)
63 PRK15036 hydroxyisourate hydro 40.2 25 0.00055 28.2 2.5 25 66-90 105-129 (137)
64 KOG3006 Transthyretin and rela 39.2 41 0.00089 26.7 3.4 84 4-89 27-123 (132)
65 PRK13461 F0F1 ATP synthase sub 38.4 2E+02 0.0044 22.9 9.6 31 129-159 57-87 (159)
66 PF07946 DUF1682: Protein of u 38.4 3E+02 0.0066 24.9 10.8 11 112-122 249-259 (321)
67 PRK14471 F0F1 ATP synthase sub 38.0 2.1E+02 0.0046 22.9 9.5 31 130-160 61-91 (164)
68 PRK08156 type III secretion sy 37.3 90 0.002 29.1 6.0 25 150-174 234-258 (361)
69 cd07305 Porin3_Tom40 Transloca 37.1 2.9E+02 0.0063 24.2 10.4 55 2-60 178-236 (279)
70 PRK12468 flhB flagellar biosyn 37.0 95 0.0021 29.2 6.1 25 150-174 246-270 (386)
71 PF08781 DP: Transcription fac 36.9 2E+02 0.0044 23.3 7.2 41 126-166 5-48 (142)
72 PRK12772 bifunctional flagella 36.8 84 0.0018 31.3 6.0 25 150-174 502-526 (609)
73 TIGR00328 flhB flagellar biosy 36.8 97 0.0021 28.7 6.1 24 150-173 239-262 (347)
74 COG1377 FlhB Flagellar biosynt 36.7 1.2E+02 0.0026 28.4 6.7 24 150-173 246-269 (363)
75 KOG2302 T-type voltage-gated C 36.4 64 0.0014 34.5 5.1 19 80-101 1349-1367(1956)
76 TIGR01404 FlhB_rel_III type II 36.3 93 0.002 28.7 5.9 24 150-173 238-261 (342)
77 PRK12721 secretion system appa 36.2 97 0.0021 28.7 6.0 24 150-173 239-262 (349)
78 PRK13460 F0F1 ATP synthase sub 36.1 2.4E+02 0.0051 23.0 9.5 70 90-160 18-99 (173)
79 PRK14475 F0F1 ATP synthase sub 35.7 1.9E+02 0.0042 23.4 7.2 21 145-165 100-120 (167)
80 PRK06298 type III secretion sy 35.6 1E+02 0.0022 28.6 6.1 25 150-174 240-264 (356)
81 CHL00118 atpG ATP synthase CF0 35.5 2E+02 0.0044 23.0 7.2 28 130-157 75-102 (156)
82 PRK05702 flhB flagellar biosyn 35.1 1.1E+02 0.0023 28.5 6.1 24 150-173 246-269 (359)
83 PF04357 DUF490: Family of unk 34.6 3.4E+02 0.0073 24.3 10.2 62 13-74 313-377 (379)
84 PRK09098 type III secretion sy 33.1 3.3E+02 0.0071 23.6 8.6 24 89-112 16-39 (233)
85 PF12139 APS-reductase_C: Aden 33.0 38 0.00082 25.0 2.2 40 51-90 4-46 (83)
86 PF01103 Bac_surface_Ag: Surfa 32.8 2.6E+02 0.0056 23.8 7.9 33 2-34 8-40 (323)
87 TIGR03142 cytochro_ccmI cytoch 32.6 75 0.0016 24.4 4.0 9 113-121 16-24 (117)
88 PRK14473 F0F1 ATP synthase sub 32.6 2.6E+02 0.0057 22.4 9.5 31 129-159 60-90 (164)
89 cd05821 TLP_Transthyretin Tran 32.2 39 0.00085 26.7 2.3 25 66-90 86-111 (121)
90 cd00927 Cyt_c_Oxidase_VIc Cyto 31.9 1.3E+02 0.0027 21.6 4.7 30 95-124 18-47 (70)
91 PF01312 Bac_export_2: FlhB Hr 31.9 91 0.002 28.7 5.1 24 150-173 241-264 (343)
92 COG5612 Predicted integral mem 31.7 1.2E+02 0.0027 24.3 5.1 39 116-154 48-86 (148)
93 PF05546 She9_MDM33: She9 / Md 31.6 1.9E+02 0.0042 24.9 6.6 26 102-128 161-186 (207)
94 PRK12705 hypothetical protein; 31.6 4.6E+02 0.0099 25.7 10.0 14 96-109 5-18 (508)
95 KOG4807 F-actin binding protei 31.4 1.4E+02 0.003 28.6 6.1 44 125-168 363-406 (593)
96 PRK13109 flhB flagellar biosyn 31.2 1.4E+02 0.0029 27.8 6.1 25 150-174 248-272 (358)
97 COG3114 CcmD Heme exporter pro 30.7 2E+02 0.0043 20.4 6.0 13 94-106 20-32 (67)
98 KOG3654 Uncharacterized CH dom 30.6 1.5E+02 0.0033 29.2 6.4 8 199-206 520-527 (708)
99 PF07543 PGA2: Protein traffic 30.3 75 0.0016 25.6 3.7 12 111-122 26-37 (140)
100 PRK13455 F0F1 ATP synthase sub 29.5 2.7E+02 0.0059 22.8 7.2 19 94-112 32-50 (184)
101 cd07306 Porin3_VDAC Voltage-de 29.3 3.9E+02 0.0084 23.3 10.6 55 3-60 172-230 (276)
102 PLN03086 PRLI-interacting fact 29.3 2.3E+02 0.0049 28.2 7.5 12 167-178 74-85 (567)
103 PRK08476 F0F1 ATP synthase sub 28.9 2.9E+02 0.0063 21.8 9.5 17 124-140 33-49 (141)
104 PF10960 DUF2762: Protein of u 28.3 2.2E+02 0.0048 20.2 7.1 30 130-159 39-68 (71)
105 PRK09108 type III secretion sy 27.9 1.6E+02 0.0035 27.2 6.0 25 150-174 241-265 (353)
106 CHL00019 atpF ATP synthase CF0 26.8 3.3E+02 0.0071 22.4 7.2 19 133-151 80-98 (184)
107 smart00095 TR_THY Transthyreti 26.4 57 0.0012 25.7 2.3 25 66-90 83-108 (121)
108 PF01093 Clusterin: Clusterin; 26.1 2.8E+02 0.0062 26.6 7.4 39 127-165 35-73 (436)
109 PF14981 FAM165: FAM165 family 25.8 2E+02 0.0043 19.1 4.4 13 100-112 17-29 (51)
110 PRK05759 F0F1 ATP synthase sub 25.7 3.3E+02 0.0072 21.4 9.3 31 131-161 58-88 (156)
111 PF05680 ATP-synt_E: ATP synth 25.4 2.6E+02 0.0056 20.6 5.6 12 105-116 22-33 (86)
112 PF15086 UPF0542: Uncharacteri 25.3 2.7E+02 0.0058 20.2 5.7 14 99-112 28-41 (74)
113 PRK06231 F0F1 ATP synthase sub 25.1 4.2E+02 0.0092 22.4 9.6 43 112-154 62-104 (205)
114 KOG4783 Uncharacterized conser 24.9 67 0.0015 24.5 2.4 23 97-119 36-58 (102)
115 PF12537 DUF3735: Protein of u 24.5 2.2E+02 0.0048 20.0 4.9 12 97-108 27-38 (72)
116 KOG4253 Tryptophan-rich basic 23.9 3.2E+02 0.0069 22.8 6.3 25 94-119 7-31 (175)
117 PF02096 60KD_IMP: 60Kd inner 23.9 4.1E+02 0.0088 21.8 7.7 20 98-119 3-22 (198)
118 PF07795 DUF1635: Protein of u 23.6 2.9E+02 0.0062 24.0 6.3 36 131-166 21-56 (214)
119 PRK13428 F0F1 ATP synthase sub 23.5 3.1E+02 0.0067 26.1 7.2 11 100-110 13-23 (445)
120 PF00430 ATP-synt_B: ATP synth 23.2 3.3E+02 0.0071 20.4 6.2 10 136-145 58-67 (132)
121 PF06210 DUF1003: Protein of u 22.1 3.7E+02 0.008 20.6 9.4 21 89-109 28-49 (108)
122 PRK07353 F0F1 ATP synthase sub 22.0 3.7E+02 0.0081 20.7 7.2 17 96-112 16-32 (140)
123 PF04995 CcmD: Heme exporter p 21.3 1.3E+02 0.0029 19.2 3.0 15 114-128 22-36 (46)
124 KOG2829 E2F-like protein [Tran 21.2 3.3E+02 0.0071 25.0 6.3 53 114-166 124-179 (326)
125 PF10809 DUF2732: Protein of u 21.2 3.3E+02 0.0072 19.8 5.6 38 127-164 37-74 (77)
126 PF13584 BatD: Oxygen toleranc 21.0 1.4E+02 0.0029 28.3 4.2 13 98-110 430-442 (484)
127 PLN03086 PRLI-interacting fact 20.8 3.5E+02 0.0076 26.9 7.0 8 204-211 113-120 (567)
128 TIGR03592 yidC_oxa1_cterm memb 20.6 4.8E+02 0.01 21.3 8.0 19 99-119 3-21 (181)
129 KOG2891 Surface glycoprotein [ 20.6 3.5E+02 0.0075 24.8 6.4 20 147-166 375-394 (445)
130 PRK12773 flhB flagellar biosyn 20.2 2.2E+02 0.0048 28.7 5.5 24 150-173 537-561 (646)
No 1
>KOG0718 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.3e-56 Score=411.33 Aligned_cols=211 Identities=37% Similarity=0.526 Sum_probs=199.2
Q ss_pred ceeEEEEEcccceeEEEEEEEecCCC--ceeeEEEEEccccceeEEeeeeeeccceeEEEEEEEeee-eeEEEEEEEEcc
Q 027638 2 SAAGELKIGTSSFGASAHYTHRFSKK--SHGRIQGRLGSTALELEVGGGRKISEFSTIRMLYSVGIQ-GIFWKFELHRAG 78 (221)
Q Consensus 2 sw~~~~~~g~~~~~is~~y~r~~~~~--~~~r~~~~~gt~g~~~~~g~~rkvs~~s~vg~~v~ig~~-Gv~lk~~~~R~g 78 (221)
+.+.++.+|.++.+....|+|++.++ +++|++.++||+|+.++||++||||+||++|+.+++|++ ||+||++|+|+|
T Consensus 280 s~a~~~~i~sp~~~~~~~y~~k~k~~~es~~kl~~k~gt~G~~ve~g~~RkvSryStv~~~~svgvpsgi~~k~~~~R~~ 359 (546)
T KOG0718|consen 280 SLAVNLEIGSPHMYAGIAYTYKLKNATESQIKLSTKMGTFGLQVEYGTERKVSRYSTVGANVSVGVPSGITLKVKLLRAG 359 (546)
T ss_pred cceeeeEecCCcceeeeeeeeecCccccceeEEEEEeeeeeEEeeccccceeeeceeEEEEEEEcCCcceEEEEeeeccC
Confidence 56788999999999999999999987 999999999999999999999999999999999999995 999999999999
Q ss_pred eEEEEEEEeccCCChhhHHHHhHHHHHHHHHHhhhhcchhhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 79 QKLVVPILLSRHFSSFFATGAFIIPASVYFLLKKFILKPYYLKREKQKALENMEKTSAQVQEAKAAAQKAQQLLQNVANR 158 (221)
Q Consensus 79 Q~~~~PI~Ls~~~~~~~~~~a~v~P~~~y~~~~~~v~~P~~r~~~~~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r 158 (221)
|+|.|||+||+++.|.++|||+++|.++|+.+++|+++||..++++++.+++++++++.+.++|+||+.|+.||+++|+|
T Consensus 360 Q~~~~pI~l~d~~~p~avfya~v~P~~s~F~l~k~v~rP~~~~~k~~~~~~~~ek~~~~~~~Kk~eA~~av~LMq~t~~R 439 (546)
T KOG0718|consen 360 QKYSFPIHLCDELLPSAVFYALVFPITSYFGLKKFVLRPYLLKRKKRERLLRREKLKDSVEAKKVEAERAVKLMQETAER 439 (546)
T ss_pred cEEEEEEEeechhhhhhhhhhhhHHHHHHHHHHHHeecHHHHhhHhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCceEEEEEEecCCCCcccCCCCCCCCccCCCceEEeeeeeeeeeecCCcEEEec
Q 027638 159 KRNKQLEIGGLIITKAVYGARKALTKLGETGESSDELASQVLDVTLPLNFLVNDSGRLKVWF 220 (221)
Q Consensus 159 ~~~~E~~k~GLVI~~A~YG~~~~~~~~~~~~~~~~~~~~~~iDVTIplq~lV~dSgqL~l~~ 220 (221)
+++.|++|+||||++|+||+....+. .+..++.+||||||+||||+|| ||.||+
T Consensus 440 i~~~E~~k~GLII~~A~Yg~~~~~~~-------~~~~~~~~iDVTVpiq~lV~~s-qL~l~e 493 (546)
T KOG0718|consen 440 IKKLEEEKGGLIIEYAEYGVVNAGGT-------RANEPELVIDVTVPIQALVKNS-QLALHE 493 (546)
T ss_pred HHHHHHhcCceEEEEeeecccccccc-------ccCCCcceEEEEEEhhheeccC-eEEeee
Confidence 99999999999999999999876432 1223457999999999999998 999995
No 2
>PF11875 DUF3395: Domain of unknown function (DUF3395); InterPro: IPR024586 Chaperone DnaJ was originally characterised from Escherichia coli as a 41 kDa heat shock protein. DnaJ has a modular structure consisting of a J-domain, a proximal G/F-domain, and a distal zinc finger domain, followed by less conserved C-terminal sequences. Since then, a large number of DnaJ-related proteins containing a J-domain have been characterised from a variety of different organisms. In the genome of Arabidopsis thaliana a total of 89 J-domain proteins have been identified []. This entry represents a C-terminal domain found in some eukaryotic DnaJ-like proteins, including member 11 from the subfamily C1 and protein DnaJ 13 from Arabidopsis. This domain is typically between 147 to 176 amino acids in length.
Probab=99.96 E-value=1e-29 Score=207.18 Aligned_cols=103 Identities=38% Similarity=0.543 Sum_probs=89.5
Q ss_pred hhhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceEEEEEEecCCCCcccCCCCCCC-CccC
Q 027638 117 PYYLKREKQKALENMEKTSAQVQEAKAAAQKAQQLLQNVANRKRNKQLEIGGLIITKAVYGARKALTKLGETGES-SDEL 195 (221)
Q Consensus 117 P~~r~~~~~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~~~~E~~k~GLVI~~A~YG~~~~~~~~~~~~~~-~~~~ 195 (221)
|+.++++++++++++++++++++++|+||+++++||+++|+|++++|++++||||++|+||+.++..+...+..+ ....
T Consensus 1 P~~~~~~~~~~~~~r~~~~~~~~~~r~eA~~~~~lm~~~a~r~~~~E~~~~GLVI~~A~YG~~~~~~~~~~~~~~~~~~~ 80 (151)
T PF11875_consen 1 PYRRRRKKREIEEQREKNKEEIAEKRAEAESAIELMKETAERKQRKEEEKGGLVILKAWYGNLPAKSDESNNDEPEDPDL 80 (151)
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEEcCCcccccccccccccccccc
Confidence 899999999999999999999999999999999999999999999999999999999999999874332111110 1124
Q ss_pred CCceEEeeeeeeeeeecCCcEEEec
Q 027638 196 ASQVLDVTLPLNFLVNDSGRLKVWF 220 (221)
Q Consensus 196 ~~~~iDVTIplq~lV~dSgqL~l~~ 220 (221)
.+++|||||||||||+|| +|+||.
T Consensus 81 ~~~~iDVTipLq~lV~dS-~L~l~~ 104 (151)
T PF11875_consen 81 DPPVIDVTIPLQALVKDS-QLILPE 104 (151)
T ss_pred cCcEEEEhhhhhhEeecC-EEEEcC
Confidence 568999999999999998 999997
No 3
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=96.02 E-value=0.1 Score=41.94 Aligned_cols=69 Identities=14% Similarity=0.241 Sum_probs=43.0
Q ss_pred CChhhHHHHhHHHHHHHHHHhhhhcchhhhHHH----------------HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 027638 91 FSSFFATGAFIIPASVYFLLKKFILKPYYLKRE----------------KQKALENMEKTSAQVQEAKAAAQKAQQLLQN 154 (221)
Q Consensus 91 ~~~~~~~~a~v~P~~~y~~~~~~v~~P~~r~~~----------------~~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~ 154 (221)
++|+..+|-.+.=+++|+++++|+++|..+--+ +.+..+.+++.++.+..+|+||....+-..+
T Consensus 5 l~~~~~~~qli~Flil~~~l~kfl~kPi~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~e~e~~l~~Ar~eA~~~~~~a~~ 84 (141)
T PRK08476 5 VNPYLMLATFVVFLLLIVILNSWLYKPLLKFMDNRNASIKNDLEKVKTNSSDVSEIEHEIETILKNAREEANKIRQKAIA 84 (141)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566667777778888889999999999763211 1122233445555566667766666555555
Q ss_pred HHHHH
Q 027638 155 VANRK 159 (221)
Q Consensus 155 ~a~r~ 159 (221)
.|+..
T Consensus 85 ~A~~e 89 (141)
T PRK08476 85 KAKEE 89 (141)
T ss_pred HHHHH
Confidence 44443
No 4
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=95.40 E-value=0.23 Score=41.55 Aligned_cols=26 Identities=15% Similarity=0.170 Sum_probs=21.1
Q ss_pred hhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 94 FFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 94 ~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
.-+||..+.=++.|+++++|++.|..
T Consensus 32 ~q~~~~lI~F~iL~~ll~k~l~~PI~ 57 (181)
T PRK13454 32 NQIFWLLVTLVAIYFVLTRVALPRIG 57 (181)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35778888888888889999899965
No 5
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=95.39 E-value=0.21 Score=41.30 Aligned_cols=69 Identities=22% Similarity=0.151 Sum_probs=41.0
Q ss_pred CChhhHHHHhHHHHHHHHHHhhhhcchhhhH---HHH-------------HHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 027638 91 FSSFFATGAFIIPASVYFLLKKFILKPYYLK---REK-------------QKALENMEKTSAQVQEAKAAAQKAQQLLQN 154 (221)
Q Consensus 91 ~~~~~~~~a~v~P~~~y~~~~~~v~~P~~r~---~~~-------------~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~ 154 (221)
++|...||-.+.=++.++++.+|+++|..+- |++ .+..+..+++++++.++|.+|.+.++-.+.
T Consensus 16 ~~~~~~~~~~i~Flil~~lL~~~l~kpi~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~a~~ea~~ii~~A~~ 95 (175)
T PRK14472 16 PNPGLIFWTAVTFVIVLLILKKIAWGPILSALEEREKGIQSSIDRAHSAKDEAEAILRKNRELLAKADAEADKIIREGKE 95 (175)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566777877877888888999999996532 111 111222334455556666666655555555
Q ss_pred HHHHH
Q 027638 155 VANRK 159 (221)
Q Consensus 155 ~a~r~ 159 (221)
.+++.
T Consensus 96 ~a~~~ 100 (175)
T PRK14472 96 YAEKL 100 (175)
T ss_pred HHHHH
Confidence 54443
No 6
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=94.89 E-value=0.31 Score=41.68 Aligned_cols=27 Identities=15% Similarity=0.041 Sum_probs=21.1
Q ss_pred hhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 93 SFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 93 ~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
|+-+||-.+.=++.|+++.++++.|..
T Consensus 53 ~~~l~w~~I~FliL~~lL~k~~~~pI~ 79 (204)
T PRK09174 53 ASQLLWLAITFGLFYLFMSRVILPRIG 79 (204)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777777778888889998888865
No 7
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=94.67 E-value=0.49 Score=38.60 Aligned_cols=27 Identities=26% Similarity=0.166 Sum_probs=21.7
Q ss_pred hhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 93 SFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 93 ~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
|...||-++.=++.|+++++|+++|..
T Consensus 8 ~~~~~~~~i~Flil~~ll~~~l~~pi~ 34 (164)
T PRK14471 8 FGLFFWQTILFLILLLLLAKFAWKPIL 34 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 456777777778888889999999965
No 8
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=94.58 E-value=0.54 Score=38.12 Aligned_cols=29 Identities=14% Similarity=0.130 Sum_probs=23.5
Q ss_pred CChhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 91 FSSFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 91 ~~~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
++|...+|-++.=+++++++.+|+++|..
T Consensus 3 ~~~~~~~~~~inF~il~~iL~~f~~kpi~ 31 (159)
T PRK13461 3 INIPTIIATIINFIILLLILKHFFFDKIK 31 (159)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 57777778777778888889999999965
No 9
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=94.53 E-value=0.53 Score=38.86 Aligned_cols=29 Identities=17% Similarity=0.156 Sum_probs=22.1
Q ss_pred CChhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 91 FSSFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 91 ~~~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
++|...||.++.=++.++++.+|+++|..
T Consensus 14 ~~~~~~~~~~i~Flil~~iL~~~~~kpi~ 42 (173)
T PRK13460 14 VNPGLVVWTLVTFLVVVLVLKKFAWDVIL 42 (173)
T ss_pred CcHhHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 45556777777777788888888889965
No 10
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=94.29 E-value=0.63 Score=38.49 Aligned_cols=30 Identities=20% Similarity=0.063 Sum_probs=23.9
Q ss_pred CCChhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 90 HFSSFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 90 ~~~~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
.++|...||-.+.=+++++++.+|+++|..
T Consensus 15 ~~~~~t~~~~iInFliL~~lL~~~l~~pi~ 44 (173)
T PRK13453 15 GVEWGTVIVTVLTFIVLLALLKKFAWGPLK 44 (173)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777778777778888899999999966
No 11
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=94.07 E-value=0.79 Score=37.36 Aligned_cols=29 Identities=21% Similarity=0.336 Sum_probs=23.0
Q ss_pred CChhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 91 FSSFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 91 ~~~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
++|...+|-++-=+++++++.+|+++|..
T Consensus 6 ~~~~~~~~~~inflil~~lL~~fl~kpi~ 34 (164)
T PRK14473 6 INLGLLIAQLINFLLLIFLLRTFLYRPVL 34 (164)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666777777777888889999999965
No 12
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=93.15 E-value=1.3 Score=36.43 Aligned_cols=26 Identities=8% Similarity=-0.171 Sum_probs=20.1
Q ss_pred hhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 94 FFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 94 ~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
...||-++.=++.++++++|.++|..
T Consensus 5 ~~~fwq~I~FlIll~ll~kfawkPI~ 30 (154)
T PRK06568 5 DESFWLAVSFVIFVYLIYRPAKKAIL 30 (154)
T ss_pred HhHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 34677777777777889999999965
No 13
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=93.09 E-value=1.2 Score=39.29 Aligned_cols=29 Identities=24% Similarity=0.428 Sum_probs=22.5
Q ss_pred CChhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 91 FSSFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 91 ~~~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
++|..+++-++-=+++++++++|+++|..
T Consensus 3 id~~t~~~qiInFlILv~lL~~fl~kPi~ 31 (250)
T PRK14474 3 IDWFTVVAQIINFLILVYLLRRFLYKPII 31 (250)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777777777788889999999965
No 14
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=92.73 E-value=1.4 Score=35.67 Aligned_cols=25 Identities=16% Similarity=0.083 Sum_probs=19.0
Q ss_pred hHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 95 FATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 95 ~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
..+|-.+.-++.++++++|+++|..
T Consensus 24 t~~~~~inFliL~~lL~k~l~~Pi~ 48 (156)
T CHL00118 24 TLPLMALQFLLLMVLLNIILYKPLL 48 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666677888888999999964
No 15
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=92.66 E-value=1.8 Score=34.64 Aligned_cols=30 Identities=17% Similarity=0.330 Sum_probs=19.7
Q ss_pred CCChhhHHHHhHHHHHHHHHHhhhhcchhhh
Q 027638 90 HFSSFFATGAFIIPASVYFLLKKFILKPYYL 120 (221)
Q Consensus 90 ~~~~~~~~~a~v~P~~~y~~~~~~v~~P~~r 120 (221)
++++ ..||.++.=++.|+++++++++|..+
T Consensus 2 ~~~~-~~~~~~i~Flil~~il~~~~~~pi~~ 31 (156)
T PRK05759 2 NLNG-TLIGQLIAFLILVWFIMKFVWPPIMK 31 (156)
T ss_pred CchH-HHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 3443 34555566666777788888999653
No 16
>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=92.62 E-value=1.5 Score=38.28 Aligned_cols=29 Identities=24% Similarity=0.424 Sum_probs=22.4
Q ss_pred CChhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 91 FSSFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 91 ~~~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
++|...++-++-=+++++++++|+++|..
T Consensus 3 id~~t~~~qiInFlil~~lL~kfl~kPi~ 31 (246)
T TIGR03321 3 IDWFTVIAQLINFLILVWLLKRFLYRPIL 31 (246)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 56666777777777888888898899965
No 17
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=91.63 E-value=2.5 Score=34.76 Aligned_cols=57 Identities=9% Similarity=0.018 Sum_probs=35.0
Q ss_pred ChhhHHHHhHHHHHHHHHHhhhhcchhhhH---HH-------------HHHHHHHHHHhHHHHHHHHHHHHHH
Q 027638 92 SSFFATGAFIIPASVYFLLKKFILKPYYLK---RE-------------KQKALENMEKTSAQVQEAKAAAQKA 148 (221)
Q Consensus 92 ~~~~~~~a~v~P~~~y~~~~~~v~~P~~r~---~~-------------~~~~~~~r~~~~~~i~~~R~eA~~a 148 (221)
.+.-+||..+.=++.|++++++++.|..+- |+ +.+.++.++++++++.++|+||.+.
T Consensus 9 ~~sqifw~iI~FlILy~ll~kf~~ppI~~iLe~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~~L~~Ar~eA~~I 81 (155)
T PRK06569 9 YYSQIFWLIVTFGLLYIFVYKFITPKAEEIFNNRQTNIQDNITQADTLTIEVEKLNKYYNEEIDKTNTEIDRL 81 (155)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677777777888999999988885522 11 1222333444566666666665553
No 18
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=91.53 E-value=2.4 Score=36.14 Aligned_cols=64 Identities=19% Similarity=0.103 Sum_probs=32.9
Q ss_pred HHHHhHHHHHHHHHHhhhhcchhhhH---HHH-------------HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 96 ATGAFIIPASVYFLLKKFILKPYYLK---REK-------------QKALENMEKTSAQVQEAKAAAQKAQQLLQNVANRK 159 (221)
Q Consensus 96 ~~~a~v~P~~~y~~~~~~v~~P~~r~---~~~-------------~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~ 159 (221)
.++-++.=++.++++.+|+.+|..+- |++ ++..+..++.++.+.++|+||.+.++-.+..+++.
T Consensus 51 ~i~qlInFlIlv~lL~k~l~kPi~~~L~~R~~~I~~~L~~Ae~~~~eA~~~l~e~e~~L~~A~~eA~~Ii~~A~~eAe~~ 130 (205)
T PRK06231 51 FIAHLIAFSILLLLGIFLFWKPTQRFLNKRKELIEAEINQANELKQQAQQLLENAKQRHENALAQAKEIIDQANYEALQL 130 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444566677788888886532 111 11222234444555556666666555555555433
No 19
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=91.09 E-value=3.4 Score=34.02 Aligned_cols=29 Identities=21% Similarity=-0.098 Sum_probs=14.8
Q ss_pred CChhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 91 FSSFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 91 ~~~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
+++...+|-++-=+++++++.+|+.+|..
T Consensus 17 ~~~~~~~~~iinflIl~~lL~~fl~kpI~ 45 (174)
T PRK07352 17 LNLNLLETNLINLAIVIGLLYYFGRGFLG 45 (174)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 33433333334444455566666677744
No 20
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=91.08 E-value=2.7 Score=33.96 Aligned_cols=27 Identities=15% Similarity=0.134 Sum_probs=12.9
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 131 MEKTSAQVQEAKAAAQKAQQLLQNVAN 157 (221)
Q Consensus 131 r~~~~~~i~~~R~eA~~a~~Lm~~~a~ 157 (221)
.++.++++..+|.||.+.++-.+..++
T Consensus 56 ~~~~e~~L~~A~~ea~~ii~~A~~~a~ 82 (159)
T PRK09173 56 LAEYQRKRKEAEKEAADIVAAAEREAE 82 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555554444433333
No 21
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=90.27 E-value=4.6 Score=31.76 Aligned_cols=24 Identities=17% Similarity=0.137 Sum_probs=16.8
Q ss_pred HHHHhHHHHHHHHHHhhhhcchhh
Q 027638 96 ATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 96 ~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
.++-.+.-++.++++++|+++|..
T Consensus 8 ~~~~~i~flil~~ll~~~l~~pi~ 31 (140)
T PRK07353 8 LPLMAVQFVLLTFILNALFYKPVG 31 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445566777888898999965
No 22
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=90.02 E-value=3.9 Score=33.67 Aligned_cols=66 Identities=20% Similarity=0.061 Sum_probs=35.2
Q ss_pred hhHHHHhHHHHHHHHHHhhhhcchhhhH---HHH-------------HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 94 FFATGAFIIPASVYFLLKKFILKPYYLK---REK-------------QKALENMEKTSAQVQEAKAAAQKAQQLLQNVAN 157 (221)
Q Consensus 94 ~~~~~a~v~P~~~y~~~~~~v~~P~~r~---~~~-------------~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~ 157 (221)
...||..+-=++.++++++|+++|...- |++ .+..+..++.++.+.++|++|.+.++-.+..++
T Consensus 23 ~~~~~~~inflil~~lL~~fl~kPi~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~Ar~eA~~Ii~~A~~eAe 102 (167)
T PRK08475 23 YDIIERTINFLIFVGILWYFAAKPLKNFYKSRINKISKRLEEIQEKLKESKEKKEDALKKLEEAKEKAELIVETAKKEAY 102 (167)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3355656666677778888888996532 111 122222344445555555555555554444444
Q ss_pred HH
Q 027638 158 RK 159 (221)
Q Consensus 158 r~ 159 (221)
..
T Consensus 103 ~~ 104 (167)
T PRK08475 103 IL 104 (167)
T ss_pred HH
Confidence 43
No 23
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=88.67 E-value=6.6 Score=32.64 Aligned_cols=29 Identities=17% Similarity=-0.002 Sum_probs=17.7
Q ss_pred CChhhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 91 FSSFFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 91 ~~~~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
+++...++-++-=+++++++++|..+|..
T Consensus 22 ~n~~~~~~~~Inflill~lL~~fl~kPI~ 50 (184)
T CHL00019 22 FNTDILETNLINLSVVLGVLIYFGKGVLS 50 (184)
T ss_pred CcchHHHHHHHHHHHHHHHHHHHhHhHHH
Confidence 44433333355555666777888888855
No 24
>KOG0718 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=87.04 E-value=14 Score=35.73 Aligned_cols=109 Identities=18% Similarity=0.258 Sum_probs=72.6
Q ss_pred ceeEEEEEcccceeEEEEEEEecCCCceeeEEEEEccccceeEEeeeeeeccc--eeEEEEEEEeeeeeEEEE-------
Q 027638 2 SAAGELKIGTSSFGASAHYTHRFSKKSHGRIQGRLGSTALELEVGGGRKISEF--STIRMLYSVGIQGIFWKF------- 72 (221)
Q Consensus 2 sw~~~~~~g~~~~~is~~y~r~~~~~~~~r~~~~~gt~g~~~~~g~~rkvs~~--s~vg~~v~ig~~Gv~lk~------- 72 (221)
+|+..+..| +.+.++..|.+.- +..++-.++.+|+-++.....-.++..+. +.+-++..+|.-|+....
T Consensus 255 ~g~i~l~~g-~~Sa~ttt~~~~~-~~~s~a~~~~i~sp~~~~~~~y~~k~k~~~es~~kl~~k~gt~G~~ve~g~~RkvS 332 (546)
T KOG0718|consen 255 SGSIALNRG-IQSAMTTTWVHMK-ENPSLAVNLEIGSPHMYAGIAYTYKLKNATESQIKLSTKMGTFGLQVEYGTERKVS 332 (546)
T ss_pred cceEEechh-hhhhheeeeeecc-ccccceeeeEecCCcceeeeeeeeecCccccceeEEEEEeeeeeEEeeccccceee
Confidence 688899999 5777888887643 23666777888887777667778888876 666666667665655422
Q ss_pred EEEEcceEE--EEE--EEecc-------CCChhhHHHHhHHHHHHHHHHhh
Q 027638 73 ELHRAGQKL--VVP--ILLSR-------HFSSFFATGAFIIPASVYFLLKK 112 (221)
Q Consensus 73 ~~~R~gQ~~--~~P--I~Ls~-------~~~~~~~~~a~v~P~~~y~~~~~ 112 (221)
++++.+-.| .+| |++.= .+.+.+.++.-++|.+++.++-.
T Consensus 333 ryStv~~~~svgvpsgi~~k~~~~R~~Q~~~~pI~l~d~~~p~avfya~v~ 383 (546)
T KOG0718|consen 333 RYSTVGANVSVGVPSGITLKVKLLRAGQKYSFPIHLCDELLPSAVFYALVF 383 (546)
T ss_pred eceeEEEEEEEcCCcceEEEEeeeccCcEEEEEEEeechhhhhhhhhhhhH
Confidence 233444433 345 33321 25666788999999998877544
No 25
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=87.02 E-value=8.2 Score=32.02 Aligned_cols=21 Identities=10% Similarity=-0.172 Sum_probs=12.3
Q ss_pred HHHhHHHHHHHHHHhhhhcch
Q 027638 97 TGAFIIPASVYFLLKKFILKP 117 (221)
Q Consensus 97 ~~a~v~P~~~y~~~~~~v~~P 117 (221)
||-++.-+++++++.+|.+.|
T Consensus 30 ~~~~inflil~~iL~~f~~~~ 50 (184)
T PRK13455 30 FVVTLAFLLFIGILVYFKVPG 50 (184)
T ss_pred HHHHHHHHHHHHHHHHHhccH
Confidence 344555566666666665565
No 26
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=86.59 E-value=1.1 Score=34.98 Aligned_cols=23 Identities=22% Similarity=0.086 Sum_probs=16.2
Q ss_pred HhHHHHHHHHHHhhhhcchhhhH
Q 027638 99 AFIIPASVYFLLKKFILKPYYLK 121 (221)
Q Consensus 99 a~v~P~~~y~~~~~~v~~P~~r~ 121 (221)
..++|+++++++-+|++||.++|
T Consensus 4 ~~il~~vv~~~i~yf~iRPQkKr 26 (113)
T PRK06531 4 PTIIMFVVMLGLIFFMQRQQKKQ 26 (113)
T ss_pred HHHHHHHHHHHHHHheechHHHH
Confidence 35667777777777788885544
No 27
>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=84.86 E-value=8.8 Score=30.37 Aligned_cols=16 Identities=13% Similarity=0.335 Sum_probs=10.6
Q ss_pred HHHHHHHhhhhcchhh
Q 027638 104 ASVYFLLKKFILKPYY 119 (221)
Q Consensus 104 ~~~y~~~~~~v~~P~~ 119 (221)
+++++++++|+++|..
T Consensus 6 lil~~il~~~~~~pi~ 21 (147)
T TIGR01144 6 ILLVWFCMKYVWPPLA 21 (147)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3455667777788855
No 28
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=84.18 E-value=13 Score=30.30 Aligned_cols=27 Identities=19% Similarity=0.144 Sum_probs=13.1
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 131 MEKTSAQVQEAKAAAQKAQQLLQNVAN 157 (221)
Q Consensus 131 r~~~~~~i~~~R~eA~~a~~Lm~~~a~ 157 (221)
..+.++++..+|.||.+.++-.+..++
T Consensus 64 ~~~~e~~L~~A~~ea~~Ii~~A~~~a~ 90 (167)
T PRK14475 64 LADVKAEREEAERQAAAMLAAAKADAR 90 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555555554444444433
No 29
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=84.17 E-value=9.3 Score=36.38 Aligned_cols=24 Identities=29% Similarity=0.454 Sum_probs=15.5
Q ss_pred HHHHhHHHHHHHHHHhhhhcchhh
Q 027638 96 ATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 96 ~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
.+|-.+.=+++++++++|+++|..
T Consensus 4 ~i~qlInFlIl~~lL~kfl~~Pi~ 27 (445)
T PRK13428 4 FIGQLIGFAVIVFLVWRFVVPPVR 27 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455666778888888854
No 30
>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=83.79 E-value=9.7 Score=29.18 Aligned_cols=23 Identities=35% Similarity=0.489 Sum_probs=15.8
Q ss_pred HHHhHHHHHHHHHHhhhhcchhh
Q 027638 97 TGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 97 ~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
||-++.=++.|+++.+|+++|..
T Consensus 3 ~~~~i~Flil~~~l~~~~~~pi~ 25 (132)
T PF00430_consen 3 FWQLINFLILFFLLNKFLYKPIK 25 (132)
T ss_dssp HHHHHHHHHHHHHHHHHTHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555556667778888888865
No 31
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=83.53 E-value=1.9 Score=32.83 Aligned_cols=26 Identities=19% Similarity=0.439 Sum_probs=18.5
Q ss_pred HHHHhHHHHHHHHHHhhh-hcchhhhH
Q 027638 96 ATGAFIIPASVYFLLKKF-ILKPYYLK 121 (221)
Q Consensus 96 ~~~a~v~P~~~y~~~~~~-v~~P~~r~ 121 (221)
..+.+++|++.++++-+| ++||-++|
T Consensus 7 ~~~~~ll~~vl~~~ifyFli~RPQrKr 33 (97)
T COG1862 7 SGLVLLLPLVLIFAIFYFLIIRPQRKR 33 (97)
T ss_pred ccHHHHHHHHHHHHHHHHhhcCHHHHH
Confidence 456778888888777776 77885544
No 32
>COG0711 AtpF F0F1-type ATP synthase, subunit b [Energy production and conversion]
Probab=83.06 E-value=15 Score=30.04 Aligned_cols=24 Identities=33% Similarity=0.455 Sum_probs=14.7
Q ss_pred HHHHhHHHHHHHHHHhhhhcchhh
Q 027638 96 ATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 96 ~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
.||-++.=++.|+++.+|++.|..
T Consensus 9 ~~~~~i~F~ill~ll~~~~~~pi~ 32 (161)
T COG0711 9 ILWQLIAFVILLWLLKKFVWKPIL 32 (161)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHH
Confidence 444444445556667777778865
No 33
>KOG4326 consensus Mitochondrial F1F0-ATP synthase, subunit e [Energy production and conversion]
Probab=79.57 E-value=19 Score=26.00 Aligned_cols=61 Identities=18% Similarity=0.142 Sum_probs=29.7
Q ss_pred EEEeccCCChhhHHHHhHHHHHHHHHHhhhhcchhhhHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 027638 84 PILLSRHFSSFFATGAFIIPASVYFLLKKFILKPYYLKREKQKALENMEKTSAQVQEAKAAAQ 146 (221)
Q Consensus 84 PI~Ls~~~~~~~~~~a~v~P~~~y~~~~~~v~~P~~r~~~~~~~~~~r~~~~~~i~~~R~eA~ 146 (221)
|+.+||-+ .+-=|+.++==++|.+.+.-.++|+...-++-...+......++-+++++-|+
T Consensus 5 pV~vSPLI--kfGRysaL~lGvaYGa~r~~~l~~~~e~~Rei~a~eKav~da~~a~ekKr~a~ 65 (81)
T KOG4326|consen 5 PVTVSPLI--KFGRYSALSLGVAYGAFRLRQLREYHEDIREIDAHEKAVADAEEAAEKKRWAK 65 (81)
T ss_pred CeeecHHH--HhhHHHHHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHhhHH
Confidence 55556532 11224444445678888887778766543222222223333344444444333
No 34
>PF13568 OMP_b-brl_2: Outer membrane protein beta-barrel domain
Probab=78.03 E-value=30 Score=26.87 Aligned_cols=82 Identities=13% Similarity=0.052 Sum_probs=45.1
Q ss_pred ceeEEEEEcccceeEEEEEEEecCCCceeeEEEEEccccceeEEeeeeeeccceeEEEEEEEeeeeeEEEE---------
Q 027638 2 SAAGELKIGTSSFGASAHYTHRFSKKSHGRIQGRLGSTALELEVGGGRKISEFSTIRMLYSVGIQGIFWKF--------- 72 (221)
Q Consensus 2 sw~~~~~~g~~~~~is~~y~r~~~~~~~~r~~~~~gt~g~~~~~g~~rkvs~~s~vg~~v~ig~~Gv~lk~--------- 72 (221)
.|+..+.+|+..+.++... ......+.+ .|+.+.+.+..+++++-.++.++.....+.....
T Consensus 8 ~~~~G~~~G~~~~~~~~~~--~~~~~~~~~-------~g~~~g~~~~~~~~~~~~~~~gl~y~~~~~~~~~~~~~~~~~~ 78 (173)
T PF13568_consen 8 RFSIGLKAGFNFSNFSNDN--DNNSSYKPG-------IGFSIGLFFNYPLNNRFSVQTGLSYSQRGYNFNDDDYDENGQD 78 (173)
T ss_pred eEEEEEEEEEEeecceecc--ccccccCcc-------EeEEEEEEEEEEeCCcEEEEEEEEEEEeeeEEEccccccCCcc
Confidence 4677777776655444411 000112222 3455566777888887666666544444433322
Q ss_pred -EEEEcceEEEEEEEeccCCC
Q 027638 73 -ELHRAGQKLVVPILLSRHFS 92 (221)
Q Consensus 73 -~~~R~gQ~~~~PI~Ls~~~~ 92 (221)
+.+.--+-+.||+++-=.+.
T Consensus 79 ~~~~~~~~yl~iPl~~~y~~~ 99 (173)
T PF13568_consen 79 YKYKFKLHYLEIPLLLRYNFG 99 (173)
T ss_pred eEEEEEEEEEEEEEEEEEEEC
Confidence 34444667899999865543
No 35
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=76.87 E-value=4.8 Score=31.27 Aligned_cols=23 Identities=9% Similarity=-0.012 Sum_probs=13.9
Q ss_pred HhHHHHHHH-HHHhhhhcchhhhH
Q 027638 99 AFIIPASVY-FLLKKFILKPYYLK 121 (221)
Q Consensus 99 a~v~P~~~y-~~~~~~v~~P~~r~ 121 (221)
.+++|++++ +++.++++||.+++
T Consensus 5 ~~ll~lv~i~~i~yF~~iRPQkKr 28 (109)
T PRK05886 5 VLFLPFLLIMGGFMYFASRRQRKA 28 (109)
T ss_pred HHHHHHHHHHHHHHHHHccHHHHH
Confidence 345676554 45567778885433
No 36
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=76.03 E-value=4.9 Score=29.57 Aligned_cols=20 Identities=20% Similarity=0.388 Sum_probs=12.9
Q ss_pred HHhhcCceEEEEE-EecCCCC
Q 027638 162 KQLEIGGLIITKA-VYGARKA 181 (221)
Q Consensus 162 ~E~~k~GLVI~~A-~YG~~~~ 181 (221)
.+.++|==|++.+ .||...+
T Consensus 36 ~~L~~Gd~VvT~gGi~G~V~~ 56 (84)
T TIGR00739 36 ESLKKGDKVLTIGGIIGTVTK 56 (84)
T ss_pred HhCCCCCEEEECCCeEEEEEE
Confidence 3455666676665 8998654
No 37
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=71.46 E-value=14 Score=31.48 Aligned_cols=12 Identities=25% Similarity=0.282 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhh
Q 027638 101 IIPASVYFLLKK 112 (221)
Q Consensus 101 v~P~~~y~~~~~ 112 (221)
++=+++|+++.+
T Consensus 42 ~~~I~ly~l~qk 53 (190)
T PF06936_consen 42 FGCILLYLLWQK 53 (190)
T ss_dssp ------------
T ss_pred HHHHHHHHHHHH
Confidence 334455666666
No 38
>cd07303 Porin3 Eukaryotic porin family that forms channels in the mitochondrial outer membrane. The porin family 3 contains two sub-families that play vital roles in the mitochondrial outer membrane, a translocase for unfolded pre-proteins (Tom40) and the voltage-dependent anion channel (VDAC) that regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane.
Probab=69.19 E-value=81 Score=27.83 Aligned_cols=56 Identities=7% Similarity=0.112 Sum_probs=37.4
Q ss_pred ceeEEEEEcccceeEEEEEEEecCCCceeeEEEEE----ccccceeEEeeeeeeccceeEEEE
Q 027638 2 SAAGELKIGTSSFGASAHYTHRFSKKSHGRIQGRL----GSTALELEVGGGRKISEFSTIRML 60 (221)
Q Consensus 2 sw~~~~~~g~~~~~is~~y~r~~~~~~~~r~~~~~----gt~g~~~~~g~~rkvs~~s~vg~~ 60 (221)
-|++.++++. ...+.++|-|++.+.. .+++.+ .+....+++|+..++.+.+.+.+-
T Consensus 172 d~~~s~~l~~-~~~l~~Sy~hkvs~~~--~~g~e~~~~~~~~e~~~~vG~~y~l~~~~~vkak 231 (274)
T cd07303 172 EFQAHTNVND-GTEFGGSIYHKVNDKL--EVGVNLAATAGNSNTRFGIAAKYQVDPDACFSAS 231 (274)
T ss_pred CeEEEEEEcC-CCeEEEEEEEEcCCce--EEEEEEEeeccCCccEEEEEEEEecCCCCEEEEE
Confidence 3666777765 4679999999998653 333333 334466778888777776666555
No 39
>PF02462 Opacity: Opacity family porin protein; InterPro: IPR003394 Pathogenic Neisseria spp. possess a repertoire of phase-variable opacity proteins that mediate various pathogen/host cell interactions []. These proteins are integral membrane proteins related to other porins and the Haemophilus influenzae OpA protein.; GO: 0015288 porin activity, 0016020 membrane; PDB: 1P4T_A.
Probab=67.02 E-value=51 Score=26.48 Aligned_cols=65 Identities=17% Similarity=0.243 Sum_probs=37.8
Q ss_pred eeEEEEEEEecCCCceeeEEEEEccccceeEEeeee--ee--ccceeEEEEEEEeee-----eeEE--EEEEEEcc
Q 027638 14 FGASAHYTHRFSKKSHGRIQGRLGSTALELEVGGGR--KI--SEFSTIRMLYSVGIQ-----GIFW--KFELHRAG 78 (221)
Q Consensus 14 ~~is~~y~r~~~~~~~~r~~~~~gt~g~~~~~g~~r--kv--s~~s~vg~~v~ig~~-----Gv~l--k~~~~R~g 78 (221)
.++|+-|-.++.++.+==+|.|++.+++........ .= ..-+++|+++..|++ .++| =.+.+++|
T Consensus 37 lGlSAIYDF~~ns~fKPYiGaRva~n~~~~~~~~~~~~~~~~~s~tk~G~G~~AGv~y~itpnltLd~GyrYn~~G 112 (132)
T PF02462_consen 37 LGLSAIYDFDLNSKFKPYIGARVAYNHIKYTVDSKYPYKESHNSITKLGLGALAGVGYDITPNLTLDAGYRYNYWG 112 (132)
T ss_dssp EEEEEEEE---SSSEEEEEEEEEEEE----EEEEEETTEEE-E---EEEEEEEEEEEEEEETTEEEEEEEEEEEEE
T ss_pred ccEEEEEeccCCCccceeeEeEEeecccccccccccccccccccccccceeeEEEEeEecCCCeEEecceEEeecc
Confidence 678888988888888888999999876654433211 11 234689999887774 5555 45566663
No 40
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=66.94 E-value=21 Score=34.03 Aligned_cols=15 Identities=13% Similarity=0.335 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHH
Q 027638 135 SAQVQEAKAAAQKAQ 149 (221)
Q Consensus 135 ~~~i~~~R~eA~~a~ 149 (221)
+.++...|+||+..+
T Consensus 347 ~k~~~~~~~~~~~~~ 361 (429)
T PRK00247 347 KKEIAQKRRAAEREI 361 (429)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444555555555433
No 41
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=63.46 E-value=14 Score=28.43 Aligned_cols=25 Identities=20% Similarity=0.409 Sum_probs=15.1
Q ss_pred HHHhHHHHHHHHHHh-hhhcchhhhH
Q 027638 97 TGAFIIPASVYFLLK-KFILKPYYLK 121 (221)
Q Consensus 97 ~~a~v~P~~~y~~~~-~~v~~P~~r~ 121 (221)
.+..++|+++.+++- ++.+||.+++
T Consensus 17 ~~~~ll~lvii~~i~yf~~~RpqkK~ 42 (106)
T PRK05585 17 GLSSLLPLVVFFAIFYFLIIRPQQKR 42 (106)
T ss_pred cHHHHHHHHHHHHHHHHHhccHHHHH
Confidence 345666777766644 4566885544
No 42
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=60.74 E-value=74 Score=24.40 Aligned_cols=17 Identities=24% Similarity=0.304 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHh
Q 027638 148 AQQLLQNVANRKRNKQL 164 (221)
Q Consensus 148 a~~Lm~~~a~r~~~~E~ 164 (221)
.+.||-.+-+=...++.
T Consensus 80 ~q~Lm~rQN~mm~~qqq 96 (121)
T PF10669_consen 80 QQSLMNRQNNMMKQQQQ 96 (121)
T ss_pred HHHHHHHHhHHHHHHHH
Confidence 34455444444433333
No 43
>PF01459 Porin_3: Eukaryotic porin; InterPro: IPR001925 The major protein of the outer mitochondrial membrane of eukaryotes is a porin that forms a voltage-dependent anion-selective channel (VDAC) that behaves as a general diffusion pore for small hydrophilic molecules [, , , ]. The channel adopts an open conformation at low or zero membrane potential and a closed conformation at potentials above 30-40 mV. This protein contains about 280 amino acids and its sequence is composed of between 12 to 16 beta-strands that span the mitochondrial outer membrane. Yeast contains two members of this family (genes POR1 and POR2); vertebrates have at least three members (genes VDAC1, VDAC2 and VDAC3) [].; GO: 0008308 voltage-gated anion channel activity, 0006820 anion transport, 0044070 regulation of anion transport, 0055085 transmembrane transport, 0005741 mitochondrial outer membrane; PDB: 3EMN_X 2K4T_A 2JK4_A.
Probab=59.78 E-value=1.1e+02 Score=26.05 Aligned_cols=71 Identities=15% Similarity=0.166 Sum_probs=44.6
Q ss_pred ceeEEEEEcccceeEEEEEEEecCCCceeeEEEEEc--c--ccceeEEeeeeeeccceeEEEEEE-EeeeeeEEEEEE
Q 027638 2 SAAGELKIGTSSFGASAHYTHRFSKKSHGRIQGRLG--S--TALELEVGGGRKISEFSTIRMLYS-VGIQGIFWKFEL 74 (221)
Q Consensus 2 sw~~~~~~g~~~~~is~~y~r~~~~~~~~r~~~~~g--t--~g~~~~~g~~rkvs~~s~vg~~v~-ig~~Gv~lk~~~ 74 (221)
.|++.+++......+.++|.+++.+.. .++..+. . ....+++|...++.+-+++...|. =|.-+..+.-+|
T Consensus 176 ~~~~~~~~~~~~~~l~~sy~~k~~~~~--~~g~e~~~~~~~~~~~~~vG~~~~l~~~~~vk~kvds~g~v~~~~~~~l 251 (273)
T PF01459_consen 176 DYTASATLSNNFGTLTASYFQKVNDKL--QLGAELTYNLSSRESTFTVGYQYKLDDSSTVKAKVDSNGRVSASYEQKL 251 (273)
T ss_dssp TEEEEEEE-ETTTEEEEEEEEESSTTE--EEEEEEEEETTCCEEEEEEEEEEEECTTEEEEEEEETTSEEEEEEEEEE
T ss_pred eEEEEEEEcCCCCEEEEEEEEEeccce--eeeeeeeecccCCCceEEEEEEEEcCcccEEEEEEcCCCEEEEEEEEec
Confidence 467778887667789999999987543 4444432 2 235677888888888877776643 222244444444
No 44
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=55.48 E-value=1.3e+02 Score=25.58 Aligned_cols=34 Identities=21% Similarity=0.218 Sum_probs=19.9
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 126 KALENMEKTSAQVQEAKAAAQKAQQLLQNVANRK 159 (221)
Q Consensus 126 ~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~ 159 (221)
+..+..++.++.+.++|.||.+.++--+..++..
T Consensus 102 eAe~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea~~~ 135 (204)
T PRK09174 102 EADAAVAAYEQELAQARAKAHSIAQAAREAAKAK 135 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334455666677777777776665555544443
No 45
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=54.67 E-value=1.2e+02 Score=24.85 Aligned_cols=30 Identities=17% Similarity=0.211 Sum_probs=17.1
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 131 MEKTSAQVQEAKAAAQKAQQLLQNVANRKR 160 (221)
Q Consensus 131 r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~~ 160 (221)
.++.++++.+.|.||...++-.+..+++..
T Consensus 72 ~~e~e~~l~~a~~ea~~ii~~a~~~a~~~~ 101 (173)
T PRK13453 72 EEENKQKLKETQEEVQKILEDAKVQARQQQ 101 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444556666666666666655555554433
No 46
>PF03895 YadA_anchor: YadA-like C-terminal region; InterPro: IPR005594 This region represents the C-terminal 120 amino acids of a family of surface-exposed bacterial proteins. YadA, an adhesin from Yersinia, was the first member of this family to be characterised. UspA2 from Moraxella was second. The Eib immunoglobulin-binding proteins from E. coli were third, followed by the DsrA proteins of Haemophilus ducreyi, amongst others. These proteins are homologous at their C-terminal and have predicted signal sequences, but they diverge elsewhere. The C-terminal 9 amino acids, consisting of alternating hydrophobic amino acids ending in F or W, comprise a targeting motif for the outer membrane of the Gram negative cell envelope. This region is important for oligomerisation [].; PDB: 3LT6_C 3LT7_B 3H7X_D 3H7Z_A 2GR8_E 2GR7_F 3EMO_C 2XZR_A.
Probab=54.57 E-value=75 Score=22.53 Aligned_cols=38 Identities=16% Similarity=0.133 Sum_probs=28.4
Q ss_pred CceeeEEEEEcccc--ceeEEeeeeeeccceeEEEEEEEe
Q 027638 27 KSHGRIQGRLGSTA--LELEVGGGRKISEFSTIRMLYSVG 64 (221)
Q Consensus 27 ~~~~r~~~~~gt~g--~~~~~g~~rkvs~~s~vg~~v~ig 64 (221)
..+..+++-+|+++ -.+.+|+.++++++..+.++++.+
T Consensus 24 ~~~~~~~~g~G~y~g~~A~A~G~~~~~~~~~~~~~~~s~~ 63 (78)
T PF03895_consen 24 DGKFSVGVGVGTYRGESAVAVGASYRPNENVMVNAGVSYG 63 (78)
T ss_dssp TT-EEEEEEEEEETTEEEEEEEEEEE-TSSEEEEEEEEEE
T ss_pred CCcEEEEEEEEeeCCcccEEEEEEEEeCCCEEEEEEEEec
Confidence 45677788888875 568899999999998888887753
No 47
>PF02937 COX6C: Cytochrome c oxidase subunit VIc; InterPro: IPR004204 Cytochrome c oxidase, a 13 subunit complex, 1.9.3.1 from EC is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit VIc.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG4_I 2DYS_V 3ASO_I 2EIK_V 2EIM_I 1OCC_V 1V54_V 1OCO_V 3ASN_V 2EIL_I ....
Probab=53.85 E-value=41 Score=24.16 Aligned_cols=31 Identities=16% Similarity=0.033 Sum_probs=24.9
Q ss_pred hhHHHHhHHHHHHHHHHhhhhcchhhhHHHH
Q 027638 94 FFATGAFIIPASVYFLLKKFILKPYYLKREK 124 (221)
Q Consensus 94 ~~~~~a~v~P~~~y~~~~~~v~~P~~r~~~~ 124 (221)
..+..++++.+.+.++++.++..|+.++.+.
T Consensus 19 ~~i~~a~~ls~~~~~~~kf~v~~pRKk~Yad 49 (73)
T PF02937_consen 19 RHIVVAFVLSLGVAAAYKFGVAEPRKKAYAD 49 (73)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 4567889999999999999999997765443
No 48
>PF07271 Cytadhesin_P30: Cytadhesin P30/P32; InterPro: IPR009896 This family consists of several Mycoplasma species specific Cytadhesin P32 and P30 proteins. P30 has been found to be membrane associated and localised on the tip organelle. It is thought that it is important in cytadherence and virulence [].; GO: 0007157 heterophilic cell-cell adhesion, 0009405 pathogenesis, 0016021 integral to membrane
Probab=53.28 E-value=48 Score=29.79 Aligned_cols=12 Identities=33% Similarity=0.592 Sum_probs=7.5
Q ss_pred hhhhHHHHHHHH
Q 027638 117 PYYLKREKQKAL 128 (221)
Q Consensus 117 P~~r~~~~~~~~ 128 (221)
|+++|++++-++
T Consensus 93 p~~krkek~~ie 104 (279)
T PF07271_consen 93 PIYKRKEKRMIE 104 (279)
T ss_pred hhhhhhHHHHHH
Confidence 888865554444
No 49
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=50.58 E-value=1.4e+02 Score=24.44 Aligned_cols=32 Identities=19% Similarity=0.189 Sum_probs=17.3
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 126 KALENMEKTSAQVQEAKAAAQKAQQLLQNVAN 157 (221)
Q Consensus 126 ~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~ 157 (221)
+.++..+++++.+.++|+||.+.++==++.++
T Consensus 53 eA~~l~~e~e~~L~~Ar~EA~~Ii~~A~~~a~ 84 (154)
T PRK06568 53 DAALLFEQTNAQIKKLETLRSQMIEESNEVTK 84 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344555666666677776664443333333
No 50
>TIGR02962 hdxy_isourate hydroxyisourate hydrolase. Members of this family, hydroxyisourate hydrolase, represent a distinct clade of transthyretin-related proteins. Bacterial members typically are encoded next to ureidoglycolate hydrolase and often near either xanthine dehydrogenase or xanthine/uracil permease genes and have been demonstrated to have hydroxyisourate hydrolase activity. In eukaryotes, a clade separate from the transthyretins (a family of thyroid-hormone binding proteins) has also been shown to have HIU hydrolase activity in urate catabolizing organisms. Transthyretin, then, would appear to be the recently diverged paralog of the more ancient HIUH family.
Probab=49.08 E-value=17 Score=28.16 Aligned_cols=25 Identities=32% Similarity=0.422 Sum_probs=22.6
Q ss_pred eeeEEEEEEEEcceEEEEEEEeccC
Q 027638 66 QGIFWKFELHRAGQKLVVPILLSRH 90 (221)
Q Consensus 66 ~Gv~lk~~~~R~gQ~~~~PI~Ls~~ 90 (221)
+-|.++|......|.|-+|++|||.
T Consensus 80 p~v~i~F~i~~~~~HyHvPlllSP~ 104 (112)
T TIGR02962 80 PEVEVVFTIADPGQHYHVPLLLSPY 104 (112)
T ss_pred cceEEEEEECCCCCCEEEeEEecCC
Confidence 4688999999999999999999994
No 51
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=48.77 E-value=1.8e+02 Score=25.45 Aligned_cols=29 Identities=14% Similarity=0.106 Sum_probs=15.0
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 131 MEKTSAQVQEAKAAAQKAQQLLQNVANRK 159 (221)
Q Consensus 131 r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~ 159 (221)
+++.++++.+.++++.+.++-.+..+++.
T Consensus 59 ~~e~e~~l~~a~~ea~~ii~~A~~eA~~~ 87 (250)
T PRK14474 59 AERYRQKQQSLEQQRASFMAQAQEAADEQ 87 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555444444
No 52
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=48.74 E-value=1.5e+02 Score=24.34 Aligned_cols=53 Identities=8% Similarity=0.045 Sum_probs=28.6
Q ss_pred cCCChhhHHHHhHHHHHHHHHHhhhhcchhhhHHHHHHHHHHHHHhHHHHHHHH
Q 027638 89 RHFSSFFATGAFIIPASVYFLLKKFILKPYYLKREKQKALENMEKTSAQVQEAK 142 (221)
Q Consensus 89 ~~~~~~~~~~a~v~P~~~y~~~~~~v~~P~~r~~~~~~~~~~r~~~~~~i~~~R 142 (221)
|+++....+.-++.-++.|.++.. +++-..=.+-..-+.+++.+....+.++.
T Consensus 2 PQfd~~~~~sqifw~iI~FlILy~-ll~kf~~ppI~~iLe~R~~~I~~~L~~Ae 54 (155)
T PRK06569 2 PQFDIATYYSQIFWLIVTFGLLYI-FVYKFITPKAEEIFNNRQTNIQDNITQAD 54 (155)
T ss_pred CCCchhhhhHHHHHHHHHHHHHHH-HHHHHhHHHHHHHHHHHHHHHHhHHHHHH
Confidence 556665432233334455555543 55555555566666666666666666553
No 53
>cd05822 TLP_HIUase HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU). HIUase has high sequence similarity with transthyretins and is a member of the transthyretin-like protein (TLP) family. HIUase is distinguished from transthyretins by a conserved signature motif at its C-terminus that forms part of the active site. In HIUase, this motif is YRGS, while transthyretins have a conserved TAVV sequence in the same location. Most HIUases are cytosolic but in plants and slime molds, they are peroxisomal based on the presence of N-terminal periplasmic localization sequences. HIUase forms a homotetramer with each subunit consisting of eight beta-strands arranged in two sheets and a short alpha-helix. The central channel of the tetramer contains two independent binding sites, each located betw
Probab=46.20 E-value=20 Score=27.79 Aligned_cols=84 Identities=12% Similarity=0.058 Sum_probs=46.5
Q ss_pred eEEEEEcccceeEEEEEEEecCCCceeeEEEEEcccc-----------c-eeEEeeeeeecccee-EEEEEEEee-eeeE
Q 027638 4 AGELKIGTSSFGASAHYTHRFSKKSHGRIQGRLGSTA-----------L-ELEVGGGRKISEFST-IRMLYSVGI-QGIF 69 (221)
Q Consensus 4 ~~~~~~g~~~~~is~~y~r~~~~~~~~r~~~~~gt~g-----------~-~~~~g~~rkvs~~s~-vg~~v~ig~-~Gv~ 69 (221)
-.+...|-+.+++.....+.-.+....-...+-...| + ...|...-.+++|-+ .| .-++ +-|.
T Consensus 7 VLDt~~G~PAagv~V~L~~~~~~~~~~i~~~~Td~DGR~~~~~~~~~~~~~G~Y~l~F~~~~Yf~~~~---~~~F~p~V~ 83 (112)
T cd05822 7 VLDTATGKPAAGVAVTLYRLDGNGWTLLATGVTNADGRCDDLLPPGAQLAAGTYKLTFDTGAYFAARG---QESFYPEVE 83 (112)
T ss_pred EEeCCCCcccCCCEEEEEEecCCCeEEEEEEEECCCCCccCcccccccCCCeeEEEEEEhhhhhhhcC---CCccceeeE
Confidence 3566778888888888876433221111111111111 0 011223333444322 11 1123 5788
Q ss_pred EEEEEEEcceEEEEEEEeccC
Q 027638 70 WKFELHRAGQKLVVPILLSRH 90 (221)
Q Consensus 70 lk~~~~R~gQ~~~~PI~Ls~~ 90 (221)
++|..+..+|.|-+|++|||-
T Consensus 84 i~F~i~~~~~HYHvPlLlSP~ 104 (112)
T cd05822 84 VRFTITDPTEHYHVPLLLSPF 104 (112)
T ss_pred EEEEECCCCCCEEEeEEecCC
Confidence 999999999999999999984
No 54
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=45.94 E-value=24 Score=25.62 Aligned_cols=23 Identities=17% Similarity=0.532 Sum_probs=12.3
Q ss_pred HhHHHHHHHHHH-hhhhcchhhhH
Q 027638 99 AFIIPASVYFLL-KKFILKPYYLK 121 (221)
Q Consensus 99 a~v~P~~~y~~~-~~~v~~P~~r~ 121 (221)
..++|+++++++ .++.++|.+++
T Consensus 3 ~~li~lv~~~~i~yf~~~rpqkk~ 26 (82)
T PF02699_consen 3 SMLIPLVIIFVIFYFLMIRPQKKQ 26 (82)
T ss_dssp HHHHHHHHHHHHHHHHTHHHHHHH
T ss_pred HHHHHHHHHHHHHhhheecHHHHH
Confidence 445666554444 45566775433
No 55
>COG2351 Transthyretin-like protein [General function prediction only]
Probab=44.98 E-value=23 Score=28.03 Aligned_cols=45 Identities=13% Similarity=0.148 Sum_probs=30.8
Q ss_pred Eeeeeeeccc-eeEEEEEEEe-e-eeeEEEEEEEEcceEEEEEEEecc
Q 027638 45 VGGGRKISEF-STIRMLYSVG-I-QGIFWKFELHRAGQKLVVPILLSR 89 (221)
Q Consensus 45 ~g~~rkvs~~-s~vg~~v~ig-~-~Gv~lk~~~~R~gQ~~~~PI~Ls~ 89 (221)
|-..-.+++| -+-|+...-- + +=|.++|.++..++-|-+|++|||
T Consensus 68 Y~l~F~~gdYf~~~g~~~~~~~Fl~~V~vrF~iad~~~HYHVPLLlSP 115 (124)
T COG2351 68 YELVFHTGDYFKSRGVQLADPPFLDVVPVRFGIADVDEHYHVPLLLSP 115 (124)
T ss_pred EEEEEEcchhhhccCcccCCCCccceEEEEEEEcCCCCceeeeeEecC
Confidence 3344455553 3334432222 2 478899999999999999999998
No 56
>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=44.57 E-value=1.2e+02 Score=22.54 Aligned_cols=42 Identities=14% Similarity=0.204 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 122 REKQKALENMEKTSAQVQEAKAAAQKAQQLLQNVANRKRNKQ 163 (221)
Q Consensus 122 ~~~~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~~~~E 163 (221)
..+....+.++.....+.++|.||+..++..+...+......
T Consensus 15 eA~~iV~~Ar~~r~~~lk~Ak~eA~~ei~~~r~~~e~~~~~~ 56 (105)
T PF03179_consen 15 EAQEIVEEARKEREQRLKQAKEEAEKEIEEFRAEAEEEFKEK 56 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-S
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455556667777788888888888888777776655443
No 57
>PF00576 Transthyretin: HIUase/Transthyretin family; InterPro: IPR023416 This family includes transthyretin that is a thyroid hormone-binding protein that transports thyroxine from the bloodstream to the brain. However, most of the sequences listed in this family do not bind thyroid hormones. They are actually enzymes of the purine catabolism that catalyse the conversion of 5-hydroxyisourate (HIU) to OHCU [, ]. HIU hydrolysis is the original function of the family and is conserved from bacteria to mammals; transthyretins arose by gene duplications in the vertebrate lineage [, ]. HIUases are distinguished in the alignment from the conserved C-terminal YRGS sequence. Transthyretin (formerly prealbumin) is one of 3 thyroid hormone-binding proteins found in the blood of vertebrates []. It is produced in the liver and circulates in the bloodstream, where it binds retinol and thyroxine (T4) []. It differs from the other 2 hormone-binding proteins (T4-binding globulin and albumin) in 3 distinct ways: (1) the gene is expressed at a high rate in the brain choroid plexus; (2) it is enriched in cerebrospinal fluid; and (3) no genetically caused absence has been observed, suggesting an essential role in brain function, distinct from that played in the bloodstream []. The protein consists of around 130 amino acids, which assemble as a homotetramer that contains an internal channel in which T4 is bound. Within this complex, T4 appears to be transported across the blood-brain barrier, where, in the choroid plexus, the hormone stimulates further synthesis of transthyretin. The protein then diffuses back into the bloodstream, where it binds T4 for transport back to the brain [].; PDB: 1TFP_B 1KGJ_D 1IE4_C 1GKE_C 1KGI_D 2H0J_B 2H0E_B 2H0F_B 1ZD6_A 3DGD_D ....
Probab=44.50 E-value=24 Score=27.30 Aligned_cols=25 Identities=28% Similarity=0.424 Sum_probs=22.5
Q ss_pred eeeEEEEEEEEcceEEEEEEEeccC
Q 027638 66 QGIFWKFELHRAGQKLVVPILLSRH 90 (221)
Q Consensus 66 ~Gv~lk~~~~R~gQ~~~~PI~Ls~~ 90 (221)
+-|.+.|..+..+|-|-||++|||.
T Consensus 81 p~V~I~F~v~d~~~HYHvPLLlSP~ 105 (112)
T PF00576_consen 81 PEVEIRFTVKDPQQHYHVPLLLSPF 105 (112)
T ss_dssp SEEEEEEEESTTTSEEEEEEEEETT
T ss_pred ecceEEEEECCCCCcEEEEEEecCc
Confidence 4688999999999999999999983
No 58
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=43.64 E-value=1e+02 Score=20.82 Aligned_cols=9 Identities=33% Similarity=0.497 Sum_probs=3.7
Q ss_pred eEEEEEEEe
Q 027638 79 QKLVVPILL 87 (221)
Q Consensus 79 Q~~~~PI~L 87 (221)
|...+.++.
T Consensus 5 ~~V~v~~~~ 13 (68)
T PF06305_consen 5 QPVTVNFLF 13 (68)
T ss_pred ceEEEEEEe
Confidence 334444444
No 59
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=42.33 E-value=1.9e+02 Score=23.59 Aligned_cols=15 Identities=27% Similarity=0.381 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHH
Q 027638 138 VQEAKAAAQKAQQLL 152 (221)
Q Consensus 138 i~~~R~eA~~a~~Lm 152 (221)
+.+++++|+...+-+
T Consensus 90 i~~A~~~a~~~~~~~ 104 (175)
T PRK14472 90 IREGKEYAEKLRAEI 104 (175)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333344444333333
No 60
>cd05469 Transthyretin_like Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins with each subunit consisting of eight beta-strands arranged in two sheets and a short alpha-helix. The central channel of the tetramer contains two independent binding sites, each located between a pair of subunits. TTR transports thyroid hormones and retinol in the blood serum of vertebrates while HIUase catalyzes the second step in a three-step ureide pathway. TTRs are highly conserved and found only in vertebrates while the HIUases are found in a wide range of bacterial, plant, fungal, slime mold and vertebrate organisms.
Probab=42.29 E-value=22 Score=27.69 Aligned_cols=25 Identities=16% Similarity=0.169 Sum_probs=22.0
Q ss_pred eeeEEEEEEEEc-ceEEEEEEEeccC
Q 027638 66 QGIFWKFELHRA-GQKLVVPILLSRH 90 (221)
Q Consensus 66 ~Gv~lk~~~~R~-gQ~~~~PI~Ls~~ 90 (221)
+-|.+.|..... .|.|-+|++|||.
T Consensus 80 p~V~i~F~v~d~~~~HYHvPLLlSP~ 105 (113)
T cd05469 80 EYAEVVFTANDSGHRHYTIALLLSPF 105 (113)
T ss_pred ceEEEEEEECCCCCCCEEeCEEecCC
Confidence 468889999888 9999999999984
No 61
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=42.25 E-value=1.4e+02 Score=22.18 Aligned_cols=23 Identities=17% Similarity=0.261 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 027638 143 AAAQKAQQLLQNVANRKRNKQLE 165 (221)
Q Consensus 143 ~eA~~a~~Lm~~~a~r~~~~E~~ 165 (221)
.|...+..-+++.-.|+..+|..
T Consensus 44 ~Ek~~~~~qvkn~~vrqknee~~ 66 (87)
T PF10883_consen 44 TEKAVAETQVKNAKVRQKNEENT 66 (87)
T ss_pred HHHHHHHHHHHHHHHHHHhHHhh
Confidence 33334444455555555555543
No 62
>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=40.27 E-value=2.4e+02 Score=24.33 Aligned_cols=27 Identities=7% Similarity=-0.015 Sum_probs=13.0
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 131 MEKTSAQVQEAKAAAQKAQQLLQNVAN 157 (221)
Q Consensus 131 r~~~~~~i~~~R~eA~~a~~Lm~~~a~ 157 (221)
+++.++++.++++||...++-.+..++
T Consensus 59 ~~e~e~~l~~a~~ea~~i~~~A~~eA~ 85 (246)
T TIGR03321 59 RREYEEKNEELDQQREVLLTKAKEEAQ 85 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555554444444333
No 63
>PRK15036 hydroxyisourate hydrolase; Provisional
Probab=40.20 E-value=25 Score=28.17 Aligned_cols=25 Identities=28% Similarity=0.481 Sum_probs=22.6
Q ss_pred eeeEEEEEEEEcceEEEEEEEeccC
Q 027638 66 QGIFWKFELHRAGQKLVVPILLSRH 90 (221)
Q Consensus 66 ~Gv~lk~~~~R~gQ~~~~PI~Ls~~ 90 (221)
+-|.++|......|.|-+|++|||-
T Consensus 105 p~v~v~F~i~~~~~HyHvPlllsP~ 129 (137)
T PRK15036 105 PEIPVEFHINKVNEHYHVPLLLSQY 129 (137)
T ss_pred ceeEEEEEECCCCCCeEECeEecCC
Confidence 4788999999999999999999994
No 64
>KOG3006 consensus Transthyretin and related proteins [Lipid transport and metabolism]
Probab=39.23 E-value=41 Score=26.74 Aligned_cols=84 Identities=17% Similarity=0.205 Sum_probs=47.3
Q ss_pred eEEEEEcccceeEEEEEEEecCCCceeeE-------EEEEccccceeE-Eeeeeeeccc-----eeEEEEEEEeeeeeEE
Q 027638 4 AGELKIGTSSFGASAHYTHRFSKKSHGRI-------QGRLGSTALELE-VGGGRKISEF-----STIRMLYSVGIQGIFW 70 (221)
Q Consensus 4 ~~~~~~g~~~~~is~~y~r~~~~~~~~r~-------~~~~gt~g~~~~-~g~~rkvs~~-----s~vg~~v~ig~~Gv~l 70 (221)
..++.=|.+..|+..+..++..+..-..+ .+|++.+..+.+ .-+.-|+.=. ...|.+ .=.+-|.+
T Consensus 27 VLd~s~GsPA~gVqV~~f~~~~~~~w~~igs~~T~~nGrv~~~~~~~tl~~GtYr~~~dT~~Y~~a~gv~--sFypyvev 104 (132)
T KOG3006|consen 27 VLDISRGSPAAGVQVHLFILANDDTWTPIGSGFTQDNGRVDWVSPDFTLIPGTYRLVFDTEPYYKALGVE--SFYPYVEV 104 (132)
T ss_pred EeecccCCcccceEEEEEEecCCCcccCccccccccCceeecccchhhhccceEEEEEecccccccCCcc--cccccEEE
Confidence 34666788888888887777665321111 123332211111 1133333221 222222 11147888
Q ss_pred EEEEEEcceEEEEEEEecc
Q 027638 71 KFELHRAGQKLVVPILLSR 89 (221)
Q Consensus 71 k~~~~R~gQ~~~~PI~Ls~ 89 (221)
-|..+.++|.|-+|.+|+|
T Consensus 105 vf~in~s~qhyhvpllLsP 123 (132)
T KOG3006|consen 105 VFNINDSTQHYHVPLLLSP 123 (132)
T ss_pred EEEeccCcceEEEeEEecc
Confidence 8999999999999999998
No 65
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=38.43 E-value=2e+02 Score=22.89 Aligned_cols=31 Identities=19% Similarity=0.170 Sum_probs=17.0
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 129 ENMEKTSAQVQEAKAAAQKAQQLLQNVANRK 159 (221)
Q Consensus 129 ~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~ 159 (221)
+..++.++++.+++.||...++=.+..++..
T Consensus 57 ~~~~e~~~~l~~a~~ea~~ii~~a~~~a~~~ 87 (159)
T PRK13461 57 ELKLKNERELKNAKEEGKKIVEEYKSKAENV 87 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345556666666666665555555444443
No 66
>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=38.40 E-value=3e+02 Score=24.86 Aligned_cols=11 Identities=36% Similarity=0.552 Sum_probs=6.5
Q ss_pred hhhcchhhhHH
Q 027638 112 KFILKPYYLKR 122 (221)
Q Consensus 112 ~~v~~P~~r~~ 122 (221)
.+-++|-.+++
T Consensus 249 ~~~l~~e~~~K 259 (321)
T PF07946_consen 249 RFKLSPEAKKK 259 (321)
T ss_pred eeeeCHHHHHH
Confidence 55677765543
No 67
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=38.04 E-value=2.1e+02 Score=22.94 Aligned_cols=31 Identities=10% Similarity=0.102 Sum_probs=16.9
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 130 NMEKTSAQVQEAKAAAQKAQQLLQNVANRKR 160 (221)
Q Consensus 130 ~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~~ 160 (221)
..+++++.+.++|.||...++--+..+++..
T Consensus 61 ~~~e~e~~l~~A~~ea~~ii~~A~~~a~~~~ 91 (164)
T PRK14471 61 LQADNERLLKEARAERDAILKEAREIKEKMI 91 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555666666666665555444444443
No 68
>PRK08156 type III secretion system protein SpaS; Validated
Probab=37.27 E-value=90 Score=29.10 Aligned_cols=25 Identities=12% Similarity=0.259 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITKA 174 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~A 174 (221)
+++++.++++..++-.+-=.||++-
T Consensus 234 ~~~re~a~~rm~~~Vp~AdVVItNP 258 (361)
T PRK08156 234 EAHQEILSEQVKSDIRNSRLIVANP 258 (361)
T ss_pred HHHHHHHHhHHhccCCCCcEEEECC
Confidence 6788888888888899999999763
No 69
>cd07305 Porin3_Tom40 Translocase of outer mitochondrial membrane 40 (Tom40). Tom40 forms a channel in the mitochondrial outer membrane with a pore about 1.5 to 2.5 nanometers wide. It functions as a transport channel for unfolded protein chains and forms a complex with Tom5, Tom6, Tom7, and Tom22. The primary receptors Tom20 and Tom70 recruit the unfolded precursor protein from the mitochondrial-import stimulating factor (MSF) or cytosolic Hsc70. The precursor passes through the Tom40 channel and through another channel in the inner membrane, formed by Tim23, to be finally translocated into the mitochondrial matrix. The process depends on a proton motive force across the inner membrane and requires a contact site where the outer and inner membranes come close. Tom40 is also involved in inserting outer membrane proteins into the membrane, most likely not via a lateral opening in the pore, but by transfering precursor proteins to an outer membrane sorting and assembly machinery.
Probab=37.09 E-value=2.9e+02 Score=24.23 Aligned_cols=55 Identities=16% Similarity=0.120 Sum_probs=33.1
Q ss_pred ceeEEEEEcccceeEEEEEEEecCCCceeeEEEEE----ccccceeEEeeeeeeccceeEEEE
Q 027638 2 SAAGELKIGTSSFGASAHYTHRFSKKSHGRIQGRL----GSTALELEVGGGRKISEFSTIRML 60 (221)
Q Consensus 2 sw~~~~~~g~~~~~is~~y~r~~~~~~~~r~~~~~----gt~g~~~~~g~~rkvs~~s~vg~~ 60 (221)
.|+++++++.. ..+.++|.+++.+. +.+|+.+ ++....+.+|+...+. .+.+.+.
T Consensus 178 d~~~s~~l~~~-~~l~asY~~kvs~~--l~lG~el~~~~~~~es~~tvg~~y~~~-~~~~k~~ 236 (279)
T cd07305 178 NWIASGQLGAQ-GGLHLSYYRKLSDK--LQLGVELELNLRTRESTATLGYQYDFR-QSRFRGS 236 (279)
T ss_pred CEEEEEEEcCC-CeEEEEEEEEcccc--eEeeeeeeecccCCceeEEEEEEEEcC-CCEEEEE
Confidence 47788888875 57899999999874 3344333 3333445555555544 3333333
No 70
>PRK12468 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=36.97 E-value=95 Score=29.20 Aligned_cols=25 Identities=20% Similarity=0.268 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITKA 174 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~A 174 (221)
+++++.++++..++-.+-=.||++-
T Consensus 246 q~~re~a~~~m~~~V~~AdVVItNP 270 (386)
T PRK12468 246 QQQRAMARRRMMVDVPKADVIVTNP 270 (386)
T ss_pred HHHHHHHHhhHhhcCCCCcEEEECC
Confidence 5778888888888889999999863
No 71
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=36.87 E-value=2e+02 Score=23.32 Aligned_cols=41 Identities=15% Similarity=0.191 Sum_probs=27.9
Q ss_pred HHHHHHHHhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhc
Q 027638 126 KALENMEKTSAQVQEAKAA---AQKAQQLLQNVANRKRNKQLEI 166 (221)
Q Consensus 126 ~~~~~r~~~~~~i~~~R~e---A~~a~~Lm~~~a~r~~~~E~~k 166 (221)
+.++.+.+..++|.++++. =..++..++..++|.++.|.+.
T Consensus 5 ~Le~ek~~~~~rI~~K~~~LqEL~~Q~va~knLv~RN~~~~~~~ 48 (142)
T PF08781_consen 5 ELEEEKQRRRERIKKKKEQLQELILQQVAFKNLVQRNRQLEQSG 48 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 4445556666666666543 3345667888999999999883
No 72
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=36.84 E-value=84 Score=31.31 Aligned_cols=25 Identities=12% Similarity=0.227 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITKA 174 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~A 174 (221)
+++++.++++..++-.+-=.||++-
T Consensus 502 ~~~re~~~~~m~~~V~~AdvVitNP 526 (609)
T PRK12772 502 QKQREMAMQRMMQEVPKATVVVTNP 526 (609)
T ss_pred HHHHHHHHhhhhccCCCCcEEEECC
Confidence 5777888888888888999999863
No 73
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=36.83 E-value=97 Score=28.66 Aligned_cols=24 Identities=21% Similarity=0.387 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITK 173 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~ 173 (221)
+++++.++++..++-.+-=.||++
T Consensus 239 ~~~re~a~~~m~~~V~~AdVVItN 262 (347)
T TIGR00328 239 QMQREAARRRMMQEVPKADVVITN 262 (347)
T ss_pred HHHHHHHHhhHhhcCCCCcEEEEC
Confidence 567777788888888888899976
No 74
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=36.74 E-value=1.2e+02 Score=28.36 Aligned_cols=24 Identities=21% Similarity=0.399 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITK 173 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~ 173 (221)
++|++.+.|+...+-.+-=+||.+
T Consensus 246 q~~re~a~~rm~~~Vp~AdvVItN 269 (363)
T COG1377 246 QMQREIARRRMMSDVPKADVVITN 269 (363)
T ss_pred HHHHHHHHHHHHhhCCCCCEEeeC
Confidence 688999999999999999999986
No 75
>KOG2302 consensus T-type voltage-gated Ca2+ channel, pore-forming alpha1I subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=36.42 E-value=64 Score=34.51 Aligned_cols=19 Identities=16% Similarity=0.088 Sum_probs=9.8
Q ss_pred EEEEEEEeccCCChhhHHHHhH
Q 027638 80 KLVVPILLSRHFSSFFATGAFI 101 (221)
Q Consensus 80 ~~~~PI~Ls~~~~~~~~~~a~v 101 (221)
-+..||+ .-||+.++|...
T Consensus 1349 vdqqPI~---nhnpwmllYfIs 1367 (1956)
T KOG2302|consen 1349 VDQQPIL---NHNPWMLLYFIS 1367 (1956)
T ss_pred eeeeccc---cCCcHHHHHHHH
Confidence 3456665 335555555443
No 76
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=36.28 E-value=93 Score=28.68 Aligned_cols=24 Identities=13% Similarity=0.324 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITK 173 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~ 173 (221)
+++++.++++..++-.+-=.||++
T Consensus 238 ~~~re~~~~~m~~~V~~AdVVitN 261 (342)
T TIGR01404 238 ELHQEILSEQLKSDVKRSTLVVAN 261 (342)
T ss_pred HHHHHHHHhhhhccCCCCcEEEEC
Confidence 577788888888888899999987
No 77
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=36.20 E-value=97 Score=28.68 Aligned_cols=24 Identities=4% Similarity=0.181 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITK 173 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~ 173 (221)
+++++.++++..++-.+-=.||++
T Consensus 239 ~~~re~~~~~m~~~V~~AdVVItN 262 (349)
T PRK12721 239 ELQSEIQSGSLANNVKKSTAVVRN 262 (349)
T ss_pred HHHHHHHHhhhhccCCCCcEEEEc
Confidence 567777888888888899999997
No 78
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=36.12 E-value=2.4e+02 Score=22.96 Aligned_cols=70 Identities=16% Similarity=0.042 Sum_probs=32.4
Q ss_pred CCChhhHHHHhHHHHHHHHHHhhhhcchhhhHHHH------------HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 90 HFSSFFATGAFIIPASVYFLLKKFILKPYYLKREK------------QKALENMEKTSAQVQEAKAAAQKAQQLLQNVAN 157 (221)
Q Consensus 90 ~~~~~~~~~a~v~P~~~y~~~~~~v~~P~~r~~~~------------~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~ 157 (221)
.+-|.++.+..++-++.+++++- +.+=...|+.+ ++..+...+.++.+.+++.||...++-.+..++
T Consensus 18 ~~~~~~i~Flil~~iL~~~~~kp-i~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~ii~~A~~ea~ 96 (173)
T PRK13460 18 LVVWTLVTFLVVVLVLKKFAWDV-ILKALDERASGVQNDINKASELRLEAEALLKDYEARLNSAKDEANAIVAEAKSDAL 96 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34454555555555555555443 34433333221 122223344445555555555555555544444
Q ss_pred HHH
Q 027638 158 RKR 160 (221)
Q Consensus 158 r~~ 160 (221)
+..
T Consensus 97 ~~~ 99 (173)
T PRK13460 97 KLK 99 (173)
T ss_pred HHH
Confidence 433
No 79
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=35.68 E-value=1.9e+02 Score=23.38 Aligned_cols=21 Identities=14% Similarity=0.098 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 027638 145 AQKAQQLLQNVANRKRNKQLE 165 (221)
Q Consensus 145 A~~a~~Lm~~~a~r~~~~E~~ 165 (221)
|....+-|...++...+.|++
T Consensus 100 A~~ea~~~~~~A~~~I~~e~~ 120 (167)
T PRK14475 100 LEEQIKRRAEMAERKIAQAEA 120 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444443
No 80
>PRK06298 type III secretion system protein; Validated
Probab=35.62 E-value=1e+02 Score=28.62 Aligned_cols=25 Identities=16% Similarity=0.344 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITKA 174 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~A 174 (221)
+++++.++++..++-.+-=.||++-
T Consensus 240 ~~~re~~~~~m~~~V~~AdVVItNP 264 (356)
T PRK06298 240 QIAQEIAYEDTSSQVKHASAVVSNP 264 (356)
T ss_pred HHHHHHHHhHHhhcCCCCcEEEECC
Confidence 5677788888888888999999863
No 81
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=35.52 E-value=2e+02 Score=23.00 Aligned_cols=28 Identities=18% Similarity=0.109 Sum_probs=14.0
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 130 NMEKTSAQVQEAKAAAQKAQQLLQNVAN 157 (221)
Q Consensus 130 ~r~~~~~~i~~~R~eA~~a~~Lm~~~a~ 157 (221)
..++.++.+.++|.||.+.++-.+..++
T Consensus 75 ~~~e~e~~L~~A~~ea~~ii~~A~~~a~ 102 (156)
T CHL00118 75 LTKQYEQELSKARKEAQLEITQSQKEAK 102 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555444444443
No 82
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=35.09 E-value=1.1e+02 Score=28.51 Aligned_cols=24 Identities=25% Similarity=0.372 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITK 173 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~ 173 (221)
+++++.+.++..++-.+-=.||++
T Consensus 246 ~~~re~a~~~m~~~V~~AdVVItN 269 (359)
T PRK05702 246 QLQREMARRRMMAAVPKADVVITN 269 (359)
T ss_pred HHHHHHHHhHHhhcCCCCcEEEEC
Confidence 577788888888888899999987
No 83
>PF04357 DUF490: Family of unknown function (DUF490); InterPro: IPR007452 This family contains several proteins of uncharacterised function.
Probab=34.60 E-value=3.4e+02 Score=24.27 Aligned_cols=62 Identities=13% Similarity=0.005 Sum_probs=43.5
Q ss_pred ceeEEEEEEEecCCCceeeEEEEEcccccee-EEeeeeeeccceeEEEEEEEe--eeeeEEEEEE
Q 027638 13 SFGASAHYTHRFSKKSHGRIQGRLGSTALEL-EVGGGRKISEFSTIRMLYSVG--IQGIFWKFEL 74 (221)
Q Consensus 13 ~~~is~~y~r~~~~~~~~r~~~~~gt~g~~~-~~g~~rkvs~~s~vg~~v~ig--~~Gv~lk~~~ 74 (221)
..+.++..++++.+...++.+...+..+... ++..+.+++++.++.+.+.-+ -+|+.+..+|
T Consensus 313 ~~~~~~~~gk~l~~~l~i~~~~~~~~~~~~~~~~~l~y~l~~~~~l~~~~~~~~~~~g~~l~y~~ 377 (379)
T PF04357_consen 313 ESDTSVTVGKYLSDRLYISYQFGVDLGGSQTGEFSLEYRLNPNLSLRGSSDSGNTSQGVDLIYRK 377 (379)
T ss_pred cCceEEEEEEecCCCEEEEEEEeecCCCCceEEEEEEEEEcCCEEEEEEEEcCCCceEEEEEEEE
Confidence 3567888888887667777766677666544 788999999999888886444 2255554443
No 84
>PRK09098 type III secretion system protein HrpB; Validated
Probab=33.10 E-value=3.3e+02 Score=23.64 Aligned_cols=24 Identities=4% Similarity=-0.132 Sum_probs=17.2
Q ss_pred cCCChhhHHHHhHHHHHHHHHHhh
Q 027638 89 RHFSSFFATGAFIIPASVYFLLKK 112 (221)
Q Consensus 89 ~~~~~~~~~~a~v~P~~~y~~~~~ 112 (221)
.++.|..+|...+-==.+|+.++.
T Consensus 16 ~~v~~~~~~~~~~~~~~~~~~~~~ 39 (233)
T PRK09098 16 CDVIPREAFATVLALDAALAAVHA 39 (233)
T ss_pred cccccHHHHHHHHHHHHHHHHHHH
Confidence 367778888777777777777654
No 85
>PF12139 APS-reductase_C: Adenosine-5'-phosphosulfate reductase beta subunit; InterPro: IPR022738 This domain is found in bacteria and archaea and is typically between 112 to 142 amino acids in length. It is found in association with PF00037 from PFAM, and has a conserved FPIRTT sequence motif. The whole beta subunit has the enzymic properties of 1.8.99.2 from EC. ; PDB: 1JNZ_B 2FJE_D 2FJD_B 1JNR_D 2FJB_B 2FJA_B 3GYX_J.
Probab=33.02 E-value=38 Score=25.02 Aligned_cols=40 Identities=15% Similarity=0.380 Sum_probs=23.5
Q ss_pred eccceeEEEEEEE--eeeeeEEEEEEEEcce-EEEEEEEeccC
Q 027638 51 ISEFSTIRMLYSV--GIQGIFWKFELHRAGQ-KLVVPILLSRH 90 (221)
Q Consensus 51 vs~~s~vg~~v~i--g~~Gv~lk~~~~R~gQ-~~~~PI~Ls~~ 90 (221)
-.+|.-+|.+|.. |-.-|.|+++|.-+.- +|.+||--.|+
T Consensus 4 YADFvPlG~sv~plR~~~~ImWtikFRnG~~KrFkfPIRTTpe 46 (83)
T PF12139_consen 4 YADFVPLGGSVRPLRGTESIMWTIKFRNGTVKRFKFPIRTTPE 46 (83)
T ss_dssp -TTTS-TT-EEEEEE-SSEEEEEEE-TTS-EEEEEEE--SS-T
T ss_pred ccceecCCCeeEeecCCCeEEEEEEecCCceeeeecceEcCCC
Confidence 4567788888553 2247999999987765 79999988774
No 86
>PF01103 Bac_surface_Ag: Surface antigen; InterPro: IPR000184 The protein sequences of d15 from various strains of Haemophilus influenzae are highly conserved, with only a small variable region identified near the carboxyl terminus of the protein []. D15 is a highly conserved antigen that is protective in animal models and it may be a useful component of a universal subunit vaccine against Haemophilus infection and disease []. Membrane proteins from other bacteria have been shown to elicit protective immunity. Oma87 is a protective outer membrane antigen of Pasteurella multocida [].; GO: 0019867 outer membrane
Probab=32.79 E-value=2.6e+02 Score=23.80 Aligned_cols=33 Identities=18% Similarity=0.073 Sum_probs=23.1
Q ss_pred ceeEEEEEcccceeEEEEEEEecCCCceeeEEE
Q 027638 2 SAAGELKIGTSSFGASAHYTHRFSKKSHGRIQG 34 (221)
Q Consensus 2 sw~~~~~~g~~~~~is~~y~r~~~~~~~~r~~~ 34 (221)
++++++..|.....+.++|+.+........+++
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~~~~ 40 (323)
T PF01103_consen 8 SLSVSATYGSDSQSLSLSYTNPYFFGDRLSLGF 40 (323)
T ss_pred EEEEEEEEcCceEEEEEEEEEcCCCCCCEEEEE
Confidence 577788887788889999998865543333333
No 87
>TIGR03142 cytochro_ccmI cytochrome c-type biogenesis protein CcmI. This TPR repeat-containing protein is the CcmI protein (also called CycH) of c-type cytochrome biogenesis. CcmI is thought to act as an apo-cytochrome c chaperone. This model describes the N-terminal region of the protein, Members of this protein family
Probab=32.61 E-value=75 Score=24.38 Aligned_cols=9 Identities=33% Similarity=0.733 Sum_probs=4.5
Q ss_pred hhcchhhhH
Q 027638 113 FILKPYYLK 121 (221)
Q Consensus 113 ~v~~P~~r~ 121 (221)
+++.|..|+
T Consensus 16 ~v~~pl~r~ 24 (117)
T TIGR03142 16 FLLLPLLRR 24 (117)
T ss_pred HHHHHHhcC
Confidence 445565443
No 88
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=32.57 E-value=2.6e+02 Score=22.38 Aligned_cols=31 Identities=19% Similarity=0.169 Sum_probs=17.8
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 129 ENMEKTSAQVQEAKAAAQKAQQLLQNVANRK 159 (221)
Q Consensus 129 ~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~ 159 (221)
+...++++.+.++|.||...++--+..+++.
T Consensus 60 ~~~~e~e~~l~~A~~ea~~ii~~A~~~a~~~ 90 (164)
T PRK14473 60 NAKRDYEAELAKARQEAAKIVAQAQERARAQ 90 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345556666666666666665555554443
No 89
>cd05821 TLP_Transthyretin Transthyretin (TTR) is a 55 kDa protein responsible for the transport of thyroid hormones and retinol in vertebrates. TTR distributes the two thyroid hormones T3 (3,5,3'-triiodo-L-thyronine) and T4 (Thyroxin, or 3,5,3',5'-tetraiodo-L-thyronine), as well as retinol (vitamin A) through the formation of a macromolecular complex that includes each of these as well as retinol-binding protein. Misfolded forms of TTR are implicated in the amyloid diseases familial amyloidotic polyneuropathy and senile systemic amyloidosis. TTR forms a homotetramer with each subunit consisting of eight beta-strands arranged in two sheets and a short alpha-helix. The central channel of the tetramer contains two independent binding sites, each located between a pair of subunits, which differ in their ligand binding affinity. A negative cooperativity has been observed for the binding of T4 and other TTR ligands. A fraction of plasma TTR is carried in high density lipoproteins by bindi
Probab=32.19 E-value=39 Score=26.65 Aligned_cols=25 Identities=16% Similarity=0.093 Sum_probs=21.4
Q ss_pred eeeEEEEEEEEc-ceEEEEEEEeccC
Q 027638 66 QGIFWKFELHRA-GQKLVVPILLSRH 90 (221)
Q Consensus 66 ~Gv~lk~~~~R~-gQ~~~~PI~Ls~~ 90 (221)
+-|.+.|.+... .|.|-+|++|||-
T Consensus 86 p~V~I~F~i~d~~~~HYHVPLLlSP~ 111 (121)
T cd05821 86 EYAEVVFTANDSGHRHYTIAALLSPY 111 (121)
T ss_pred ceEEEEEEECCCCCCCeEeCeEecCC
Confidence 468888999888 4999999999994
No 90
>cd00927 Cyt_c_Oxidase_VIc Cytochrome c oxidase subunit VIc. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. The VIc subunit is found only in eukaryotes and its specific function remains unclear. It has been reported that the relative concentrations of some nuclear encoded CcO subunits, including subunit VIc, compared to those of the mitochondrial encoded subunits, are altered significantly during the progression of prostate cancer.
Probab=31.87 E-value=1.3e+02 Score=21.60 Aligned_cols=30 Identities=13% Similarity=0.082 Sum_probs=23.2
Q ss_pred hHHHHhHHHHHHHHHHhhhhcchhhhHHHH
Q 027638 95 FATGAFIIPASVYFLLKKFILKPYYLKREK 124 (221)
Q Consensus 95 ~~~~a~v~P~~~y~~~~~~v~~P~~r~~~~ 124 (221)
-+..+.++++.+-++++.++.+|+.+..+.
T Consensus 18 ~l~~a~~lsl~~~~~~k~~~~~pRK~aYad 47 (70)
T cd00927 18 HLIVAFVLSLGAAAAYKFLVNEPRKKAYAD 47 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 456778888888888999999997765443
No 91
>PF01312 Bac_export_2: FlhB HrpN YscU SpaS Family; InterPro: IPR006135 Salmonella, and related proteobacteria, secrete large amounts of proteins into the culture media. The major secreted proteins are either flagellar proteins or virulence factors [], secreted through the flagellar or virulence export structures respectively. Both secretion systems penetrate the inner and outer membranes and their components bear substantial sequence similarity. Both the flagellar and needle like pilus look fairly similar to each other []. The type III secretion system is of great interest, as it is used to transport virulence factors from the pathogen directly into the host cell [] and is only triggered when the bacterium comes into close contact with the host. It is believed that the family of type III flagellar and pilus inner membrane proteins are used as structural moieties in a complex with several other subunits []. One such set of inner membrane proteins, labeled "S" here for nomenclature purposes, includes the Salmonella and Shigella SpaS, the Yersinia YscU, Rhizobium Y4YO, and the Erwinia HrcU genes, Salmonella FlhB and Escherichia coli EscU [, , , ]. Many of the proteins, in this entry, undergo autocatalytic cleavage promoted by cyclization of a conserved asparagine. These proteins belong to the MEROPS peptidase family N6. ; GO: 0009306 protein secretion, 0016020 membrane; PDB: 3C03_C 3BZT_A 3BZV_B 3BZP_A 3BZX_B 3BZL_B 3C00_A 3BZR_A 3BZY_A 3BZO_A ....
Probab=31.85 E-value=91 Score=28.68 Aligned_cols=24 Identities=25% Similarity=0.372 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITK 173 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~ 173 (221)
+++++.++++...+-.+-=.||++
T Consensus 241 ~~~re~~~~~~~~~V~~A~vVItN 264 (343)
T PF01312_consen 241 QLQREMARRRMMAAVPKADVVITN 264 (343)
T ss_dssp HHHHHHHHHHHHHHHHT-SEEEEE
T ss_pred HHHHHHHhhhhhccCCcCcEEEEC
Confidence 466677788888888888899997
No 92
>COG5612 Predicted integral membrane protein [Function unknown]
Probab=31.73 E-value=1.2e+02 Score=24.30 Aligned_cols=39 Identities=23% Similarity=0.212 Sum_probs=31.3
Q ss_pred chhhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 027638 116 KPYYLKREKQKALENMEKTSAQVQEAKAAAQKAQQLLQN 154 (221)
Q Consensus 116 ~P~~r~~~~~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~ 154 (221)
-|-+|+--++...+.++++++-+++.|++-.++..||..
T Consensus 48 p~~~R~~fRqaLr~arq~~rei~~~arqaRreAa~ll~~ 86 (148)
T COG5612 48 PPENRRGFRQALRAARQKNREITQRARQARREAAALLAS 86 (148)
T ss_pred CHHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHhcC
Confidence 555566666777778899999999999999999999863
No 93
>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []. The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].
Probab=31.58 E-value=1.9e+02 Score=24.95 Aligned_cols=26 Identities=8% Similarity=0.342 Sum_probs=16.3
Q ss_pred HHHHHHHHHhhhhcchhhhHHHHHHHH
Q 027638 102 IPASVYFLLKKFILKPYYLKREKQKAL 128 (221)
Q Consensus 102 ~P~~~y~~~~~~v~~P~~r~~~~~~~~ 128 (221)
+-+++|.+ -.+++.||.|+|--+..+
T Consensus 161 vNvllFl~-~~~~~EPwkRrRLv~~fe 186 (207)
T PF05546_consen 161 VNVLLFLV-AQLLVEPWKRRRLVKSFE 186 (207)
T ss_pred HHHHHHHH-HHHHhCHHHHHHHHHHHH
Confidence 34444444 456899999886555544
No 94
>PRK12705 hypothetical protein; Provisional
Probab=31.57 E-value=4.6e+02 Score=25.69 Aligned_cols=14 Identities=7% Similarity=-0.055 Sum_probs=6.8
Q ss_pred HHHHhHHHHHHHHH
Q 027638 96 ATGAFIIPASVYFL 109 (221)
Q Consensus 96 ~~~a~v~P~~~y~~ 109 (221)
++++.++|+.++..
T Consensus 5 ~~~~~~~~~~~~~~ 18 (508)
T PRK12705 5 ILLVILLLLIGLLL 18 (508)
T ss_pred HHHHHHHHHHHHHH
Confidence 44555555554433
No 95
>KOG4807 consensus F-actin binding protein, regulates actin cytoskeletal organization [Cytoskeleton]
Probab=31.37 E-value=1.4e+02 Score=28.59 Aligned_cols=44 Identities=18% Similarity=0.200 Sum_probs=29.1
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCc
Q 027638 125 QKALENMEKTSAQVQEAKAAAQKAQQLLQNVANRKRNKQLEIGG 168 (221)
Q Consensus 125 ~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~~~~E~~k~G 168 (221)
++..+.|++-...+++--+.-.+||+.|++....-..+|.+|.-
T Consensus 363 RELekLreEKdrLLAEETAATiSAIEAMKnAhrEEmeRELeKsq 406 (593)
T KOG4807|consen 363 RELEKLREEKDRLLAEETAATISAIEAMKNAHREEMERELEKSQ 406 (593)
T ss_pred HHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhh
Confidence 33333343333344444445567999999999999999988854
No 96
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=31.23 E-value=1.4e+02 Score=27.84 Aligned_cols=25 Identities=20% Similarity=0.246 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITKA 174 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~A 174 (221)
+++++.++++..++-.+-=.||++-
T Consensus 248 q~~re~~~~~m~~~V~~AdVVItNP 272 (358)
T PRK13109 248 SLAQDRARNRMLANVPRATLVIANP 272 (358)
T ss_pred HHHHHHHHhhHhhcCCCCcEEEECC
Confidence 5677778888888888889999863
No 97
>COG3114 CcmD Heme exporter protein D [Intracellular trafficking and secretion]
Probab=30.68 E-value=2e+02 Score=20.39 Aligned_cols=13 Identities=31% Similarity=0.723 Sum_probs=6.9
Q ss_pred hhHHHHhHHHHHH
Q 027638 94 FFATGAFIIPASV 106 (221)
Q Consensus 94 ~~~~~a~v~P~~~ 106 (221)
+.++..+++|+++
T Consensus 20 WlA~~~tll~l~~ 32 (67)
T COG3114 20 WLAVGMTLLPLAV 32 (67)
T ss_pred HHHHHHHHHHHHH
Confidence 3455555556554
No 98
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=30.63 E-value=1.5e+02 Score=29.18 Aligned_cols=8 Identities=25% Similarity=0.459 Sum_probs=5.7
Q ss_pred eEEeeeee
Q 027638 199 VLDVTLPL 206 (221)
Q Consensus 199 ~iDVTIpl 206 (221)
.||+-.|-
T Consensus 520 aidqe~PT 527 (708)
T KOG3654|consen 520 AIDQETPT 527 (708)
T ss_pred cccccCCC
Confidence 67777774
No 99
>PF07543 PGA2: Protein trafficking PGA2; InterPro: IPR011431 A Saccharomyces cerevisiae (Baker's yeast) member of this family (PGA2, P53903 from SWISSPROT) is a single pass membrane protein which has been implicated in protein trafficking [, ].
Probab=30.32 E-value=75 Score=25.62 Aligned_cols=12 Identities=33% Similarity=0.739 Sum_probs=7.9
Q ss_pred hhhhcchhhhHH
Q 027638 111 KKFILKPYYLKR 122 (221)
Q Consensus 111 ~~~v~~P~~r~~ 122 (221)
-+++||||.++-
T Consensus 26 gYiLlRPY~~kl 37 (140)
T PF07543_consen 26 GYILLRPYFRKL 37 (140)
T ss_pred HHHHHHHHHHHH
Confidence 345689987653
No 100
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=29.48 E-value=2.7e+02 Score=22.80 Aligned_cols=19 Identities=21% Similarity=0.170 Sum_probs=10.9
Q ss_pred hhHHHHhHHHHHHHHHHhh
Q 027638 94 FFATGAFIIPASVYFLLKK 112 (221)
Q Consensus 94 ~~~~~a~v~P~~~y~~~~~ 112 (221)
..+.+.+++-++.|++++.
T Consensus 32 ~~inflil~~iL~~f~~~~ 50 (184)
T PRK13455 32 VTLAFLLFIGILVYFKVPG 50 (184)
T ss_pred HHHHHHHHHHHHHHHhccH
Confidence 3455555566666666554
No 101
>cd07306 Porin3_VDAC Voltage-dependent anion channel of the outer mitochondrial membrane. The voltage-dependent anion channel (VDAC) regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane, which is highly permeable to small molecules. VDAC is the most abundant protein in the outer membrane, and membrane potentials can toggle VDAC between open or high-conducting and closed or low-conducting forms. VDAC binds to and is regulated in part by hexokinase, an interaction that renders mitochondria less susceptible to pro-apoptotic signals, most likely by intefering with VDAC's capability to respond to Bcl-2 family proteins. While VDAC appears to play a key role in mitochondrially induced cell death, a proposed involvement in forming the mitochondrial permeability transition pore, which is characteristic for damaged mitochondria and apoptosis, has been challenged by more recent studies.
Probab=29.27 E-value=3.9e+02 Score=23.33 Aligned_cols=55 Identities=16% Similarity=0.267 Sum_probs=31.9
Q ss_pred eeEEEEEcccceeEEEEEEEecCCCceeeEEEEE----ccccceeEEeeeeeeccceeEEEE
Q 027638 3 AAGELKIGTSSFGASAHYTHRFSKKSHGRIQGRL----GSTALELEVGGGRKISEFSTIRML 60 (221)
Q Consensus 3 w~~~~~~g~~~~~is~~y~r~~~~~~~~r~~~~~----gt~g~~~~~g~~rkvs~~s~vg~~ 60 (221)
|++++++.. ...+.++|-+++.+. +.+|+.+ +.....+++|+..++...+.+.+-
T Consensus 172 ~~~s~~l~~-~~~l~~S~~~kv~~~--l~~g~e~~~~~~~~~~~~~vg~~y~l~~~~~vkak 230 (276)
T cd07306 172 FELSLKLNN-GKTLRGSYFHKVSPR--LAVGAKVTWYSGTNETTFAVGGQYALDPDALVKAK 230 (276)
T ss_pred eEEEEEECC-CCEEEEEEEEEcCCC--eEEEEEEEEecCCCCcEEEEEEEEEcCCCCEEEEE
Confidence 455666654 356788888888764 3333332 333456667777766665444444
No 102
>PLN03086 PRLI-interacting factor K; Provisional
Probab=29.25 E-value=2.3e+02 Score=28.22 Aligned_cols=12 Identities=8% Similarity=0.387 Sum_probs=6.4
Q ss_pred CceEEEEEEecC
Q 027638 167 GGLIITKAVYGA 178 (221)
Q Consensus 167 ~GLVI~~A~YG~ 178 (221)
+|.+-..-.=++
T Consensus 74 ~g~~~~~~~~~~ 85 (567)
T PLN03086 74 RGIVFSRIFEAV 85 (567)
T ss_pred CCeEEEEEeecc
Confidence 666655544443
No 103
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=28.94 E-value=2.9e+02 Score=21.79 Aligned_cols=17 Identities=0% Similarity=-0.089 Sum_probs=6.3
Q ss_pred HHHHHHHHHHhHHHHHH
Q 027638 124 KQKALENMEKTSAQVQE 140 (221)
Q Consensus 124 ~~~~~~~r~~~~~~i~~ 140 (221)
..-+.++++.....+.+
T Consensus 33 ~~~l~~R~~~I~~~l~~ 49 (141)
T PRK08476 33 LKFMDNRNASIKNDLEK 49 (141)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 104
>PF10960 DUF2762: Protein of unknown function (DUF2762); InterPro: IPR024405 BhlA is a SP-beta prophage-derived protein found in Bacillus subtilis [, ] and other Bacilli. A related protein, UviB, has also been described in Clostridia, where it is believed to be involved in bacteriocin secretion or immunity [, ].
Probab=28.29 E-value=2.2e+02 Score=20.25 Aligned_cols=30 Identities=7% Similarity=-0.004 Sum_probs=15.2
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 130 NMEKTSAQVQEAKAAAQKAQQLLQNVANRK 159 (221)
Q Consensus 130 ~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~ 159 (221)
.|+..-.++-++-.+..++++=..+.+..+
T Consensus 39 ~RE~kyq~~I~~lte~~~~~~~~~~dv~ei 68 (71)
T PF10960_consen 39 EREEKYQEQIEKLTEKLNVIEEIKEDVKEI 68 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444556666665555554443
No 105
>PRK09108 type III secretion system protein HrcU; Validated
Probab=27.94 E-value=1.6e+02 Score=27.24 Aligned_cols=25 Identities=8% Similarity=0.247 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHhhcCceEEEEE
Q 027638 150 QLLQNVANRKRNKQLEIGGLIITKA 174 (221)
Q Consensus 150 ~Lm~~~a~r~~~~E~~k~GLVI~~A 174 (221)
+++++.+.++..++-.+-=.||++-
T Consensus 241 q~~re~a~~~m~~~V~~AdvVItNP 265 (353)
T PRK09108 241 RLARELAFAPPRQRVARANVVVVNP 265 (353)
T ss_pred HHHHHHHHhHHhccCCCCcEEEECC
Confidence 5677778888888888888899863
No 106
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=26.77 E-value=3.3e+02 Score=22.38 Aligned_cols=19 Identities=21% Similarity=0.275 Sum_probs=8.0
Q ss_pred HhHHHHHHHHHHHHHHHHH
Q 027638 133 KTSAQVQEAKAAAQKAQQL 151 (221)
Q Consensus 133 ~~~~~i~~~R~eA~~a~~L 151 (221)
+.++.+.++|.+|.+.++-
T Consensus 80 e~e~~L~~A~~ea~~ii~~ 98 (184)
T CHL00019 80 KARARLRQAELEADEIRVN 98 (184)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444443333
No 107
>smart00095 TR_THY Transthyretin.
Probab=26.39 E-value=57 Score=25.74 Aligned_cols=25 Identities=16% Similarity=0.085 Sum_probs=21.5
Q ss_pred eeeEEEEEEEEc-ceEEEEEEEeccC
Q 027638 66 QGIFWKFELHRA-GQKLVVPILLSRH 90 (221)
Q Consensus 66 ~Gv~lk~~~~R~-gQ~~~~PI~Ls~~ 90 (221)
+-|.+.|.+... .|-|-||++|||-
T Consensus 83 p~V~V~F~i~d~~~~HYHVPLLlSP~ 108 (121)
T smart00095 83 EYADVVFTANDSGHRHYTIAALLSPY 108 (121)
T ss_pred ceEEEEEEECCCCCCCeEECeEecCC
Confidence 468888999888 4999999999994
No 108
>PF01093 Clusterin: Clusterin; InterPro: IPR000753 Clusterin is a vertebrate glycoprotein [], the exact function of which is not yet clear. Clusterin expression is complex, appearing as different forms in different cell compartments. One set of proteins is directed for secretion, and other clusterin species are expressed in the cytoplasm and nucleus. The secretory form of the clusterin protein (sCLU) is targeted to the ER by an initial leader peptide. This ~60kDa pre-sCLU protein is further glycosylated and proteolytically cleaved into alpha- and beta-subunits, held together by disulphide bonds. External sCLU is an 80kDa protein and may act as a molecular chaperone, scavenging denatured proteins outside cells following specific stress-induced injury such as heat shock. sCLU possesses nonspecific binding activity to hydrophobic domains of various proteins in vitro []. A specific nuclear form of CLU (nCLU) acts as a pro-death signal, inhibiting cell growth and survival. The nCLU protein has two coiled-coil domains, one at its N terminus that is unable to bind Ku70, and a C-terminal coiled-coil domain that is uniquely able to associate with Ku70 and is minimally required for cell death. Clusterin is synthesized as a precursor polypeptide of about 400 amino acids which is post-translationally cleaved to form two subunits of about 200 amino acids each. The two subunits are linked by five disulphide bonds to form an antiparallel ladder-like structure []. In each of the mature subunits the five cysteines that are involved in disulphide bonds are clustered in domains of about 30 amino acids located in the central part of the subunits. This entry represents the clusterin precursor and related proteins.; GO: 0008219 cell death
Probab=26.10 E-value=2.8e+02 Score=26.60 Aligned_cols=39 Identities=13% Similarity=0.194 Sum_probs=29.2
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027638 127 ALENMEKTSAQVQEAKAAAQKAQQLLQNVANRKRNKQLE 165 (221)
Q Consensus 127 ~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~~~~E~~ 165 (221)
..+.++.+...+.+.+++-++|++||+++=++-.++|+-
T Consensus 35 ~eeeh~~Lm~tL~k~kk~KeeAl~l~~e~e~kLee~e~~ 73 (436)
T PF01093_consen 35 TEEEHKELMKTLEKSKKEKEEALKLANEVEEKLEEEEEV 73 (436)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666777888888999999999987776666653
No 109
>PF14981 FAM165: FAM165 family
Probab=25.79 E-value=2e+02 Score=19.06 Aligned_cols=13 Identities=15% Similarity=0.074 Sum_probs=6.4
Q ss_pred hHHHHHHHHHHhh
Q 027638 100 FIIPASVYFLLKK 112 (221)
Q Consensus 100 ~v~P~~~y~~~~~ 112 (221)
+++-+++|+.++.
T Consensus 17 tlilClaFAgvK~ 29 (51)
T PF14981_consen 17 TLILCLAFAGVKM 29 (51)
T ss_pred HHHHHHHHhhHHH
Confidence 3444455555544
No 110
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=25.66 E-value=3.3e+02 Score=21.36 Aligned_cols=31 Identities=26% Similarity=0.198 Sum_probs=16.3
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027638 131 MEKTSAQVQEAKAAAQKAQQLLQNVANRKRN 161 (221)
Q Consensus 131 r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~~~ 161 (221)
.++.++.+.+++.+|.+.++-.+..+++...
T Consensus 58 ~~e~~~~l~~a~~ea~~i~~~a~~ea~~~~~ 88 (156)
T PRK05759 58 QAKYEAQLAEARAEAAEIIEQAKKRAAQIIE 88 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555666665555555555444433
No 111
>PF05680 ATP-synt_E: ATP synthase E chain; InterPro: IPR008386 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 subunit E found in the F0 complex of F-ATPases. Mitochondrial F-ATPases can associate together to form dimeric or oligomeric complexes, such interactions involving the physical association of membrane-embedded F0 complexes. In yeast, the F0 complex E subunit appears to play an important role in supporting F-ATPase dimerisation. This subunit is anchored to the inner mitochondrial membrane via its N-terminal region, which is involved in stabilising subunits G and K of the F0 complex. The C-terminal region of subunit E is hydrophilic, protruding into the intermembrane space where it can also help stabilise the F-ATPase dimer complex []. 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, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)
Probab=25.38 E-value=2.6e+02 Score=20.59 Aligned_cols=12 Identities=33% Similarity=0.257 Sum_probs=6.5
Q ss_pred HHHHHHhhhhcc
Q 027638 105 SVYFLLKKFILK 116 (221)
Q Consensus 105 ~~y~~~~~~v~~ 116 (221)
++|.+.++..+.
T Consensus 22 v~YG~~~~~~L~ 33 (86)
T PF05680_consen 22 VVYGAYHQRYLK 33 (86)
T ss_pred HHHHHHHHHHHH
Confidence 456666655444
No 112
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=25.33 E-value=2.7e+02 Score=20.15 Aligned_cols=14 Identities=7% Similarity=0.093 Sum_probs=7.6
Q ss_pred HhHHHHHHHHHHhh
Q 027638 99 AFIIPASVYFLLKK 112 (221)
Q Consensus 99 a~v~P~~~y~~~~~ 112 (221)
-.+.|++..+++=-
T Consensus 28 l~LtPlfiisa~lS 41 (74)
T PF15086_consen 28 LILTPLFIISAVLS 41 (74)
T ss_pred HHHhHHHHHHHHHH
Confidence 34567666555433
No 113
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=25.06 E-value=4.2e+02 Score=22.37 Aligned_cols=43 Identities=26% Similarity=0.253 Sum_probs=23.5
Q ss_pred hhhcchhhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 027638 112 KFILKPYYLKREKQKALENMEKTSAQVQEAKAAAQKAQQLLQN 154 (221)
Q Consensus 112 ~~v~~P~~r~~~~~~~~~~r~~~~~~i~~~R~eA~~a~~Lm~~ 154 (221)
.+++.-+.-+.-..-..++++.....+.++...-+++.+++.+
T Consensus 62 v~lL~k~l~kPi~~~L~~R~~~I~~~L~~Ae~~~~eA~~~l~e 104 (205)
T PRK06231 62 LLLGIFLFWKPTQRFLNKRKELIEAEINQANELKQQAQQLLEN 104 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555556666666666666666654444444444443
No 114
>KOG4783 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.90 E-value=67 Score=24.51 Aligned_cols=23 Identities=30% Similarity=0.581 Sum_probs=18.7
Q ss_pred HHHhHHHHHHHHHHhhhhcchhh
Q 027638 97 TGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 97 ~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
.+-..+|+.+|+++|.++++-+.
T Consensus 36 ~lii~vPiatfF~lK~fvleg~l 58 (102)
T KOG4783|consen 36 SLIIGVPIATFFALKFFVLEGYL 58 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 34467899999999999987654
No 115
>PF12537 DUF3735: Protein of unknown function (DUF3735); InterPro: IPR022535 This conserved domain is found in a subunit of a voltage dependent anion channel required for acidification and functions of the Golgi apparatus; it may function in counter-ion conductance. It belongs to the Golgi pH regulator (1.A.38 from TC) family
Probab=24.49 E-value=2.2e+02 Score=19.96 Aligned_cols=12 Identities=25% Similarity=0.257 Sum_probs=6.9
Q ss_pred HHHhHHHHHHHH
Q 027638 97 TGAFIIPASVYF 108 (221)
Q Consensus 97 ~~a~v~P~~~y~ 108 (221)
|.|+-.|+..+.
T Consensus 27 ~gaVstpy~~~~ 38 (72)
T PF12537_consen 27 FGAVSTPYYYFS 38 (72)
T ss_pred hhHHccHHHHHH
Confidence 455556666554
No 116
>KOG4253 consensus Tryptophan-rich basic nuclear protein [General function prediction only]
Probab=23.91 E-value=3.2e+02 Score=22.79 Aligned_cols=25 Identities=12% Similarity=0.069 Sum_probs=15.3
Q ss_pred hhHHHHhHHHHHHHHHHhhhhcchhh
Q 027638 94 FFATGAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 94 ~~~~~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
...+|-.++-++-++.... ++.|..
T Consensus 7 ~~i~~llvl~Fl~~~nk~r-~l~~s~ 31 (175)
T KOG4253|consen 7 VHIAWLLVLKFLFGCNKLR-ILLPSF 31 (175)
T ss_pred HHHHHHHHHHHHHhhhHhh-eecchh
Confidence 3456667777777776554 566533
No 117
>PF02096 60KD_IMP: 60Kd inner membrane protein; InterPro: IPR001708 This family of proteins is required for the insertion of integral membrane proteins into cellular membranes. Many of these integral membrane proteins are associated with respiratory chain complexes, for example a large number of members of this family play an essential role in the activity and assembly of cytochrome c oxidase. Stage III sporulation protein J (SP3J) is a probable lipoprotein, rich in basic and hydrophobic amino acids. Mutations in the protein abolish the transcription of prespore-specific genes transcribed by the sigma G form of RNA polymerase []. SP3J could be involved in a signal transduction pathway coupling gene expression in the prespore to events in the mother cell, or it may be necessary for essential metabolic interactions between the two cells []. The protein shows a high degree of similarity to Bacillus subtilis YQJG, to yeast OXA1 and also to bacterial 60 kDa inner-membrane proteins [, , , ]. ; GO: 0051205 protein insertion into membrane, 0016021 integral to membrane
Probab=23.88 E-value=4.1e+02 Score=21.77 Aligned_cols=20 Identities=20% Similarity=0.315 Sum_probs=10.0
Q ss_pred HHhHHHHHHHHHHhhhhcchhh
Q 027638 98 GAFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 98 ~a~v~P~~~y~~~~~~v~~P~~ 119 (221)
|+..+++++.. ++ .++-|..
T Consensus 3 W~~aIil~ti~-vR-~~~~Pl~ 22 (198)
T PF02096_consen 3 WGLAIILTTIL-VR-LILLPLS 22 (198)
T ss_pred chHHHHHHHHH-HH-HHHHHHH
Confidence 44455555533 45 4566644
No 118
>PF07795 DUF1635: Protein of unknown function (DUF1635); InterPro: IPR012862 The members of this family include sequences that are parts of hypothetical proteins expressed by plant species. The region in question is about 170 amino acids long.
Probab=23.62 E-value=2.9e+02 Score=24.00 Aligned_cols=36 Identities=6% Similarity=0.207 Sum_probs=19.6
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027638 131 MEKTSAQVQEAKAAAQKAQQLLQNVANRKRNKQLEI 166 (221)
Q Consensus 131 r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~~~~E~~k 166 (221)
+.+..+++.+++.+..+-.+|++..++.|-++.++-
T Consensus 21 k~~A~EElRk~eeqi~~L~~Ll~~a~~ERDEAr~ql 56 (214)
T PF07795_consen 21 KMEANEELRKREEQIAHLKDLLKKAYQERDEAREQL 56 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555666666666555554444443
No 119
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=23.49 E-value=3.1e+02 Score=26.12 Aligned_cols=11 Identities=18% Similarity=0.226 Sum_probs=4.3
Q ss_pred hHHHHHHHHHH
Q 027638 100 FIIPASVYFLL 110 (221)
Q Consensus 100 ~v~P~~~y~~~ 110 (221)
.++-++-++++
T Consensus 13 Il~~lL~kfl~ 23 (445)
T PRK13428 13 VIVFLVWRFVV 23 (445)
T ss_pred HHHHHHHHHHH
Confidence 33333334443
No 120
>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=23.21 E-value=3.3e+02 Score=20.45 Aligned_cols=10 Identities=30% Similarity=0.474 Sum_probs=3.6
Q ss_pred HHHHHHHHHH
Q 027638 136 AQVQEAKAAA 145 (221)
Q Consensus 136 ~~i~~~R~eA 145 (221)
+.+.+.|.+|
T Consensus 58 ~~l~~a~~ea 67 (132)
T PF00430_consen 58 EKLAEAREEA 67 (132)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 121
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=22.07 E-value=3.7e+02 Score=20.61 Aligned_cols=21 Identities=10% Similarity=0.181 Sum_probs=13.7
Q ss_pred cCCCh-hhHHHHhHHHHHHHHH
Q 027638 89 RHFSS-FFATGAFIIPASVYFL 109 (221)
Q Consensus 89 ~~~~~-~~~~~a~v~P~~~y~~ 109 (221)
+.+|| .++|+.+++.+.+...
T Consensus 28 ~~fDpyPFilLnl~lS~~Aa~~ 49 (108)
T PF06210_consen 28 PAFDPYPFILLNLVLSLEAAYQ 49 (108)
T ss_pred CCCCCccHHHHHHHHHHHHHHH
Confidence 35677 5677777777765443
No 122
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=22.02 E-value=3.7e+02 Score=20.67 Aligned_cols=17 Identities=29% Similarity=0.284 Sum_probs=8.0
Q ss_pred HHHHhHHHHHHHHHHhh
Q 027638 96 ATGAFIIPASVYFLLKK 112 (221)
Q Consensus 96 ~~~a~v~P~~~y~~~~~ 112 (221)
+.+.+++-.++|--+..
T Consensus 16 lil~~ll~~~l~~pi~~ 32 (140)
T PRK07353 16 VLLTFILNALFYKPVGK 32 (140)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444455555544444
No 123
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=21.26 E-value=1.3e+02 Score=19.21 Aligned_cols=15 Identities=27% Similarity=0.293 Sum_probs=7.2
Q ss_pred hcchhhhHHHHHHHH
Q 027638 114 ILKPYYLKREKQKAL 128 (221)
Q Consensus 114 v~~P~~r~~~~~~~~ 128 (221)
++.|..++++..+..
T Consensus 22 ~~~~~~~~r~~~~~l 36 (46)
T PF04995_consen 22 IVWSLRRRRRLRKEL 36 (46)
T ss_pred HHHHHHHHHHHHHHH
Confidence 455655554443333
No 124
>KOG2829 consensus E2F-like protein [Transcription]
Probab=21.18 E-value=3.3e+02 Score=24.97 Aligned_cols=53 Identities=13% Similarity=0.152 Sum_probs=36.4
Q ss_pred hcchhhhHHHHHHHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhhc
Q 027638 114 ILKPYYLKREKQKALENMEKTSAQVQEAK---AAAQKAQQLLQNVANRKRNKQLEI 166 (221)
Q Consensus 114 v~~P~~r~~~~~~~~~~r~~~~~~i~~~R---~eA~~a~~Lm~~~a~r~~~~E~~k 166 (221)
+--|..-.+.=.+.++.+.++.++|.+++ +|-..++...+..++|.+..|.+.
T Consensus 124 ~GLP~~ss~dv~~le~Er~k~~erI~kK~a~lqEl~~q~~~fknLV~RN~~~e~~~ 179 (326)
T KOG2829|consen 124 IGLPATSSQDVSELEEERKKRMERIKKKAAQLQELIEQVSAFKNLVQRNRHAESQG 179 (326)
T ss_pred eccCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcc
Confidence 45665555555566666666666666663 445556678899999999999873
No 125
>PF10809 DUF2732: Protein of unknown function (DUF2732); InterPro: IPR020126 This entry represents a group of proteins with no known function
Probab=21.15 E-value=3.3e+02 Score=19.76 Aligned_cols=38 Identities=21% Similarity=0.296 Sum_probs=30.1
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027638 127 ALENMEKTSAQVQEAKAAAQKAQQLLQNVANRKRNKQL 164 (221)
Q Consensus 127 ~~~~r~~~~~~i~~~R~eA~~a~~Lm~~~a~r~~~~E~ 164 (221)
...+-..+...+..+.--+.++++||+.-+++...+-.
T Consensus 37 ~S~RL~~LA~hi~~~~ls~~E~~ELLrqEAe~~~n~a~ 74 (77)
T PF10809_consen 37 FSSRLDALAAHIANEELSAVEAAELLRQEAERIENQAQ 74 (77)
T ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHH
Confidence 33445677888888888899999999999999877644
No 126
>PF13584 BatD: Oxygen tolerance
Probab=20.97 E-value=1.4e+02 Score=28.28 Aligned_cols=13 Identities=23% Similarity=0.465 Sum_probs=6.8
Q ss_pred HHhHHHHHHHHHH
Q 027638 98 GAFIIPASVYFLL 110 (221)
Q Consensus 98 ~a~v~P~~~y~~~ 110 (221)
.+.++|++++.++
T Consensus 430 ~l~~~~~l~~~~~ 442 (484)
T PF13584_consen 430 LLLLLPLLLLLLL 442 (484)
T ss_pred HHHHHHHHHHHHH
Confidence 3345556655554
No 127
>PLN03086 PRLI-interacting factor K; Provisional
Probab=20.82 E-value=3.5e+02 Score=26.92 Aligned_cols=8 Identities=38% Similarity=0.555 Sum_probs=3.4
Q ss_pred eeeeeeee
Q 027638 204 LPLNFLVN 211 (221)
Q Consensus 204 Iplq~lV~ 211 (221)
=||-|-+.
T Consensus 113 ~Pm~F~l~ 120 (567)
T PLN03086 113 GPLYFRLS 120 (567)
T ss_pred CCeEEEEe
Confidence 34444443
No 128
>TIGR03592 yidC_oxa1_cterm membrane protein insertase, YidC/Oxa1 family, C-terminal domain. This model describes full-length from some species, and the C-terminal region only from other species, of the YidC/Oxa1 family of proteins. This domain appears to be univeral among bacteria (although absent from Archaea). The well-characterized YidC protein from Escherichia coli and its close homologs contain a large N-terminal periplasmic domain in addition to the region modeled here.
Probab=20.58 E-value=4.8e+02 Score=21.34 Aligned_cols=19 Identities=16% Similarity=0.259 Sum_probs=7.8
Q ss_pred HhHHHHHHHHHHhhhhcchhh
Q 027638 99 AFIIPASVYFLLKKFILKPYY 119 (221)
Q Consensus 99 a~v~P~~~y~~~~~~v~~P~~ 119 (221)
+..++.++. +++. ++-|..
T Consensus 3 ~~sIi~~ti-~vR~-~~~Pl~ 21 (181)
T TIGR03592 3 GLAIILLTI-IVRL-LLLPLT 21 (181)
T ss_pred HHHHHHHHH-HHHH-HHHHHH
Confidence 334444442 2344 345533
No 129
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=20.56 E-value=3.5e+02 Score=24.82 Aligned_cols=20 Identities=10% Similarity=0.087 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHhhc
Q 027638 147 KAQQLLQNVANRKRNKQLEI 166 (221)
Q Consensus 147 ~a~~Lm~~~a~r~~~~E~~k 166 (221)
+-+.|++...+++.++|+.+
T Consensus 375 egvkllkf~fekieareerr 394 (445)
T KOG2891|consen 375 EGVKLLKFEFEKIEAREERR 394 (445)
T ss_pred HhHHHHHHHHHHHHHHHHHH
Confidence 34566666665555555443
No 130
>PRK12773 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=20.20 E-value=2.2e+02 Score=28.68 Aligned_cols=24 Identities=21% Similarity=0.378 Sum_probs=17.6
Q ss_pred HHHHHHHHHH-HHHHhhcCceEEEE
Q 027638 150 QLLQNVANRK-RNKQLEIGGLIITK 173 (221)
Q Consensus 150 ~Lm~~~a~r~-~~~E~~k~GLVI~~ 173 (221)
++|++.++++ ..++-.+-=.||++
T Consensus 537 qlqREmar~rRMm~~VpkADVVITN 561 (646)
T PRK12773 537 QLARDMMNKRKMLAKVPEADVVITN 561 (646)
T ss_pred HHHHHHHhhcchhhcCCCCcEEEEC
Confidence 4667777544 77788888889876
Done!