Query 035032
Match_columns 75
No_of_seqs 35 out of 37
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 08:38:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035032.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035032hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG4399 Uncharacterized protei 64.6 6 0.00013 32.5 2.5 22 5-26 10-34 (376)
2 COG4291 Predicted membrane pro 59.2 9.7 0.00021 29.5 2.7 19 5-23 119-137 (228)
3 PF10771 DUF2582: Protein of u 57.0 7.2 0.00016 24.3 1.4 11 9-19 39-49 (65)
4 PF05434 Tmemb_9: TMEM9; Inte 55.0 24 0.00051 25.6 3.9 26 5-30 61-86 (149)
5 KOG4007 Uncharacterized conser 54.7 21 0.00046 27.7 3.9 47 7-54 142-189 (229)
6 PF10958 DUF2759: Protein of u 54.5 12 0.00025 23.3 2.0 15 7-21 29-43 (52)
7 PF03302 VSP: Giardia variant- 50.1 11 0.00023 29.7 1.6 14 3-17 375-388 (397)
8 PRK14474 F0F1 ATP synthase sub 47.5 25 0.00055 26.0 3.2 24 6-29 11-34 (250)
9 PF00430 ATP-synt_B: ATP synth 47.2 31 0.00067 21.6 3.2 24 5-28 4-27 (132)
10 PRK02898 cobalt transport prot 46.0 36 0.00079 23.2 3.5 17 27-43 38-54 (100)
11 PF02553 CbiN: Cobalt transpor 45.3 34 0.00074 22.1 3.2 19 27-45 36-54 (74)
12 PRK11367 hypothetical protein; 45.2 25 0.00055 28.7 3.1 42 2-43 4-53 (476)
13 PF11833 DUF3353: Protein of u 43.7 19 0.00041 26.2 2.0 16 2-17 141-156 (194)
14 PF10446 DUF2457: Protein of u 43.2 30 0.00064 29.2 3.3 40 18-57 206-255 (458)
15 KOG3970 Predicted E3 ubiquitin 41.8 35 0.00075 27.4 3.3 38 5-45 254-291 (299)
16 PRK14471 F0F1 ATP synthase sub 41.2 53 0.0012 22.1 3.8 24 6-29 14-37 (164)
17 PF04612 T2SM: Type II secreti 40.8 9.1 0.0002 25.0 0.0 28 5-32 19-46 (160)
18 TIGR01144 ATP_synt_b ATP synth 40.7 49 0.0011 21.5 3.5 22 8-29 3-24 (147)
19 PF03672 UPF0154: Uncharacteri 40.4 50 0.0011 20.9 3.3 24 5-28 5-28 (64)
20 PF06103 DUF948: Bacterial pro 39.9 61 0.0013 19.8 3.6 29 7-35 4-37 (90)
21 PRK07353 F0F1 ATP synthase sub 39.3 64 0.0014 20.9 3.8 24 6-29 11-34 (140)
22 COG3748 Predicted membrane pro 39.0 30 0.00065 28.8 2.7 19 5-23 121-139 (407)
23 PRK14473 F0F1 ATP synthase sub 38.9 62 0.0013 21.8 3.8 23 7-29 15-37 (164)
24 PRK13461 F0F1 ATP synthase sub 38.8 62 0.0013 21.6 3.8 24 6-29 11-34 (159)
25 PRK08475 F0F1 ATP synthase sub 38.8 59 0.0013 22.4 3.8 23 7-29 29-51 (167)
26 PRK09835 sensor kinase CusS; P 38.5 54 0.0012 23.8 3.7 30 5-35 193-222 (482)
27 CHL00019 atpF ATP synthase CF0 38.3 63 0.0014 22.3 3.9 23 7-29 31-53 (184)
28 PF00672 HAMP: HAMP domain; I 36.3 32 0.0007 19.0 1.8 31 4-35 6-36 (70)
29 COG0711 AtpF F0F1-type ATP syn 36.2 52 0.0011 22.7 3.2 25 6-30 12-36 (161)
30 PRK13453 F0F1 ATP synthase sub 35.7 71 0.0015 22.0 3.8 24 6-29 24-47 (173)
31 PF10999 DUF2839: Protein of u 35.6 35 0.00077 21.8 2.1 19 2-20 42-60 (68)
32 PF06295 DUF1043: Protein of u 35.4 42 0.00091 22.5 2.6 20 5-24 4-23 (128)
33 PF07077 DUF1345: Protein of u 35.3 44 0.00095 23.8 2.8 21 4-24 85-105 (180)
34 PRK05759 F0F1 ATP synthase sub 35.1 78 0.0017 20.7 3.8 24 6-29 10-33 (156)
35 PF06305 DUF1049: Protein of u 35.0 90 0.002 17.8 3.8 20 5-24 22-41 (68)
36 TIGR01386 cztS_silS_copS heavy 34.3 73 0.0016 22.7 3.7 29 6-35 173-201 (457)
37 COG3771 Predicted membrane pro 34.1 49 0.0011 22.9 2.7 18 4-21 46-63 (97)
38 PRK14472 F0F1 ATP synthase sub 32.8 85 0.0018 21.4 3.8 24 6-29 24-47 (175)
39 PRK13460 F0F1 ATP synthase sub 32.5 65 0.0014 22.0 3.2 23 6-28 22-44 (173)
40 PF06181 DUF989: Protein of un 31.3 49 0.0011 26.5 2.7 20 5-24 124-143 (300)
41 TIGR01165 cbiN cobalt transpor 31.3 85 0.0018 21.2 3.5 17 27-43 38-54 (91)
42 PRK10755 sensor protein BasS/P 30.9 1.7E+02 0.0037 20.6 5.1 29 6-35 70-98 (356)
43 PF11286 DUF3087: Protein of u 30.7 71 0.0015 23.4 3.2 25 6-30 56-80 (165)
44 PF14155 DUF4307: Domain of un 29.2 49 0.0011 21.9 2.0 16 4-19 12-27 (112)
45 PF06951 PLA2G12: Group XII se 29.1 47 0.001 24.6 2.1 24 10-33 151-174 (184)
46 PRK09467 envZ osmolarity senso 28.3 1E+02 0.0023 22.2 3.7 29 6-35 162-190 (435)
47 CHL00118 atpG ATP synthase CF0 28.0 1.2E+02 0.0026 20.5 3.8 24 5-28 27-50 (156)
48 PHA00979 putative major coat p 27.5 30 0.00066 23.0 0.8 20 2-24 47-66 (77)
49 PF10883 DUF2681: Protein of u 27.2 77 0.0017 20.9 2.7 17 4-20 9-25 (87)
50 PF14990 DUF4516: Domain of un 27.0 45 0.00098 20.1 1.5 26 2-27 12-37 (47)
51 PF15103 G0-G1_switch_2: G0/G1 26.9 63 0.0014 22.4 2.3 20 5-26 32-51 (102)
52 PF12072 DUF3552: Domain of un 26.9 1.2E+02 0.0026 21.5 3.8 25 6-30 9-33 (201)
53 PRK06568 F0F1 ATP synthase sub 26.8 1.2E+02 0.0025 21.5 3.7 25 6-30 10-34 (154)
54 PF11712 Vma12: Endoplasmic re 26.1 76 0.0017 21.3 2.6 18 5-22 87-104 (142)
55 TIGR03321 alt_F1F0_F0_B altern 25.9 1.2E+02 0.0026 21.9 3.8 22 7-28 12-33 (246)
56 PF10518 TAT_signal: TAT (twin 24.0 30 0.00065 17.9 0.2 17 1-17 8-24 (26)
57 TIGR02839 spore_V_AE stage V s 23.5 71 0.0015 22.2 2.1 20 4-24 93-112 (114)
58 COG4478 Predicted membrane pro 23.3 1.8E+02 0.0039 22.4 4.4 38 5-42 128-170 (210)
59 PRK06231 F0F1 ATP synthase sub 23.0 1.4E+02 0.003 21.4 3.6 23 7-29 55-77 (205)
60 PRK08476 F0F1 ATP synthase sub 22.9 1.7E+02 0.0037 19.6 3.8 23 7-29 14-36 (141)
61 PRK13240 pbsY photosystem II p 22.5 1.8E+02 0.0038 17.0 4.0 26 10-36 13-38 (40)
62 PF06298 PsbY: Photosystem II 21.8 1.8E+02 0.0038 16.8 3.8 22 10-32 13-34 (36)
63 PF11027 DUF2615: Protein of u 21.3 1E+02 0.0022 21.0 2.5 32 11-42 58-93 (103)
64 PF10003 DUF2244: Integral mem 21.2 1.1E+02 0.0025 20.5 2.7 18 5-22 13-30 (140)
65 KOG3142 Prenylated rab accepto 21.2 74 0.0016 23.6 1.9 16 4-19 91-106 (187)
66 KOG4313 Thiamine pyrophosphoki 20.7 29 0.00062 28.0 -0.3 25 6-30 169-193 (306)
67 PF10725 DUF2517: Protein of u 20.6 57 0.0012 21.0 1.1 13 2-14 14-26 (63)
68 PRK07352 F0F1 ATP synthase sub 20.4 1.8E+02 0.0039 19.8 3.6 21 7-27 26-46 (174)
69 PF04120 Iron_permease: Low af 20.2 96 0.0021 21.7 2.2 19 4-22 17-35 (132)
No 1
>COG4399 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=64.56 E-value=6 Score=32.51 Aligned_cols=22 Identities=27% Similarity=0.551 Sum_probs=16.1
Q ss_pred hHHHHHHHH---HHHHHHHhhhhhH
Q 035032 5 LTVVGALAF---GWLAIELALKPFL 26 (75)
Q Consensus 5 vVVvgaLAl---GWLaIElAfKPfL 26 (75)
.+|+||.+= -|+||.|-|+||=
T Consensus 10 MiViGgiIG~iTN~lAIkMLFRPyk 34 (376)
T COG4399 10 MIVIGGIIGGITNDLAIKMLFRPYK 34 (376)
T ss_pred HHHHHHHHHHHhHHHHHHHHhccch
Confidence 466776543 3789999999983
No 2
>COG4291 Predicted membrane protein [Function unknown]
Probab=59.16 E-value=9.7 Score=29.55 Aligned_cols=19 Identities=26% Similarity=0.585 Sum_probs=15.9
Q ss_pred hHHHHHHHHHHHHHHHhhh
Q 035032 5 LTVVGALAFGWLAIELALK 23 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfK 23 (75)
.+.+..++|||++|.+-+-
T Consensus 119 ~~a~~sV~lgWltIh~m~a 137 (228)
T COG4291 119 GFALASVALGWLTIHMMTA 137 (228)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 5677889999999998764
No 3
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=56.97 E-value=7.2 Score=24.34 Aligned_cols=11 Identities=64% Similarity=0.918 Sum_probs=8.4
Q ss_pred HHHHHHHHHHH
Q 035032 9 GALAFGWLAIE 19 (75)
Q Consensus 9 gaLAlGWLaIE 19 (75)
..+|+|||+=|
T Consensus 39 ~~~AiGWLarE 49 (65)
T PF10771_consen 39 VYLAIGWLARE 49 (65)
T ss_dssp HHHHHHHHHCT
T ss_pred HHHHHHHHhcc
Confidence 46899999743
No 4
>PF05434 Tmemb_9: TMEM9; InterPro: IPR008853 This family contains several eukaryotic transmembrane proteins which are homologous to Homo sapiens transmembrane protein 9 Q9P0T7 from SWISSPROT. The TMEM9 gene encodes a 183 amino-acid protein that contains an N-terminal signal peptide, a single transmembrane region, three potential N-glycosylation sites and three conserved cys-rich domains in the N terminus, but no known functional domains. The protein is highly conserved between species from Caenorhabditis elegans to H. sapiens and belongs to a novel family of transmembrane proteins. The exact function of TMEM9 is unknown although it has been found to be widely expressed and localised to the late endosomes and lysosomes []. Members of this family contain CXCXC repeats IPR004153 from INTERPRO in their N-terminal region.; GO: 0016021 integral to membrane
Probab=54.98 E-value=24 Score=25.62 Aligned_cols=26 Identities=23% Similarity=0.243 Sum_probs=20.3
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHH
Q 035032 5 LTVVGALAFGWLAIELALKPFLDKVR 30 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKPfLdk~R 30 (75)
++++-+|.++|+.+-+-.-|+|.|-.
T Consensus 61 vl~Vi~lLvlYM~fL~~ldPllrk~~ 86 (149)
T PF05434_consen 61 VLWVIGLLVLYMLFLMCLDPLLRKRF 86 (149)
T ss_pred eHHHHHHHHHHHHHHHHHhHHHhccc
Confidence 45677888899999999999994443
No 5
>KOG4007 consensus Uncharacterized conserved protein [Function unknown]
Probab=54.70 E-value=21 Score=27.70 Aligned_cols=47 Identities=19% Similarity=0.345 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHhhcc-cCCCCCCCCCCCCCcccCC
Q 035032 7 VVGALAFGWLAIELALKPFLDKVRAAMDK-SDPARDPDDAVEGSNEASS 54 (75)
Q Consensus 7 VvgaLAlGWLaIElAfKPfLdk~R~Aidr-SDP~~DPDd~~~~~~~~~~ 54 (75)
-+-|+.++|..+-|-.-|.|.| |-+++. .+-+-|-+|..+++|..-+
T Consensus 142 ~ii~iL~lYMvfLmcldPlLrK-r~~~~yq~hnded~ed~~s~ana~d~ 189 (229)
T KOG4007|consen 142 SIIGILLLYMVFLMCLDPLLRK-RVKANYQEHNDEDDEDSPSPANAADN 189 (229)
T ss_pred HHHHHHHHHHHHHHhhhHHHhh-hhhhhHHHhcccccccCCCccchhhh
Confidence 3456677888888888999999 877766 3444444444555555443
No 6
>PF10958 DUF2759: Protein of unknown function (DUF2759); InterPro: IPR024490 This family of proteins with unknown function appear to be restricted to Bacillales.
Probab=54.55 E-value=12 Score=23.26 Aligned_cols=15 Identities=33% Similarity=0.742 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHh
Q 035032 7 VVGALAFGWLAIELA 21 (75)
Q Consensus 7 VvgaLAlGWLaIElA 21 (75)
++..++|||++|-.-
T Consensus 29 ~~t~~VFGwFtimTi 43 (52)
T PF10958_consen 29 LVTVAVFGWFTIMTI 43 (52)
T ss_pred HHHHHHHHHHHHHHH
Confidence 345678999998654
No 7
>PF03302 VSP: Giardia variant-specific surface protein; InterPro: IPR005127 During infection, the intestinal protozoan parasite Giardia lamblia virus undergoes continuous antigenic variation which is determined by diversification of the parasite's major surface antigen, named VSP (variant surface protein).
Probab=50.10 E-value=11 Score=29.69 Aligned_cols=14 Identities=43% Similarity=0.814 Sum_probs=9.0
Q ss_pred hhhHHHHHHHHHHHH
Q 035032 3 KALTVVGALAFGWLA 17 (75)
Q Consensus 3 savVVvgaLAlGWLa 17 (75)
.+|||||+|+ |.|-
T Consensus 375 avvvvVgglv-GfLc 388 (397)
T PF03302_consen 375 AVVVVVGGLV-GFLC 388 (397)
T ss_pred hhHHHHHHHH-HHHh
Confidence 4577888886 4443
No 8
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=47.50 E-value=25 Score=25.98 Aligned_cols=24 Identities=17% Similarity=0.380 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~ 29 (75)
.++--|+|.||..-+.|||.++-.
T Consensus 11 qiInFlILv~lL~~fl~kPi~~~l 34 (250)
T PRK14474 11 QIINFLILVYLLRRFLYKPIIQVM 34 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356678999999999999987643
No 9
>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=47.20 E-value=31 Score=21.58 Aligned_cols=24 Identities=17% Similarity=0.207 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHH
Q 035032 5 LTVVGALAFGWLAIELALKPFLDK 28 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKPfLdk 28 (75)
+.++.-++|.|+..-+.|||...-
T Consensus 4 ~~~i~Flil~~~l~~~~~~pi~~~ 27 (132)
T PF00430_consen 4 WQLINFLILFFLLNKFLYKPIKKF 27 (132)
T ss_dssp HHHHHHHHHHHHHHHHTHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667888999999999998753
No 10
>PRK02898 cobalt transport protein CbiN; Provisional
Probab=46.04 E-value=36 Score=23.22 Aligned_cols=17 Identities=18% Similarity=0.329 Sum_probs=14.7
Q ss_pred HHHHHhhcccCCCCCCC
Q 035032 27 DKVRAAMDKSDPARDPD 43 (75)
Q Consensus 27 dk~R~AidrSDP~~DPD 43 (75)
+++.+.|...+|+|.|=
T Consensus 38 ~~A~~~I~ei~p~Y~PW 54 (100)
T PRK02898 38 GQAEEAITEIAPDYEPW 54 (100)
T ss_pred HHHHHHHHHhCCCCccc
Confidence 68889999999999885
No 11
>PF02553 CbiN: Cobalt transport protein component CbiN; InterPro: IPR003705 The cobalt transport protein CbiN is part of the active cobalt transport system involved in uptake of cobalt in to the cell involved with cobalamin biosynthesis (vitamin B12). It has been suggested that CbiN may function as the periplasmic binding protein component of the active cobalt transport system [].; GO: 0015087 cobalt ion transmembrane transporter activity, 0006824 cobalt ion transport, 0009236 cobalamin biosynthetic process, 0016020 membrane
Probab=45.29 E-value=34 Score=22.10 Aligned_cols=19 Identities=21% Similarity=0.377 Sum_probs=15.7
Q ss_pred HHHHHhhcccCCCCCCCCC
Q 035032 27 DKVRAAMDKSDPARDPDDA 45 (75)
Q Consensus 27 dk~R~AidrSDP~~DPDd~ 45 (75)
+++.+.|.+.+|+|.|==+
T Consensus 36 ~~A~~~I~~~~p~Y~PWf~ 54 (74)
T PF02553_consen 36 DQAEEMIEEIDPDYEPWFE 54 (74)
T ss_pred HHHHHHHHHhCCCCCcccc
Confidence 4788999999999998633
No 12
>PRK11367 hypothetical protein; Provisional
Probab=45.22 E-value=25 Score=28.73 Aligned_cols=42 Identities=31% Similarity=0.382 Sum_probs=35.6
Q ss_pred chhhHHHHHHHHHHHH--------HHHhhhhhHHHHHHhhcccCCCCCCC
Q 035032 2 KKALTVVGALAFGWLA--------IELALKPFLDKVRAAMDKSDPARDPD 43 (75)
Q Consensus 2 ksavVVvgaLAlGWLa--------IElAfKPfLdk~R~AidrSDP~~DPD 43 (75)
|||+-||.||+.+|.. ||--+.-.++++-+.+.++-|.++-.
T Consensus 4 Ksa~gVIVaLga~wtGgsWYTGk~iE~~~~~~v~~~N~~l~~~~p~~~~~ 53 (476)
T PRK11367 4 KSATGVIVALAVIWGGGTWYTGTQIQPGVEKFIKDFNDAKKKGEHAYDMT 53 (476)
T ss_pred cchhhhhhhhhhhhccccceechHHHHHHHHHHHHHHHHHHhcCCCcCce
Confidence 6778888888888874 89999999999999999988887743
No 13
>PF11833 DUF3353: Protein of unknown function (DUF3353); InterPro: IPR021788 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 205 to 258 amino acids in length.
Probab=43.67 E-value=19 Score=26.17 Aligned_cols=16 Identities=25% Similarity=0.441 Sum_probs=13.2
Q ss_pred chhhHHHHHHHHHHHH
Q 035032 2 KKALTVVGALAFGWLA 17 (75)
Q Consensus 2 ksavVVvgaLAlGWLa 17 (75)
|+.++.+|+|++||+.
T Consensus 141 rA~~~~~~~L~~G~~l 156 (194)
T PF11833_consen 141 RAFLWTLGGLVVGLIL 156 (194)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5677889999999975
No 14
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=43.21 E-value=30 Score=29.18 Aligned_cols=40 Identities=33% Similarity=0.511 Sum_probs=28.2
Q ss_pred HHHhhhhhHHHHHHh--------hcccCCCCCCCCCCCCCccc--CCCcc
Q 035032 18 IELALKPFLDKVRAA--------MDKSDPARDPDDAVEGSNEA--SSESD 57 (75)
Q Consensus 18 IElAfKPfLdk~R~A--------idrSDP~~DPDd~~~~~~~~--~~~~~ 57 (75)
+|.||.-||+.-|.+ ||=|=|..||+|+++..... .+.|+
T Consensus 206 LE~AY~Scle~Rr~~K~~~iPQDIDPSFPtSDpeDe~de~~~~~~~~~sd 255 (458)
T PF10446_consen 206 LEAAYISCLEARRREKHIPIPQDIDPSFPTSDPEDEDDEEDDEEVHSDSD 255 (458)
T ss_pred HHHHHHHHHHHHHHcCCCCCCCCCCCCCCCCCcccccccccccccccccc
Confidence 699999999998865 45556788999875544333 44444
No 15
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.77 E-value=35 Score=27.36 Aligned_cols=38 Identities=26% Similarity=0.330 Sum_probs=21.8
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHhhcccCCCCCCCCC
Q 035032 5 LTVVGALAFGWLAIELALKPFLDKVRAAMDKSDPARDPDDA 45 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKPfLdk~R~AidrSDP~~DPDd~ 45 (75)
.+++-.-+||.++|-+..| --+|.+-+.+||+.||--.
T Consensus 254 ~fli~lgvLafi~~i~lM~---rlGr~g~ds~Dpn~dP~~N 291 (299)
T KOG3970|consen 254 LFLIFLGVLAFITIIMLMK---RLGRSGEDSSDPNFDPMAN 291 (299)
T ss_pred HHHHHHHHHHHHHHHHHHH---HhcccccccCCCCCCCCCC
Confidence 3333333444455544333 2367777888999998644
No 16
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=41.23 E-value=53 Score=22.07 Aligned_cols=24 Identities=29% Similarity=0.311 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~ 29 (75)
.++.-|+|-|+.--+.|||.+.-.
T Consensus 14 ~~i~Flil~~ll~~~l~~pi~~~l 37 (164)
T PRK14471 14 QTILFLILLLLLAKFAWKPILGAV 37 (164)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHH
Confidence 456668889999999999976543
No 17
>PF04612 T2SM: Type II secretion system (T2SS), protein M; InterPro: IPR007690 General secretion pathway (GSP) protein M is a membrane protein involved in the export of proteins in bacteria. It consists of a short cytosolic N-terminal domain, a transmembrane domain, and a C-terminal periplasmic domain. The precise function of this protein is unknown, though in Vibrio cholerae, the EpsM protein interacts with the EpsL protein, and also forms homodimers [],; GO: 0006858 extracellular transport; PDB: 1UV7_A.
Probab=40.80 E-value=9.1 Score=25.04 Aligned_cols=28 Identities=25% Similarity=0.328 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHh
Q 035032 5 LTVVGALAFGWLAIELALKPFLDKVRAA 32 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKPfLdk~R~A 32 (75)
++++|++++..+...+.+.|.+++...+
T Consensus 19 l~~~~~~l~~~l~~~~~~~P~~~~~~~~ 46 (160)
T PF04612_consen 19 LLVLGVVLLLALLYLLLWQPLLERRDQL 46 (160)
T ss_dssp ----------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666677899998765543
No 18
>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=40.70 E-value=49 Score=21.55 Aligned_cols=22 Identities=9% Similarity=0.490 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHhhhhhHHHH
Q 035032 8 VGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 8 vgaLAlGWLaIElAfKPfLdk~ 29 (75)
+.-++|.|+..-++|||...-.
T Consensus 3 i~Flil~~il~~~~~~pi~~~l 24 (147)
T TIGR01144 3 ISFILLVWFCMKYVWPPLAKAI 24 (147)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 4557888999999999976543
No 19
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=40.45 E-value=50 Score=20.95 Aligned_cols=24 Identities=13% Similarity=0.277 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHH
Q 035032 5 LTVVGALAFGWLAIELALKPFLDK 28 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKPfLdk 28 (75)
+..++|+++||+...--|+=+|.+
T Consensus 5 lali~G~~~Gff~ar~~~~k~l~~ 28 (64)
T PF03672_consen 5 LALIVGAVIGFFIARKYMEKQLKE 28 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445778889999887777777743
No 20
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=39.92 E-value=61 Score=19.79 Aligned_cols=29 Identities=41% Similarity=0.584 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHh-----hhhhHHHHHHhhcc
Q 035032 7 VVGALAFGWLAIELA-----LKPFLDKVRAAMDK 35 (75)
Q Consensus 7 VvgaLAlGWLaIElA-----fKPfLdk~R~Aidr 35 (75)
++.|+||..|.|-++ .++-|++.+..+++
T Consensus 4 lI~Aiaf~vLvi~l~~~l~~l~~~l~~~~~ti~~ 37 (90)
T PF06103_consen 4 LIAAIAFAVLVIFLIKVLKKLKKTLDEVNKTIDT 37 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666665543 24455555555554
No 21
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=39.30 E-value=64 Score=20.86 Aligned_cols=24 Identities=21% Similarity=0.195 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~ 29 (75)
.++--|+|.|+.--+.|||..+-.
T Consensus 11 ~~i~flil~~ll~~~l~~pi~~~l 34 (140)
T PRK07353 11 MAVQFVLLTFILNALFYKPVGKVV 34 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446678899999999999976543
No 22
>COG3748 Predicted membrane protein [Function unknown]
Probab=39.01 E-value=30 Score=28.81 Aligned_cols=19 Identities=21% Similarity=0.597 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHhhh
Q 035032 5 LTVVGALAFGWLAIELALK 23 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfK 23 (75)
.+-++.|++||+.-++-|+
T Consensus 121 ~~~iAsl~~GW~vYd~lC~ 139 (407)
T COG3748 121 AISIASLALGWFVYDALCR 139 (407)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3567899999999999998
No 23
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=38.89 E-value=62 Score=21.75 Aligned_cols=23 Identities=17% Similarity=0.353 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHH
Q 035032 7 VVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 7 VvgaLAlGWLaIElAfKPfLdk~ 29 (75)
++.-|+|.|+..-++|||.+.-.
T Consensus 15 ~inflil~~lL~~fl~kpi~~~l 37 (164)
T PRK14473 15 LINFLLLIFLLRTFLYRPVLNLL 37 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45668899999999999987644
No 24
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=38.83 E-value=62 Score=21.65 Aligned_cols=24 Identities=4% Similarity=0.102 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~ 29 (75)
.++.-++|.|+..-++|||..+-.
T Consensus 11 ~~inF~il~~iL~~f~~kpi~~~l 34 (159)
T PRK13461 11 TIINFIILLLILKHFFFDKIKAVI 34 (159)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHH
Confidence 345667888999999999986543
No 25
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=38.78 E-value=59 Score=22.42 Aligned_cols=23 Identities=22% Similarity=0.189 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHH
Q 035032 7 VVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 7 VvgaLAlGWLaIElAfKPfLdk~ 29 (75)
++.-++|.|+..-++|||.++-.
T Consensus 29 ~inflil~~lL~~fl~kPi~~~l 51 (167)
T PRK08475 29 TINFLIFVGILWYFAAKPLKNFY 51 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46668888999999999987644
No 26
>PRK09835 sensor kinase CusS; Provisional
Probab=38.50 E-value=54 Score=23.82 Aligned_cols=30 Identities=13% Similarity=0.161 Sum_probs=21.8
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHhhcc
Q 035032 5 LTVVGALAFGWLAIELALKPFLDKVRAAMDK 35 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKPfLdk~R~Aidr 35 (75)
++++..++++|+.+....+|+ .+..+++++
T Consensus 193 ~~~~~~~~~~~~~~~~~~~pl-~~l~~~~~~ 222 (482)
T PRK09835 193 VISLLIVFIVLLAVHKGHAPI-RSVSRQIQN 222 (482)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence 344456778899999999998 566666665
No 27
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=38.34 E-value=63 Score=22.33 Aligned_cols=23 Identities=9% Similarity=-0.034 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHH
Q 035032 7 VVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 7 VvgaLAlGWLaIElAfKPfLdk~ 29 (75)
++.-++|-|+..-++|||...-.
T Consensus 31 ~Inflill~lL~~fl~kPI~~~l 53 (184)
T CHL00019 31 LINLSVVLGVLIYFGKGVLSDLL 53 (184)
T ss_pred HHHHHHHHHHHHHHhHhHHHHHH
Confidence 66778899999999999976543
No 28
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=36.28 E-value=32 Score=18.98 Aligned_cols=31 Identities=19% Similarity=0.487 Sum_probs=22.3
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhHHHHHHhhcc
Q 035032 4 ALTVVGALAFGWLAIELALKPFLDKVRAAMDK 35 (75)
Q Consensus 4 avVVvgaLAlGWLaIElAfKPfLdk~R~Aidr 35 (75)
.++++.+++++|+...-..+|. .+.+.++.+
T Consensus 6 ~~~~~~~~~~~~~~~~~i~~pl-~~l~~~~~~ 36 (70)
T PF00672_consen 6 LIILLLSLLLAWLLARRITRPL-RRLSDAMQR 36 (70)
T ss_dssp HHHHHHHHHHHHH--HTTCCCH-HHHHHHCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence 4667778888899999889995 666777776
No 29
>COG0711 AtpF F0F1-type ATP synthase, subunit b [Energy production and conversion]
Probab=36.17 E-value=52 Score=22.67 Aligned_cols=25 Identities=20% Similarity=0.489 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKVR 30 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~R 30 (75)
..+.-++|-||..-+++||++.-..
T Consensus 12 ~~i~F~ill~ll~~~~~~pi~~~l~ 36 (161)
T COG0711 12 QLIAFVILLWLLKKFVWKPILKALD 36 (161)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 4556678899999999999876543
No 30
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=35.72 E-value=71 Score=21.96 Aligned_cols=24 Identities=25% Similarity=0.249 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~ 29 (75)
.++.-++|-|+..-++|||..+-.
T Consensus 24 ~iInFliL~~lL~~~l~~pi~~~l 47 (173)
T PRK13453 24 TVLTFIVLLALLKKFAWGPLKDVM 47 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345567888999999999987543
No 31
>PF10999 DUF2839: Protein of unknown function (DUF2839); InterPro: IPR021262 This bacterial family of unknown function appear to be restricted to Cyanobacteria.
Probab=35.65 E-value=35 Score=21.76 Aligned_cols=19 Identities=21% Similarity=0.527 Sum_probs=15.3
Q ss_pred chhhHHHHHHHHHHHHHHH
Q 035032 2 KKALTVVGALAFGWLAIEL 20 (75)
Q Consensus 2 ksavVVvgaLAlGWLaIEl 20 (75)
|.+-+-+|.|++.|++|.+
T Consensus 42 kg~w~gig~l~~~wi~vrf 60 (68)
T PF10999_consen 42 KGPWIGIGILVLIWIIVRF 60 (68)
T ss_pred cccchhHHHHHHHHHHHHh
Confidence 4456778999999999875
No 32
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=35.35 E-value=42 Score=22.53 Aligned_cols=20 Identities=25% Similarity=0.323 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHHHHHHhhhh
Q 035032 5 LTVVGALAFGWLAIELALKP 24 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKP 24 (75)
+..|.|+++||++..+..+-
T Consensus 4 i~lvvG~iiG~~~~r~~~~~ 23 (128)
T PF06295_consen 4 IGLVVGLIIGFLIGRLTSSN 23 (128)
T ss_pred HHHHHHHHHHHHHHHHhccc
Confidence 45667889999998886655
No 33
>PF07077 DUF1345: Protein of unknown function (DUF1345); InterPro: IPR009781 This family consists of several hypothetical bacterial proteins of around 230 residues in length. The function of this family is unknown.
Probab=35.34 E-value=44 Score=23.84 Aligned_cols=21 Identities=14% Similarity=0.374 Sum_probs=16.9
Q ss_pred hhHHHHHHHHHHHHHHHhhhh
Q 035032 4 ALTVVGALAFGWLAIELALKP 24 (75)
Q Consensus 4 avVVvgaLAlGWLaIElAfKP 24 (75)
.++.++++++.|+.+.+.|-=
T Consensus 85 ~~la~~tv~~sW~~ih~~FAl 105 (180)
T PF07077_consen 85 IALALATVVLSWLLIHTVFAL 105 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456678888999999999853
No 34
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=35.06 E-value=78 Score=20.73 Aligned_cols=24 Identities=13% Similarity=0.531 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~ 29 (75)
.++.-|+|-|+.--++|||...-.
T Consensus 10 ~~i~Flil~~il~~~~~~pi~~~l 33 (156)
T PRK05759 10 QLIAFLILVWFIMKFVWPPIMKAL 33 (156)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHH
Confidence 455667888999999999976543
No 35
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=35.04 E-value=90 Score=17.79 Aligned_cols=20 Identities=30% Similarity=0.194 Sum_probs=8.2
Q ss_pred hHHHHHHHHHHHHHHHhhhh
Q 035032 5 LTVVGALAFGWLAIELALKP 24 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKP 24 (75)
+++++++++|-+..=+..-|
T Consensus 22 l~il~~f~~G~llg~l~~~~ 41 (68)
T PF06305_consen 22 LLILIAFLLGALLGWLLSLP 41 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444433333333
No 36
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=34.33 E-value=73 Score=22.74 Aligned_cols=29 Identities=28% Similarity=0.556 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHhhcc
Q 035032 6 TVVGALAFGWLAIELALKPFLDKVRAAMDK 35 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~R~Aidr 35 (75)
+++.+++++|+.+....|| |.+...++.+
T Consensus 173 ~~~~~~~~~~~~~r~i~~p-l~~l~~~~~~ 201 (457)
T TIGR01386 173 LVLLTALLGWWITRLGLEP-LRRLSAVAAR 201 (457)
T ss_pred HHHHHHHHHHHHHHHHhhH-HHHHHHHHHH
Confidence 3445566777777777888 4556666666
No 37
>COG3771 Predicted membrane protein [Function unknown]
Probab=34.14 E-value=49 Score=22.87 Aligned_cols=18 Identities=33% Similarity=0.578 Sum_probs=13.3
Q ss_pred hhHHHHHHHHHHHHHHHh
Q 035032 4 ALTVVGALAFGWLAIELA 21 (75)
Q Consensus 4 avVVvgaLAlGWLaIElA 21 (75)
|++-..|+++||+..-+-
T Consensus 46 a~lF~~G~~lgwli~g~f 63 (97)
T COG3771 46 ATLFAAGFALGWLICGLF 63 (97)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455678999999976554
No 38
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=32.84 E-value=85 Score=21.43 Aligned_cols=24 Identities=21% Similarity=0.241 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~ 29 (75)
.++.-|+|-|+..-++|||..+-.
T Consensus 24 ~~i~Flil~~lL~~~l~kpi~~~l 47 (175)
T PRK14472 24 TAVTFVIVLLILKKIAWGPILSAL 47 (175)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHH
Confidence 345667888999999999976543
No 39
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=32.49 E-value=65 Score=22.02 Aligned_cols=23 Identities=22% Similarity=0.172 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDK 28 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk 28 (75)
.++.-++|-|+..-++|||...-
T Consensus 22 ~~i~Flil~~iL~~~~~kpi~~~ 44 (173)
T PRK13460 22 TLVTFLVVVLVLKKFAWDVILKA 44 (173)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHH
Confidence 35667888899999999997653
No 40
>PF06181 DUF989: Protein of unknown function (DUF989); InterPro: IPR010389 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=31.31 E-value=49 Score=26.50 Aligned_cols=20 Identities=25% Similarity=0.596 Sum_probs=17.7
Q ss_pred hHHHHHHHHHHHHHHHhhhh
Q 035032 5 LTVVGALAFGWLAIELALKP 24 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKP 24 (75)
.+.+|.|++||+.-+..||-
T Consensus 124 ~isl~~l~~gWlvYd~lCrs 143 (300)
T PF06181_consen 124 AISLGSLVLGWLVYDGLCRS 143 (300)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 46789999999999999985
No 41
>TIGR01165 cbiN cobalt transport protein. This model describes the cobalt transporter in bacteria and its equivalents in archaea. It principally functions in the ion uptake mechanism. It is a multisubunit transporter with two integral membrane proteins and two closely associated cytoplasmic subunits. This transporter belongs to the ABC transporter superfamily (ATP stands for ATP Binding Cassette). This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=31.28 E-value=85 Score=21.22 Aligned_cols=17 Identities=12% Similarity=0.302 Sum_probs=14.6
Q ss_pred HHHHHhhcccCCCCCCC
Q 035032 27 DKVRAAMDKSDPARDPD 43 (75)
Q Consensus 27 dk~R~AidrSDP~~DPD 43 (75)
+++.+.|...+|+|.|=
T Consensus 38 ~~A~~~I~ei~p~Y~PW 54 (91)
T TIGR01165 38 GQAEEVIEEIGPDYKPW 54 (91)
T ss_pred hHHHHHHHHhCCCCccc
Confidence 68889999999999885
No 42
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=30.86 E-value=1.7e+02 Score=20.64 Aligned_cols=29 Identities=14% Similarity=0.302 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHhhcc
Q 035032 6 TVVGALAFGWLAIELALKPFLDKVRAAMDK 35 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~R~Aidr 35 (75)
+.+.+++++|+.+....+|+ .+.+.++.+
T Consensus 70 ~~~~~~~~~~~~~~~~~~pl-~~l~~~~~~ 98 (356)
T PRK10755 70 MVSLTLLICFQAVRWITRPL-AELQKELEA 98 (356)
T ss_pred HHHHHHHHHHHHHHHHHhHH-HHHHHHHHh
Confidence 34455667888888889995 666776766
No 43
>PF11286 DUF3087: Protein of unknown function (DUF3087); InterPro: IPR021438 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=30.69 E-value=71 Score=23.43 Aligned_cols=25 Identities=28% Similarity=0.440 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKVR 30 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~R 30 (75)
|++|+++.+|+...+==+|||..+.
T Consensus 56 Vil~~~~~~~~l~~~k~~p~m~Ev~ 80 (165)
T PF11286_consen 56 VILGLLLTSALLRQLKTHPFMTEVY 80 (165)
T ss_pred HHHHHHHHHHHHHHHccChHHHHHH
Confidence 6788889999999888889987653
No 44
>PF14155 DUF4307: Domain of unknown function (DUF4307)
Probab=29.19 E-value=49 Score=21.86 Aligned_cols=16 Identities=25% Similarity=0.576 Sum_probs=10.2
Q ss_pred hhHHHHHHHHHHHHHH
Q 035032 4 ALTVVGALAFGWLAIE 19 (75)
Q Consensus 4 avVVvgaLAlGWLaIE 19 (75)
.++++++++++|+...
T Consensus 12 v~~vv~~~~~~w~~~~ 27 (112)
T PF14155_consen 12 VLVVVAGAVVAWFGYS 27 (112)
T ss_pred HHHHHHHHHHhHhhhh
Confidence 4566667777776543
No 45
>PF06951 PLA2G12: Group XII secretory phospholipase A2 precursor (PLA2G12); InterPro: IPR010711 This family consists of several group XII secretory phospholipase A2 precursor (PLA2G12) (3.1.1.4 from EC) proteins. Group XII and group V PLA(2)s are thought to participate in helper T cell immune response through release of immediate second signals and generation of downstream eicosanoids [].; GO: 0004623 phospholipase A2 activity, 0005509 calcium ion binding, 0016042 lipid catabolic process, 0005576 extracellular region
Probab=29.14 E-value=47 Score=24.60 Aligned_cols=24 Identities=33% Similarity=0.248 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHhh
Q 035032 10 ALAFGWLAIELALKPFLDKVRAAM 33 (75)
Q Consensus 10 aLAlGWLaIElAfKPfLdk~R~Ai 33 (75)
|=.+-+.+..++||||++.-|+|=
T Consensus 151 A~~~~~~v~~lGCk~y~~sQr~AC 174 (184)
T PF06951_consen 151 ADLLYNGVWTLGCKPYLNSQRAAC 174 (184)
T ss_pred HHHHHHHHhccCcHHHHHHHHhhc
Confidence 445677788899999999888874
No 46
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=28.28 E-value=1e+02 Score=22.19 Aligned_cols=29 Identities=24% Similarity=0.343 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHhhcc
Q 035032 6 TVVGALAFGWLAIELALKPFLDKVRAAMDK 35 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~R~Aidr 35 (75)
+++.+++++|+.+....||+ .+.+.++.+
T Consensus 162 ~~l~~~~~~~~~~r~~~~pl-~~l~~~~~~ 190 (435)
T PRK09467 162 IGLLSVAGGWLFIRIQNRPL-VALEHAALQ 190 (435)
T ss_pred HHHHHHHHHHHHHHHHHhHH-HHHHHHHHH
Confidence 44556677888888889995 455666655
No 47
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=27.98 E-value=1.2e+02 Score=20.47 Aligned_cols=24 Identities=25% Similarity=0.213 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHH
Q 035032 5 LTVVGALAFGWLAIELALKPFLDK 28 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKPfLdk 28 (75)
+.++.-|+|-|+.--+.|+|++.-
T Consensus 27 ~~~inFliL~~lL~k~l~~Pi~~~ 50 (156)
T CHL00118 27 LMALQFLLLMVLLNIILYKPLLKV 50 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667788999999999998543
No 48
>PHA00979 putative major coat protein
Probab=27.50 E-value=30 Score=22.99 Aligned_cols=20 Identities=25% Similarity=0.451 Sum_probs=12.7
Q ss_pred chhhHHHHHHHHHHHHHHHhhhh
Q 035032 2 KKALTVVGALAFGWLAIELALKP 24 (75)
Q Consensus 2 ksavVVvgaLAlGWLaIElAfKP 24 (75)
++.++++|+++.| |-+|||-
T Consensus 47 aa~V~a~Gv~iIG---Ia~Afk~ 66 (77)
T PHA00979 47 ATKIGAAGLVIVG---ITMAYKS 66 (77)
T ss_pred HHHHHHhhhHhhh---hhhhhee
Confidence 3456666666665 6777873
No 49
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=27.18 E-value=77 Score=20.95 Aligned_cols=17 Identities=24% Similarity=0.300 Sum_probs=10.7
Q ss_pred hhHHHHHHHHHHHHHHH
Q 035032 4 ALTVVGALAFGWLAIEL 20 (75)
Q Consensus 4 avVVvgaLAlGWLaIEl 20 (75)
+++++.++++||+.+.+
T Consensus 9 ~~~~v~~~i~~y~~~k~ 25 (87)
T PF10883_consen 9 GVGAVVALILAYLWWKV 25 (87)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45556666777776654
No 50
>PF14990 DUF4516: Domain of unknown function (DUF4516)
Probab=26.98 E-value=45 Score=20.13 Aligned_cols=26 Identities=19% Similarity=0.160 Sum_probs=21.8
Q ss_pred chhhHHHHHHHHHHHHHHHhhhhhHH
Q 035032 2 KKALTVVGALAFGWLAIELALKPFLD 27 (75)
Q Consensus 2 ksavVVvgaLAlGWLaIElAfKPfLd 27 (75)
+..++++.+++.|=-.+-.-|||-|.
T Consensus 12 ~~~~~s~~sM~aGA~vVH~~ykPdlt 37 (47)
T PF14990_consen 12 KSLVASLLSMLAGASVVHNIYKPDLT 37 (47)
T ss_pred HHHHHHHHHHHhhhHHHHHHhCccCC
Confidence 55678888999999999999999764
No 51
>PF15103 G0-G1_switch_2: G0/G1 switch protein 2
Probab=26.87 E-value=63 Score=22.36 Aligned_cols=20 Identities=20% Similarity=0.358 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHHHHHhhhhhH
Q 035032 5 LTVVGALAFGWLAIELALKPFL 26 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKPfL 26 (75)
++++-|+++|| +|..|-||-
T Consensus 32 vLA~~Gvv~GL--VEtVCsPFs 51 (102)
T PF15103_consen 32 VLAFFGVVIGL--VETVCSPFS 51 (102)
T ss_pred HHHHHHHHHHH--HHHHhCccc
Confidence 44444555555 699999994
No 52
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=26.85 E-value=1.2e+02 Score=21.47 Aligned_cols=25 Identities=12% Similarity=0.297 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKVR 30 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~R 30 (75)
.++.|+++||+....-++--+..++
T Consensus 9 ~~~vG~~~G~~~~~~~~~~~~~~A~ 33 (201)
T PF12072_consen 9 ALIVGIGIGYLVRKKINRKKLEQAE 33 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666665544444444443
No 53
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=26.78 E-value=1.2e+02 Score=21.50 Aligned_cols=25 Identities=24% Similarity=0.299 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKVR 30 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~R 30 (75)
.++.-|+|-||.--++|||.+.-..
T Consensus 10 q~I~FlIll~ll~kfawkPI~~~Le 34 (154)
T PRK06568 10 LAVSFVIFVYLIYRPAKKAILNSLD 34 (154)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 4566778889999999999876543
No 54
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 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. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=26.15 E-value=76 Score=21.26 Aligned_cols=18 Identities=17% Similarity=0.436 Sum_probs=14.7
Q ss_pred hHHHHHHHHHHHHHHHhh
Q 035032 5 LTVVGALAFGWLAIELAL 22 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAf 22 (75)
+.|+++.++||...+..|
T Consensus 87 vsv~~~~~~~~~~~~~~~ 104 (142)
T PF11712_consen 87 VSVFAVFFAGWYWAGYSF 104 (142)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 467888899998888776
No 55
>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=25.93 E-value=1.2e+02 Score=21.92 Aligned_cols=22 Identities=27% Similarity=0.615 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHhhhhhHHH
Q 035032 7 VVGALAFGWLAIELALKPFLDK 28 (75)
Q Consensus 7 VvgaLAlGWLaIElAfKPfLdk 28 (75)
++.-++|-|+..-++|||...-
T Consensus 12 iInFlil~~lL~kfl~kPi~~~ 33 (246)
T TIGR03321 12 LINFLILVWLLKRFLYRPILDA 33 (246)
T ss_pred HHHHHHHHHHHHHHhHHHHHHH
Confidence 4667889999999999997654
No 56
>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []. Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].
Probab=23.97 E-value=30 Score=17.92 Aligned_cols=17 Identities=29% Similarity=0.288 Sum_probs=12.0
Q ss_pred CchhhHHHHHHHHHHHH
Q 035032 1 MKKALTVVGALAFGWLA 17 (75)
Q Consensus 1 ~ksavVVvgaLAlGWLa 17 (75)
+|.+..+.++.+++|.+
T Consensus 8 Lk~~~a~~a~~~~~~~~ 24 (26)
T PF10518_consen 8 LKGGAAAAAAAALGGCA 24 (26)
T ss_pred HHHHHHHHHHHHhcccc
Confidence 36677777888887753
No 57
>TIGR02839 spore_V_AE stage V sporulation protein AE. This model describes stage V sporulation protein AE, a paralog of stage V sporulation protein AC. Both are proteins found to present in a species if and only if that species is one of the Firmicutes capable of endospore formation, as of the time of the publication of the genome of Carboxydothermus hydrogenoformans. Mutants in spoVAE have a stage V sproulation defect.
Probab=23.47 E-value=71 Score=22.19 Aligned_cols=20 Identities=35% Similarity=0.707 Sum_probs=15.4
Q ss_pred hhHHHHHHHHHHHHHHHhhhh
Q 035032 4 ALTVVGALAFGWLAIELALKP 24 (75)
Q Consensus 4 avVVvgaLAlGWLaIElAfKP 24 (75)
+..++.++++||++ -+-|||
T Consensus 93 g~gI~~ai~~g~~~-alif~p 112 (114)
T TIGR02839 93 SAGISAAILFGYLM-ALIFKP 112 (114)
T ss_pred eCHHHHHHHHHHHH-HHhcCC
Confidence 44677889999984 677888
No 58
>COG4478 Predicted membrane protein [Function unknown]
Probab=23.28 E-value=1.8e+02 Score=22.43 Aligned_cols=38 Identities=32% Similarity=0.501 Sum_probs=26.5
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHhh--ccc---CCCCCC
Q 035032 5 LTVVGALAFGWLAIELALKPFLDKVRAAM--DKS---DPARDP 42 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAfKPfLdk~R~Ai--drS---DP~~DP 42 (75)
++++-.|+.|=++.-++|-=|+..--+-. |.+ ||++||
T Consensus 128 ~l~v~pliIGv~~~ligF~~fF~~FHkilF~d~tWlFDpa~DP 170 (210)
T COG4478 128 LLLVLPLIIGVAASLIGFDIFFTLFHKILFVDSTWLFDPAKDP 170 (210)
T ss_pred HHHHHHHHHHHHHHHccHHHHHHHHHHHHhcCCeeeecCCCCC
Confidence 34556677787776777777777766544 333 999998
No 59
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=23.02 E-value=1.4e+02 Score=21.43 Aligned_cols=23 Identities=22% Similarity=0.117 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHH
Q 035032 7 VVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 7 VvgaLAlGWLaIElAfKPfLdk~ 29 (75)
++.-++|.|+..-++|||...-.
T Consensus 55 lInFlIlv~lL~k~l~kPi~~~L 77 (205)
T PRK06231 55 LIAFSILLLLGIFLFWKPTQRFL 77 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567889999999999986543
No 60
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=22.91 E-value=1.7e+02 Score=19.63 Aligned_cols=23 Identities=22% Similarity=0.122 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHH
Q 035032 7 VVGALAFGWLAIELALKPFLDKV 29 (75)
Q Consensus 7 VvgaLAlGWLaIElAfKPfLdk~ 29 (75)
++.-|+|-|+.--++|||...-.
T Consensus 14 li~Flil~~~l~kfl~kPi~~~l 36 (141)
T PRK08476 14 FVVFLLLIVILNSWLYKPLLKFM 36 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567778888899999986543
No 61
>PRK13240 pbsY photosystem II protein Y; Reviewed
Probab=22.51 E-value=1.8e+02 Score=17.05 Aligned_cols=26 Identities=15% Similarity=0.415 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHhhccc
Q 035032 10 ALAFGWLAIELALKPFLDKVRAAMDKS 36 (75)
Q Consensus 10 aLAlGWLaIElAfKPfLdk~R~AidrS 36 (75)
.+|.||..+-++ +|-+.+.+.-+.+.
T Consensus 13 l~A~~Wa~fNIg-~~Al~Q~q~~~~~~ 38 (40)
T PRK13240 13 LAAAGWAVFNIG-KAAREQFQRFLNRK 38 (40)
T ss_pred HHHHHHHHHHhh-HHHHHHHHHHHhhc
Confidence 568899988875 88888888777663
No 62
>PF06298 PsbY: Photosystem II protein Y (PsbY); InterPro: IPR009388 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbY found in PSII. In higher plants, two related PsbY proteins exist, PsbY-1 and PsbY-2, which appear to function as a heterodimer. In spinach and Arabidopsis, these two proteins arise from a single-copy nuclear gene that is processed in the chloroplast. By contrast, prokaryotic and organellar chromosomes encode a single PsbY protein, as found in cyanobacteria and red algae, indicating a duplication event in the evolution of higher plants []. PsbY has two low manganese-dependent activities: a catalase-like activity and an L-arginine metabolising activity that converts L-arginine into ornithine and urea []. In addition, a redox-active group is thought to be present in the protein. In cyanobacteria, PsbY deletion mutants have a slightly impaired PSII that is less capable of coping with low levels of calcium ions than the wild-type.; GO: 0030145 manganese ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0016021 integral to membrane
Probab=21.79 E-value=1.8e+02 Score=16.79 Aligned_cols=22 Identities=18% Similarity=0.465 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHh
Q 035032 10 ALAFGWLAIELALKPFLDKVRAA 32 (75)
Q Consensus 10 aLAlGWLaIElAfKPfLdk~R~A 32 (75)
.+|.||..+-++ ||-+++.+..
T Consensus 13 l~A~gWa~fNIg-~~Al~Q~~~~ 34 (36)
T PF06298_consen 13 LPAAGWALFNIG-RAALNQLQRM 34 (36)
T ss_pred HHHHHHHHHHhH-HHHHHHHHHh
Confidence 457899998874 7777776654
No 63
>PF11027 DUF2615: Protein of unknown function (DUF2615); InterPro: IPR020309 This entry represents a group of uncharacterised protein from the Metazoa, including CD034 (or C4orf34) and YQF4 (or C34C12.4).
Probab=21.27 E-value=1e+02 Score=21.00 Aligned_cols=32 Identities=25% Similarity=0.449 Sum_probs=17.8
Q ss_pred HHHHHHHHHH---hhhhhHHHHHHhhcc-cCCCCCC
Q 035032 11 LAFGWLAIEL---ALKPFLDKVRAAMDK-SDPARDP 42 (75)
Q Consensus 11 LAlGWLaIEl---AfKPfLdk~R~Aidr-SDP~~DP 42 (75)
++|.|+.|-+ .|+|.=-+.+.+..| +++..+.
T Consensus 58 ~~~~w~~~A~~ly~~RP~s~R~~~~~~Kp~~~~~~~ 93 (103)
T PF11027_consen 58 MMMLWMVLAMALYLLRPSSLRSRSADGKPSNNNNDG 93 (103)
T ss_pred HHHHHHHHHHHHHHcCchhhcCCCCCCCCCCCccCC
Confidence 4566766654 467874444445666 4444433
No 64
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=21.21 E-value=1.1e+02 Score=20.47 Aligned_cols=18 Identities=33% Similarity=0.338 Sum_probs=8.1
Q ss_pred hHHHHHHHHHHHHHHHhh
Q 035032 5 LTVVGALAFGWLAIELAL 22 (75)
Q Consensus 5 vVVvgaLAlGWLaIElAf 22 (75)
+++++++++..++|-++|
T Consensus 13 ~~~~~~~~~~~~~~a~~f 30 (140)
T PF10003_consen 13 LIFIAILAAVSLIIAIAF 30 (140)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444444444444444443
No 65
>KOG3142 consensus Prenylated rab acceptor 1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.16 E-value=74 Score=23.59 Aligned_cols=16 Identities=38% Similarity=0.542 Sum_probs=13.3
Q ss_pred hhHHHHHHHHHHHHHH
Q 035032 4 ALTVVGALAFGWLAIE 19 (75)
Q Consensus 4 avVVvgaLAlGWLaIE 19 (75)
++||+++++.||+-+.
T Consensus 91 ~Livl~~lv~~w~~LY 106 (187)
T KOG3142|consen 91 SLIVLLALVAAWLFLY 106 (187)
T ss_pred HHHHHHHHHHHHHhee
Confidence 5789999999998654
No 66
>KOG4313 consensus Thiamine pyrophosphokinase [Nucleotide transport and metabolism]
Probab=20.75 E-value=29 Score=27.99 Aligned_cols=25 Identities=28% Similarity=0.389 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHH
Q 035032 6 TVVGALAFGWLAIELALKPFLDKVR 30 (75)
Q Consensus 6 VVvgaLAlGWLaIElAfKPfLdk~R 30 (75)
+|.|||..|+-.+|.+.|-+.+.|.
T Consensus 169 ~vaGGl~~g~gI~eT~iKE~~EEAn 193 (306)
T KOG4313|consen 169 MVAGGLSVGFGIKETAIKEAAEEAN 193 (306)
T ss_pred hhccccccCchHHHHHHHHHHHhcC
Confidence 6899999999999999998887653
No 67
>PF10725 DUF2517: Protein of unknown function (DUF2517); InterPro: IPR019663 This entry represents proteins conserved in Proteobacteria and includes the predicted protein YbfA. The function is not known.
Probab=20.64 E-value=57 Score=21.02 Aligned_cols=13 Identities=23% Similarity=0.398 Sum_probs=9.1
Q ss_pred chhhHHHHHHHHH
Q 035032 2 KKALTVVGALAFG 14 (75)
Q Consensus 2 ksavVVvgaLAlG 14 (75)
++++|++|.|||-
T Consensus 14 R~~vv~~GvlAlP 26 (63)
T PF10725_consen 14 RIFVVLAGVLALP 26 (63)
T ss_pred HHHHHHHHHhhhh
Confidence 4567778877764
No 68
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=20.41 E-value=1.8e+02 Score=19.81 Aligned_cols=21 Identities=5% Similarity=-0.210 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHhhhhhHH
Q 035032 7 VVGALAFGWLAIELALKPFLD 27 (75)
Q Consensus 7 VvgaLAlGWLaIElAfKPfLd 27 (75)
++--++|-|+..-++|||...
T Consensus 26 iinflIl~~lL~~fl~kpI~~ 46 (174)
T PRK07352 26 LINLAIVIGLLYYFGRGFLGK 46 (174)
T ss_pred HHHHHHHHHHHHHHhHHHHHH
Confidence 466678889999999999644
No 69
>PF04120 Iron_permease: Low affinity iron permease ; InterPro: IPR007251 Although originally identified as a low-affinity iron(II) permease [, ], Fet4 has since been shown to import several other transition metal ions, including copper [, ] and zinc []. Copper, cobalt, and cadmium inhibit Fet4 [, ]. Fet4 is an integral protein of the plasma membrane [, ]. FET4 is not essential, not even in fet3 fet4 double mutants []. Over expression of FET4 improves growth under alkaline conditions []. Transcription of FET4 is induced by Aft1 in response to low levels of iron [, , ] or by Zap1 in response to low zinc [, ], but not in response to low copper []. When the high-affinity iron permease component Fet3 is deleted, FET4 is induced by the addition of copper, zinc, cobalt, or manganese []. It is also induced under anaerobic conditions [, , ] and repressed by Rox1 in aerobic conditions [, ]. Rox1 attenuates the activation of FET4 by Aft1 or Zap1 []. ; GO: 0055085 transmembrane transport
Probab=20.17 E-value=96 Score=21.69 Aligned_cols=19 Identities=16% Similarity=0.261 Sum_probs=12.9
Q ss_pred hhHHHHHHHHHHHHHHHhh
Q 035032 4 ALTVVGALAFGWLAIELAL 22 (75)
Q Consensus 4 avVVvgaLAlGWLaIElAf 22 (75)
++++..+++++|+.+-..|
T Consensus 17 ~f~~~~~~Ii~W~i~Gp~~ 35 (132)
T PF04120_consen 17 AFVIAVAVIIVWAISGPVF 35 (132)
T ss_pred HHHHHHHHHHHHHHHhccc
Confidence 4566677788888776444
Done!