Query psy15180
Match_columns 131
No_of_seqs 188 out of 1349
Neff 7.0
Searched_HMMs 46136
Date Fri Aug 16 22:35:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15180.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15180hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0537|consensus 100.0 1.9E-33 4.1E-38 198.7 6.1 84 1-84 3-86 (124)
2 PF00173 Cyt-b5: Cytochrome b5 99.9 1.1E-25 2.4E-30 145.2 4.7 75 4-78 1-76 (76)
3 KOG0536|consensus 99.9 3E-24 6.6E-29 151.8 6.1 76 4-79 69-144 (145)
4 COG5274 CYB5 Cytochrome b invo 99.8 7.1E-22 1.5E-26 144.6 5.2 79 2-80 49-127 (164)
5 PLN03198 delta6-acyl-lipid des 99.8 3E-21 6.5E-26 163.9 6.8 77 3-81 104-180 (526)
6 PLN03199 delta6-acyl-lipid des 99.8 1.2E-20 2.6E-25 158.9 7.6 77 3-82 24-100 (485)
7 PLN02252 nitrate reductase [NA 99.8 1.7E-20 3.8E-25 166.9 6.5 81 3-84 518-598 (888)
8 KOG4232|consensus 99.6 2.7E-16 5.9E-21 129.2 3.2 79 3-83 8-88 (430)
9 KOG4576|consensus 99.5 2.9E-15 6.3E-20 106.7 2.9 79 3-83 80-162 (167)
10 COG4892 Predicted heme/steroid 98.7 3.5E-08 7.5E-13 63.2 4.7 75 3-80 2-78 (81)
11 KOG1110|consensus 98.1 2.3E-05 4.9E-10 58.6 8.3 82 4-87 57-163 (183)
12 KOG1108|consensus 96.7 0.0008 1.7E-08 52.4 1.8 52 4-58 61-117 (281)
13 PF14901 Jiv90: Cleavage induc 88.9 0.22 4.8E-06 33.6 1.2 14 22-35 60-73 (94)
14 PF05283 MGC-24: Multi-glycosy 81.2 2.3 5E-05 32.1 3.7 25 107-131 161-185 (186)
15 COG3197 FixS Uncharacterized p 75.5 3 6.4E-05 25.7 2.3 20 111-130 4-23 (58)
16 PHA02844 putative transmembran 74.3 5.6 0.00012 25.7 3.4 19 106-124 44-62 (75)
17 PHA02819 hypothetical protein; 71.5 7 0.00015 25.0 3.3 18 107-124 43-60 (71)
18 PHA03054 IMV membrane protein; 66.5 11 0.00023 24.2 3.4 18 107-124 45-62 (72)
19 KOG0720|consensus 64.6 3.6 7.8E-05 35.2 1.3 17 19-35 379-395 (490)
20 PF11698 V-ATPase_H_C: V-ATPas 64.0 0.73 1.6E-05 32.4 -2.5 28 27-54 65-92 (119)
21 PF15361 RIC3: Resistance to i 60.8 13 0.00027 27.1 3.5 24 107-130 78-102 (152)
22 PHA02650 hypothetical protein; 60.8 15 0.00033 24.0 3.4 17 107-123 46-62 (81)
23 PF03597 CcoS: Cytochrome oxid 54.0 21 0.00045 20.7 2.9 19 111-129 3-21 (45)
24 cd00256 VATPase_H VATPase_H, r 52.0 4 8.7E-05 34.6 -0.4 36 16-53 366-401 (429)
25 TIGR00847 ccoS cytochrome oxid 51.0 22 0.00049 21.2 2.8 19 111-129 4-22 (51)
26 PHA02975 hypothetical protein; 48.7 30 0.00065 22.0 3.2 12 108-119 42-53 (69)
27 PF14002 YniB: YniB-like prote 47.1 20 0.00043 26.6 2.6 25 107-131 141-165 (166)
28 PRK06549 acetyl-CoA carboxylas 46.6 14 0.00029 26.3 1.6 13 19-31 5-17 (130)
29 PF02419 PsbL: PsbL protein; 44.5 36 0.00078 19.0 2.7 22 110-131 16-37 (37)
30 PHA02692 hypothetical protein; 43.8 52 0.0011 21.0 3.8 9 108-116 43-51 (70)
31 CHL00038 psbL photosystem II p 43.7 59 0.0013 18.2 3.7 21 111-131 18-38 (38)
32 PF12575 DUF3753: Protein of u 42.0 50 0.0011 21.2 3.5 17 108-124 46-62 (72)
33 PF04375 HemX: HemX; InterPro 41.5 86 0.0019 25.9 5.8 15 115-129 35-49 (372)
34 PF14283 DUF4366: Domain of un 41.1 26 0.00056 27.1 2.5 22 109-130 159-180 (218)
35 PRK10920 putative uroporphyrin 40.6 68 0.0015 26.9 5.1 24 107-130 34-57 (390)
36 TIGR03147 cyt_nit_nrfF cytochr 40.0 37 0.00081 24.1 3.0 19 106-124 98-116 (126)
37 PF06682 DUF1183: Protein of u 39.9 39 0.00085 27.6 3.5 21 110-130 156-176 (318)
38 PHA03240 envelope glycoprotein 39.7 31 0.00067 27.0 2.7 18 111-128 213-230 (258)
39 PHA02131 hypothetical protein 39.4 23 0.0005 21.8 1.6 30 3-32 2-45 (70)
40 PRK00753 psbL photosystem II r 38.8 73 0.0016 17.9 3.5 21 111-131 19-39 (39)
41 PRK10144 formate-dependent nit 37.2 44 0.00096 23.7 3.0 19 106-124 98-116 (126)
42 PF09125 COX2-transmemb: Cytoc 35.6 42 0.0009 18.8 2.1 22 109-130 15-36 (38)
43 PF06024 DUF912: Nucleopolyhed 33.4 30 0.00064 23.3 1.6 11 119-129 74-84 (101)
44 PLN00027 aquaporin TIP; Provis 32.0 46 0.00099 26.0 2.7 23 108-130 215-237 (252)
45 PLN00184 aquaporin NIP1; Provi 32.0 46 0.00099 26.8 2.7 23 108-130 249-271 (296)
46 PRK05420 aquaporin Z; Provisio 31.8 36 0.00077 26.2 2.0 23 108-130 204-226 (231)
47 COG3424 BcsA Predicted naringe 31.7 20 0.00044 29.5 0.7 14 36-49 276-289 (356)
48 PLN00166 aquaporin TIP2; Provi 30.5 51 0.0011 25.8 2.7 23 108-130 213-235 (250)
49 PF12652 CotJB: CotJB protein; 30.4 16 0.00035 23.7 -0.1 20 27-46 15-34 (78)
50 PTZ00016 aquaglyceroporin; Pro 30.3 39 0.00085 27.1 2.1 23 108-130 266-288 (294)
51 PRK06764 hypothetical protein; 28.7 57 0.0012 21.8 2.3 21 13-33 80-101 (105)
52 TIGR02148 Fibro_Slime fibro-sl 28.4 29 0.00062 23.3 0.8 25 9-33 20-45 (90)
53 PF10855 DUF2648: Protein of u 28.1 27 0.00057 19.0 0.5 16 115-130 6-21 (33)
54 KOG2759|consensus 28.0 17 0.00036 31.0 -0.4 43 17-63 380-422 (442)
55 PF02797 Chal_sti_synt_C: Chal 27.7 27 0.00059 25.2 0.7 14 35-48 64-77 (151)
56 PF15168 TRIQK: Triple QxxK/R 27.2 80 0.0017 20.5 2.7 17 114-130 55-71 (79)
57 PF03918 CcmH: Cytochrome C bi 27.2 23 0.0005 25.6 0.2 19 107-125 99-117 (148)
58 PF05521 Phage_H_T_join: Phage 27.0 66 0.0014 19.9 2.4 17 17-33 65-81 (95)
59 PRK14750 kdpF potassium-transp 26.8 1E+02 0.0022 16.2 2.6 13 119-131 13-25 (29)
60 cd00333 MIP Major intrinsic pr 26.6 62 0.0013 24.5 2.5 24 107-130 205-228 (228)
61 COG3088 CcmH Uncharacterized p 26.1 72 0.0016 23.4 2.6 20 107-126 103-122 (153)
62 PRK10862 SoxR reducing system 23.6 78 0.0017 22.9 2.5 20 108-127 77-97 (154)
63 PLN00182 putative aquaporin NI 23.5 79 0.0017 25.3 2.7 23 108-130 230-252 (283)
64 PLN00026 aquaporin NIP; Provi 23.5 79 0.0017 25.5 2.7 23 108-130 258-280 (298)
65 PF07533 BRK: BRK domain; Int 23.2 14 0.0003 21.5 -1.2 14 26-39 26-39 (46)
66 PF11027 DUF2615: Protein of u 21.8 1.6E+02 0.0035 20.1 3.6 19 110-128 53-71 (103)
67 PLN00183 putative aquaporin NI 21.5 94 0.002 24.7 2.7 23 108-130 232-254 (274)
68 PF10618 Tail_tube: Phage tail 21.2 76 0.0016 22.0 1.9 25 17-41 7-31 (119)
69 PF06692 MNSV_P7B: Melon necro 21.1 1.4E+02 0.0029 18.3 2.7 14 112-125 12-25 (61)
70 PF08078 PsaX: PsaX family; I 21.0 1.6E+02 0.0035 16.2 2.8 9 121-129 26-34 (37)
71 PF04246 RseC_MucC: Positive r 20.4 1E+02 0.0022 21.4 2.5 19 108-126 70-88 (135)
72 PF14453 ThiS-like: ThiS-like 20.1 1.1E+02 0.0023 18.7 2.2 22 5-26 16-37 (57)
No 1
>KOG0537|consensus
Probab=100.00 E-value=1.9e-33 Score=198.74 Aligned_cols=84 Identities=44% Similarity=0.776 Sum_probs=79.8
Q ss_pred CCCcCCHHHHhccCCCCCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhcCCCHHHHHHhhcCceeeccCC
Q psy15180 1 MSKEFTYKEVVESTDKTANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDVGHSTEARELMKKYKVGTISDP 80 (131)
Q Consensus 1 m~~~~t~~ev~~h~~~~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~~Hs~~a~~~L~~~~VG~l~~~ 80 (131)
|.++|+++||++||+++||||+|+|+|||||+|+++||||.++|+.+||+|+|+.|++++||.+|++||++|+||.+.+.
T Consensus 3 ~~k~~~~~EV~kHn~~~d~Wvii~gkVYDvT~Fl~eHPGG~~vLl~~AGkDaT~~F~~~gHS~~A~~ml~~y~ig~~~~~ 82 (124)
T KOG0537|consen 3 DLKYYTLSEVAKHNKKDDCWVIIHGKVYDVTSFLDEHPGGEDVLLEYAGKDATEAFEDVGHSKDAREMLEEYYIGEVPTT 82 (124)
T ss_pred ccccccHHHHHhhcCCCCeEEEECCEEEeccchhhhCCChHHHHHHHhchhhHHhccccCCcHHHHHHhhhcccccccCC
Confidence 34889999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCCC
Q psy15180 81 ENIP 84 (131)
Q Consensus 81 ~~~~ 84 (131)
+...
T Consensus 83 ~~~~ 86 (124)
T KOG0537|consen 83 ARPV 86 (124)
T ss_pred Cccc
Confidence 6543
No 2
>PF00173 Cyt-b5: Cytochrome b5-like Heme/Steroid binding domain This prints entry is a subset of the Pfam entry; InterPro: IPR001199 Cytochromes b5 are ubiquitous electron transport proteins found in animals, plants and yeasts []. The microsomal and mitochondrial variants are membrane-bound, while those from erythrocytes and other animal tissues are water-soluble [, ]. The 3D structure of bovine cyt b5 is known, the fold belonging to the alpha+beta class, with 5 strands and 5 short helices forming a framework for supporting a central haem group []. The cytochrome b5 domain is similar to that of a number of oxidoreductases, such as plant and fungal nitrate reductases, sulphite oxidase, yeast flavocytochrome b2 (L-lactate dehydrogenase) and plant cyt b5/acyl lipid desaturase fusion protein.; GO: 0020037 heme binding; PDB: 2I96_A 3KS0_A 1KBI_B 1KBJ_B 1LTD_A 1SZG_B 1SZF_A 1LDC_B 2OZ0_B 1LCO_A ....
Probab=99.92 E-value=1.1e-25 Score=145.16 Aligned_cols=75 Identities=37% Similarity=0.686 Sum_probs=69.8
Q ss_pred cCCHHHHhccCCCCCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhcCCCHHHHHHhhc-Cceeecc
Q psy15180 4 EFTYKEVVESTDKTANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDVGHSTEARELMKK-YKVGTIS 78 (131)
Q Consensus 4 ~~t~~ev~~h~~~~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~~Hs~~a~~~L~~-~~VG~l~ 78 (131)
+||++||++|+.+++||++|+|+|||||+|+..||||.+++..++|+|+|+.|....|+..+.++|++ |+||.|+
T Consensus 1 ~~t~~el~~h~~~~~~~v~i~g~VYDvt~~~~~hpgg~~~~~~~aG~D~T~~f~~~~h~~~~~~~l~~~~~vG~ld 76 (76)
T PF00173_consen 1 VYTWEELAKHNKKGDCWVIIDGKVYDVTDFLDRHPGGADILKKYAGRDATDAFEEAFHSWWAEKCLEKYYKVGYLD 76 (76)
T ss_dssp EEEHHHHTTTEETTEEEEEETTEEEECTTTTTTSTTTSHHHHTTTTSBTHHHHHHHTHHHHHHHHHHGCGEEEEE-
T ss_pred CCCHHHHhhhCCCCCEEEEECCEEcccccccccccchhHHHHHhccccccHHHhhccCcHHHHHHccCCCEEEEeC
Confidence 48999999999999999999999999999999999999999999999999999445699999999998 9999985
No 3
>KOG0536|consensus
Probab=99.90 E-value=3e-24 Score=151.82 Aligned_cols=76 Identities=36% Similarity=0.562 Sum_probs=72.0
Q ss_pred cCCHHHHhccCCCCCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhcCCCHHHHHHhhcCceeeccC
Q psy15180 4 EFTYKEVVESTDKTANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDVGHSTEARELMKKYKVGTISD 79 (131)
Q Consensus 4 ~~t~~ev~~h~~~~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~~Hs~~a~~~L~~~~VG~l~~ 79 (131)
.+|.+||++||+.+|||++|+|+|||||.|++.||||.+.|+.++|+|+|..|+.+|-..+-.++|+.++||.+.+
T Consensus 69 ~vt~~El~KH~~~dDcW~~i~G~VYnVt~Yl~fHPgG~d~lmk~aGrD~T~~Fnk~H~WVN~e~LL~~c~VGvl~d 144 (145)
T KOG0536|consen 69 PVTAEELKKHNKKDDCWIAIRGKVYNVTAYLDFHPGGVDELMKHAGRDATKLFNKYHAWVNYEELLKKCFVGVLVD 144 (145)
T ss_pred ccCHHHHHhhCCccceEEEEcCEEEecccccccCCCCHHHHHHhcCcchHHHHHHHHHHhcHHHHHhhceeeeecc
Confidence 5789999999999999999999999999999999999999999999999999999866778889999999998875
No 4
>COG5274 CYB5 Cytochrome b involved in lipid metabolism [Energy production and conversion / Lipid metabolism]
Probab=99.85 E-value=7.1e-22 Score=144.61 Aligned_cols=79 Identities=38% Similarity=0.648 Sum_probs=75.5
Q ss_pred CCcCCHHHHhccCCCCCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhcCCCHHHHHHhhcCceeeccCC
Q psy15180 2 SKEFTYKEVVESTDKTANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDVGHSTEARELMKKYKVGTISDP 80 (131)
Q Consensus 2 ~~~~t~~ev~~h~~~~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~~Hs~~a~~~L~~~~VG~l~~~ 80 (131)
.+.++.+||.+|+++++||++|+|+|||||.|+++||||++++..++|+|+|+.|+..+|+..+.++|+.++||.+...
T Consensus 49 ~~~~~~eev~~h~~~~d~~ivi~g~VyDvs~fl~~HPGGe~ii~~~~g~Dat~~f~~~~~~~~~~~llk~~yv~~v~r~ 127 (164)
T COG5274 49 PKPITAEEVAKHNKSEDCWIVINGKVYDVSQFLDEHPGGEDIIKDTAGKDATKAFNFLHHSHQIGNLLKDVYVDQVHRP 127 (164)
T ss_pred cccccHHHHHHhcCccceEEEEcCEEEEhhhccccCCCcceeehhccCchhhhhhcccccchhHHhhhhceeeecccCc
Confidence 4778999999999999999999999999999999999999999999999999999999999999899999999998765
No 5
>PLN03198 delta6-acyl-lipid desaturase; Provisional
Probab=99.84 E-value=3e-21 Score=163.88 Aligned_cols=77 Identities=30% Similarity=0.572 Sum_probs=72.9
Q ss_pred CcCCHHHHhccCCCCCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhcCCCHHHHHHhhcCceeeccCCC
Q psy15180 3 KEFTYKEVVESTDKTANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDVGHSTEARELMKKYKVGTISDPE 81 (131)
Q Consensus 3 ~~~t~~ev~~h~~~~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~~Hs~~a~~~L~~~~VG~l~~~~ 81 (131)
+.||++||++|++++|||++|+|+|||||+|+++||||+ +|..++|+|+|+.|+.. |+..+.++|++|+||+++..+
T Consensus 104 ~~~t~~ev~~H~~~~d~Wivi~gkVYDvT~fl~~HPGG~-~i~~~aG~DaT~~F~~~-H~~~~~~~l~~~~IG~l~~~~ 180 (526)
T PLN03198 104 KSHLLSEVAAHNKPNDCWIVIKNKVYDVSDFAAEHPGGS-VISTYFGRDGTDAFSSF-HAASTWKILQDFYIGDVDNVE 180 (526)
T ss_pred CcCCHHHHHhhCCCCCeEEEECCEEEecHHHHHhCCCch-HHHHhcCCcHhHHHHHh-cCHHHHHHHhhCcceecCCcc
Confidence 689999999999999999999999999999999999998 89999999999999996 999999999999999998644
No 6
>PLN03199 delta6-acyl-lipid desaturase-like protein; Provisional
Probab=99.83 E-value=1.2e-20 Score=158.91 Aligned_cols=77 Identities=26% Similarity=0.581 Sum_probs=71.7
Q ss_pred CcCCHHHHhccCCCCCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhcCCCHHHHHHhhcCceeeccCCCC
Q psy15180 3 KEFTYKEVVESTDKTANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDVGHSTEARELMKKYKVGTISDPEN 82 (131)
Q Consensus 3 ~~~t~~ev~~h~~~~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~~Hs~~a~~~L~~~~VG~l~~~~~ 82 (131)
+.+|++||++|+++++||++|+|+|||||+|+ +||||+ +|..++|+|+|+.|+.. |+..++++|++|+||++++++.
T Consensus 24 ~~~s~~ev~~h~~~~~~wi~i~g~vYDvt~f~-~HPGG~-~i~~~aG~DaT~~F~~~-H~~~~~~~l~~~~iG~l~~~~~ 100 (485)
T PLN03199 24 QKISWQEVKKHASPDDAWIIHQNKVYDVSNWH-DHPGGA-VIFTHAGDDMTDIFAAF-HAPGSQALMKKFYIGDLIPEST 100 (485)
T ss_pred CccCHHHHHhhCCCCCeEEEECCEEEcCCCcC-cCCCch-HHHhhCCCChhHHHHHh-cCHHHHHHHHhccccccccccc
Confidence 68999999999999999999999999999997 899998 78899999999999986 9999999999999999976553
No 7
>PLN02252 nitrate reductase [NADPH]
Probab=99.81 E-value=1.7e-20 Score=166.94 Aligned_cols=81 Identities=31% Similarity=0.683 Sum_probs=76.3
Q ss_pred CcCCHHHHhccCCCCCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhcCCCHHHHHHhhcCceeeccCCCC
Q psy15180 3 KEFTYKEVVESTDKTANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDVGHSTEARELMKKYKVGTISDPEN 82 (131)
Q Consensus 3 ~~~t~~ev~~h~~~~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~~Hs~~a~~~L~~~~VG~l~~~~~ 82 (131)
+.||++||++|++.++||++|+|+|||+|+|++.||||.++|+.++|+|+|+.|+.. |+..|+++|++|+||.|+....
T Consensus 518 ~~~t~~ev~~h~~~~~~Wivi~g~VYDvT~fl~~HPGG~~~I~~~aG~DaT~~F~~~-Hs~~a~~~L~~~~IG~l~~~~~ 596 (888)
T PLN02252 518 KQYTMSEVRKHNSEDSCWIVVHGHVYDCTRFLKDHPGGADSILINAGTDCTEEFDAI-HSDKAKKMLEDYRIGELVTTGA 596 (888)
T ss_pred ceeCHHHHHhhCcCCCeEEEECCEEEeCHHHHHHCCChHHHHHhhcCCCcHHHHhhh-hhHHHHHHHHhCcCCccccccc
Confidence 789999999999999999999999999999999999999999999999999999986 9999999999999999987654
Q ss_pred CC
Q psy15180 83 IP 84 (131)
Q Consensus 83 ~~ 84 (131)
..
T Consensus 597 ~~ 598 (888)
T PLN02252 597 AA 598 (888)
T ss_pred cc
Confidence 43
No 8
>KOG4232|consensus
Probab=99.61 E-value=2.7e-16 Score=129.16 Aligned_cols=79 Identities=28% Similarity=0.519 Sum_probs=70.9
Q ss_pred CcCCHHHHhccCCCCCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhcCCCHH--HHHHhhcCceeeccCC
Q psy15180 3 KEFTYKEVVESTDKTANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDVGHSTE--ARELMKKYKVGTISDP 80 (131)
Q Consensus 3 ~~~t~~ev~~h~~~~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~~Hs~~--a~~~L~~~~VG~l~~~ 80 (131)
++++++++++|++.++.|++|+| |||+|+|++.||||+.+|.+++|+|+|++|+.. |... +...|+...+|...++
T Consensus 8 ~~~~we~~~~~~~~~~~W~~id~-vYd~s~~~~~HPGG~~~I~~~~g~DaTdaF~Af-H~~~~~~~~~l~~l~~~~~~pe 85 (430)
T KOG4232|consen 8 TTFSWEGKRKHDKAEGLWLVIDG-VYDISDWIKRHPGGSRVIEHYAGQDATDAFEAF-HPGTAFAYKHLKPLLIGELSPE 85 (430)
T ss_pred eeeeccchhhccCCCceEEEeec-cccHHHHHHhCCCchhHHHHhcCCccchHHHHh-CCChHHHHHHHHHHHcCCcCcc
Confidence 46889999999999999999999 999999999999999999999999999999985 7554 7778899999998876
Q ss_pred CCC
Q psy15180 81 ENI 83 (131)
Q Consensus 81 ~~~ 83 (131)
...
T Consensus 86 ~~~ 88 (430)
T KOG4232|consen 86 IPS 88 (430)
T ss_pred ccc
Confidence 543
No 9
>KOG4576|consensus
Probab=99.54 E-value=2.9e-15 Score=106.74 Aligned_cols=79 Identities=27% Similarity=0.523 Sum_probs=64.5
Q ss_pred CcCCHHHHhccCCCC-CeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhc---CCCHHHHHHhhcCceeecc
Q psy15180 3 KEFTYKEVVESTDKT-ANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDV---GHSTEARELMKKYKVGTIS 78 (131)
Q Consensus 3 ~~~t~~ev~~h~~~~-~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~---~Hs~~a~~~L~~~~VG~l~ 78 (131)
..|+.+||.+|+++. +.||.+..-|||||+|++.||||.++|+. ||.- -+.|+.. +....++++|+.|+||+|+
T Consensus 80 ~iY~~EEV~~H~s~e~rIWVTyg~gVyDVTdFv~~HPGGdKillA-AG~a-~dPFWalY~qHnt~eVlElLegyrIG~L~ 157 (167)
T KOG4576|consen 80 HIYTKEEVSSHTSPETRIWVTYGSGVYDVTDFVDLHPGGDKILLA-AGGA-LDPFWALYAQHNTSEVLELLEGYRIGELN 157 (167)
T ss_pred cchhHHHHHhcCCCccceEEEecCcceeHHHHHHhCCCcceeeee-cCCC-cCcHHHHHHHhhHHHHHHHHhhcccccCC
Confidence 679999999999875 58999999999999999999999887664 4443 3344433 5567899999999999999
Q ss_pred CCCCC
Q psy15180 79 DPENI 83 (131)
Q Consensus 79 ~~~~~ 83 (131)
+.+..
T Consensus 158 ~~dv~ 162 (167)
T KOG4576|consen 158 PEDVV 162 (167)
T ss_pred hhhcc
Confidence 87653
No 10
>COG4892 Predicted heme/steroid binding protein [General function prediction only]
Probab=98.68 E-value=3.5e-08 Score=63.16 Aligned_cols=75 Identities=23% Similarity=0.381 Sum_probs=54.7
Q ss_pred CcCCHHHHhccCCCC-CeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhh-cCCCHHHHHHhhcCceeeccCC
Q psy15180 3 KEFTYKEVVESTDKT-ANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFED-VGHSTEARELMKKYKVGTISDP 80 (131)
Q Consensus 3 ~~~t~~ev~~h~~~~-~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~-~~Hs~~a~~~L~~~~VG~l~~~ 80 (131)
+.||++|+.+.|+++ ..+|.++|.||||+.-. ..-+|..-=..-+|+|.|+.|++ ..|..+..+.++ .||.|..+
T Consensus 2 refTLEELs~ynG~nGpaYiA~~G~VYDvS~s~-~W~dGtHqglhsaG~DLs~~~~~~aphg~eil~~~P--vVG~L~k~ 78 (81)
T COG4892 2 REFTLEELSKYNGENGPAYIAVNGTVYDVSLSP-SWGDGTHQGLHSAGKDLSSEFNSCAPHGMEILTSLP--VVGALIKE 78 (81)
T ss_pred ceecHHHHHhhcCCCCCeEEEECCEEEeeccCc-ccCCCccccccccchhHHHHHhhcCCchhHHHhcCc--hhheeecc
Confidence 679999999999764 68999999999997531 23344444445699999999984 356665555554 67777643
No 11
>KOG1110|consensus
Probab=98.10 E-value=2.3e-05 Score=58.57 Aligned_cols=82 Identities=26% Similarity=0.362 Sum_probs=55.8
Q ss_pred cCCHHHHhccCCCC---CeEEEEcCeEeeccccCc-cCCChHHHHHhcCCCcchHHHhhc---------CC---CHHHHH
Q psy15180 4 EFTYKEVVESTDKT---ANLIVIKGVVYNVAPFLN-EHPGGEEVLLDQRGQNATEHFEDV---------GH---STEARE 67 (131)
Q Consensus 4 ~~t~~ev~~h~~~~---~~wvii~g~VYDvT~f~~-~HPGG~~~l~~~aG~D~T~~f~~~---------~H---s~~a~~ 67 (131)
.||.+|+++.++.+ ..++.|+|+|||||.=.. .-|||. -..+||+|++..+... -+ +..-++
T Consensus 57 dfT~eEL~~ydGs~~d~~Il~AI~G~VYDVT~Gr~FYGp~Gp--Y~~fAG~DASR~La~~s~d~~d~~ddlsdL~a~e~e 134 (183)
T KOG1110|consen 57 DFTVEELRQYDGSDPDKPILLAINGKVYDVTRGREFYGPGGP--YSLFAGKDASRGLAKMSFDLSDETDDLSDLTAEELE 134 (183)
T ss_pred ccCHHHHHhcCCCCCCCceEEEecceEEEecCCccccCCCCC--chhhcccchHHHHHhcccchhhccccccccCHHHHH
Confidence 68999999999755 478999999999985322 478887 4568999999765432 12 222111
Q ss_pred --------HhhcC-ceeeccCCCCCCCCC
Q psy15180 68 --------LMKKY-KVGTISDPENIPESS 87 (131)
Q Consensus 68 --------~L~~~-~VG~l~~~~~~~~~~ 87 (131)
...+| +||+|......+...
T Consensus 135 al~eWE~~fk~KY~~VG~L~~~~~e~~~~ 163 (183)
T KOG1110|consen 135 ALNEWETKFKAKYPVVGRLVKKGEENEEY 163 (183)
T ss_pred HHHHHHHHHhhcCceeEEeecCCcccccC
Confidence 22234 899998876655443
No 12
>KOG1108|consensus
Probab=96.72 E-value=0.0008 Score=52.37 Aligned_cols=52 Identities=23% Similarity=0.321 Sum_probs=41.9
Q ss_pred cCCHHHHhccCCCCC---eEEEEcCeEeeccccCccC--CChHHHHHhcCCCcchHHHhh
Q psy15180 4 EFTYKEVVESTDKTA---NLIVIKGVVYNVAPFLNEH--PGGEEVLLDQRGQNATEHFED 58 (131)
Q Consensus 4 ~~t~~ev~~h~~~~~---~wvii~g~VYDvT~f~~~H--PGG~~~l~~~aG~D~T~~f~~ 58 (131)
.||++|+++.|+.++ .++.|-|.||||+.=. +| ||+. -..++|+|++.+|-.
T Consensus 61 lFtpeeLa~fnGt~e~~piyLaiLGsVfdVs~gk-~hYgsG~s--YnhFaGRDASrAFvs 117 (281)
T KOG1108|consen 61 LFTPEELAKFNGTEEGRPIYLAILGSVFDVSRGK-KHYGSGCS--YNHFAGRDASRAFVS 117 (281)
T ss_pred eeCHHHHhhccCCCCCCceeeeeeceeeeccCCe-eeeCCCCC--cccccccccchheec
Confidence 799999999997643 7899999999998643 34 5555 678999999998854
No 13
>PF14901 Jiv90: Cleavage inducing molecular chaperone
Probab=88.89 E-value=0.22 Score=33.63 Aligned_cols=14 Identities=21% Similarity=0.653 Sum_probs=11.9
Q ss_pred EEcCeEeeccccCc
Q psy15180 22 VIKGVVYNVAPFLN 35 (131)
Q Consensus 22 ii~g~VYDvT~f~~ 35 (131)
..+|+|||||+|+.
T Consensus 60 c~~g~VyDiTeWA~ 73 (94)
T PF14901_consen 60 CMDGKVYDITEWAT 73 (94)
T ss_pred EcCceEEehhhhhh
Confidence 46999999999963
No 14
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=81.22 E-value=2.3 Score=32.12 Aligned_cols=25 Identities=16% Similarity=0.293 Sum_probs=21.5
Q ss_pred CCCcchHHHHHHHHHHHHHHHHhcC
Q psy15180 107 ESGMPSWVVPLVFGLLVVLVYQYFQ 131 (131)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~~~~~~ 131 (131)
.+++..++|.+.++.+++++|||+.
T Consensus 161 ~SFiGGIVL~LGv~aI~ff~~KF~k 185 (186)
T PF05283_consen 161 ASFIGGIVLTLGVLAIIFFLYKFCK 185 (186)
T ss_pred hhhhhHHHHHHHHHHHHHHHhhhcc
Confidence 4677888999999999999999984
No 15
>COG3197 FixS Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]
Probab=75.48 E-value=3 Score=25.71 Aligned_cols=20 Identities=15% Similarity=0.124 Sum_probs=16.0
Q ss_pred chHHHHHHHHHHHHHHHHhc
Q psy15180 111 PSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~~ 130 (131)
.++++|+++++++++++-|+
T Consensus 4 l~~Lipvsi~l~~v~l~~fl 23 (58)
T COG3197 4 LYILIPVSILLGAVGLGAFL 23 (58)
T ss_pred eeeHHHHHHHHHHHHHHHHH
Confidence 47899999988888776664
No 16
>PHA02844 putative transmembrane protein; Provisional
Probab=74.32 E-value=5.6 Score=25.71 Aligned_cols=19 Identities=16% Similarity=0.518 Sum_probs=9.7
Q ss_pred CCCCcchHHHHHHHHHHHH
Q psy15180 106 EESGMPSWVVPLVFGLLVV 124 (131)
Q Consensus 106 ~~~~~~~~~~~~~~~~~~~ 124 (131)
++..|.+|++.++++++++
T Consensus 44 ~~~~~~~~ii~i~~v~~~~ 62 (75)
T PHA02844 44 CSSSTKIWILTIIFVVFAT 62 (75)
T ss_pred CChhHHHHHHHHHHHHHHH
Confidence 3455656666555434333
No 17
>PHA02819 hypothetical protein; Provisional
Probab=71.48 E-value=7 Score=25.00 Aligned_cols=18 Identities=17% Similarity=0.025 Sum_probs=8.5
Q ss_pred CCCcchHHHHHHHHHHHH
Q psy15180 107 ESGMPSWVVPLVFGLLVV 124 (131)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~ 124 (131)
+..|.++++.++++++++
T Consensus 43 ~~~~~~~ii~l~~~~~~~ 60 (71)
T PHA02819 43 SFLRYYLIIGLVTIVFVI 60 (71)
T ss_pred ChhHHHHHHHHHHHHHHH
Confidence 445555555554433333
No 18
>PHA03054 IMV membrane protein; Provisional
Probab=66.47 E-value=11 Score=24.18 Aligned_cols=18 Identities=11% Similarity=0.113 Sum_probs=8.6
Q ss_pred CCCcchHHHHHHHHHHHH
Q psy15180 107 ESGMPSWVVPLVFGLLVV 124 (131)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~ 124 (131)
+..|.++++.++++++++
T Consensus 45 ~~~~~~~ii~l~~v~~~~ 62 (72)
T PHA03054 45 CWGWYWLIIIFFIVLILL 62 (72)
T ss_pred CchHHHHHHHHHHHHHHH
Confidence 445555555554433333
No 19
>KOG0720|consensus
Probab=64.63 E-value=3.6 Score=35.23 Aligned_cols=17 Identities=18% Similarity=0.430 Sum_probs=13.7
Q ss_pred eEEEEcCeEeeccccCc
Q psy15180 19 NLIVIKGVVYNVAPFLN 35 (131)
Q Consensus 19 ~wvii~g~VYDvT~f~~ 35 (131)
.++.-+|+|||+|+|..
T Consensus 379 yy~c~DgkVYDITeWA~ 395 (490)
T KOG0720|consen 379 YYACMDGKVYDITEWAI 395 (490)
T ss_pred eeeecCCceEeehhhhh
Confidence 34457999999999983
No 20
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 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 []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=64.00 E-value=0.73 Score=32.41 Aligned_cols=28 Identities=11% Similarity=0.330 Sum_probs=23.4
Q ss_pred EeeccccCccCCChHHHHHhcCCCcchH
Q psy15180 27 VYNVAPFLNEHPGGEEVLLDQRGQNATE 54 (131)
Q Consensus 27 VYDvT~f~~~HPGG~~~l~~~aG~D~T~ 54 (131)
-+|+..|++.||.|..++....+++.-=
T Consensus 65 c~Dig~~vr~~p~gr~ii~~lg~K~~vM 92 (119)
T PF11698_consen 65 CHDIGEFVRHYPNGRNIIEKLGAKERVM 92 (119)
T ss_dssp HHHHHHHHHH-GGGHHHHHHHSHHHHHH
T ss_pred hcchHHHHHHChhHHHHHHhcChHHHHH
Confidence 3899999999999999999998887543
No 21
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=60.83 E-value=13 Score=27.13 Aligned_cols=24 Identities=25% Similarity=0.732 Sum_probs=18.2
Q ss_pred CCCcchHHHHHH-HHHHHHHHHHhc
Q psy15180 107 ESGMPSWVVPLV-FGLLVVLVYQYF 130 (131)
Q Consensus 107 ~~~~~~~~~~~~-~~~~~~~~~~~~ 130 (131)
+.++..+++|+= +.++++++|+++
T Consensus 78 ~~g~~~~imPlYtiGI~~f~lY~l~ 102 (152)
T PF15361_consen 78 GKGLMGQIMPLYTIGIVLFILYTLF 102 (152)
T ss_pred CCchhhhHhHHHHHHHHHHHHHHHH
Confidence 456677899885 677788888876
No 22
>PHA02650 hypothetical protein; Provisional
Probab=60.80 E-value=15 Score=24.04 Aligned_cols=17 Identities=6% Similarity=-0.003 Sum_probs=7.9
Q ss_pred CCCcchHHHHHHHHHHH
Q psy15180 107 ESGMPSWVVPLVFGLLV 123 (131)
Q Consensus 107 ~~~~~~~~~~~~~~~~~ 123 (131)
+..|.++++.+++++++
T Consensus 46 ~~~~~~~ii~i~~v~i~ 62 (81)
T PHA02650 46 WFNGQNFIFLIFSLIIV 62 (81)
T ss_pred CchHHHHHHHHHHHHHH
Confidence 44455555554443333
No 23
>PF03597 CcoS: Cytochrome oxidase maturation protein cbb3-type; InterPro: IPR004714 Cytochrome cbb3 oxidases are found almost exclusively in Proteobacteria, and represent a distinctive class of proton-pumping respiratory haem-copper oxidases (HCO) that lack many of the key structural features that contribute to the reaction cycle of the intensely studied mitochondrial cytochrome c oxidase (CcO). Expression of cytochrome cbb3 oxidase allows human pathogens to colonise anoxic tissues and agronomically important diazotrophs to sustain nitrogen fixation []. Genes encoding a cytochrome cbb3 oxidase were initially designated fixNOQP (ccoNOQP), the ccoNOQP operon is always found close to a second gene cluster, known as fixGHIS (ccoGHIS) whose expression is necessary for the assembly of a functional cbb3 oxidase. On the basis of their derived amino acid sequences each of the four proteins encoded by the ccoGHIS operon are thought to be membrane-bound. It has been suggested that they may function in concert as a multi-subunit complex, possibly playing a role in the uptake and metabolism of copper required for the assembly of the binuclear centre of cytochrome cbb3 oxidase.
Probab=54.01 E-value=21 Score=20.74 Aligned_cols=19 Identities=11% Similarity=0.223 Sum_probs=13.0
Q ss_pred chHHHHHHHHHHHHHHHHh
Q psy15180 111 PSWVVPLVFGLLVVLVYQY 129 (131)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~ 129 (131)
.++++|+++++++++++-|
T Consensus 3 l~~lip~sl~l~~~~l~~f 21 (45)
T PF03597_consen 3 LYILIPVSLILGLIALAAF 21 (45)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 4788899877766655443
No 24
>cd00256 VATPase_H VATPase_H, regulatory vacuolar ATP synthase subunit H (Vma13p); activation component of the peripheral V1 complex of V-ATPase, a heteromultimeric enzyme which uses ATP to actively transport protons into organelles and extracellular compartments. The topology is that of a superhelical spiral, in part the geometry is similar to superhelices composed of armadillo repeat motifs, as found in importins for example.
Probab=51.95 E-value=4 Score=34.60 Aligned_cols=36 Identities=11% Similarity=0.360 Sum_probs=29.9
Q ss_pred CCCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcch
Q psy15180 16 KTANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNAT 53 (131)
Q Consensus 16 ~~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T 53 (131)
.+..++.|- -+|+..|++.||.|..++....||+..
T Consensus 366 ~d~~~laVA--c~Dige~vr~~P~gr~i~~~lg~K~~v 401 (429)
T cd00256 366 VDPIILAVA--CHDIGEYVRHYPRGKDVVEQLGGKQRV 401 (429)
T ss_pred CCcceeehh--hhhHHHHHHHCccHHHHHHHcCcHHHH
Confidence 455666665 499999999999999999999998764
No 25
>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=50.96 E-value=22 Score=21.22 Aligned_cols=19 Identities=16% Similarity=0.181 Sum_probs=13.1
Q ss_pred chHHHHHHHHHHHHHHHHh
Q psy15180 111 PSWVVPLVFGLLVVLVYQY 129 (131)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~ 129 (131)
.++++|+++++++++++-|
T Consensus 4 l~~LIpiSl~l~~~~l~~f 22 (51)
T TIGR00847 4 LTILIPISLLLGGVGLVAF 22 (51)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4788899887776655443
No 26
>PHA02975 hypothetical protein; Provisional
Probab=48.71 E-value=30 Score=21.99 Aligned_cols=12 Identities=17% Similarity=0.185 Sum_probs=5.4
Q ss_pred CCcchHHHHHHH
Q psy15180 108 SGMPSWVVPLVF 119 (131)
Q Consensus 108 ~~~~~~~~~~~~ 119 (131)
..|.++++.+++
T Consensus 42 ~~~~~~ii~i~~ 53 (69)
T PHA02975 42 SLSIILIIFIIF 53 (69)
T ss_pred chHHHHHHHHHH
Confidence 344445554443
No 27
>PF14002 YniB: YniB-like protein
Probab=47.06 E-value=20 Score=26.60 Aligned_cols=25 Identities=8% Similarity=0.404 Sum_probs=21.3
Q ss_pred CCCcchHHHHHHHHHHHHHHHHhcC
Q psy15180 107 ESGMPSWVVPLVFGLLVVLVYQYFQ 131 (131)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~~~~~~ 131 (131)
.+.++.|++|+.++++.+++.|++.
T Consensus 141 ~Q~f~LYi~Piiv~vigyf~lkllg 165 (166)
T PF14002_consen 141 LQFFPLYILPIIVAVIGYFILKLLG 165 (166)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4678899999999999999988763
No 28
>PRK06549 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=46.63 E-value=14 Score=26.31 Aligned_cols=13 Identities=38% Similarity=0.373 Sum_probs=11.4
Q ss_pred eEEEEcCeEeecc
Q psy15180 19 NLIVIKGVVYNVA 31 (131)
Q Consensus 19 ~wvii~g~VYDvT 31 (131)
.-|.|||++|||+
T Consensus 5 ~~itvng~~y~V~ 17 (130)
T PRK06549 5 FKITIDGKEYLVE 17 (130)
T ss_pred EEEEECCEEEEEE
Confidence 5678999999996
No 29
>PF02419 PsbL: PsbL protein; InterPro: IPR003372 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 PsbL found in PSII. PsbL is located in a gene cluster with PsbE, PsbF and PsbJ (PsbEFJL). Both PsbL and PsbJ (IPR002682 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbL prevent the formation of both PSII core dimers and PSII-light harvesting complex []. In addition, both PsbL and PsbJ are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_L 3A0B_l 3ARC_l 1S5L_l 2AXT_l 3BZ2_L 4FBY_L 3PRQ_L 3PRR_L 3KZI_L ....
Probab=44.51 E-value=36 Score=18.97 Aligned_cols=22 Identities=27% Similarity=0.513 Sum_probs=10.7
Q ss_pred cchHHHHHHHHHHHHHHHHhcC
Q psy15180 110 MPSWVVPLVFGLLVVLVYQYFQ 131 (131)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~~~~~ 131 (131)
..||-+.+++++++.+--||+|
T Consensus 16 SLY~GLllifvl~vLFssyffN 37 (37)
T PF02419_consen 16 SLYWGLLLIFVLAVLFSSYFFN 37 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-
T ss_pred hHHHHHHHHHHHHHHhhhhhcC
Confidence 3455555555444444555554
No 30
>PHA02692 hypothetical protein; Provisional
Probab=43.82 E-value=52 Score=21.02 Aligned_cols=9 Identities=0% Similarity=-0.193 Sum_probs=4.1
Q ss_pred CCcchHHHH
Q psy15180 108 SGMPSWVVP 116 (131)
Q Consensus 108 ~~~~~~~~~ 116 (131)
..|..+++.
T Consensus 43 ~~~~~~ii~ 51 (70)
T PHA02692 43 VPWTTVFLI 51 (70)
T ss_pred cchHHHHHH
Confidence 344445444
No 31
>CHL00038 psbL photosystem II protein L
Probab=43.73 E-value=59 Score=18.18 Aligned_cols=21 Identities=29% Similarity=0.567 Sum_probs=10.5
Q ss_pred chHHHHHHHHHHHHHHHHhcC
Q psy15180 111 PSWVVPLVFGLLVVLVYQYFQ 131 (131)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~~~ 131 (131)
.||-+-++.++++.+--||+|
T Consensus 18 Ly~GLLlifvl~vlfssyffN 38 (38)
T CHL00038 18 LYWGLLLIFVLAVLFSNYFFN 38 (38)
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 355555544444445555554
No 32
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=41.97 E-value=50 Score=21.22 Aligned_cols=17 Identities=18% Similarity=0.413 Sum_probs=7.2
Q ss_pred CCcchHHHHHHHHHHHH
Q psy15180 108 SGMPSWVVPLVFGLLVV 124 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~ 124 (131)
.+|..+++.++++++++
T Consensus 46 ~~~~~~ii~ii~v~ii~ 62 (72)
T PF12575_consen 46 FNWIILIISIIFVLIIV 62 (72)
T ss_pred chHHHHHHHHHHHHHHH
Confidence 34434454444433333
No 33
>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2.1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].
Probab=41.47 E-value=86 Score=25.85 Aligned_cols=15 Identities=20% Similarity=0.186 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHh
Q psy15180 115 VPLVFGLLVVLVYQY 129 (131)
Q Consensus 115 ~~~~~~~~~~~~~~~ 129 (131)
+.+++++++.+++++
T Consensus 35 lalll~~alg~~~~~ 49 (372)
T PF04375_consen 35 LALLLALALGAGGWY 49 (372)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333344433
No 34
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=41.13 E-value=26 Score=27.07 Aligned_cols=22 Identities=36% Similarity=0.535 Sum_probs=10.7
Q ss_pred CcchHHHHHHHHHHHHHHHHhc
Q psy15180 109 GMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 109 ~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
++..+++.+++++++..+|+||
T Consensus 159 ~~g~ll~lllv~l~gGGa~yYf 180 (218)
T PF14283_consen 159 GMGSLLLLLLVALIGGGAYYYF 180 (218)
T ss_pred chHHHHHHHHHHHhhcceEEEE
Confidence 3334454455545555555554
No 35
>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional
Probab=40.63 E-value=68 Score=26.95 Aligned_cols=24 Identities=17% Similarity=0.188 Sum_probs=15.1
Q ss_pred CCCcchHHHHHHHHHHHHHHHHhc
Q psy15180 107 ESGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
+.++..++|.+++++++..++||+
T Consensus 34 ~~g~~l~~~aili~la~g~g~y~~ 57 (390)
T PRK10920 34 RTGLVLSAVAIAIALAAGAGLYYH 57 (390)
T ss_pred CccHHHHHHHHHHHHHHhhHHHHH
Confidence 445556677777666666666664
No 36
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=40.00 E-value=37 Score=24.05 Aligned_cols=19 Identities=21% Similarity=0.513 Sum_probs=13.4
Q ss_pred CCCCcchHHHHHHHHHHHH
Q psy15180 106 EESGMPSWVVPLVFGLLVV 124 (131)
Q Consensus 106 ~~~~~~~~~~~~~~~~~~~ 124 (131)
++.+|..|+.|++++++..
T Consensus 98 ~~~t~~LW~~P~lll~~G~ 116 (126)
T TIGR03147 98 KWQTLLLWLLPVLLLLLAF 116 (126)
T ss_pred CcchHHHHHHHHHHHHHHH
Confidence 3456789999988655544
No 37
>PF06682 DUF1183: Protein of unknown function (DUF1183); InterPro: IPR009567 This family consists of several eukaryotic proteins of around 360 residues in length. The function of this family is unknown.
Probab=39.86 E-value=39 Score=27.63 Aligned_cols=21 Identities=19% Similarity=0.248 Sum_probs=13.4
Q ss_pred cchHHHHHHHHHHHHHHHHhc
Q psy15180 110 MPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~~~~ 130 (131)
+..+++.++++++++++|+++
T Consensus 156 ~~~lf~ii~l~vla~ivY~~~ 176 (318)
T PF06682_consen 156 GSWLFWIIFLLVLAFIVYSLF 176 (318)
T ss_pred cchhhhHHHHHHHHHHHHHHH
Confidence 333444455667888888875
No 38
>PHA03240 envelope glycoprotein M; Provisional
Probab=39.69 E-value=31 Score=26.98 Aligned_cols=18 Identities=11% Similarity=0.573 Sum_probs=11.5
Q ss_pred chHHHHHHHHHHHHHHHH
Q psy15180 111 PSWVVPLVFGLLVVLVYQ 128 (131)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~ 128 (131)
..|+|++++++++++++.
T Consensus 213 ~~WIiilIIiIiIIIL~c 230 (258)
T PHA03240 213 IAWIFIAIIIIIVIILFF 230 (258)
T ss_pred HhHHHHHHHHHHHHHHHH
Confidence 367777777666665553
No 39
>PHA02131 hypothetical protein
Probab=39.37 E-value=23 Score=21.85 Aligned_cols=30 Identities=10% Similarity=0.113 Sum_probs=20.3
Q ss_pred CcCCHHHHhccCC------------CC-CeEEEE-cCeEeeccc
Q psy15180 3 KEFTYKEVVESTD------------KT-ANLIVI-KGVVYNVAP 32 (131)
Q Consensus 3 ~~~t~~ev~~h~~------------~~-~~wvii-~g~VYDvT~ 32 (131)
+.|.++.+++-|+ .+ .||+.. +|+|-|+|=
T Consensus 2 kiyhpqhiakvngitkvdmirgh~~~g~~c~imfk~~~v~dctf 45 (70)
T PHA02131 2 KIYHPQHIAKVNGITKVDMIRGHYRFGISCWIMFKNDQVIDCTF 45 (70)
T ss_pred cccchhHhhhhcCceEEEEeccceecceEEEEEEcCCCEEEeee
Confidence 3455666665554 22 599988 889999984
No 40
>PRK00753 psbL photosystem II reaction center L; Provisional
Probab=38.79 E-value=73 Score=17.87 Aligned_cols=21 Identities=24% Similarity=0.273 Sum_probs=9.7
Q ss_pred chHHHHHHHHHHHHHHHHhcC
Q psy15180 111 PSWVVPLVFGLLVVLVYQYFQ 131 (131)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~~~ 131 (131)
.||-+-++.++++.+--||+|
T Consensus 19 Ly~GlLlifvl~vLFssYffN 39 (39)
T PRK00753 19 LYLGLLLVFVLGILFSSYFFN 39 (39)
T ss_pred HHHHHHHHHHHHHHHHhhccC
Confidence 355444444344444445554
No 41
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=37.17 E-value=44 Score=23.70 Aligned_cols=19 Identities=26% Similarity=0.585 Sum_probs=13.1
Q ss_pred CCCCcchHHHHHHHHHHHH
Q psy15180 106 EESGMPSWVVPLVFGLLVV 124 (131)
Q Consensus 106 ~~~~~~~~~~~~~~~~~~~ 124 (131)
++.+|..|+.|++++++..
T Consensus 98 ~~~t~~LW~~P~~lll~g~ 116 (126)
T PRK10144 98 TGQTLVLWALPVVLLLLMA 116 (126)
T ss_pred CcchHHHHHHHHHHHHHHH
Confidence 3457789999987655443
No 42
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=35.65 E-value=42 Score=18.79 Aligned_cols=22 Identities=9% Similarity=0.398 Sum_probs=12.6
Q ss_pred CcchHHHHHHHHHHHHHHHHhc
Q psy15180 109 GMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 109 ~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
+|..|-+..+++.++.++|...
T Consensus 15 ~Wi~F~l~mi~vFi~li~ytl~ 36 (38)
T PF09125_consen 15 GWIAFALAMILVFIALIGYTLA 36 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHh
Confidence 4555555555555666677543
No 43
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=33.35 E-value=30 Score=23.29 Aligned_cols=11 Identities=9% Similarity=0.455 Sum_probs=5.2
Q ss_pred HHHHHHHHHHh
Q psy15180 119 FGLLVVLVYQY 129 (131)
Q Consensus 119 ~~~~~~~~~~~ 129 (131)
++++.++.|||
T Consensus 74 IlVily~IyYF 84 (101)
T PF06024_consen 74 ILVILYAIYYF 84 (101)
T ss_pred HHHHHhhheEE
Confidence 33444455555
No 44
>PLN00027 aquaporin TIP; Provisional
Probab=32.01 E-value=46 Score=25.97 Aligned_cols=23 Identities=30% Similarity=0.508 Sum_probs=19.9
Q ss_pred CCcchHHHHHHHHHHHHHHHHhc
Q psy15180 108 SGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
..|.+|+-|++.++++.++|+++
T Consensus 215 ~~wvy~vgP~~Ga~laa~~y~~l 237 (252)
T PLN00027 215 NHWVYWAGPLIGGGIAGLVYELI 237 (252)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHH
Confidence 46889999999999999999876
No 45
>PLN00184 aquaporin NIP1; Provisional
Probab=31.95 E-value=46 Score=26.81 Aligned_cols=23 Identities=17% Similarity=0.050 Sum_probs=20.2
Q ss_pred CCcchHHHHHHHHHHHHHHHHhc
Q psy15180 108 SGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
..|.+|+-|++.++++.++|+++
T Consensus 249 ~~WVy~vgPilGa~laal~y~~l 271 (296)
T PLN00184 249 GIWIYIVAPTLGAIAGAWVYNTV 271 (296)
T ss_pred ccchHHhHHHHHHHHHHHHHHHH
Confidence 47889999999999999999876
No 46
>PRK05420 aquaporin Z; Provisional
Probab=31.81 E-value=36 Score=26.22 Aligned_cols=23 Identities=26% Similarity=0.492 Sum_probs=20.2
Q ss_pred CCcchHHHHHHHHHHHHHHHHhc
Q psy15180 108 SGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
..|.+|+-|++.++++.++|+++
T Consensus 204 ~~wvy~vgP~~Ga~laa~~y~~l 226 (231)
T PRK05420 204 QLWLFWVAPIVGAIIGGLIYRLL 226 (231)
T ss_pred ceEEeehHHHHHHHHHHHHHHHH
Confidence 46889999999999999999886
No 47
>COG3424 BcsA Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=31.72 E-value=20 Score=29.49 Aligned_cols=14 Identities=36% Similarity=0.605 Sum_probs=11.4
Q ss_pred cCCChHHHHHhcCC
Q psy15180 36 EHPGGEEVLLDQRG 49 (131)
Q Consensus 36 ~HPGG~~~l~~~aG 49 (131)
-||||.++|..+.+
T Consensus 276 ~HPGG~KVida~~~ 289 (356)
T COG3424 276 VHPGGPKVIDAYEE 289 (356)
T ss_pred eCCCCchHHHHHHH
Confidence 59999999987653
No 48
>PLN00166 aquaporin TIP2; Provisional
Probab=30.49 E-value=51 Score=25.77 Aligned_cols=23 Identities=39% Similarity=0.460 Sum_probs=19.7
Q ss_pred CCcchHHHHHHHHHHHHHHHHhc
Q psy15180 108 SGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
..|.+|+-|++.++++.++|+++
T Consensus 213 ~~wvywvgPi~Ga~~aa~~y~~l 235 (250)
T PLN00166 213 QIWIYWVGPLVGGALAGLIYGDV 235 (250)
T ss_pred ccchhhHHHHHHHHHHHHHHHHH
Confidence 56899999999989988888765
No 49
>PF12652 CotJB: CotJB protein; InterPro: IPR024207 The cotJ operon proteins affect spore coat composition, and is controlled by sigma E. The genes, which include CotJB, are either required for the normal formation of the inner layers of the coat or are themselves structural components of the coat []. CotJB has been identified as a spore coat protein [].
Probab=30.36 E-value=16 Score=23.71 Aligned_cols=20 Identities=30% Similarity=0.542 Sum_probs=16.1
Q ss_pred EeeccccCccCCChHHHHHh
Q psy15180 27 VYNVAPFLNEHPGGEEVLLD 46 (131)
Q Consensus 27 VYDvT~f~~~HPGG~~~l~~ 46 (131)
+.|++=|++.||.-.+.|..
T Consensus 15 ~~dl~LyLDTHP~d~~Al~~ 34 (78)
T PF12652_consen 15 VVDLNLYLDTHPDDQEALEY 34 (78)
T ss_pred HHHHHHHhcCCCCcHHHHHH
Confidence 56888999999998876653
No 50
>PTZ00016 aquaglyceroporin; Provisional
Probab=30.33 E-value=39 Score=27.08 Aligned_cols=23 Identities=26% Similarity=0.336 Sum_probs=19.9
Q ss_pred CCcchHHHHHHHHHHHHHHHHhc
Q psy15180 108 SGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
..|.+|+-|++.++++.++|+++
T Consensus 266 ~~WVy~vgP~vGa~~aally~~l 288 (294)
T PTZ00016 266 YFWVPLVAPFVGAVLGMFLYDKF 288 (294)
T ss_pred eeeeeehHHHHHHHHHHHHHHHH
Confidence 35888999999999999999886
No 51
>PRK06764 hypothetical protein; Provisional
Probab=28.71 E-value=57 Score=21.84 Aligned_cols=21 Identities=29% Similarity=0.524 Sum_probs=15.7
Q ss_pred cCCCCCeEEEEcCeEee-cccc
Q psy15180 13 STDKTANLIVIKGVVYN-VAPF 33 (131)
Q Consensus 13 h~~~~~~wvii~g~VYD-vT~f 33 (131)
.++++...+.+||.+|| |-.|
T Consensus 80 f~kpg~yvirvngciy~dvytf 101 (105)
T PRK06764 80 FSKPGKYVIRVNGCIYNDVYTF 101 (105)
T ss_pred ecCCccEEEEEccEEeeeeEEE
Confidence 45678888899999996 3444
No 52
>TIGR02148 Fibro_Slime fibro-slime domain. This model represents a conserved region of about 90 amino acids, shared in at least 4 distinct large putative proteins from the slime mold Dictyostelium discoideum and 10 proteins from the rumen bacterium Fibrobacter succinogenes, and in no other species so far. We propose here the name fibro-slime domain
Probab=28.35 E-value=29 Score=23.26 Aligned_cols=25 Identities=12% Similarity=0.126 Sum_probs=17.9
Q ss_pred HHhccCCCCCeEEEEcCe-Eeecccc
Q psy15180 9 EVVESTDKTANLIVIKGV-VYNVAPF 33 (131)
Q Consensus 9 ev~~h~~~~~~wvii~g~-VYDvT~f 33 (131)
|.=+..+.+|.||-|||+ |-|+-.-
T Consensus 20 e~F~F~GDDDvWVFIn~kLv~DlGG~ 45 (90)
T TIGR02148 20 QYFEFRGDDDVWVFINNKLVVDIGGQ 45 (90)
T ss_pred cEEEEEcCCeEEEEECCEEEEEccCc
Confidence 344456789999999885 6676653
No 53
>PF10855 DUF2648: Protein of unknown function (DUF2648); InterPro: IPR022561 This family of proteins with unknown function appears to be restricted to eubacteia.
Probab=28.08 E-value=27 Score=18.98 Aligned_cols=16 Identities=13% Similarity=0.357 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHhc
Q psy15180 115 VPLVFGLLVVLVYQYF 130 (131)
Q Consensus 115 ~~~~~~~~~~~~~~~~ 130 (131)
+.++++.+++++|+-+
T Consensus 6 i~L~l~ga~f~~fKKy 21 (33)
T PF10855_consen 6 IILILGGAAFYGFKKY 21 (33)
T ss_pred ehhhhhhHHHHHHHHH
Confidence 3455567777888765
No 54
>KOG2759|consensus
Probab=28.04 E-value=17 Score=30.98 Aligned_cols=43 Identities=12% Similarity=0.346 Sum_probs=32.6
Q ss_pred CCeEEEEcCeEeeccccCccCCChHHHHHhcCCCcchHHHhhcCCCH
Q psy15180 17 TANLIVIKGVVYNVAPFLNEHPGGEEVLLDQRGQNATEHFEDVGHST 63 (131)
Q Consensus 17 ~~~wvii~g~VYDvT~f~~~HPGG~~~l~~~aG~D~T~~f~~~~Hs~ 63 (131)
+..|+.+- -.|++.|++.||-|..++.++.||..- |+-..|..
T Consensus 380 Dp~iL~VA--c~DIge~Vr~yP~gk~vv~k~ggKe~v--M~Llnh~d 422 (442)
T KOG2759|consen 380 DPIILCVA--CHDIGEYVRHYPEGKAVVEKYGGKERV--MNLLNHED 422 (442)
T ss_pred CCceeehh--hhhHHHHHHhCchHhHHHHHhchHHHH--HHHhcCCC
Confidence 45666664 479999999999999999999998543 44444543
No 55
>PF02797 Chal_sti_synt_C: Chalcone and stilbene synthases, C-terminal domain; InterPro: IPR012328 Synonym(s): Chalcone synthase, Flavonone synthase, 6'-deoxychalcone synthase Naringenin-chalcone synthases (2.3.1.74 from EC) and stilbene synthases (STS) (formerly known as resveratrol synthases) are related plant enzymes. CHS is an important enzyme in flavanoid biosynthesis and STS is a key enzyme in stilbene-type phyloalexin biosynthesis. Both enzymes catalyze the addition of three molecules of malonyl-CoA to a starter CoA ester (a typical example is 4-coumaroyl-CoA), producing either a chalcone (with CHS) or stilbene (with STS) []. These enzymes have a conserved cysteine residue, located in the central section of the protein sequence, which is essential for the catalytic activity of both enzymes and probably represents the binding site for the 4-coumaryl-CoA group []. This domain of chalcone synthase is reported to be structurally similar to domains in thiolase and beta-ketoacyl synthase. The differences in activity are accounted for by differences in the N-terminal domain. ; GO: 0016746 transferase activity, transferring acyl groups; PDB: 3OV2_A 3OV3_B 1Z1F_A 1Z1E_A 3ALE_C 3OIT_A 2H84_A 1TEE_D 1TED_A 2P0U_A ....
Probab=27.75 E-value=27 Score=25.20 Aligned_cols=14 Identities=36% Similarity=0.665 Sum_probs=10.1
Q ss_pred ccCCChHHHHHhcC
Q psy15180 35 NEHPGGEEVLLDQR 48 (131)
Q Consensus 35 ~~HPGG~~~l~~~a 48 (131)
.-||||.++|....
T Consensus 64 avHPGG~~ILd~v~ 77 (151)
T PF02797_consen 64 AVHPGGRKILDAVE 77 (151)
T ss_dssp EEE-SSHHHHHHHH
T ss_pred eecCChHHHHHHHH
Confidence 46999999888654
No 56
>PF15168 TRIQK: Triple QxxK/R motif-containing protein family
Probab=27.19 E-value=80 Score=20.53 Aligned_cols=17 Identities=18% Similarity=0.454 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHhc
Q psy15180 114 VVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 114 ~~~~~~~~~~~~~~~~~ 130 (131)
+..++++++++.+|.|+
T Consensus 55 l~ail~lL~a~Ya~fyl 71 (79)
T PF15168_consen 55 LAAILVLLLAFYAFFYL 71 (79)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44444445555555554
No 57
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=27.17 E-value=23 Score=25.62 Aligned_cols=19 Identities=21% Similarity=0.209 Sum_probs=0.0
Q ss_pred CCCcchHHHHHHHHHHHHH
Q psy15180 107 ESGMPSWVVPLVFGLLVVL 125 (131)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~ 125 (131)
+.+|..|+.|++++++..+
T Consensus 99 ~~~~~lW~~P~~~l~~g~~ 117 (148)
T PF03918_consen 99 GFTWLLWLGPFLLLLLGGA 117 (148)
T ss_dssp -------------------
T ss_pred ccHHHHHHHHHHHHHHHHH
Confidence 4567789999987655554
No 58
>PF05521 Phage_H_T_join: Phage head-tail joining protein ; InterPro: IPR008767 This entry describes the head-tail adaptor protein of bacteriophage SPP1 and related proteins in other bacteriophage and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg7 (RCAP_rcc01689) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2KCA_A 2KZ4_A.
Probab=26.96 E-value=66 Score=19.93 Aligned_cols=17 Identities=29% Similarity=0.423 Sum_probs=12.6
Q ss_pred CCeEEEEcCeEeecccc
Q psy15180 17 TANLIVIKGVVYNVAPF 33 (131)
Q Consensus 17 ~~~wvii~g~VYDvT~f 33 (131)
.+..+.++|++|+|...
T Consensus 65 ~~~ri~~~g~~y~I~~i 81 (95)
T PF05521_consen 65 PDMRIKYDGKVYNIKSI 81 (95)
T ss_dssp TTEEEEECTEEEEE-S-
T ss_pred cceEEEECCEEEEEEEE
Confidence 45668889999999884
No 59
>PRK14750 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=26.84 E-value=1e+02 Score=16.24 Aligned_cols=13 Identities=46% Similarity=0.613 Sum_probs=7.9
Q ss_pred HHHHHHHHHHhcC
Q psy15180 119 FGLLVVLVYQYFQ 131 (131)
Q Consensus 119 ~~~~~~~~~~~~~ 131 (131)
++++.+++|..+|
T Consensus 13 ~lLl~YLvYAL~n 25 (29)
T PRK14750 13 LLLLGYLVYALFN 25 (29)
T ss_pred HHHHHHHHHHHcC
Confidence 3456667776654
No 60
>cd00333 MIP Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal cytosolic portion followed by six transmembrane helices, which might have arisen through gene duplication. On the basis of sequence similarity and functional characteristics, the superfamily can be subdivided into two major groups: water-selective channels called aquaporins (AQPs) and glycerol uptake facilitators (GlpFs). AQPs are found in all three kingdoms of life, while GlpFs have been characterized only within microorganisms.
Probab=26.63 E-value=62 Score=24.55 Aligned_cols=24 Identities=33% Similarity=0.491 Sum_probs=20.4
Q ss_pred CCCcchHHHHHHHHHHHHHHHHhc
Q psy15180 107 ESGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
...|.||+-|++.++++.++|+++
T Consensus 205 ~~~~vy~vap~lGai~aa~l~~~~ 228 (228)
T cd00333 205 HYFWVYWVGPLIGAIAGALVYDYV 228 (228)
T ss_pred ceeehhhhHHHHHHHHHHHHHHhC
Confidence 357889999999999999999874
No 61
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=26.06 E-value=72 Score=23.41 Aligned_cols=20 Identities=25% Similarity=0.414 Sum_probs=14.6
Q ss_pred CCCcchHHHHHHHHHHHHHH
Q psy15180 107 ESGMPSWVVPLVFGLLVVLV 126 (131)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~ 126 (131)
..+|..|.+|++++++.+.+
T Consensus 103 ~~T~lLW~~Pv~llllG~~~ 122 (153)
T COG3088 103 GQTLLLWGLPVVLLLLGGVL 122 (153)
T ss_pred hhHHHHHHhHHHHHHHHHHH
Confidence 45678999999876666543
No 62
>PRK10862 SoxR reducing system protein RseC; Provisional
Probab=23.63 E-value=78 Score=22.88 Aligned_cols=20 Identities=30% Similarity=0.310 Sum_probs=13.9
Q ss_pred CCcchHHHHHHHHHHH-HHHH
Q psy15180 108 SGMPSWVVPLVFGLLV-VLVY 127 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~-~~~~ 127 (131)
..+..|++|++.+++. .+++
T Consensus 77 aa~lvYllPLl~li~ga~l~~ 97 (154)
T PRK10862 77 SALLVYMTPLVGLFLGAALFQ 97 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 4567899999977754 3443
No 63
>PLN00182 putative aquaporin NIP4; Provisional
Probab=23.49 E-value=79 Score=25.29 Aligned_cols=23 Identities=22% Similarity=0.041 Sum_probs=19.6
Q ss_pred CCcchHHHHHHHHHHHHHHHHhc
Q psy15180 108 SGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
..|.||+-|++.++++.++|+++
T Consensus 230 ~~wvY~vap~lGA~lgally~~l 252 (283)
T PLN00182 230 GIWVYIVGPFVGIIAGGFVYNLI 252 (283)
T ss_pred ceeHHHHHHHHHHHHHHHHHHHH
Confidence 46889999999989998888875
No 64
>PLN00026 aquaporin NIP; Provisional
Probab=23.48 E-value=79 Score=25.53 Aligned_cols=23 Identities=17% Similarity=-0.023 Sum_probs=19.7
Q ss_pred CCcchHHHHHHHHHHHHHHHHhc
Q psy15180 108 SGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
..|.+|+-|++.++++.++|+++
T Consensus 258 ~~wVy~vaPilGAilga~ly~~~ 280 (298)
T PLN00026 258 AIWIYLVAPTLGALAGAGTYTAV 280 (298)
T ss_pred heeHHHHHHHHHHHHHHHHHHHH
Confidence 46889999999989988899876
No 65
>PF07533 BRK: BRK domain; InterPro: IPR006576 BRK is a domain of unknown function found only in the metazoa and in association with CHROMO domain (IPR000953 from INTERPRO) and DEAD/DEAH box helicase domain (IPR011545 from INTERPRO).; GO: 0005515 protein binding, 0016817 hydrolase activity, acting on acid anhydrides; PDB: 2DL6_A 2CKA_A 2V0F_A 2V0E_A 2CKC_A.
Probab=23.16 E-value=14 Score=21.53 Aligned_cols=14 Identities=36% Similarity=0.774 Sum_probs=9.8
Q ss_pred eEeeccccCccCCC
Q psy15180 26 VVYNVAPFLNEHPG 39 (131)
Q Consensus 26 ~VYDvT~f~~~HPG 39 (131)
+.=|+..|+..|||
T Consensus 26 ~~~~L~~WL~~~P~ 39 (46)
T PF07533_consen 26 KLKELEEWLEEHPG 39 (46)
T ss_dssp BCCCHHHHHHH-TT
T ss_pred CHHHHHHHHHHCcC
Confidence 34578888889997
No 66
>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=21.82 E-value=1.6e+02 Score=20.14 Aligned_cols=19 Identities=11% Similarity=0.356 Sum_probs=11.4
Q ss_pred cchHHHHHHHHHHHHHHHH
Q psy15180 110 MPSWVVPLVFGLLVVLVYQ 128 (131)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~~ 128 (131)
.+.+++.++.+++|.++|.
T Consensus 53 ~~~~~~~~~w~~~A~~ly~ 71 (103)
T PF11027_consen 53 NSMFMMMMLWMVLAMALYL 71 (103)
T ss_pred ccHHHHHHHHHHHHHHHHH
Confidence 4456666666566666654
No 67
>PLN00183 putative aquaporin NIP7; Provisional
Probab=21.45 E-value=94 Score=24.70 Aligned_cols=23 Identities=9% Similarity=0.072 Sum_probs=20.0
Q ss_pred CCcchHHHHHHHHHHHHHHHHhc
Q psy15180 108 SGMPSWVVPLVFGLLVVLVYQYF 130 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~ 130 (131)
..|.+|+-|++.++++.++|+++
T Consensus 232 ~~wvy~vapilGailaa~l~~~l 254 (274)
T PLN00183 232 DIWIYITAPTIGAVAGALMFHLL 254 (274)
T ss_pred heehHHHHHHHHHHHHHHHHHHH
Confidence 46889999999999999999875
No 68
>PF10618 Tail_tube: Phage tail tube protein; InterPro: IPR019596 This entry is represented by Bacteriophage Mu, GpM tail tube protein. Bacteriophage Mu has an eicosahedral head and contractile tail. The tail is composed of an outer sheath and an inner tube.
Probab=21.23 E-value=76 Score=22.00 Aligned_cols=25 Identities=24% Similarity=0.274 Sum_probs=21.4
Q ss_pred CCeEEEEcCeEeeccccCccCCChH
Q psy15180 17 TANLIVIKGVVYNVAPFLNEHPGGE 41 (131)
Q Consensus 17 ~~~wvii~g~VYDvT~f~~~HPGG~ 41 (131)
+.++|.|||+-|++.+=....|||.
T Consensus 7 G~a~i~vdG~~l~~~~g~~~~~gg~ 31 (119)
T PF10618_consen 7 GTAYIRVDGQQLPVKGGATYNPGGV 31 (119)
T ss_pred EEEEEEECCEEEEccCCeEECCCCe
Confidence 5689999999999987677788885
No 69
>PF06692 MNSV_P7B: Melon necrotic spot virus P7B protein; InterPro: IPR009575 This family consists of several Melon necrotic spot virus (MNSV) P7B proteins. The function of this family is unknown.
Probab=21.09 E-value=1.4e+02 Score=18.33 Aligned_cols=14 Identities=14% Similarity=0.401 Sum_probs=6.8
Q ss_pred hHHHHHHHHHHHHH
Q psy15180 112 SWVVPLVFGLLVVL 125 (131)
Q Consensus 112 ~~~~~~~~~~~~~~ 125 (131)
.+..|+++++++++
T Consensus 12 d~~~~lLiliis~~ 25 (61)
T PF06692_consen 12 DYSGPLLILIISFV 25 (61)
T ss_pred cchhHHHHHHHHHH
Confidence 45555555444443
No 70
>PF08078 PsaX: PsaX family; InterPro: IPR012986 This family consists of the PsaX family of photosystem I (PSI) protein subunits. PSI is a large multi-subunit pigment protein complex embedded in the thylakoid membranes of green plants and cyanobacteria. PsaX is one of the 12 protein subunits found in PSI and these subunits are arranged as monomers or trimers within the membrane as shown by the structure of the trimeric complex from Synechococcus elongatus [].; PDB: 3PCQ_X 1JB0_X.
Probab=21.03 E-value=1.6e+02 Score=16.23 Aligned_cols=9 Identities=22% Similarity=0.530 Sum_probs=4.3
Q ss_pred HHHHHHHHh
Q psy15180 121 LLVVLVYQY 129 (131)
Q Consensus 121 ~~~~~~~~~ 129 (131)
=+++.+|||
T Consensus 26 NflVAayYF 34 (37)
T PF08078_consen 26 NFLVAAYYF 34 (37)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 344455554
No 71
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=20.42 E-value=1e+02 Score=21.36 Aligned_cols=19 Identities=11% Similarity=0.287 Sum_probs=13.4
Q ss_pred CCcchHHHHHHHHHHHHHH
Q psy15180 108 SGMPSWVVPLVFGLLVVLV 126 (131)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~ 126 (131)
..+..|++|++++++.+++
T Consensus 70 aa~l~Y~lPll~li~g~~l 88 (135)
T PF04246_consen 70 AAFLVYLLPLLALIAGAVL 88 (135)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4567899999876665543
No 72
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=20.13 E-value=1.1e+02 Score=18.67 Aligned_cols=22 Identities=18% Similarity=0.412 Sum_probs=16.3
Q ss_pred CCHHHHhccCCCCCeEEEEcCe
Q psy15180 5 FTYKEVVESTDKTANLIVIKGV 26 (131)
Q Consensus 5 ~t~~ev~~h~~~~~~wvii~g~ 26 (131)
-|+.++++..+++.-.+++||-
T Consensus 16 ~tl~~lr~~~k~~~DI~I~NGF 37 (57)
T PF14453_consen 16 TTLFELRKESKPDADIVILNGF 37 (57)
T ss_pred cCHHHHHHhhCCCCCEEEEcCc
Confidence 4788999877776556688883
Done!