Query 042797
Match_columns 66
No_of_seqs 105 out of 121
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 09:36:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042797.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042797hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00922 Cyt_c_Oxidase_IV Cytoc 92.9 0.48 1E-05 31.4 5.8 50 7-56 73-122 (136)
2 PF02936 COX4: Cytochrome c ox 86.0 3.7 8.1E-05 27.4 5.8 49 7-55 73-121 (142)
3 PF02285 COX8: Cytochrome oxid 84.1 2.7 5.8E-05 23.5 3.7 28 5-32 12-40 (44)
4 PRK13183 psbN photosystem II r 64.7 6.9 0.00015 22.1 2.1 38 7-48 7-44 (46)
5 PF01102 Glycophorin_A: Glycop 64.5 16 0.00035 24.0 4.1 27 8-34 67-93 (122)
6 PF12729 4HB_MCP_1: Four helix 58.1 18 0.00039 21.9 3.3 17 8-24 8-24 (181)
7 PF06212 GRIM-19: GRIM-19 prot 56.8 14 0.0003 24.5 2.8 51 9-59 29-85 (130)
8 PHA02669 hypothetical protein; 55.9 9.6 0.00021 27.2 2.0 25 7-31 2-26 (210)
9 PF07379 DUF1494: Protein of u 55.2 16 0.00035 25.6 3.0 24 5-28 7-30 (170)
10 KOG3300 NADH:ubiquinone oxidor 54.9 14 0.00031 25.3 2.6 46 11-59 35-89 (146)
11 PF09946 DUF2178: Predicted me 54.5 12 0.00027 23.8 2.2 15 47-61 51-65 (111)
12 CHL00020 psbN photosystem II p 52.8 9.6 0.00021 21.2 1.3 36 9-48 6-41 (43)
13 PF11044 TMEMspv1-c74-12: Plec 52.7 42 0.00091 19.1 4.1 36 4-39 3-38 (49)
14 PTZ00391 transport protein par 50.7 2.5 5.4E-05 29.1 -1.6 47 10-56 118-167 (168)
15 PF02468 PsbN: Photosystem II 50.5 14 0.00031 20.5 1.8 36 9-48 6-41 (43)
16 PF03912 Psb28: Psb28 protein; 49.3 3.7 8.1E-05 26.8 -0.8 19 31-49 68-93 (108)
17 cd00930 Cyt_c_Oxidase_VIII Cyt 47.9 31 0.00066 19.1 2.8 28 5-32 12-40 (43)
18 PRK13610 photosystem II reacti 45.6 6.2 0.00014 26.0 -0.2 19 31-49 75-100 (113)
19 PLN00039 photosystem II reacti 42.4 7.5 0.00016 25.5 -0.2 19 31-49 69-94 (111)
20 PF07215 DUF1419: Protein of u 42.2 5.4 0.00012 26.2 -0.9 26 6-31 57-82 (111)
21 TIGR03047 PS_II_psb28 photosys 41.6 7.7 0.00017 25.4 -0.2 19 31-49 68-93 (109)
22 COG3197 FixS Uncharacterized p 41.5 33 0.00072 20.2 2.5 22 8-30 6-27 (58)
23 PF06522 B12D: NADH-ubiquinone 41.4 29 0.00063 20.4 2.3 50 7-58 5-58 (73)
24 TIGR00847 ccoS cytochrome oxid 41.3 22 0.00047 20.2 1.6 23 8-31 6-28 (51)
25 CHL00128 psbW photosystem II p 40.0 8.7 0.00019 25.3 -0.2 19 31-49 71-96 (113)
26 PRK13611 photosystem II reacti 39.5 8.8 0.00019 24.9 -0.2 19 31-49 64-89 (104)
27 PF10355 Ytp1: Protein of unkn 38.2 18 0.0004 26.8 1.2 29 3-31 208-236 (271)
28 PRK13612 photosystem II reacti 37.9 9.6 0.00021 25.1 -0.2 19 31-49 71-96 (113)
29 PF02529 PetG: Cytochrome B6-F 36.7 73 0.0016 17.2 3.8 24 11-34 6-29 (37)
30 TIGR00351 narI respiratory nit 36.7 91 0.002 22.0 4.5 37 11-48 91-127 (224)
31 PF11990 DUF3487: Protein of u 36.6 1.2E+02 0.0026 19.7 4.8 42 8-49 52-93 (121)
32 TIGR03750 conj_TIGR03750 conju 36.4 1.2E+02 0.0026 19.6 4.9 34 8-41 49-82 (111)
33 PF06667 PspB: Phage shock pro 34.7 94 0.002 18.8 3.8 24 9-32 7-30 (75)
34 PF05961 Chordopox_A13L: Chord 34.6 59 0.0013 19.7 2.9 21 11-31 4-24 (68)
35 PF10805 DUF2730: Protein of u 34.3 90 0.0019 19.5 3.8 44 12-58 9-53 (106)
36 PF04277 OAD_gamma: Oxaloaceta 34.1 94 0.002 17.8 4.2 27 8-34 8-34 (79)
37 PF13172 PepSY_TM_1: PepSY-ass 33.8 60 0.0013 16.2 2.5 18 11-28 15-32 (34)
38 PRK10557 hypothetical protein; 32.5 1.1E+02 0.0024 20.9 4.3 61 3-63 9-72 (192)
39 TIGR03818 MotA1 flagellar moto 32.3 39 0.00085 24.7 2.2 21 6-26 169-189 (282)
40 PF03021 CM2: Influenza C viru 30.7 34 0.00073 22.7 1.5 51 8-58 56-111 (139)
41 KOG3188 Uncharacterized conser 30.6 1.7E+02 0.0038 21.6 5.2 46 8-58 15-62 (246)
42 PF14654 Epiglycanin_C: Mucin, 30.1 1.1E+02 0.0023 20.0 3.7 30 2-31 14-44 (106)
43 PRK13854 type IV secretion sys 27.9 1.2E+02 0.0027 19.4 3.7 18 4-21 23-40 (108)
44 PF11874 DUF3394: Domain of un 27.7 61 0.0013 22.7 2.4 25 5-30 30-54 (183)
45 PF07444 Ycf66_N: Ycf66 protei 27.5 95 0.0021 19.2 3.0 24 9-32 5-28 (84)
46 TIGR02976 phageshock_pspB phag 26.4 1.5E+02 0.0034 17.8 3.8 26 8-33 6-31 (75)
47 TIGR03745 conj_TIGR03745 integ 25.9 1.8E+02 0.0038 18.9 4.1 28 11-38 45-75 (104)
48 PF01484 Col_cuticle_N: Nemato 25.6 70 0.0015 16.8 2.0 35 12-47 12-52 (53)
49 PRK10297 PTS system N,N'-diace 25.1 1.1E+02 0.0024 23.8 3.6 22 5-26 186-207 (452)
50 PF06781 UPF0233: Uncharacteri 24.9 88 0.0019 19.5 2.5 17 6-22 67-83 (87)
51 PHA03049 IMV membrane protein; 24.9 1.1E+02 0.0024 18.5 2.9 20 12-31 5-24 (68)
52 PF15086 UPF0542: Uncharacteri 24.5 74 0.0016 19.6 2.1 30 5-34 19-49 (74)
53 TIGR00985 3a0801s04tom mitocho 23.8 2.4E+02 0.0052 19.1 4.8 20 38-57 30-49 (148)
54 PF12768 Rax2: Cortical protei 23.7 64 0.0014 23.6 2.0 20 17-36 242-261 (281)
55 COG3965 Predicted Co/Zn/Cd cat 23.6 1.5E+02 0.0031 22.7 3.9 44 7-50 121-167 (314)
56 PF12648 TcpE: TcpE family 23.4 1.6E+02 0.0035 18.0 3.6 27 13-39 58-85 (108)
57 PF01124 MAPEG: MAPEG family; 23.3 75 0.0016 18.9 2.0 19 6-24 59-77 (129)
58 PRK02251 putative septation in 23.3 99 0.0021 19.4 2.5 17 6-22 67-83 (87)
59 TIGR01195 oadG_fam sodium pump 22.4 1.9E+02 0.0041 17.4 4.4 28 9-36 12-39 (82)
60 PRK06926 flagellar motor prote 22.1 92 0.002 22.8 2.5 19 6-24 155-173 (271)
61 PRK09110 flagellar motor prote 21.7 85 0.0018 23.1 2.3 21 5-25 168-188 (283)
62 TIGR00817 tpt Tpt phosphate/ph 21.5 99 0.0021 21.5 2.5 26 7-32 271-296 (302)
63 PRK11901 hypothetical protein; 21.3 1E+02 0.0022 23.6 2.7 21 8-28 38-58 (327)
64 PRK12482 flagellar motor prote 20.9 1E+02 0.0022 22.8 2.6 22 5-26 168-189 (287)
65 COG1291 MotA Flagellar motor c 20.8 77 0.0017 23.5 1.9 20 5-24 150-169 (266)
66 PF10661 EssA: WXG100 protein 20.8 1.5E+02 0.0033 19.7 3.2 13 19-31 130-142 (145)
67 PF07043 DUF1328: Protein of u 20.6 1.1E+02 0.0023 16.6 2.0 20 9-28 3-22 (39)
68 PF07441 BofA: SigmaK-factor p 20.6 85 0.0018 18.8 1.8 17 13-29 56-72 (78)
69 PF09323 DUF1980: Domain of un 20.6 1.2E+02 0.0027 20.2 2.8 25 6-30 4-28 (182)
70 PF15065 NCU-G1: Lysosomal tra 20.4 1.1E+02 0.0023 23.4 2.6 23 5-27 311-335 (350)
No 1
>cd00922 Cyt_c_Oxidase_IV Cytochrome c oxidase subunit IV. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit IV is the largest of the nuclear-encoded subunits. It binds ATP at the matrix side, leading to an allosteric inhibition of enzyme activity at high intramitochondrial ATP/ADP ratios. In mammals, subunit IV has a lung-specific isoform and a ubiquitously expressed isoform.
Probab=92.86 E-value=0.48 Score=31.41 Aligned_cols=50 Identities=16% Similarity=0.146 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCcHHHHHHHhhhhhh
Q 042797 7 EGLLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHIGNNMWDLTMEKRDKKL 56 (66)
Q Consensus 7 EaLpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~~~d~wd~~mm~RD~RL 56 (66)
|-..-++....++++.++....++.+.+|-+++...+.|+....||-+..
T Consensus 73 ewk~v~~~~~~~i~~s~~~~~~~r~~~~~~~P~T~t~Ewqea~~er~~~~ 122 (136)
T cd00922 73 EWKTVFGGVLAFIGITGVIFGLQRAFVYGPKPHTFTEEWQEAQLERMLDM 122 (136)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCcCHHHHHHHHHHHHHh
Confidence 55667788888889999888888889988888889999999999887754
No 2
>PF02936 COX4: Cytochrome c oxidase subunit IV; InterPro: IPR004203 Cytochrome c oxidase, a 13 sub-unit 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 IV. The Dictyostelium discoideum (Slime mould) member of this family is called COX VI. The Saccharomyces cerevisiae protein YGX6_YEAST appears to be the yeast COX IV subunit.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3ABK_Q 3AG1_Q 3ASN_Q 1OCZ_D 2EIN_Q 2OCC_D 2YBB_O 3AG3_D 1OCO_Q 1V55_Q ....
Probab=85.99 E-value=3.7 Score=27.35 Aligned_cols=49 Identities=14% Similarity=0.141 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCcHHHHHHHhhhhh
Q 042797 7 EGLLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHIGNNMWDLTMEKRDKK 55 (66)
Q Consensus 7 EaLpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~~~d~wd~~mm~RD~R 55 (66)
|--..++.+..++++.+.....++.+.++..++-..+.|+....+|=..
T Consensus 73 ewk~v~~~~~~~i~~s~~l~~~~r~~~~~~~P~T~~~Ew~ea~~~~m~~ 121 (142)
T PF02936_consen 73 EWKKVFGGVFIFIGFSVLLFIWQRSYVYPPLPHTFSKEWQEAQNERMLD 121 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHT-----GGGSHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHH
Confidence 3445678888888888889999998988775677888999888777443
No 3
>PF02285 COX8: Cytochrome oxidase c subunit VIII; InterPro: IPR003205 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits.This family is composed of cytochrome c oxidase subunit VIII. ; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG3_Z 3ABM_M 1OCC_Z 3ASO_Z 3AG2_Z 3ABL_M 3AG4_M 3AG1_M 3ASN_M 1OCZ_M ....
Probab=84.06 E-value=2.7 Score=23.45 Aligned_cols=28 Identities=18% Similarity=0.058 Sum_probs=22.9
Q ss_pred hhHHHHHHHHHHHHHHHH-HHHHHHHHHH
Q 042797 5 IYEGLLLLGIIAVMLTIA-GNAQYHIHKV 32 (66)
Q Consensus 5 wfEaLpp~gIi~~~~~v~-G~~~~~i~~~ 32 (66)
+-|-..++..+.++|.+| |+.+.++..|
T Consensus 12 ~~e~aigltv~f~~~L~PagWVLshL~~Y 40 (44)
T PF02285_consen 12 PAEQAIGLTVCFVTFLGPAGWVLSHLESY 40 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTHHHH
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHh
Confidence 357788999999888888 8999988765
No 4
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=64.67 E-value=6.9 Score=22.09 Aligned_cols=38 Identities=18% Similarity=0.268 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCcHHHHH
Q 042797 7 EGLLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHIGNNMWDLT 48 (66)
Q Consensus 7 EaLpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~~~d~wd~~ 48 (66)
..+..+.|-+..++++|++.|.. -|.|..--+|.||.+
T Consensus 7 A~~~~i~i~~lL~~~TgyaiYta----FGppSk~LrDPFeeH 44 (46)
T PRK13183 7 ALSLAITILAILLALTGFGIYTA----FGPPSKELDDPFDDH 44 (46)
T ss_pred hHHHHHHHHHHHHHHhhheeeec----cCCcccccCCchhhc
Confidence 44566677778888888887642 388877888888753
No 5
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=64.45 E-value=16 Score=24.01 Aligned_cols=27 Identities=19% Similarity=0.266 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 042797 8 GLLLLGIIAVMLTIAGNAQYHIHKVAY 34 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~i~~~~~ 34 (66)
+++-||+|++.+++.-.+.|.++|...
T Consensus 67 ~~Ii~gv~aGvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 67 IGIIFGVMAGVIGIILLISYCIRRLRK 93 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred eehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 567778888877777777888887643
No 6
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=58.09 E-value=18 Score=21.94 Aligned_cols=17 Identities=35% Similarity=0.546 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 042797 8 GLLLLGIIAVMLTIAGN 24 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~ 24 (66)
++.+|+++.+++++.|+
T Consensus 8 L~~~f~~~~~l~~~~~~ 24 (181)
T PF12729_consen 8 LILGFGLIILLLLIVGI 24 (181)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 46778888777777665
No 7
>PF06212 GRIM-19: GRIM-19 protein; InterPro: IPR009346 This family consists of several eukaryotic gene associated with retinoic-interferon-induced mortality 19 (GRIM-19) proteins. GRIM-19, was reported to encode a small protein primarily distributed in the nucleus and was able to promote cell death induced by IFN-beta and RA. A bovine homologue of GRIM-19 was co-purified with mitochondrial NADH:ubiquinone oxidoreductase (complex I) in bovine heart. Therefore, its exact cellular localisation and function are unclear. It has now been discovered that GRIM-19 is a specific interacting protein which negatively regulates Stat3 activity [].
Probab=56.80 E-value=14 Score=24.47 Aligned_cols=51 Identities=12% Similarity=0.072 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc-----CCCcccc-CcHHHHHHHhhhhhhhcc
Q 042797 9 LLLLGIIAVMLTIAGNAQYHIHKVAY-----EHLKHIG-NNMWDLTMEKRDKKLIEQ 59 (66)
Q Consensus 9 Lpp~gIi~~~~~v~G~~~~~i~~~~~-----Gk~kr~~-~d~wd~~mm~RD~RLtg~ 59 (66)
+.|..++++.++++.++.+.+-+.+. -.+++.+ .--.--.+-|+||+.-.+
T Consensus 29 ~sg~~~~~~~~~~~~~G~y~~~~~~r~~r~~~~E~~~ar~al~PlLqAE~DR~~lr~ 85 (130)
T PF06212_consen 29 PSGWTMFAGGAGIMAYGFYKVGQGNRERRELKREKRWARIALLPLLQAEEDRRYLRR 85 (130)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhHHHHHHHHHHHHHH
Confidence 45788999999999999988775431 2222211 122222466788776543
No 8
>PHA02669 hypothetical protein; Provisional
Probab=55.87 E-value=9.6 Score=27.20 Aligned_cols=25 Identities=32% Similarity=0.618 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 042797 7 EGLLLLGIIAVMLTIAGNAQYHIHK 31 (66)
Q Consensus 7 EaLpp~gIi~~~~~v~G~~~~~i~~ 31 (66)
++|.-++||.+.|+++|.+.|.+-.
T Consensus 2 ~~LVii~iIvavi~LTgAaiYlLiE 26 (210)
T PHA02669 2 MALVLIGIIVAVIYLTGAAIYLLIE 26 (210)
T ss_pred ceeehhHHHHHHHHHHHHHHHHHHH
Confidence 5677789999999999999998765
No 9
>PF07379 DUF1494: Protein of unknown function (DUF1494); InterPro: IPR009968 This family consists of several bacterial proteins of around 175 residues in length. Members of this family seem to be found exclusively in Chlamydia species. The function of this family is unknown.
Probab=55.20 E-value=16 Score=25.59 Aligned_cols=24 Identities=25% Similarity=0.329 Sum_probs=19.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Q 042797 5 IYEGLLLLGIIAVMLTIAGNAQYH 28 (66)
Q Consensus 5 wfEaLpp~gIi~~~~~v~G~~~~~ 28 (66)
=-|.|+.+++++..|++.|+.+-.
T Consensus 7 L~EllIs~tL~alLlgvLg~w~R~ 30 (170)
T PF07379_consen 7 LMELLISMTLIALLLGVLGFWYRE 30 (170)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHH
Confidence 359999999999999998876543
No 10
>KOG3300 consensus NADH:ubiquinone oxidoreductase, B16.6 subunit/cell death-regulatory protein [Energy production and conversion; Cell cycle control, cell division, chromosome partitioning]
Probab=54.95 E-value=14 Score=25.26 Aligned_cols=46 Identities=11% Similarity=0.189 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCccc--cCcHHHH-------HHHhhhhhhhcc
Q 042797 11 LLGIIAVMLTIAGNAQYHIHKVAYEHLKHI--GNNMWDL-------TMEKRDKKLIEQ 59 (66)
Q Consensus 11 p~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~--~~d~wd~-------~mm~RD~RLtg~ 59 (66)
|+..+++.+++..++.+.+- .|++||+ ..+.++- ..-|||||--..
T Consensus 35 g~t~~aa~~gatayG~~~~~---~~~kk~rr~kiEd~~a~nai~PiL~AErDr~~l~~ 89 (146)
T KOG3300|consen 35 GMTMFAAVSGATAYGMYQVG---QGNKKRRRLKIEDYAARNAILPILQAERDRRFLSE 89 (146)
T ss_pred cchhhhHHHHHHHHHHHHHH---hchhHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 45555666666666655443 5777775 4455543 356899986443
No 11
>PF09946 DUF2178: Predicted membrane protein (DUF2178); InterPro: IPR019235 This entry, found in various hypothetical bacterial and archaeal proteins, has no known function, but contains several predicted transmembrane helices.
Probab=54.47 E-value=12 Score=23.78 Aligned_cols=15 Identities=20% Similarity=0.466 Sum_probs=11.8
Q ss_pred HHHHhhhhhhhcccC
Q 042797 47 LTMEKRDKKLIEQPS 61 (66)
Q Consensus 47 ~~mm~RD~RLtg~~~ 61 (66)
..-+|||.|+++..+
T Consensus 51 v~eDER~~~I~ekAs 65 (111)
T PF09946_consen 51 VVEDERTERISEKAS 65 (111)
T ss_pred chhhHHHHHHHHHHH
Confidence 467899999998654
No 12
>CHL00020 psbN photosystem II protein N
Probab=52.80 E-value=9.6 Score=21.23 Aligned_cols=36 Identities=14% Similarity=0.261 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCcHHHHH
Q 042797 9 LLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHIGNNMWDLT 48 (66)
Q Consensus 9 Lpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~~~d~wd~~ 48 (66)
+..+.|-+..++++|++.|.. -|.|...-+|.||.+
T Consensus 6 ~~~i~i~~ll~~~Tgy~iYta----FGppSk~LrDPfeeH 41 (43)
T CHL00020 6 LVAIFISGLLVSFTGYALYTA----FGQPSKQLRDPFEEH 41 (43)
T ss_pred hHHHHHHHHHHHhhheeeeec----cCCchhccCCchhhc
Confidence 445666677778888877642 388877788888753
No 13
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=52.74 E-value=42 Score=19.07 Aligned_cols=36 Identities=17% Similarity=0.102 Sum_probs=27.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcc
Q 042797 4 LIYEGLLLLGIIAVMLTIAGNAQYHIHKVAYEHLKH 39 (66)
Q Consensus 4 MwfEaLpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr 39 (66)
.|.-.+-+..||-+.|.--|...|.=-+...||.|.
T Consensus 3 ~wlt~iFsvvIil~If~~iGl~IyQkikqIrgKkk~ 38 (49)
T PF11044_consen 3 TWLTTIFSVVIILGIFAWIGLSIYQKIKQIRGKKKE 38 (49)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 477788888888888888888877665666677653
No 14
>PTZ00391 transport protein particle component (TRAPP) superfamily; Provisional
Probab=50.70 E-value=2.5 Score=29.11 Aligned_cols=47 Identities=13% Similarity=0.000 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH--hcCCCcc-ccCcHHHHHHHhhhhhh
Q 042797 10 LLLGIIAVMLTIAGNAQYHIHKV--AYEHLKH-IGNNMWDLTMEKRDKKL 56 (66)
Q Consensus 10 pp~gIi~~~~~v~G~~~~~i~~~--~~Gk~kr-~~~d~wd~~mm~RD~RL 56 (66)
-|-|||=++|.-.|+-....-.. ..++|++ .-+=++|....+||++|
T Consensus 118 F~~GII~G~L~~~Gf~a~VTA~~~~~~~~~~~t~~likf~~~v~~Re~~~ 167 (168)
T PTZ00391 118 FAAGIVEGILCSAEFPANVTAHTVEDTPKNFSTTILIKFYPEVIEREKSI 167 (168)
T ss_pred hhHHHHHHHHhhCCCCcEEEEEeccCCCCCCceEEEEEecHHHHHHHhhc
Confidence 46799999888777633322222 2377777 47789999999999987
No 15
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 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 PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=50.53 E-value=14 Score=20.47 Aligned_cols=36 Identities=17% Similarity=0.257 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCcHHHHH
Q 042797 9 LLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHIGNNMWDLT 48 (66)
Q Consensus 9 Lpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~~~d~wd~~ 48 (66)
++.+.|-+..++++|++.|.. -|.|..--.|.||.+
T Consensus 6 ~~~i~i~~~lv~~Tgy~iYta----FGppSk~LrDPfeeH 41 (43)
T PF02468_consen 6 VLAIFISCLLVSITGYAIYTA----FGPPSKELRDPFEEH 41 (43)
T ss_pred eHHHHHHHHHHHHHhhhhhhe----eCCCccccCCccccc
Confidence 344556666677777776542 376666678887753
No 16
>PF03912 Psb28: Psb28 protein; InterPro: IPR005610 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 Psb28 (PsbW) found in PSII, where it is a subunit of the oxygen-evolving complex. Psb28 appears to have several roles, including guiding PSII biogenesis and assembly, stabilising dimeric PSII [], and facilitating PSII repair after photo-inhibition []. There appears to be two classes of Psb28, class 1 being found predominantly in algae and cyanobacteria, and class 2 being found predominantly in plants. This entry represents class 1 Psb28.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0016020 membrane; PDB: 2KVO_A.
Probab=49.32 E-value=3.7 Score=26.79 Aligned_cols=19 Identities=26% Similarity=0.408 Sum_probs=14.9
Q ss_pred HHhcCCCccc-------cCcHHHHHH
Q 042797 31 KVAYEHLKHI-------GNNMWDLTM 49 (66)
Q Consensus 31 ~~~~Gk~kr~-------~~d~wd~~m 49 (66)
||.||||+++ +-+.|||.|
T Consensus 68 kFvnG~p~~iEa~y~m~s~~~WdRFM 93 (108)
T PF03912_consen 68 KFVNGKPQAIEATYIMKSEEEWDRFM 93 (108)
T ss_dssp EEETTEEEEEEEEEEE-SSHHHHHHH
T ss_pred EEECCceEEEEEEEEECCHHHHHHHH
Confidence 3668998873 578999987
No 17
>cd00930 Cyt_c_Oxidase_VIII Cytochrome oxidase c subunit VIII. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIII is the smallest of the nuclear-encoded subunits. It exists in muscle-specific and non-muscle-specific isoforms that are differently expressed in different species, suggesting species-specific regulation of energy metabolism.
Probab=47.88 E-value=31 Score=19.06 Aligned_cols=28 Identities=21% Similarity=0.204 Sum_probs=19.6
Q ss_pred hhHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q 042797 5 IYEGLLLLGIIAV-MLTIAGNAQYHIHKV 32 (66)
Q Consensus 5 wfEaLpp~gIi~~-~~~v~G~~~~~i~~~ 32 (66)
.-|..++++.+.+ +|+.+|+.++++..|
T Consensus 12 ~~E~aigl~~~f~~~L~p~gWVLshL~~Y 40 (43)
T cd00930 12 AAESAIGLSVFFTTFLLPAGWVLSHLENY 40 (43)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHh
Confidence 3477777777665 456678888888754
No 18
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=45.59 E-value=6.2 Score=26.00 Aligned_cols=19 Identities=16% Similarity=0.466 Sum_probs=15.0
Q ss_pred HHhcCCCccc-------cCcHHHHHH
Q 042797 31 KVAYEHLKHI-------GNNMWDLTM 49 (66)
Q Consensus 31 ~~~~Gk~kr~-------~~d~wd~~m 49 (66)
||.||||... +-+.|||.|
T Consensus 75 KFvnGkp~~iEa~y~m~s~~~WdRFM 100 (113)
T PRK13610 75 SISEDHVKEVKSTYNWNSEEAFERFM 100 (113)
T ss_pred EEEcCCccEEEEEEEECCHHHHHHHH
Confidence 4678999873 678999987
No 19
>PLN00039 photosystem II reaction center Psb28 protein; Provisional
Probab=42.39 E-value=7.5 Score=25.50 Aligned_cols=19 Identities=26% Similarity=0.323 Sum_probs=14.9
Q ss_pred HHhcCCCccc-------cCcHHHHHH
Q 042797 31 KVAYEHLKHI-------GNNMWDLTM 49 (66)
Q Consensus 31 ~~~~Gk~kr~-------~~d~wd~~m 49 (66)
||.||||... +-+.|||-|
T Consensus 69 KFvnGkp~~iEa~y~m~s~~~WdRFM 94 (111)
T PLN00039 69 KFVNGKPAGIEAKYVMRSPREWDRFM 94 (111)
T ss_pred EEECCCccEEEEEEEECCHHHHHHHH
Confidence 4678998863 678999987
No 20
>PF07215 DUF1419: Protein of unknown function (DUF1419); InterPro: IPR009862 This family consists of several bacterial proteins of around 110 residues in length. Members of this family seem to be specific to Agrobacterium species and to Rhizobium loti (Mesorhizobium loti). The function of this family is unknown.
Probab=42.24 E-value=5.4 Score=26.23 Aligned_cols=26 Identities=15% Similarity=-0.015 Sum_probs=19.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042797 6 YEGLLLLGIIAVMLTIAGNAQYHIHK 31 (66)
Q Consensus 6 fEaLpp~gIi~~~~~v~G~~~~~i~~ 31 (66)
||||||+-+=+.||+.-=..+..|--
T Consensus 57 leiLPPL~~rg~mFamrEf~tgsVTS 82 (111)
T PF07215_consen 57 LEILPPLWMRGDMFAMREFLTGSVTS 82 (111)
T ss_pred HhhCCchheecchhhhhhhccCCeee
Confidence 69999999999999876555544443
No 21
>TIGR03047 PS_II_psb28 photosystem II reaction center protein Psb28. Members of this protein family are the Psb28 protein of photosystem II. Two different protein families, apparently without homology between them, have been designated PsbW. Cyanobacterial proteins previously designated PsbW are members of the family described here. However, while members of the plant PsbW family are not found (so far) in Cyanobacteria, members of the present family do occur in plants. We therefore support the alternative designation that has emerged for this protein family, Psp28, rather than PsbW.
Probab=41.57 E-value=7.7 Score=25.38 Aligned_cols=19 Identities=26% Similarity=0.440 Sum_probs=14.9
Q ss_pred HHhcCCCccc-------cCcHHHHHH
Q 042797 31 KVAYEHLKHI-------GNNMWDLTM 49 (66)
Q Consensus 31 ~~~~Gk~kr~-------~~d~wd~~m 49 (66)
||.||||.-. +-+.|||-|
T Consensus 68 KFvnGkp~~iEa~y~m~s~~~WdRFM 93 (109)
T TIGR03047 68 KFVNGKPKALEAVYIMKSEDEWDRFM 93 (109)
T ss_pred EEECCCccEEEEEEEECCHHHHHHHH
Confidence 4678999873 668999987
No 22
>COG3197 FixS Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]
Probab=41.45 E-value=33 Score=20.17 Aligned_cols=22 Identities=9% Similarity=0.163 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 042797 8 GLLLLGIIAVMLTIAGNAQYHIH 30 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~i~ 30 (66)
+|+|.+|+.+++++..+ +..++
T Consensus 6 ~Lipvsi~l~~v~l~~f-lWavk 27 (58)
T COG3197 6 ILIPVSILLGAVGLGAF-LWAVK 27 (58)
T ss_pred eHHHHHHHHHHHHHHHH-HHhcc
Confidence 57899999888876544 33444
No 23
>PF06522 B12D: NADH-ubiquinone reductase complex 1 MLRQ subunit; InterPro: IPR010530 The MLRQ subunit of mitochondrial NADH-ubiquinone reductase complex I is nuclear [] and is found in plants [], insects, fungi and higher metazoans []. It appears to act within the membrane and, in mammals, is highly expressed in muscle and neural tissue, indicative of a role in ATP generation [].
Probab=41.35 E-value=29 Score=20.44 Aligned_cols=50 Identities=16% Similarity=0.183 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc----cCcHHHHHHHhhhhhhhc
Q 042797 7 EGLLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHI----GNNMWDLTMEKRDKKLIE 58 (66)
Q Consensus 7 EaLpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~----~~d~wd~~mm~RD~RLtg 58 (66)
|++|=++++++.++ +.+.+.++.+.....-++ .-+.|+..-..+.+++..
T Consensus 5 el~PL~~~vg~a~~--~a~~~~~r~l~~~PdV~~~k~~~~~pw~~~~~~~~~K~~~ 58 (73)
T PF06522_consen 5 ELYPLFVIVGVAVG--GATFYLYRLLLTNPDVRWNKKNRPEPWEKYKPHEQRKFYS 58 (73)
T ss_pred cccchHHHHHHHHH--HHHHHHHHHHhcCCCeEEEecCCcChhhhcCccccEEeec
Confidence 67777777666443 444455555533332221 257777766655554433
No 24
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=41.33 E-value=22 Score=20.19 Aligned_cols=23 Identities=4% Similarity=0.118 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 042797 8 GLLLLGIIAVMLTIAGNAQYHIHK 31 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~i~~ 31 (66)
+|+|++++.+++++-... ..+++
T Consensus 6 ~LIpiSl~l~~~~l~~f~-Wavk~ 28 (51)
T TIGR00847 6 ILIPISLLLGGVGLVAFL-WSLKS 28 (51)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHcc
Confidence 477888877776665443 34443
No 25
>CHL00128 psbW photosystem II protein W; Reviewed
Probab=39.97 E-value=8.7 Score=25.28 Aligned_cols=19 Identities=26% Similarity=0.384 Sum_probs=14.9
Q ss_pred HHhcCCCccc-------cCcHHHHHH
Q 042797 31 KVAYEHLKHI-------GNNMWDLTM 49 (66)
Q Consensus 31 ~~~~Gk~kr~-------~~d~wd~~m 49 (66)
||.||||.-. +-+.|||.|
T Consensus 71 KFvnGkp~~iEa~y~m~s~~~WdRFM 96 (113)
T CHL00128 71 KFINGKPQAIEAIYIMKNPEAWDRFM 96 (113)
T ss_pred EEECCCccEEEEEEEECCHHHHHHHH
Confidence 4678998863 678999987
No 26
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=39.46 E-value=8.8 Score=24.94 Aligned_cols=19 Identities=21% Similarity=0.392 Sum_probs=14.8
Q ss_pred HHhcCCCccc-------cCcHHHHHH
Q 042797 31 KVAYEHLKHI-------GNNMWDLTM 49 (66)
Q Consensus 31 ~~~~Gk~kr~-------~~d~wd~~m 49 (66)
||.||||... +-+.|||.|
T Consensus 64 KFvnGkp~~iEa~y~m~s~~~wdRFM 89 (104)
T PRK13611 64 KFLNGEFKALEVIYDMETEAEWDRFL 89 (104)
T ss_pred EEECCCccEEEEEEEECCHHHHHHHH
Confidence 4678998863 668999987
No 27
>PF10355 Ytp1: Protein of unknown function (Ytp1); InterPro: IPR018827 This entry represents a conserved sequence region found a family of fungal proteins. It appears to contain regions similar to mitochondrial electron transport proteins. The C-terminal domain is hydrophobic and negatively charged. There are consensus sites for both N-linked glycosylation and cAMP-dependent protein kinase phosphorylation [].
Probab=38.24 E-value=18 Score=26.81 Aligned_cols=29 Identities=21% Similarity=0.099 Sum_probs=22.6
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042797 3 WLIYEGLLLLGIIAVMLTIAGNAQYHIHK 31 (66)
Q Consensus 3 ~MwfEaLpp~gIi~~~~~v~G~~~~~i~~ 31 (66)
.-++|.||||.++++-+..++---..+.-
T Consensus 208 ~p~te~l~~F~L~~gGliFM~Stee~~~~ 236 (271)
T PF10355_consen 208 RPPTELLTPFCLIAGGLIFMGSTEEQLEA 236 (271)
T ss_pred CCchhHHHHHHHHHHhHeeeeecHHHHHH
Confidence 45899999999999999888865444443
No 28
>PRK13612 photosystem II reaction center protein Psb28; Provisional
Probab=37.94 E-value=9.6 Score=25.08 Aligned_cols=19 Identities=21% Similarity=0.359 Sum_probs=14.8
Q ss_pred HHhcCCCccc-------cCcHHHHHH
Q 042797 31 KVAYEHLKHI-------GNNMWDLTM 49 (66)
Q Consensus 31 ~~~~Gk~kr~-------~~d~wd~~m 49 (66)
||.||||.-. +-+.|||.|
T Consensus 71 KFvnGkp~~iEa~y~m~s~~~WdRFM 96 (113)
T PRK13612 71 KFVNGKPSALEATYIWKSEQEWDRFM 96 (113)
T ss_pred EEECCCccEEEEEEEECCHHHHHHHH
Confidence 4678998863 668999987
No 29
>PF02529 PetG: Cytochrome B6-F complex subunit 5; InterPro: IPR003683 This family consists of cytochrome b6/f complex subunit 5 (PetG). The cytochrome bf complex, found in green plants, eukaryotic algae and cyanobacteria, connects photosystem I to photosystem II in the electron transport chain, functioning as a plastoquinol:plastocyanin/cytochrome c6 oxidoreductase []. The purified complex from the unicellular alga Chlamydomonas reinhardtii contains seven subunits; namely four high molecular weight subunits (cytochrome f, Rieske iron-sulphur protein, cytochrome b6, and subunit IV) and three approximately miniproteins (PetG, PetL, and PetX) []. Stoichiometry measurements are consistent with every subunit being present as two copies per b6/f dimer. The absence of PetG affects either the assembly or stability of the cytochrome bf complex in C. reinhardtii [].; GO: 0009512 cytochrome b6f complex; PDB: 1Q90_G 2ZT9_G 1VF5_G 2D2C_G 2E74_G 2E75_G 2E76_G.
Probab=36.70 E-value=73 Score=17.20 Aligned_cols=24 Identities=17% Similarity=0.328 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Q 042797 11 LLGIIAVMLTIAGNAQYHIHKVAY 34 (66)
Q Consensus 11 p~gIi~~~~~v~G~~~~~i~~~~~ 34 (66)
.+||+-+++.|+=.++...-..++
T Consensus 6 L~GiVlGli~vtl~Glfv~Ay~QY 29 (37)
T PF02529_consen 6 LSGIVLGLIPVTLAGLFVAAYLQY 29 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHH
Confidence 478888888888777776666544
No 30
>TIGR00351 narI respiratory nitrate reductase, gamma subunit. Involved in anerobic respiration the gene product catalyzes the reaction (reduced acceptor + NO3- = Acceptor + nitrite). Another possible role_id for this gene product is in nitrogen fixation (Role_id:160).
Probab=36.69 E-value=91 Score=21.96 Aligned_cols=37 Identities=11% Similarity=0.040 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCccccCcHHHHH
Q 042797 11 LLGIIAVMLTIAGNAQYHIHKVAYEHLKHIGNNMWDLT 48 (66)
Q Consensus 11 p~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~~~d~wd~~ 48 (66)
.+|.+++.+++-|.+.-.++|+++. +.|.....-|+.
T Consensus 91 ~~G~~aGi~~liGl~~Ll~RRl~~~-~vr~~s~~~D~~ 127 (224)
T TIGR00351 91 FAGGASGVLCLIGGVLLLKRRLFSP-RVRATSTGADIL 127 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCC-cccccCCHHHHH
Confidence 4688899999999999999998874 444444555554
No 31
>PF11990 DUF3487: Protein of unknown function (DUF3487); InterPro: IPR021877 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 121 to 136 amino acids in length. This protein has a conserved RLN sequence motif.
Probab=36.58 E-value=1.2e+02 Score=19.68 Aligned_cols=42 Identities=2% Similarity=-0.115 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCcHHHHHH
Q 042797 8 GLLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHIGNNMWDLTM 49 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~~~d~wd~~m 49 (66)
++.|-+++.+++...-++-..+.++--|||.-+-.-.-++.+
T Consensus 52 a~~pt~~ll~~~~~v~~gg~~l~rlKRGKP~~yl~r~l~~~l 93 (121)
T PF11990_consen 52 AMIPTGALLGPILGVFVGGKLLARLKRGKPEGYLYRRLQWRL 93 (121)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHcCCchhHHHHHHHHHH
Confidence 345555555555555556667777777888755433333333
No 32
>TIGR03750 conj_TIGR03750 conjugative transfer region protein, TIGR03750 family. Members of this protein family are found occasionally on plasmids. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=36.39 E-value=1.2e+02 Score=19.64 Aligned_cols=34 Identities=6% Similarity=-0.047 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccc
Q 042797 8 GLLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHIG 41 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~~ 41 (66)
++.|.+++.+++.+--++-.++.+.--|||.-+-
T Consensus 49 ~~~p~~~lig~~l~v~~gg~~l~rlKRGrPe~yl 82 (111)
T TIGR03750 49 ALIPTGALLGPILVVLIGGKLLARLKRGKPEGYL 82 (111)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHcCCCchHH
Confidence 4566667777766666677777777778887653
No 33
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=34.66 E-value=94 Score=18.81 Aligned_cols=24 Identities=8% Similarity=-0.104 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 042797 9 LLLLGIIAVMLTIAGNAQYHIHKV 32 (66)
Q Consensus 9 Lpp~gIi~~~~~v~G~~~~~i~~~ 32 (66)
.+|+.|..++++.+-..+.|..|.
T Consensus 7 ~~plivf~ifVap~WL~lHY~sk~ 30 (75)
T PF06667_consen 7 FVPLIVFMIFVAPIWLILHYRSKW 30 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445555555555555666666654
No 34
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=34.65 E-value=59 Score=19.69 Aligned_cols=21 Identities=24% Similarity=0.279 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 042797 11 LLGIIAVMLTIAGNAQYHIHK 31 (66)
Q Consensus 11 p~gIi~~~~~v~G~~~~~i~~ 31 (66)
-+.++..|.+|.|...|.+-.
T Consensus 4 d~iLi~ICVaii~lIlY~iYn 24 (68)
T PF05961_consen 4 DFILIIICVAIIGLILYGIYN 24 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 356788899999999988854
No 35
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=34.26 E-value=90 Score=19.47 Aligned_cols=44 Identities=20% Similarity=0.306 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHH-HHHHHHHHhcCCCccccCcHHHHHHHhhhhhhhc
Q 042797 12 LGIIAVMLTIAGN-AQYHIHKVAYEHLKHIGNNMWDLTMEKRDKKLIE 58 (66)
Q Consensus 12 ~gIi~~~~~v~G~-~~~~i~~~~~Gk~kr~~~d~wd~~mm~RD~RLtg 58 (66)
++||.+++++.+. ....+.+ . +.++-..+.=+..+.+-|+||+.
T Consensus 9 w~ii~a~~~~~~~~~~~~l~~-~--~a~~~~~~~l~~~~~~~~~Rl~~ 53 (106)
T PF10805_consen 9 WGIIWAVFGIAGGIFWLWLRR-T--YAKREDIEKLEERLDEHDRRLQA 53 (106)
T ss_pred cHHHHHHHHHHHHHHHHHHHH-h--hccHHHHHHHHHHHHHHHHHHHH
Confidence 4556666654444 3333544 1 23445566666777778888875
No 36
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=34.15 E-value=94 Score=17.76 Aligned_cols=27 Identities=15% Similarity=0.149 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 042797 8 GLLLLGIIAVMLTIAGNAQYHIHKVAY 34 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~i~~~~~ 34 (66)
.+.+++|...+|.+-......+.++.+
T Consensus 8 ~i~Gm~iVF~~L~lL~~~i~l~~~~~~ 34 (79)
T PF04277_consen 8 MIIGMGIVFLVLILLILVISLMSKLIR 34 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477888888888888888888888743
No 37
>PF13172 PepSY_TM_1: PepSY-associated TM helix
Probab=33.83 E-value=60 Score=16.19 Aligned_cols=18 Identities=17% Similarity=0.381 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 042797 11 LLGIIAVMLTIAGNAQYH 28 (66)
Q Consensus 11 p~gIi~~~~~v~G~~~~~ 28 (66)
..++....++++|..+.+
T Consensus 15 ~~~~~ll~~~lTG~~l~~ 32 (34)
T PF13172_consen 15 IAAIFLLLLALTGALLNF 32 (34)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 456666777888877653
No 38
>PRK10557 hypothetical protein; Provisional
Probab=32.50 E-value=1.1e+02 Score=20.93 Aligned_cols=61 Identities=15% Similarity=0.213 Sum_probs=41.1
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCccccCcHHH-HHHHhhhhhhhcccCCC
Q 042797 3 WLIYEGLLLLGIIAVMLTIAGNAQYHIHKVAY--EHLKHIGNNMWD-LTMEKRDKKLIEQPSSA 63 (66)
Q Consensus 3 ~MwfEaLpp~gIi~~~~~v~G~~~~~i~~~~~--Gk~kr~~~d~wd-~~mm~RD~RLtg~~~~~ 63 (66)
+.=.|.|+.++|....+.+.+.....+++... .+..+...+.++ -.+++||-|-.|...+.
T Consensus 9 fSLiElmIAm~Ig~illl~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~l~~dirrAGy~~~~ 72 (192)
T PRK10557 9 FSLLEVLLAMAIGSVLLLGAARFLPALQRQILTLTRQLRLEDEIWQRVFTVEKDLRRAGYCHGS 72 (192)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC
Confidence 44569999999988888777777777777432 333333333333 46899999998876543
No 39
>TIGR03818 MotA1 flagellar motor stator protein MotA. This model represents one family of MotA proteins which are often not identified by the "transporter, MotA/TolQ/ExbB proton channel family" model, pfam01618.
Probab=32.27 E-value=39 Score=24.74 Aligned_cols=21 Identities=24% Similarity=0.295 Sum_probs=15.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 042797 6 YEGLLLLGIIAVMLTIAGNAQ 26 (66)
Q Consensus 6 fEaLpp~gIi~~~~~v~G~~~ 26 (66)
=|..|.|||+++.+++.+...
T Consensus 169 g~~aPa~GiiGtvlGLI~~l~ 189 (282)
T TIGR03818 169 ADALPGFGIVAAVLGVVITMG 189 (282)
T ss_pred HhhCchhhHHHHHHHHHHHHH
Confidence 367899999988887666443
No 40
>PF03021 CM2: Influenza C virus M2 protein; InterPro: IPR004267 This family represents the matrix protein, M2, of Influenza C virus. The M1 protein is the product of a spliced mRNA (see IPR004271 from INTERPRO). Small quantities of the unspliced mRNA are found in the cell additionally encoding the M2 protein.
Probab=30.67 E-value=34 Score=22.75 Aligned_cols=51 Identities=14% Similarity=0.147 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCcHHH-----HHHHhhhhhhhc
Q 042797 8 GLLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHIGNNMWD-----LTMEKRDKKLIE 58 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~~~d~wd-----~~mm~RD~RLtg 58 (66)
+-+++|||+......-...-.++-|..|+-.|+.-|-=- -.-||.|-.|+.
T Consensus 56 aslglgiitmlyllvkiiielvngfvlgrwerwcgdikttimpeidsmekdialsr 111 (139)
T PF03021_consen 56 ASLGLGIITMLYLLVKIIIELVNGFVLGRWERWCGDIKTTIMPEIDSMEKDIALSR 111 (139)
T ss_pred HhccchHHHHHHHHHHHHHHHhccceechHHHHhccccceeccchhhhhhHhhhhH
Confidence 557899999988888777777777777776665433211 123566655543
No 41
>KOG3188 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.62 E-value=1.7e+02 Score=21.55 Aligned_cols=46 Identities=17% Similarity=0.055 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc--cCcHHHHHHHhhhhhhhc
Q 042797 8 GLLLLGIIAVMLTIAGNAQYHIHKVAYEHLKHI--GNNMWDLTMEKRDKKLIE 58 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~i~~~~~Gk~kr~--~~d~wd~~mm~RD~RLtg 58 (66)
.|+|+.||++ ..|+.-+++-.+..+++|-- ... |++...|-+-|.+
T Consensus 15 VlLPI~ivm~---liGilRhyvsiLl~s~kk~~~~~v~--e~q~l~rAr~Lr~ 62 (246)
T KOG3188|consen 15 VLLPIVIVMF---LIGILRHYVSILLQSSKKLEQEQVK--EGQYLIRARLLRE 62 (246)
T ss_pred hHHHHHHHHH---HHHHHHHHHHHHHhcCCcccHHHhh--hhHHHHHHHHHHh
Confidence 5888888887 45667777777655555553 444 4445555544443
No 42
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=30.12 E-value=1.1e+02 Score=20.03 Aligned_cols=30 Identities=13% Similarity=0.210 Sum_probs=16.0
Q ss_pred cchhhHHH-HHHHHHHHHHHHHHHHHHHHHH
Q 042797 2 SWLIYEGL-LLLGIIAVMLTIAGNAQYHIHK 31 (66)
Q Consensus 2 ~~MwfEaL-pp~gIi~~~~~v~G~~~~~i~~ 31 (66)
++-||||+ +.++-..|..++--...-.+++
T Consensus 14 sL~PWeIfLItLasVvvavGl~aGLfFcvR~ 44 (106)
T PF14654_consen 14 SLKPWEIFLITLASVVVAVGLFAGLFFCVRN 44 (106)
T ss_pred CccchHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 36789984 4454444444444444444554
No 43
>PRK13854 type IV secretion system protein VirB3; Provisional
Probab=27.93 E-value=1.2e+02 Score=19.41 Aligned_cols=18 Identities=6% Similarity=-0.003 Sum_probs=13.7
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 042797 4 LIYEGLLLLGIIAVMLTI 21 (66)
Q Consensus 4 MwfEaLpp~gIi~~~~~v 21 (66)
.|+|+.++..+++++..+
T Consensus 23 Vp~~~~~~~~~~~~~~~i 40 (108)
T PRK13854 23 VPLTLAGVFMMLAGFVIV 40 (108)
T ss_pred chHHHHHHHHHHHHHHHH
Confidence 478888888888887733
No 44
>PF11874 DUF3394: Domain of unknown function (DUF3394); InterPro: IPR021814 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 190 amino acids in length. This domain is found associated with PF06808 from PFAM.
Probab=27.71 E-value=61 Score=22.68 Aligned_cols=25 Identities=32% Similarity=0.224 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 042797 5 IYEGLLLLGIIAVMLTIAGNAQYHIH 30 (66)
Q Consensus 5 wfEaLpp~gIi~~~~~v~G~~~~~i~ 30 (66)
|||.+. +-+++.+|..||+.+..++
T Consensus 30 ~~E~~~-ll~~~f~lf~P~~~~d~i~ 54 (183)
T PF11874_consen 30 WWESVL-LLLIAFTLFRPGFWMDMIY 54 (183)
T ss_pred HHHHHH-HHHHHHHHhCchHHHHhcc
Confidence 899876 5567888889999988776
No 45
>PF07444 Ycf66_N: Ycf66 protein N-terminus; InterPro: IPR010004 This entry represents Ycf66, a protein that is restricted to the chloroplasts of simple plants and algae. It is also found in the cyanobacteria. The function is unknown. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=27.55 E-value=95 Score=19.21 Aligned_cols=24 Identities=21% Similarity=0.294 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 042797 9 LLLLGIIAVMLTIAGNAQYHIHKV 32 (66)
Q Consensus 9 Lpp~gIi~~~~~v~G~~~~~i~~~ 32 (66)
+.|.-|++.++++.|.++|.+..+
T Consensus 5 ~~~~~iLgi~l~~~~~~Ly~lr~~ 28 (84)
T PF07444_consen 5 FGPSYILGIILILGGLALYFLRFF 28 (84)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHH
Confidence 467889999999999999987654
No 46
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=26.41 E-value=1.5e+02 Score=17.79 Aligned_cols=26 Identities=12% Similarity=-0.161 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042797 8 GLLLLGIIAVMLTIAGNAQYHIHKVA 33 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~i~~~~ 33 (66)
+++|+.|+.++++.+-..+.|..|..
T Consensus 6 l~~Pliif~ifVap~wl~lHY~~k~~ 31 (75)
T TIGR02976 6 LAIPLIIFVIFVAPLWLILHYRSKRK 31 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 35666666666666666666665543
No 47
>TIGR03745 conj_TIGR03745 integrating conjugative element membrane protein, PFL_4702 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=25.92 E-value=1.8e+02 Score=18.89 Aligned_cols=28 Identities=18% Similarity=0.250 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh---cCCCc
Q 042797 11 LLGIIAVMLTIAGNAQYHIHKVA---YEHLK 38 (66)
Q Consensus 11 p~gIi~~~~~v~G~~~~~i~~~~---~Gk~k 38 (66)
-+|++.+...+-+++...+++|+ +||.+
T Consensus 45 llgL~i~a~aFi~Va~~a~~ty~Ei~~Gk~~ 75 (104)
T TIGR03745 45 LLGLLIAAIAFIGVAYHALGTYHEIRTGKAT 75 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcchhh
Confidence 34455555555666777777765 36643
No 48
>PF01484 Col_cuticle_N: Nematode cuticle collagen N-terminal domain; InterPro: IPR002486 The function of this domain is unknown. It is found in the N-terminal region of nematode cuticle collagens (see IPR008160 from INTERPRO). Cuticle is a tough elastic structure secreted by hypodermal cells and is primarily composed of collagen proteins [, ].; GO: 0042302 structural constituent of cuticle
Probab=25.63 E-value=70 Score=16.78 Aligned_cols=35 Identities=20% Similarity=0.511 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh-----c-CCCccccCcHHHH
Q 042797 12 LGIIAVMLTIAGNAQYHIHKVA-----Y-EHLKHIGNNMWDL 47 (66)
Q Consensus 12 ~gIi~~~~~v~G~~~~~i~~~~-----~-Gk~kr~~~d~wd~ 47 (66)
+++++.++++| ...+.++.+. + ..-|....|.|+.
T Consensus 12 ~ai~~~l~~~p-~i~~~i~~~~~~~~~em~~fk~~s~d~W~~ 52 (53)
T PF01484_consen 12 VAILSCLITVP-SIYNDIQNFQSELDDEMEEFKEISDDAWNE 52 (53)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34444444444 4555565542 2 3445567777765
No 49
>PRK10297 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional
Probab=25.08 E-value=1.1e+02 Score=23.76 Aligned_cols=22 Identities=23% Similarity=0.151 Sum_probs=18.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 042797 5 IYEGLLLLGIIAVMLTIAGNAQ 26 (66)
Q Consensus 5 wfEaLpp~gIi~~~~~v~G~~~ 26 (66)
+||+|+|..|+.+++.+-+.+.
T Consensus 186 sF~~LiP~~i~l~~~~~l~~~~ 207 (452)
T PRK10297 186 SFSALIPGFIILSIMGIIAWAL 207 (452)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 6999999999999888877664
No 50
>PF06781 UPF0233: Uncharacterised protein family (UPF0233); InterPro: IPR009619 This is a group of proteins of unknown function.
Probab=24.92 E-value=88 Score=19.48 Aligned_cols=17 Identities=12% Similarity=0.288 Sum_probs=13.2
Q ss_pred hHHHHHHHHHHHHHHHH
Q 042797 6 YEGLLLLGIIAVMLTIA 22 (66)
Q Consensus 6 fEaLpp~gIi~~~~~v~ 22 (66)
|-++++||+|.+.|.++
T Consensus 67 WN~~IGfg~~~~Gf~mt 83 (87)
T PF06781_consen 67 WNLAIGFGLMIVGFLMT 83 (87)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 46788999998877653
No 51
>PHA03049 IMV membrane protein; Provisional
Probab=24.91 E-value=1.1e+02 Score=18.52 Aligned_cols=20 Identities=20% Similarity=0.349 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 042797 12 LGIIAVMLTIAGNAQYHIHK 31 (66)
Q Consensus 12 ~gIi~~~~~v~G~~~~~i~~ 31 (66)
+.++..|.+|.|...|.|-+
T Consensus 5 ~~l~iICVaIi~lIvYgiYn 24 (68)
T PHA03049 5 IILVIICVVIIGLIVYGIYN 24 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 45677888999999888864
No 52
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=24.51 E-value=74 Score=19.56 Aligned_cols=30 Identities=23% Similarity=0.260 Sum_probs=17.8
Q ss_pred hhHHHHH-HHHHHHHHHHHHHHHHHHHHHhc
Q 042797 5 IYEGLLL-LGIIAVMLTIAGNAQYHIHKVAY 34 (66)
Q Consensus 5 wfEaLpp-~gIi~~~~~v~G~~~~~i~~~~~ 34 (66)
|||-+-- +-++|=+|.+.|+..+.+.+...
T Consensus 19 P~~Fl~~vll~LtPlfiisa~lSwkLaK~ie 49 (74)
T PF15086_consen 19 PYEFLTTVLLILTPLFIISAVLSWKLAKAIE 49 (74)
T ss_pred hHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 4444332 33455567777777788777543
No 53
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=23.82 E-value=2.4e+02 Score=19.08 Aligned_cols=20 Identities=20% Similarity=0.263 Sum_probs=15.6
Q ss_pred ccccCcHHHHHHHhhhhhhh
Q 042797 38 KHIGNNMWDLTMEKRDKKLI 57 (66)
Q Consensus 38 kr~~~d~wd~~mm~RD~RLt 57 (66)
||++.-.+-+.+-+|-+|-.
T Consensus 30 KRR~dPdFRkkLr~rr~k~~ 49 (148)
T TIGR00985 30 KRRNDPDFRKKLRRRRKKQA 49 (148)
T ss_pred hhccCHHHHHHHHHHHHHHH
Confidence 67788888888888877655
No 54
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=23.72 E-value=64 Score=23.58 Aligned_cols=20 Identities=15% Similarity=0.100 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHhcCC
Q 042797 17 VMLTIAGNAQYHIHKVAYEH 36 (66)
Q Consensus 17 ~~~~v~G~~~~~i~~~~~Gk 36 (66)
..+++.|+..++++|--+|.
T Consensus 242 ~ll~l~Gii~~~~~r~~~~~ 261 (281)
T PF12768_consen 242 FLLVLIGIILAYIRRRRQGY 261 (281)
T ss_pred HHHHHHHHHHHHHHhhhccC
Confidence 45678888999999875544
No 55
>COG3965 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=23.55 E-value=1.5e+02 Score=22.71 Aligned_cols=44 Identities=14% Similarity=-0.010 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--Hhc-CCCccccCcHHHHHHH
Q 042797 7 EGLLLLGIIAVMLTIAGNAQYHIHK--VAY-EHLKHIGNNMWDLTME 50 (66)
Q Consensus 7 EaLpp~gIi~~~~~v~G~~~~~i~~--~~~-Gk~kr~~~d~wd~~mm 50 (66)
|.-|+++|+.+.++++|-+..+... .+- +|..-++.|.-+|.|.
T Consensus 121 ~v~~~~ai~yt~~s~~~Ca~~~~~~~r~nrr~~s~lIald~kqW~Ms 167 (314)
T COG3965 121 EVEPGHAIAYTLVSVTGCAAIAWKLRRLNRRLKSPLIALDTKQWLMS 167 (314)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHhhhccCCCchhhhHHHHHHHH
Confidence 4568899999999999887666554 444 5555579999999884
No 56
>PF12648 TcpE: TcpE family
Probab=23.42 E-value=1.6e+02 Score=18.00 Aligned_cols=27 Identities=15% Similarity=0.224 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH-hcCCCcc
Q 042797 13 GIIAVMLTIAGNAQYHIHKV-AYEHLKH 39 (66)
Q Consensus 13 gIi~~~~~v~G~~~~~i~~~-~~Gk~kr 39 (66)
+.+...+++|+.......+. .+||+..
T Consensus 58 ~~~~~~~~iP~~l~~~~~~~k~DGK~~~ 85 (108)
T PF12648_consen 58 GWLLLYFVIPYGLAWFLSKKKPDGKKPH 85 (108)
T ss_pred hHHHHHHhHHHHHHHHHhhcCcCCCCHH
Confidence 45556667898888888886 4688765
No 57
>PF01124 MAPEG: MAPEG family; InterPro: IPR001129 This entry represents a widespread superfamily known as MAPEG (Membrane Associated Proteins in Eicosanoid and Glutathione metabolism) []. Included are: 5-lipoxygenase activating protein (gene FLAP), which seems to be required for the activation of 5-lipoxygenase. Leukotriene C4 synthase (2.5.1.37 from EC), which catalyses the production of LTC4 from LTA4. Microsomal glutathione S-transferase II (2.5.1.18 from EC) (GST-II), which also produces LTC4 from LTA4. Prostaglandin E synthase, which catalyses the synthesis of PGE2 from PGH2 (produced by cyclooxygenase from arachidonic acid). Because of structural similarities in the active sites of FLAP, LTC4 synthase and PGE synthase, substrates for each enzyme can compete with one another and modulate synthetic activity.; PDB: 3DWW_A 2Q7R_D 2Q7M_B 2PNO_J 3B29_A 3HKK_A 2UUI_A 3PCV_A 2UUH_A 3LEO_A ....
Probab=23.35 E-value=75 Score=18.91 Aligned_cols=19 Identities=21% Similarity=0.391 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 042797 6 YEGLLLLGIIAVMLTIAGN 24 (66)
Q Consensus 6 fEaLpp~gIi~~~~~v~G~ 24 (66)
+|.+|+|.+......+.|.
T Consensus 59 ~E~~~~f~~~~~~~~~~g~ 77 (129)
T PF01124_consen 59 LENLPLFLVAVLLAILTGA 77 (129)
T ss_dssp HHHHHHHHHHHHHCCCC-T
T ss_pred HhhHHHHHHHHHHHHHhCC
Confidence 5888888887777666654
No 58
>PRK02251 putative septation inhibitor protein; Reviewed
Probab=23.29 E-value=99 Score=19.38 Aligned_cols=17 Identities=12% Similarity=0.317 Sum_probs=13.0
Q ss_pred hHHHHHHHHHHHHHHHH
Q 042797 6 YEGLLLLGIIAVMLTIA 22 (66)
Q Consensus 6 fEaLpp~gIi~~~~~v~ 22 (66)
|-.+++||+|.+.|.++
T Consensus 67 WN~~IGfg~~~~G~~mt 83 (87)
T PRK02251 67 WNLVIGFGLIMAGFGMT 83 (87)
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 46788999888877653
No 59
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=22.42 E-value=1.9e+02 Score=17.39 Aligned_cols=28 Identities=25% Similarity=0.272 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 042797 9 LLLLGIIAVMLTIAGNAQYHIHKVAYEH 36 (66)
Q Consensus 9 Lpp~gIi~~~~~v~G~~~~~i~~~~~Gk 36 (66)
+.++++.-++|.+--++...+.+..+..
T Consensus 12 v~GM~~VF~fL~lLi~~i~~~~~~~~~~ 39 (82)
T TIGR01195 12 VLGMGIVFLFLSLLIYAVRGMGKVVGRK 39 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 6788888899999888888888876644
No 60
>PRK06926 flagellar motor protein MotP; Reviewed
Probab=22.14 E-value=92 Score=22.81 Aligned_cols=19 Identities=16% Similarity=0.066 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 042797 6 YEGLLLLGIIAVMLTIAGN 24 (66)
Q Consensus 6 fEaLpp~gIi~~~~~v~G~ 24 (66)
=+..|.||||++.+++.+.
T Consensus 155 g~~APafGmiGTviGLI~m 173 (271)
T PRK06926 155 GEYAPAWGMIGTLVGLVLM 173 (271)
T ss_pred HHHchHHHHHHHHHHHHHH
Confidence 4678889998887777654
No 61
>PRK09110 flagellar motor protein MotA; Validated
Probab=21.66 E-value=85 Score=23.06 Aligned_cols=21 Identities=24% Similarity=0.464 Sum_probs=15.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q 042797 5 IYEGLLLLGIIAVMLTIAGNA 25 (66)
Q Consensus 5 wfEaLpp~gIi~~~~~v~G~~ 25 (66)
+-+..|.||||++.+++.+..
T Consensus 168 ~g~~aPa~GiiGtv~GLI~~l 188 (283)
T PRK09110 168 VADALPAFGIVAAVLGVVKTM 188 (283)
T ss_pred HHhhCchhHHHHHHHHHHHHH
Confidence 346788899998877775543
No 62
>TIGR00817 tpt Tpt phosphate/phosphoenolpyruvate translocator. specificities overlap.
Probab=21.54 E-value=99 Score=21.52 Aligned_cols=26 Identities=19% Similarity=0.162 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042797 7 EGLLLLGIIAVMLTIAGNAQYHIHKV 32 (66)
Q Consensus 7 EaLpp~gIi~~~~~v~G~~~~~i~~~ 32 (66)
|.+-+..++++++.+.|...+..-|.
T Consensus 271 e~lt~~~~~G~~lil~Gv~l~~~~k~ 296 (302)
T TIGR00817 271 TKISPQQVFGTGIAIAGVFLYSRVKA 296 (302)
T ss_pred CCCchhHHHHHHHHHHHHHHHHHHhc
Confidence 77888999999999999988765543
No 63
>PRK11901 hypothetical protein; Reviewed
Probab=21.31 E-value=1e+02 Score=23.60 Aligned_cols=21 Identities=19% Similarity=0.300 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 042797 8 GLLLLGIIAVMLTIAGNAQYH 28 (66)
Q Consensus 8 aLpp~gIi~~~~~v~G~~~~~ 28 (66)
+++++||.+..|.|.|++.+.
T Consensus 38 ~MiGiGilVLlLLIi~IgSAL 58 (327)
T PRK11901 38 MMIGIGILVLLLLIIAIGSAL 58 (327)
T ss_pred HHHHHHHHHHHHHHHHHhhhc
Confidence 689999999999999998764
No 64
>PRK12482 flagellar motor protein MotA; Provisional
Probab=20.86 E-value=1e+02 Score=22.82 Aligned_cols=22 Identities=36% Similarity=0.330 Sum_probs=15.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 042797 5 IYEGLLLLGIIAVMLTIAGNAQ 26 (66)
Q Consensus 5 wfEaLpp~gIi~~~~~v~G~~~ 26 (66)
+=+..|.|||+++.+++-....
T Consensus 168 ~a~~aPa~GiiGtvlGLI~mL~ 189 (287)
T PRK12482 168 IAEAMPGFGICAAVLGIIITMQ 189 (287)
T ss_pred HHHHchHHHHHHHHHHHHHHHH
Confidence 3467899999988777765433
No 65
>COG1291 MotA Flagellar motor component [Cell motility and secretion]
Probab=20.83 E-value=77 Score=23.51 Aligned_cols=20 Identities=10% Similarity=0.154 Sum_probs=14.5
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q 042797 5 IYEGLLLLGIIAVMLTIAGN 24 (66)
Q Consensus 5 wfEaLpp~gIi~~~~~v~G~ 24 (66)
+=|.+|.+||+++.+++-..
T Consensus 150 ~g~~aPa~GivgaV~GlI~~ 169 (266)
T COG1291 150 AGDYAPAFGIVGAVMGLIHA 169 (266)
T ss_pred HHhhCchhhHHHHHHHHHHH
Confidence 34678899998887776543
No 66
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=20.80 E-value=1.5e+02 Score=19.74 Aligned_cols=13 Identities=31% Similarity=0.439 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHH
Q 042797 19 LTIAGNAQYHIHK 31 (66)
Q Consensus 19 ~~v~G~~~~~i~~ 31 (66)
+++.|.....+++
T Consensus 130 l~i~~giy~~~r~ 142 (145)
T PF10661_consen 130 LAICGGIYVVLRK 142 (145)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444444443
No 67
>PF07043 DUF1328: Protein of unknown function (DUF1328); InterPro: IPR009760 This entry represents several hypothetical bacterial proteins of around 50 residues in length. The function of this family is unknown but is thought to be a membrane protein.; GO: 0005886 plasma membrane
Probab=20.63 E-value=1.1e+02 Score=16.59 Aligned_cols=20 Identities=30% Similarity=0.443 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 042797 9 LLLLGIIAVMLTIAGNAQYH 28 (66)
Q Consensus 9 Lpp~gIi~~~~~v~G~~~~~ 28 (66)
+.-++++++.++..|.+-..
T Consensus 3 FliiAliAg~lGF~Giag~a 22 (39)
T PF07043_consen 3 FLIIALIAGVLGFGGIAGTA 22 (39)
T ss_pred hHHHHHHHHHcCcccHHHHH
Confidence 45578999999988876543
No 68
>PF07441 BofA: SigmaK-factor processing regulatory protein BofA; InterPro: IPR010001 This family contains the sigmaK-factor processing regulatory protein BofA (Bypass-of-forespore protein A) (approximately 80 residues long). During sporulation in Bacillus subtilis, transcription is controlled in the developing sporangium by a cascade of sporulation-specific transcription factors (sigma factors). Following engulfment, processing of sigmaK is inhibited by BofA. It has been suggested that this effect is exerted by alteration of the level of the SpoIVFA protein [].
Probab=20.63 E-value=85 Score=18.79 Aligned_cols=17 Identities=29% Similarity=0.368 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 042797 13 GIIAVMLTIAGNAQYHI 29 (66)
Q Consensus 13 gIi~~~~~v~G~~~~~i 29 (66)
+.+++.+++||+..-.+
T Consensus 56 ~li~g~lGiPGv~lL~~ 72 (78)
T PF07441_consen 56 ALIAGILGIPGVILLIL 72 (78)
T ss_pred HHHHHHcCcHHHHHHHH
Confidence 56788999999976544
No 69
>PF09323 DUF1980: Domain of unknown function (DUF1980); InterPro: IPR015402 Members of this occur in gene pairs with members of PF03773 from PFAM. The N-terminal region contains several predicted transmembrane helix regions while the few invariant residues (G, CxxD, and W) occur in the C-terminal region. Members of this family are found in a set of prokaryotic hypothetical proteins. Their exact function has not, as yet, been defined.
Probab=20.55 E-value=1.2e+02 Score=20.19 Aligned_cols=25 Identities=32% Similarity=0.475 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 042797 6 YEGLLLLGIIAVMLTIAGNAQYHIH 30 (66)
Q Consensus 6 fEaLpp~gIi~~~~~v~G~~~~~i~ 30 (66)
+=+|..|++...-+.++|-...+||
T Consensus 4 ~liL~~~~~l~~~l~~sG~i~~YI~ 28 (182)
T PF09323_consen 4 FLILLGFGILLFYLILSGKILLYIH 28 (182)
T ss_pred HHHHHHHHHHHHHHHHhCcHHHHhC
Confidence 3355555555555555555555554
No 70
>PF15065 NCU-G1: Lysosomal transcription factor, NCU-G1
Probab=20.38 E-value=1.1e+02 Score=23.43 Aligned_cols=23 Identities=22% Similarity=0.157 Sum_probs=15.6
Q ss_pred hhHHH--HHHHHHHHHHHHHHHHHH
Q 042797 5 IYEGL--LLLGIIAVMLTIAGNAQY 27 (66)
Q Consensus 5 wfEaL--pp~gIi~~~~~v~G~~~~ 27 (66)
|-|.+ +-++||++.||+|+..+-
T Consensus 311 P~d~~S~lvi~i~~vgLG~P~l~li 335 (350)
T PF15065_consen 311 PVDSFSPLVIMIMAVGLGVPLLLLI 335 (350)
T ss_pred CccchhHHHHHHHHHHhhHHHHHHH
Confidence 44443 446788888999988543
Done!